dbSnp155Composite dbSNP 155 Short Genetic Variants from dbSNP release 155 Variation Description This track shows short genetic variants (up to approximately 50 base pairs) from dbSNP build 155: single-nucleotide variants (SNVs), small insertions, deletions, and complex deletion/insertions (indels), relative to the reference genome assembly. Most variants in dbSNP are rare, not true polymorphisms, and some variants are known to be pathogenic. For hg38 (GRCh38), approximately 998 million distinct variants (RefSNP clusters with rs# ids) have been mapped to more than 1.06 billion genomic locations including alternate haplotype and fix patch sequences. dbSNP remapped variants from hg38 to hg19 (GRCh37); approximately 981 million distinct variants were mapped to more than 1.02 billion genomic locations including alternate haplotype and fix patch sequences (not all of which are included in UCSC's hg19). This track includes four subtracks of variants: All dbSNP (155): the entire set (1.02 billion for hg19, 1.06 billion for hg38) Common dbSNP (155): approximately 15 million variants with a minor allele frequency (MAF) of at least 1% (0.01) in the 1000 Genomes Phase 3 dataset. Variants in the Mult. subset (below) are excluded. ClinVar dbSNP (155): approximately 820,000 variants mentioned in ClinVar. Note: that includes both benign and pathogenic (as well as uncertain) variants. Variants in the Mult. subset (below) are excluded. Mult. dbSNP (155): variants that have been mapped to multiple chromosomes, for example chr1 and chr2, raising the question of whether the variant is really a variant or just a difference between duplicated sequences. There are some exceptions in which a variant is mapped to more than one reference sequence, but not culled into this set: A variant may appear in both X and Y pseudo-autosomal regions (PARs) without being included in this set. A variant may also appear in a main chromosome as well as an alternate haplotype or fix patch sequence assigned to that chromosome. A fifth subtrack highlights coordinate ranges to which dbSNP mapped a variant but with genomic coordinates that are not internally consistent, i.e. different coordinate ranges were provided when describing different alleles. This can occur due to a bug with mapping variants from one assembly sequence to another when there is an indel difference between the assembly sequences: Map Err (155): around 134,000 mappings of 88,000 distinct rsIDs for hg19 and 178,000 mappings of 108,000 distinct rsIDs for hg38. Interpreting and Configuring the Graphical Display SNVs and pure deletions are displayed as boxes covering the affected base(s). Pure insertions are drawn as single-pixel tickmarks between the base before and the base after the insertion. Insertions and/or deletions in repetitive regions may be represented by a half-height box showing uncertainty in placement, followed by a full-height box showing the number of deleted bases, or a full-height tickmark to indicate an insertion. When an insertion or deletion falls in a repetitive region, the placement may be ambiguous. For example, if the reference genome contains "TAAAG" but some individuals have "TAAG" at the same location, then the variant is a deletion of a single A relative to the reference genome. However, which A was deleted? There is no way to tell whether the first, second or third A was removed. Different variant mapping tools may place the deletion at different bases in the reference genome. To reduce errors in merging variant calls made with different left vs. right biases, dbSNP made a major change in its representation of deletion/insertion variants in build 152. Now, instead of assigning a single-base genomic location at one of the A's, dbSNP expands the coordinates to encompass the whole repetitive region, so the variant is represented as a deletion of 3 A's combined with an insertion of 2 A's. In the track display, there will be a half-height box covering the first two A's, followed by a full-height box covering the third A, to show a net loss of one base but an uncertain placement within the three A's. When a variant has both insertion and deletion alternate alleles, the full-height box for the deletion(s) is drawn in a lighter shade so that the insertion tickmark is still visible. Variants are colored according to functional effect on genes annotated by dbSNP: Protein-altering variants and splice site variants are red. Synonymous codon variants are green. Non-coding transcript or Untranslated Region (UTR) variants are blue. On the track controls page, several variant properties can be included or excluded from the item labels: rs# identifier assigned by dbSNP, reference/alternate alleles, major/minor alleles (when available) and minor allele frequency (when available). Allele frequencies are reported independently by the project (some of which may have overlapping sets of samples): 1000Genomes: The 1000 Genomes dataset contains data for 2,504 individuals from 26 populations. dbGaP_PopFreq: The new source of dbGaP aggregated frequency data (>1 Million Subjects) provided by dbSNP. TOPMED: The TOPMED dataset contains freeze 8 panel that includes about 158,000 individuals. The approximate ethnic breakdown is European(41%), African (31%), Hispanic or Latino (15%), East Asian (9%), and unknown (4%) ancestry. KOREAN: The Korean Reference Genome Database contains data for 1,465 Korean individuals. SGDP_PRJ: The Simons Genome Diversity Project dataset contains 263 C-panel fully public samples and 16 B-panel fully public samples for a total of 279 samples. Qatari: The dataset contains initial mappings of the genomes of more than 1,000 Qatari nationals. NorthernSweden: The dataset contains 300 whole-genome sequenced human samples from the county of Vasterbotten in northern Sweden. Siberian: The dataset contains paired-end whole-genome sequencing data of 28 modern-day humans from Siberia and Western Russia. TWINSUK: The UK10K - TwinsUK project contains 1854 samples from the Department of Twin Research and Genetic Epidemiology (DTR). The dataset contains data obtained from the 11,000 identical and non-identical twins between the ages of 16 and 85 years old. TOMMO: The Tohoku Medical Megabank Project contains an allele frequency panel of 3552 Japanese individuals, including the X chromosome. ALSPAC: The UK10K - Avon Longitudinal Study of Parents and Children project contains 1927 sample including individuals obtained from the ALSPAC population. This population contains more than 14,000 mothers enrolled during pregnancy in 1991 and 1992. GENOME_DK: The dataset contains the sequencing of Danish parent-offspring trios to determine genomic variation within the Danish population. GnomAD: The gnomAD genome dataset includes a catalog containing 602M SNVs and 105M indels based on the whole-genome sequencing of 71,702 samples mapped to the GRCh38 build of the human reference genome. GoNL: The Genome of the Netherlands (GoNL) Project characterizes DNA sequence variation, common and rare, for SNVs and short insertions and deletions (indels) and large deletions in 769 individuals of Dutch ancestry selected from five biobanks under the auspices of the Dutch hub of the Biobanking and Biomolecular Research Infrastructure (BBMRI-NL). Estonian: The dataset contains genetic variation in the Estonian population: pharmacogenomics study of adverse drug effects using electronic health records. Vietnamese: The Kinh Vietnamese database contains 24.81 million variants (22.47 million single nucleotide polymorphisms (SNPs) and 2.34 million indels), of which 0.71 million variants are novel. Korea1K: The dataset contains 1,094 Korean personal genomes with clinical information. HapMap: (HapMap is being retired.) The International HapMap Project contains samples from African, Asian, or European populations. PRJEB36033: The dataset contains ancient Sardinia genome-wide 1240k capture data from 70 ancient Sardinians. HGDP_Stanford: The Stanford HGDP SNP genotyping data consists of ~660,918 tag SNPs in autosomes, chromosome X and Y, the pseudoautosomal region, and mitochondrial DNA, typed across 1043 individuals from all panel populations. Daghestan: The dataset contains genotypes of >550 000 autosomal single-nucleotide polymorphisms (SNPs) in a set of 14 population isolates speaking Nakh-Daghestanian (ND) languages. PAGE_STUDY: The PAGE Study: How Genetic Diversity Improves Our Understanding of the Architecture of Complex Traits. Chileans: The dataset consists of genetic variation on the Chileans using genotype data on ~685,944 SNPs from 313 individuals across the whole-continental country. MGP: MGP contains aggregated information on 267 healthy individuals, representative of the Spanish population that were used as controls in the MGP (Medical Genome Project). PRJEB37584: The dataset contains genome-wide genotype analysis that identified copy number variations in cranial meningiomas in Chinese patients, and demonstrated diverse CNV burdens among individuals with diverse clinical features. GoESP: The NHLBI Grand Opportunity Exome Sequencing Project (GO-ESP) dataset contains 6503 samples drawn from multiple ESP cohorts and represents all of the ESP exome variant data. ExAC: The Exome Aggregation Consortium (ExAC) dataset contains 60,706 unrelated individuals sequenced as part of various disease-specific and population genetic studies. Individuals affected by severe pediatric disease have been removed. GnomAD_exomes: The gnomAD v2.1 exome dataset comprises a total of 16 million SNVs and 1.2 million indels from 125,748 exomes in 14 populations. FINRISK: The FINRISK cohorts comprise the respondents of representative, cross-sectional population surveys that are carried out every 5 years since 1972, to assess the risk factors of chronic diseases (e.g. CVD, diabetes, obesity, cancer) and health behavior in the working age population. PharmGKB: The dataset contains aggregated frequency data for all PharmGKB submissions. PRJEB37766: The Mexican Genomic Database for Addiction Research. The project from which to take allele frequency data defaults to 1000 Genomes but can be set to any of those projects. Using the track controls, variants can be filtered by minimum minor allele frequency (MAF) variation class/type (e.g. SNV, insertion, deletion) functional effect on a gene (e.g. synonymous, frameshift, intron, upstream) assorted features and anomalies noted by UCSC during processing of dbSNP's data Interesting and anomalous conditions noted by UCSC While processing the information downloaded from dbSNP, UCSC annotates some properties of interest. These are noted on the item details page, and may be useful to include or exclude affected variants. Some are purely informational: keyword in data file (dbSnp155.bb) # in hg19# in hg38description clinvar 627817 630503 Variant is in ClinVar. clinvarBenign 275541 276409 Variant is in ClinVar with clinical significance of benign and/or likely benign. clinvarConflicting 16925 16834 Variant is in ClinVar with reports of both benign and pathogenic significance. clinvarPathogenic 56373 56475 Variant is in ClinVar with clinical significance of pathogenic and/or likely pathogenic. commonAll 14904503 15862783 Variant is "common", i.e. has a Minor Allele Frequency of at least 1% in all projects reporting frequencies. commonSome 59633864 62095091 Variant is "common", i.e. has a Minor Allele Frequency of at least 1% in some, but not all, projects reporting frequencies. diffMajor 12748733 13073288 Different frequency sources have different major alleles. overlapDiffClass 198945442 207101421 This variant overlaps another variant with a different type/class. overlapSameClass 29281958 30301090 This variant overlaps another with the same type/class but different start/end. rareAll 906113910 938985356 Variant is "rare", i.e. has a Minor Allele Frequency of less than 1% in all projects reporting frequencies, or has no frequency data. rareSome 950843271 985217664 Variant is "rare", i.e. has a Minor Allele Frequency of less than 1% in some, but not all, projects reporting frequencies, or has no frequency data. revStrand 5540864 6770772 Alleles are displayed on the + strand at the current position. dbSNP's alleles are displayed on the + strand of a different assembly sequence, so dbSNP's variant page shows alleles that are reverse-complemented with respect to the alleles displayed above. while others may indicate that the reference genome contains a rare variant or sequencing issue: keyword in data file (dbSnp155.bb) # in hg19# in hg38description refIsAmbiguous 19 41 The reference genome allele contains an IUPAC ambiguous base (e.g. 'R' for 'A or G', or 'N' for 'any base'). refIsMinor 14950212 15386394 The reference genome allele is not the major allele in at least one project. refIsRare 793081 822757 The reference genome allele is rare (i.e. allele frequency refIsSingleton 694310 712794 The reference genome allele has never been observed in a population sequencing project reporting frequencies. refMismatch 1 18 The reference genome allele reported by dbSNP differs from the GenBank assembly sequence. This is very rare and in all cases observed so far, the GenBank assembly has an 'N' while the RefSeq assembly used by dbSNP has a less ambiguous character such as 'R'. and others may indicate an anomaly or problem with the variant data: keyword in data file (dbSnp155.bb) # in hg19# in hg38description altIsAmbiguous 5294 5361 At least one alternate allele contains an IUPAC ambiguous base (e.g. 'R' for 'A or G'). For alleles containing more than one ambiguous base, this may create a combinatoric explosion of possible alleles. classMismatch 13289 18475 Variation class/type is inconsistent with alleles mapped to this genome assembly. clusterError 373258 459130 This variant has the same start, end and class as another variant; they probably should have been merged into one variant. freqIncomplete 0 0 At least one project reported counts for only one allele which implies that at least one allele is missing from the report; that project's frequency data are ignored. freqIsAmbiguous 4332 4399 At least one allele reported by at least one project that reports frequencies contains an IUPAC ambiguous base. freqNotMapped 1149972 1141935 At least one project reported allele frequencies relative to a different assembly; However, dbSNP does not include a mapping of this variant to that assembly, which implies a problem with mapping the variant across assemblies. The mapping on this assembly may have an issue; evaluate carefully vs. original submissions, which you can view by clicking through to dbSNP above. freqNotRefAlt 74139 110646 At least one allele reported by at least one project that reports frequencies does not match any of the reference or alternate alleles listed by dbSNP. multiMap 799777 286666 This variant has been mapped to more than one distinct genomic location. otherMapErr 91260 195051 At least one other mapping of this variant has erroneous coordinates. The mapping(s) with erroneous coordinates are excluded from this track and are included in the Map Err subtrack. Sometimes despite this mapping having legal coordinates, there may still be an issue with this mapping's coordinates and alleles; you may want to click through to dbSNP to compare the initial submission's coordinates and alleles. In hg19, 55454 distinct rsIDs are affected; in hg38, 86636. Data Sources and Methods dbSNP has collected genetic variant reports from researchers worldwide for more than 20 years. Since the advent of next-generation sequencing methods and the population sequencing efforts that they enable, dbSNP has grown exponentially, requiring a new data schema, computational pipeline, web infrastructure, and download files. (Holmes et al.) The same challenges of exponential growth affected UCSC's presentation of dbSNP variants, so we have taken the opportunity to change our internal representation and import pipeline. Most notably, flanking sequences are no longer provided by dbSNP, because most submissions have been genomic variant calls in VCF format as opposed to independent sequences. We downloaded JSON files available from dbSNP at https://ftp.ncbi.nlm.nih.gov/snp/archive/b155/JSON/, extracted a subset of the information about each variant, and collated it into a bigBed file using the bigDbSnp.as schema with the information necessary for filtering and displaying the variants, as well as a separate file containing more detailed information to be displayed on each variant's details page (dbSnpDetails.as schema). Data Access Note: It is not recommended to use LiftOver to convert SNPs between assemblies, and more information about how to convert SNPs between assemblies can be found on the following FAQ entry. Since dbSNP has grown to include over 1 billion variants, the size of the All dbSNP (155) subtrack can cause the Table Browser and Data Integrator to time out, leading to a blank page or truncated output, unless queries are restricted to a chromosomal region, to particular defined regions, to a specific set of rs# IDs (which can be pasted/uploaded into the Table Browser), or to one of the subset tracks such as Common (~15 million variants) or ClinVar (~0.8M variants). For automated analysis, the track data files can be downloaded from the downloads server for hg19 and hg38. file format subtrack dbSnp155.bb hg19 hg38 bigDbSnp (bigBed4+13) All dbSNP (155) dbSnp155ClinVar.bb hg19 hg38 bigDbSnp (bigBed4+13) ClinVar dbSNP (155) dbSnp155Common.bb hg19 hg38 bigDbSnp (bigBed4+13) Common dbSNP (155) dbSnp155Mult.bb hg19 hg38 bigDbSnp (bigBed4+13) Mult. dbSNP (155) dbSnp155BadCoords.bb hg19 hg38 bigBed4 Map Err (155) dbSnp155Details.tab.gz gzip-compressed tab-separated text Detailed variant properties, independent of genome assembly version Several utilities for working with bigBed-formatted binary files can be downloaded here. Run a utility with no arguments to see a brief description of the utility and its options. bigBedInfo provides summary statistics about a bigBed file including the number of items in the file. With the -as option, the output includes an autoSql definition of data columns, useful for interpreting the column values. bigBedToBed converts the binary bigBed data to tab-separated text. Output can be restricted to a particular region by using the -chrom, -start and -end options. bigBedNamedItems extracts rows for one or more rs# IDs. Example: retrieve all variants in the region chr1:200001-200400 bigBedToBed http://hgdownload.soe.ucsc.edu/gbdb/hg38/snp/dbSnp155.bb -chrom=chr1 -start=200000 -end=200400 stdout Example: retrieve variant rs6657048 bigBedNamedItems dbSnp155.bb rs6657048 stdout Example: retrieve all variants with rs# IDs in a file (myIds.txt) and output to another file (dbSnp155.myIds.bed) bigBedNamedItems -nameFile dbSnp155.bb myIds.txt dbSnp155.myIds.bed The columns in the bigDbSnp/bigBed files and dbSnp155Details.tab.gz file are described in bigDbSnp.as and dbSnpDetails.as respectively. For columns that contain lists of allele frequency data, the order of projects providing the data listed is as follows: 1000Genomes dbGaP_PopFreq TOPMED KOREAN SGDP_PRJ Qatari NorthernSweden Siberian TWINSUK TOMMO ALSPAC GENOME_DK GnomAD GoNL Estonian Vietnamese Korea1K HapMap PRJEB36033 HGDP_Stanford Daghestan PAGE_STUDY Chileans MGP PRJEB37584 GoESP ExAC GnomAD_exomes FINRISK PharmGKB PRJEB37766 The functional effect (maxFuncImpact) for each variant contains the Sequence Ontology (SO) ID for the greatest functional impact on the gene. This field contains a 0 when no SO terms are annotated on the variant. UCSC also has an API that can be used to retrieve values from a particular chromosome range. A list of rs# IDs can be pasted/uploaded in the Variant Annotation Integrator tool to find out which genes (if any) the variants are located in, as well as functional effect such as intron, coding-synonymous, missense, frameshift, etc. Please refer to our searchable mailing list archives for more questions and example queries, or our Data Access FAQ for more information. References Holmes JB, Moyer E, Phan L, Maglott D, Kattman B. SPDI: Data Model for Variants and Applications at NCBI. Bioinformatics. 2019 Nov 18;. PMID: 31738401 Sayers EW, Agarwala R, Bolton EE, Brister JR, Canese K, Clark K, Connor R, Fiorini N, Funk K, Hefferon T et al. Database resources of the National Center for Biotechnology Information. Nucleic Acids Res. 2019 Jan 8;47(D1):D23-D28. PMID: 30395293; PMC: PMC6323993 Sherry ST, Ward MH, Kholodov M, Baker J, Phan L, Smigielski EM, Sirotkin K. dbSNP: the NCBI database of genetic variation. Nucleic Acids Res. 2001 Jan 1;29(1):308-11. PMID: 11125122; PMC: PMC29783 
dbSnp155ViewVariants Variants Short Genetic Variants from dbSNP release 155 Variation 
dbSnp155 All dbSNP(155) All Short Genetic Variants from dbSNP Release 155 Variation 
dbSnp155Mult Mult. dbSNP(155) Short Genetic Variants from dbSNP Release 155 that Map to Multiple Genomic Loci Variation 
dbSnp155ClinVar ClinVar dbSNP(155) Short Genetic Variants from dbSNP Release 155 Included in ClinVar Variation 
dbSnp155Common Common dbSNP(155) Common (1000 Genomes Phase 3 MAF >= 1%) Short Genetic Variants from dbSNP Release 155 Variation 
dbSnp155ViewErrs Mapping Errors Short Genetic Variants from dbSNP release 155 Variation 
dbSnp155BadCoords Map Err dbSnp(155) Mappings with Inconsistent Coordinates from dbSNP 155 Variation 
dbSnp153Composite dbSNP 153 Short Genetic Variants from dbSNP release 153 Variation Description This track shows short genetic variants (up to approximately 50 base pairs) from dbSNP build 153: single-nucleotide variants (SNVs), small insertions, deletions, and complex deletion/insertions (indels), relative to the reference genome assembly. Most variants in dbSNP are rare, not true polymorphisms, and some variants are known to be pathogenic. For hg38 (GRCh38), approximately 667 million distinct variants (RefSNP clusters with rs# ids) have been mapped to more than 702 million genomic locations including alternate haplotype and fix patch sequences. dbSNP remapped variants from hg38 to hg19 (GRCh37); approximately 658 million distinct variants were mapped to more than 683 million genomic locations including alternate haplotype and fix patch sequences (not all of which are included in UCSC's hg19). This track includes four subtracks of variants: All dbSNP (153): the entire set (683 million for hg19, 702 million for hg38) Common dbSNP (153): approximately 15 million variants with a minor allele frequency (MAF) of at least 1% (0.01) in the 1000 Genomes Phase 3 dataset. Variants in the Mult. subset (below) are excluded. ClinVar dbSNP (153): approximately 455,000 variants mentioned in ClinVar. Note: that includes both benign and pathogenic (as well as uncertain) variants. Variants in the Mult. subset (below) are excluded. Mult. dbSNP (153): variants that have been mapped to multiple chromosomes, for example chr1 and chr2, raising the question of whether the variant is really a variant or just a difference between duplicated sequences. There are some exceptions in which a variant is mapped to more than one reference sequence, but not culled into this set: A variant may appear in both X and Y pseudo-autosomal regions (PARs) without being included in this set. A variant may also appear in a main chromosome as well as an alternate haplotype or fix patch sequence assigned to that chromosome. A fifth subtrack highlights coordinate ranges to which dbSNP mapped a variant but with genomic coordinates that are not internally consistent, i.e. different coordinate ranges were provided when describing different alleles. This can occur due to a bug with mapping variants from one assembly sequence to another when there is an indel difference between the assembly sequences: Map Err (153): around 120,000 mappings of 55,000 distinct rsIDs for hg19 and 149,000 mappings of 86,000 distinct rsIDs for hg38. Interpreting and Configuring the Graphical Display SNVs and pure deletions are displayed as boxes covering the affected base(s). Pure insertions are drawn as single-pixel tickmarks between the base before and the base after the insertion. Insertions and/or deletions in repetitive regions may be represented by a half-height box showing uncertainty in placement, followed by a full-height box showing the number of deleted bases, or a full-height tickmark to indicate an insertion. When an insertion or deletion falls in a repetitive region, the placement may be ambiguous. For example, if the reference genome contains "TAAAG" but some individuals have "TAAG" at the same location, then the variant is a deletion of a single A relative to the reference genome. However, which A was deleted? There is no way to tell whether the first, second or third A was removed. Different variant mapping tools may place the deletion at different bases in the reference genome. To reduce errors in merging variant calls made with different left vs. right biases, dbSNP made a major change in its representation of deletion/insertion variants in build 152. Now, instead of assigning a single-base genomic location at one of the A's, dbSNP expands the coordinates to encompass the whole repetitive region, so the variant is represented as a deletion of 3 A's combined with an insertion of 2 A's. In the track display, there will be a half-height box covering the first two A's, followed by a full-height box covering the third A, to show a net loss of one base but an uncertain placement within the three A's. Variants are colored according to functional effect on genes annotated by dbSNP: Protein-altering variants and splice site variants are red. Synonymous codon variants are green. Non-coding transcript or Untranslated Region (UTR) variants are blue. On the track controls page, several variant properties can be included or excluded from the item labels: rs# identifier assigned by dbSNP, reference/alternate alleles, major/minor alleles (when available) and minor allele frequency (when available). Allele frequencies are reported independently by twelve projects (some of which may have overlapping sets of samples): 1000Genomes: The 1000 Genomes Phase 3 dataset contains data for 2,504 individuals from 26 populations. GnomAD exomes: The gnomAD v2.1 exome dataset comprises a total of 16 million SNVs and 1.2 million indels from 125,748 exomes in 14 populations. TOPMED: The TOPMED dataset contains phase 3 data from freeze 5 panel that include more than 60,000 individuals. The approximate ethnic breakdown is European(52%), African (31%), Hispanic or Latino (10%), and East Asian (7%) ancestry. PAGE STUDY: The PAGE Study: How Genetic Diversity Improves Our Understanding of the Architecture of Complex Traits. GnomAD genomes: The gnomAD v2.1 genome dataset includes 229 million SNVs and 33 million indels from 15,708 genomes in 9 populations. GoESP: The NHLBI Grand Opportunity Exome Sequencing Project (GO-ESP) dataset contains 6503 samples drawn from multiple ESP cohorts and represents all of the ESP exome variant data. Estonian: Genetic variation in the Estonian population: pharmacogenomics study of adverse drug effects using electronic health records. ALSPAC: The UK10K - Avon Longitudinal Study of Parents and Children project contains 1927 sample including individuals obtained from the ALSPAC population. This population contains more than 14,000 mothers enrolled during pregnancy in 1991 and 1992. TWINSUK: The UK10K - TwinsUK project contains 1854 samples from the Department of Twin Research and Genetic Epidemiology (DTR). The DTR dataset contains data obtained from the 11,000 identical and non-identical twins between the ages of 16 and 85 years old. NorthernSweden: Whole-genome sequenced control population in northern Sweden reveals subregional genetic differences. This population consists of 300 whole genome sequenced human samples selected from the county of Vasterbotten in northern Sweden. To be selected for inclusion into the population, the individuals had to have reached at least 80 years of age and have no diagnosed cancer. Vietnamese: The Vietnamese Genetic Variation Database includes about 25 million variants (SNVs and indels) from 406 genomes and 305 exomes of unrelated healthy Kinh Vietnamese (KHV) people. The project from which to take allele frequency data defaults to 1000 Genomes but can be set to any of those projects. Using the track controls, variants can be filtered by minimum minor allele frequency (MAF) variation class/type (e.g. SNV, insertion, deletion) functional effect on a gene (e.g. synonymous, frameshift, intron, upstream) assorted features and anomalies noted by UCSC during processing of dbSNP's data Interesting and anomalous conditions noted by UCSC While processing the information downloaded from dbSNP, UCSC annotates some properties of interest. These are noted on the item details page, and may be useful to include or exclude affected variants. Some are purely informational: keyword in data file (dbSnp153.bb) # in hg19# in hg38description clinvar 454678 453996 Variant is in ClinVar. clinvarBenign 143864 143736 Variant is in ClinVar with clinical significance of benign and/or likely benign. clinvarConflicting 7932 7950 Variant is in ClinVar with reports of both benign and pathogenic significance. clinvarPathogenic 96242 95262 Variant is in ClinVar with clinical significance of pathogenic and/or likely pathogenic. commonAll 12184521 12438655 Variant is "common", i.e. has a Minor Allele Frequency of at least 1% in all projects reporting frequencies. commonSome 20541190 20902944 Variant is "common", i.e. has a Minor Allele Frequency of at least 1% in some, but not all, projects reporting frequencies. diffMajor 1377831 1399109 Different frequency sources have different major alleles. overlapDiffClass 107015341 110007682 This variant overlaps another variant with a different type/class. overlapSameClass 16915239 17291289 This variant overlaps another with the same type/class but different start/end. rareAll 662601770 681696398 Variant is "rare", i.e. has a Minor Allele Frequency of less than 1% in all projects reporting frequencies, or has no frequency data. rareSome 670958439 690160687 Variant is "rare", i.e. has a Minor Allele Frequency of less than 1% in some, but not all, projects reporting frequencies, or has no frequency data. revStrand 3813702 4532511 Alleles are displayed on the + strand at the current position. dbSNP's alleles are displayed on the + strand of a different assembly sequence, so dbSNP's variant page shows alleles that are reverse-complemented with respect to the alleles displayed above. while others may indicate that the reference genome contains a rare variant or sequencing issue: keyword in data file (dbSnp153.bb) # in hg19# in hg38description refIsAmbiguous 101 111 The reference genome allele contains an IUPAC ambiguous base (e.g. 'R' for 'A or G', or 'N' for 'any base'). refIsMinor 3272116 3360435 The reference genome allele is not the major allele in at least one project. refIsRare 136547 160827 The reference genome allele is rare (i.e. allele frequency refIsSingleton 37832 50927 The reference genome allele has never been observed in a population sequencing project reporting frequencies. refMismatch 4 33 The reference genome allele reported by dbSNP differs from the GenBank assembly sequence. This is very rare and in all cases observed so far, the GenBank assembly has an 'N' while the RefSeq assembly used by dbSNP has a less ambiguous character such as 'R'. and others may indicate an anomaly or problem with the variant data: keyword in data file (dbSnp153.bb) # in hg19# in hg38description altIsAmbiguous 10755 10888 At least one alternate allele contains an IUPAC ambiguous base (e.g. 'R' for 'A or G'). For alleles containing more than one ambiguous base, this may create a combinatoric explosion of possible alleles. classMismatch 5998 6216 Variation class/type is inconsistent with alleles mapped to this genome assembly. clusterError 114826 128306 This variant has the same start, end and class as another variant; they probably should have been merged into one variant. freqIncomplete 3922 4673 At least one project reported counts for only one allele which implies that at least one allele is missing from the report; that project's frequency data are ignored. freqIsAmbiguous 7656 7756 At least one allele reported by at least one project that reports frequencies contains an IUPAC ambiguous base. freqNotMapped 2685 6590 At least one project reported allele frequencies relative to a different assembly; However, dbSNP does not include a mapping of this variant to that assembly, which implies a problem with mapping the variant across assemblies. The mapping on this assembly may have an issue; evaluate carefully vs. original submissions, which you can view by clicking through to dbSNP above. freqNotRefAlt 17694 32170 At least one allele reported by at least one project that reports frequencies does not match any of the reference or alternate alleles listed by dbSNP. multiMap 562180 132123 This variant has been mapped to more than one distinct genomic location. otherMapErr 114095 204219 At least one other mapping of this variant has erroneous coordinates. The mapping(s) with erroneous coordinates are excluded from this track and are included in the Map Err subtrack. Sometimes despite this mapping having legal coordinates, there may still be an issue with this mapping's coordinates and alleles; you may want to click through to dbSNP to compare the initial submission's coordinates and alleles. In hg19, 55454 distinct rsIDs are affected; in hg38, 86636. Data Sources and Methods dbSNP has collected genetic variant reports from researchers worldwide for more than 20 years. Since the advent of next-generation sequencing methods and the population sequencing efforts that they enable, dbSNP has grown exponentially, requiring a new data schema, computational pipeline, web infrastructure, and download files. (Holmes et al.) The same challenges of exponential growth affected UCSC's presentation of dbSNP variants, so we have taken the opportunity to change our internal representation and import pipeline. Most notably, flanking sequences are no longer provided by dbSNP, because most submissions have been genomic variant calls in VCF format as opposed to independent sequences. We downloaded JSON files available from dbSNP at ftp://ftp.ncbi.nlm.nih.gov/snp/archive/b153/JSON/, extracted a subset of the information about each variant, and collated it into a bigBed file using the bigDbSnp.as schema with the information necessary for filtering and displaying the variants, as well as a separate file containing more detailed information to be displayed on each variant's details page (dbSnpDetails.as schema). Data Access Note: It is not recommended to use LiftOver to convert SNPs between assemblies, and more information about how to convert SNPs between assemblies can be found on the following FAQ entry. Since dbSNP has grown to include approximately 700 million variants, the size of the All dbSNP (153) subtrack can cause the Table Browser and Data Integrator to time out, leading to a blank page or truncated output, unless queries are restricted to a chromosomal region, to particular defined regions, to a specific set of rs# IDs (which can be pasted/uploaded into the Table Browser), or to one of the subset tracks such as Common (~15 million variants) or ClinVar (~0.5M variants). For automated analysis, the track data files can be downloaded from the downloads server for hg19 and hg38. file format subtrack dbSnp153.bb hg19 hg38 bigDbSnp (bigBed4+13) All dbSNP (153) dbSnp153ClinVar.bb hg19 hg38 bigDbSnp (bigBed4+13) ClinVar dbSNP (153) dbSnp153Common.bb hg19 hg38 bigDbSnp (bigBed4+13) Common dbSNP (153) dbSnp153Mult.bb hg19 hg38 bigDbSnp (bigBed4+13) Mult. dbSNP (153) dbSnp153BadCoords.bb hg19 hg38 bigBed4 Map Err (153) dbSnp153Details.tab.gz gzip-compressed tab-separated text Detailed variant properties, independent of genome assembly version Several utilities for working with bigBed-formatted binary files can be downloaded here. Run a utility with no arguments to see a brief description of the utility and its options. bigBedInfo provides summary statistics about a bigBed file including the number of items in the file. With the -as option, the output includes an autoSql definition of data columns, useful for interpreting the column values. bigBedToBed converts the binary bigBed data to tab-separated text. Output can be restricted to a particular region by using the -chrom, -start and -end options. bigBedNamedItems extracts rows for one or more rs# IDs. Example: retrieve all variants in the region chr1:200001-200400 bigBedToBed http://hgdownload.soe.ucsc.edu/gbdb/hg38/snp/dbSnp153.bb -chrom=chr1 -start=200000 -end=200400 stdout Example: retrieve variant rs6657048 bigBedNamedItems dbSnp153.bb rs6657048 stdout Example: retrieve all variants with rs# IDs in file myIds.txt bigBedNamedItems -nameFile dbSnp153.bb myIds.txt dbSnp153.myIds.bed The columns in the bigDbSnp/bigBed files and dbSnp153Details.tab.gz file are described in bigDbSnp.as and dbSnpDetails.as respectively. For columns that contain lists of allele frequency data, the order of projects providing the data listed is as follows: 1000Genomes GnomAD exomes TOPMED PAGE STUDY GnomAD genomes GoESP Estonian ALSPAC TWINSUK NorthernSweden Vietnamese UCSC also has an API that can be used to retrieve values from a particular chromosome range. A list of rs# IDs can be pasted/uploaded in the Variant Annotation Integrator tool to find out which genes (if any) the variants are located in, as well as functional effect such as intron, coding-synonymous, missense, frameshift, etc. Please refer to our searchable mailing list archives for more questions and example queries, or our Data Access FAQ for more information. References Holmes JB, Moyer E, Phan L, Maglott D, Kattman B. SPDI: Data Model for Variants and Applications at NCBI. Bioinformatics. 2019 Nov 18;. PMID: 31738401 Sayers EW, Agarwala R, Bolton EE, Brister JR, Canese K, Clark K, Connor R, Fiorini N, Funk K, Hefferon T et al. Database resources of the National Center for Biotechnology Information. Nucleic Acids Res. 2019 Jan 8;47(D1):D23-D28. PMID: 30395293; PMC: PMC6323993 Sherry ST, Ward MH, Kholodov M, Baker J, Phan L, Smigielski EM, Sirotkin K. dbSNP: the NCBI database of genetic variation. Nucleic Acids Res. 2001 Jan 1;29(1):308-11. PMID: 11125122; PMC: PMC29783 
dbSnpArchive dbSNP Archive dbSNP Track Archive Variation Description This composite track contains information about single nucleotide polymorphisms (SNPs) and small insertions and deletions (indels) — collectively Simple Nucleotide Polymorphisms — from dbSNP, available from ftp.ncbi.nih.gov/snp. You can click into each track for a version/subset-specific description. This collection includes numbered versions of the entire dbSNP datasets (All SNP) as well as three tracks with subsets of the items in that version. Here is information on each of the subsets: dbSNP 153: The dbSNP build 153 is composed of 5 subtracks. Click the track for a description of the subtracks. Common SNPs: SNPs that have a minor allele frequency of at least 1% and are mapped to a single location in the reference genome assembly. Frequency data are not available for all SNPs, so this subset is incomplete. Flagged SNPs: SNPs flagged as clinically associated by dbSNP, mapped to a single location in the reference genome assembly, and not known to have a minor allele frequency of at least 1%. Frequency data are not available for all SNPs, so this subset may include some SNPs whose true minor allele frequency is 1% or greater. Mult. SNPs: SNPs that have been mapped to multiple locations in the reference genome assembly. The default maximum weight for this track is 1, so unless the setting is changed in the track controls, SNPs that map to multiple genomic locations will be omitted from display. When a SNP's flanking sequences map to multiple locations in the reference genome, it calls into question whether there is true variation at those sites, or whether the sequences at those sites are merely highly similar but not identical. Interpreting and Configuring the Graphical Display Variants are shown as single tick marks at most zoom levels. When viewing the track at or near base-level resolution, the displayed width of the SNP corresponds to the width of the variant in the reference sequence. Insertions are indicated by a single tick mark displayed between two nucleotides, single nucleotide polymorphisms are displayed as the width of a single base, and multiple nucleotide variants are represented by a block that spans two or more bases. On the track controls page, SNPs can be colored and/or filtered from the display according to several attributes: Class: Describes the observed alleles Single - single nucleotide variation: all observed alleles are single nucleotides (can have 2, 3 or 4 alleles) In-del - insertion/deletion Heterozygous - heterozygous (undetermined) variation: allele contains string '(heterozygous)' Microsatellite - the observed allele from dbSNP is a variation in counts of short tandem repeats Named - the observed allele from dbSNP is given as a text name instead of raw sequence, e.g., (Alu)/- No Variation - the submission reports an invariant region in the surveyed sequence Mixed - the cluster contains submissions from multiple classes Multiple Nucleotide Polymorphism (MNP) - the alleles are all of the same length, and length > 1 Insertion - the polymorphism is an insertion relative to the reference assembly Deletion - the polymorphism is a deletion relative to the reference assembly Unknown - no classification provided by data contributor Validation: Method used to validate the variant (each variant may be validated by more than one method) By Frequency - at least one submitted SNP in cluster has frequency data submitted By Cluster - cluster has at least 2 submissions, with at least one submission assayed with a non-computational method By Submitter - at least one submitter SNP in cluster was validated by independent assay By 2 Hit/2 Allele - all alleles have been observed in at least 2 chromosomes By HapMap (human only) - submitted by HapMap project By 1000Genomes (human only) - submitted by 1000Genomes project Unknown - no validation has been reported for this variant Function: dbSNP's predicted functional effect of variant on RefSeq transcripts, both curated (NM_* and NR_*) as in the RefSeq Genes track and predicted (XM_* and XR_*), not shown in UCSC Genome Browser. A variant may have more than one functional role if it overlaps multiple transcripts. These terms and definitions are from the Sequence Ontology (SO); click on a term to view it in the MISO Sequence Ontology Browser. Unknown - no functional classification provided (possibly intergenic) synonymous_variant - A sequence variant where there is no resulting change to the encoded amino acid (dbSNP term: coding-synon) intron_variant - A transcript variant occurring within an intron (dbSNP term: intron) downstream_gene_variant - A sequence variant located 3' of a gene (dbSNP term: near-gene-3) upstream_gene_variant - A sequence variant located 5' of a gene (dbSNP term: near-gene-5) nc_transcript_variant - A transcript variant of a non coding RNA gene (dbSNP term: ncRNA) stop_gained - A sequence variant whereby at least one base of a codon is changed, resulting in a premature stop codon, leading to a shortened transcript (dbSNP term: nonsense) missense_variant - A sequence variant, where the change may be longer than 3 bases, and at least one base of a codon is changed resulting in a codon that encodes for a different amino acid (dbSNP term: missense) stop_lost - A sequence variant where at least one base of the terminator codon (stop) is changed, resulting in an elongated transcript (dbSNP term: stop-loss) frameshift_variant - A sequence variant which causes a disruption of the translational reading frame, because the number of nucleotides inserted or deleted is not a multiple of three (dbSNP term: frameshift) inframe_indel - A coding sequence variant where the change does not alter the frame of the transcript (dbSNP term: cds-indel) 3_prime_UTR_variant - A UTR variant of the 3' UTR (dbSNP term: untranslated-3) 5_prime_UTR_variant - A UTR variant of the 5' UTR (dbSNP term: untranslated-5) splice_acceptor_variant - A splice variant that changes the 2 base region at the 3' end of an intron (dbSNP term: splice-3) splice_donor_variant - A splice variant that changes the 2 base region at the 5' end of an intron (dbSNP term: splice-5) In the Coloring Options section of the track controls page, function terms are grouped into several categories, shown here with default colors: Locus: downstream_gene_variant, upstream_gene_variant Coding - Synonymous: synonymous_variant Coding - Non-Synonymous: stop_gained, missense_variant, stop_lost, frameshift_variant, inframe_indel Untranslated: 5_prime_UTR_variant, 3_prime_UTR_variant Intron: intron_variant Splice Site: splice_acceptor_variant, splice_donor_variant Molecule Type: Sample used to find this variant Genomic - variant discovered using a genomic template cDNA - variant discovered using a cDNA template Unknown - sample type not known Unusual Conditions (UCSC): UCSC checks for several anomalies that may indicate a problem with the mapping, and reports them in the Annotations section of the SNP details page if found: AlleleFreqSumNot1 - Allele frequencies do not sum to 1.0 (+-0.01). This SNP's allele frequency data are probably incomplete. DuplicateObserved, MixedObserved - Multiple distinct insertion SNPs have been mapped to this location, with either the same inserted sequence (Duplicate) or different inserted sequence (Mixed). FlankMismatchGenomeEqual, FlankMismatchGenomeLonger, FlankMismatchGenomeShorter - NCBI's alignment of the flanking sequences had at least one mismatch or gap near the mapped SNP position. (UCSC's re-alignment of flanking sequences to the genome may be informative.) MultipleAlignments - This SNP's flanking sequences align to more than one location in the reference assembly. NamedDeletionZeroSpan - A deletion (from the genome) was observed but the annotation spans 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) NamedInsertionNonzeroSpan - An insertion (into the genome) was observed but the annotation spans more than 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) NonIntegerChromCount - At least one allele frequency corresponds to a non-integer (+-0.010000) count of chromosomes on which the allele was observed. The reported total sample count for this SNP is probably incorrect. ObservedContainsIupac - At least one observed allele from dbSNP contains an IUPAC ambiguous base (e.g., R, Y, N). ObservedMismatch - UCSC reference allele does not match any observed allele from dbSNP. This is tested only for SNPs whose class is single, in-del, insertion, deletion, mnp or mixed. ObservedTooLong - Observed allele not given (length too long). ObservedWrongFormat - Observed allele(s) from dbSNP have unexpected format for the given class. RefAlleleMismatch - The reference allele from dbSNP does not match the UCSC reference allele, i.e., the bases in the mapped position range. RefAlleleRevComp - The reference allele from dbSNP matches the reverse complement of the UCSC reference allele. SingleClassLongerSpan - All observed alleles are single-base, but the annotation spans more than 1 base. (UCSC's re-alignment of flanking sequences to the genome may be informative.) SingleClassZeroSpan - All observed alleles are single-base, but the annotation spans 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) Another condition, which does not necessarily imply any problem, is noted: SingleClassTriAllelic, SingleClassQuadAllelic - Class is single and three or four different bases have been observed (usually there are only two). Miscellaneous Attributes (dbSNP): several properties extracted from dbSNP's SNP_bitfield table (see dbSNP_BitField_v5.pdf for details) Clinically Associated (human only) - SNP is in OMIM and/or at least one submitter is a Locus-Specific Database. This does not necessarily imply that the variant causes any disease, only that it has been observed in clinical studies. Appears in OMIM/OMIA - SNP is mentioned in Online Mendelian Inheritance in Man for human SNPs, or Online Mendelian Inheritance in Animals for non-human animal SNPs. Some of these SNPs are quite common, others are known to cause disease; see OMIM/OMIA for more information. Has Microattribution/Third-Party Annotation - At least one of the SNP's submitters studied this SNP in a biomedical setting, but is not a Locus-Specific Database or OMIM/OMIA. Submitted by Locus-Specific Database - At least one of the SNP's submitters is associated with a database of variants associated with a particular gene. These variants may or may not be known to be causative. MAF >= 5% in Some Population - Minor Allele Frequency is at least 5% in at least one population assayed. MAF >= 5% in All Populations - Minor Allele Frequency is at least 5% in all populations assayed. Genotype Conflict - Quality check: different genotypes have been submitted for the same individual. Ref SNP Cluster has Non-overlapping Alleles - Quality check: this reference SNP was clustered from submitted SNPs with non-overlapping sets of observed alleles. Some Assembly's Allele Does Not Match Observed - Quality check: at least one assembly mapped by dbSNP has an allele at the mapped position that is not present in this SNP's observed alleles. Several other properties do not have coloring options, but do have some filtering options: Average heterozygosity: Calculated by dbSNP as described in Computation of Average Heterozygosity and Standard Error for dbSNP RefSNP Clusters. Average heterozygosity should not exceed 0.5 for bi-allelic single-base substitutions. Weight: Alignment quality assigned by dbSNP Weight can be 0, 1, 2, 3 or 10. Weight = 1 are the highest quality alignments. Weight = 0 and weight = 10 are excluded from the data set. A filter on maximum weight value is supported, which defaults to 1 on all tracks except the Mult. SNPs track, which defaults to 3. Submitter handles: These are short, single-word identifiers of labs or consortia that submitted SNPs that were clustered into this reference SNP by dbSNP (e.g., 1000GENOMES, ENSEMBL, KWOK). Some SNPs have been observed by many different submitters, and some by only a single submitter (although that single submitter may have tested a large number of samples). AlleleFrequencies: Some submissions to dbSNP include allele frequencies and the study's sample size (i.e., the number of distinct chromosomes, which is two times the number of individuals assayed, a.k.a. 2N). dbSNP combines all available frequencies and counts from submitted SNPs that are clustered together into a reference SNP. You can configure this track such that the details page displays the function and coding differences relative to particular gene sets. Choose the gene sets from the list on the SNP configuration page displayed beneath this heading: On details page, show function and coding differences relative to. When one or more gene tracks are selected, the SNP details page lists all genes that the SNP hits (or is close to), with the same keywords used in the function category. The function usually agrees with NCBI's function, except when NCBI's functional annotation is relative to an XM_* predicted RefSeq (not included in the UCSC Genome Browser's RefSeq Genes track) and/or UCSC's functional annotation is relative to a transcript that is not in RefSeq. Insertions/Deletions dbSNP uses a class called 'in-del'. We compare the length of the reference allele to the length(s) of observed alleles; if the reference allele is shorter than all other observed alleles, we change 'in-del' to 'insertion'. Likewise, if the reference allele is longer than all other observed alleles, we change 'in-del' to 'deletion'. UCSC Re-alignment of flanking sequences dbSNP determines the genomic locations of SNPs by aligning their flanking sequences to the genome. UCSC displays SNPs in the locations determined by dbSNP, but does not have access to the alignments on which dbSNP based its mappings. Instead, UCSC re-aligns the flanking sequences to the neighboring genomic sequence for display on SNP details pages. While the recomputed alignments may differ from dbSNP's alignments, they often are informative when UCSC has annotated an unusual condition. Non-repetitive genomic sequence is shown in upper case like the flanking sequence, and a "|" indicates each match between genomic and flanking bases. Repetitive genomic sequence (annotated by RepeatMasker and/or the Tandem Repeats Finder with period Data Sources and Methods The data that comprise this track were extracted from database dump files and headers of fasta files downloaded from NCBI. The database dump files were downloaded from ftp://ftp.ncbi.nih.gov/snp/organisms/ organism_tax_id/database/ (for human, organism_tax_id = human_9606; for mouse, organism_tax_id = mouse_10090). The fasta files were downloaded from ftp://ftp.ncbi.nih.gov/snp/organisms/ organism_tax_id/rs_fasta/ Coordinates, orientation, location type and dbSNP reference allele data were obtained from files like b138_SNPContigLoc.bcp.gz and b138_ContigInfo.bcp.gz. b138_SNPMapInfo.bcp.gz provides the alignment weights. Functional classification was obtained from files like b138_SNPContigLocusId.bcp.gz. The internal database representation uses dbSNP's function terms, but for display in SNP details pages, these are translated into Sequence Ontology terms. Validation status and heterozygosity were obtained from SNP.bcp.gz. SNPAlleleFreq.bcp.gz and ../shared/Allele.bcp.gz provided allele frequencies. For the human assembly, allele frequencies were also taken from SNPAlleleFreq_TGP.bcp.gz . Submitter handles were extracted from Batch.bcp.gz, SubSNP.bcp.gz and SNPSubSNPLink.bcp.gz. SNP_bitfield.bcp.gz provided miscellaneous properties annotated by dbSNP, such as clinically-associated. See the document dbSNP_BitField_v5.pdf for details. The header lines in the rs_fasta files were used for molecule type, class and observed polymorphism. Data Access Note: It is not recommeneded to use LiftOver to convert SNPs between assemblies, and more information about how to convert SNPs between assemblies can be found on the following FAQ entry. The raw data can be explored interactively with the Table Browser, Data Integrator, or Variant Annotation Integrator. For automated analysis, the genome annotation files can be downloaded in their entirety for hg38, hg19, and mm10 as (snp*.txt.gz). You can also make queries using the UCSC Genome Browser JSON API or public MySQL server. Please refer to our mailing list archives for questions and example queries, or our Data Access FAQ for more information. Orthologous Alleles (human assemblies only) For the human assembly, we provide a related table that contains orthologous alleles in the chimpanzee, orangutan and rhesus macaque reference genome assemblies. We use our liftOver utility to identify the orthologous alleles. The candidate human SNPs are a filtered list that meet the criteria: class = 'single' mapped position in the human reference genome is one base long aligned to only one location in the human reference genome not aligned to a chrN_random chrom biallelic (not tri- or quad-allelic) In some cases the orthologous allele is unknown; these are set to 'N'. If a lift was not possible, we set the orthologous allele to '?' and the orthologous start and end position to 0 (zero). Masked FASTA Files (human assemblies only) FASTA files that have been modified to use IUPAC ambiguous nucleotide characters at each base covered by a single-base substitution are available for download in the genome's snp*Mask folder. Note that only single-base substitutions (no insertions or deletions) were used to mask the sequence, and these were filtered to exlcude problematic SNPs. References Sherry ST, Ward MH, Kholodov M, Baker J, Phan L, Smigielski EM, Sirotkin K. dbSNP: the NCBI database of genetic variation. Nucleic Acids Res. 2001 Jan 1;29(1):308-11. PMID: 11125122; PMC: PMC29783 
dbSnp153ViewVariants Variants Short Genetic Variants from dbSNP release 153 Variation 
dbSnp153 All dbSNP(153) All Short Genetic Variants from dbSNP Release 153 Variation 
dbSnp153Mult dbSNP(153) Mult. Short Genetic Variants from dbSNP Release 153 that Map to Multiple Genomic Loci Variation 
dbSnp153ClinVar dbSNP(153) in ClinVar Short Genetic Variants from dbSNP Release 153 Included in ClinVar Variation 
dbSnp153Common Common dbSNP(153) Common (1000 Genomes Phase 3 MAF >= 1%) Short Genetic Variants from dbSNP Release 153 Variation 
dbSnp153ViewErrs Mapping Errors Short Genetic Variants from dbSNP release 153 Variation 
dbSnp153BadCoords Map Err dbSnp(153) Mappings with Inconsistent Coordinates from dbSNP 153 Variation 
snp151Common Common SNPs(151) Simple Nucleotide Polymorphisms (dbSNP 151) Found in >= 1% of Samples Variation Description This track contains information about a subset of the single nucleotide polymorphisms and small insertions and deletions (indels) — collectively Simple Nucleotide Polymorphisms — from dbSNP build 151, available from ftp.ncbi.nlm.nih.gov/snp. Only SNPs that have a minor allele frequency (MAF) of at least 1% and are mapped to a single location in the reference genome assembly are included in this subset. Frequency data are not available for all SNPs, so this subset is incomplete. Allele counts from all submissions that include frequency data are combined when determining MAF, so for example the allele counts from the 1000 Genomes Project and an independent submitter may be combined for the same variant. dbSNP provides download files in the Variant Call Format (VCF) that include a "COMMON" flag in the INFO column. That is determined by a different method, and is generally a superset of the UCSC Common set. dbSNP uses frequency data from the 1000 Genomes Project only, and considers a variant COMMON if it has a MAF of at least 0.01 in any of the five super-populations: African (AFR) Admixed American (AMR) East Asian (EAS) European (EUR) South Asian (SAS) In build 151, dbSNP marks approximately 38M variants as COMMON; 23M of those have a global MAF < 0.01. The remainder should be in agreement with UCSC's Common subset. The selection of SNPs with a minor allele frequency of 1% or greater is an attempt to identify variants that appear to be reasonably common in the general population. Taken as a set, common variants should be less likely to be associated with severe genetic diseases due to the effects of natural selection, following the view that deleterious variants are not likely to become common in the population. However, the significance of any particular variant should be interpreted only by a trained medical geneticist using all available information. The remainder of this page is identical on the following tracks: Common SNPs(151) - SNPs with >= 1% minor allele frequency (MAF), mapping only once to reference assembly. Flagged SNPs(151) - SNPs < 1% minor allele frequency (MAF) (or unknown), mapping only once to reference assembly, flagged in dbSnp as "clinically associated" -- not necessarily a risk allele! Mult. SNPs(151) - SNPs mapping in more than one place on reference assembly. All SNPs(151) - all SNPs from dbSNP mapping to reference assembly. Interpreting and Configuring the Graphical Display Variants are shown as single tick marks at most zoom levels. When viewing the track at or near base-level resolution, the displayed width of the SNP corresponds to the width of the variant in the reference sequence. Insertions are indicated by a single tick mark displayed between two nucleotides, single nucleotide polymorphisms are displayed as the width of a single base, and multiple nucleotide variants are represented by a block that spans two or more bases. On the track controls page, SNPs can be colored and/or filtered from the display according to several attributes: Class: Describes the observed alleles Single - single nucleotide variation: all observed alleles are single nucleotides (can have 2, 3 or 4 alleles) In-del - insertion/deletion Heterozygous - heterozygous (undetermined) variation: allele contains string '(heterozygous)' Microsatellite - the observed allele from dbSNP is a variation in counts of short tandem repeats Named - the observed allele from dbSNP is given as a text name instead of raw sequence, e.g., (Alu)/- No Variation - the submission reports an invariant region in the surveyed sequence Mixed - the cluster contains submissions from multiple classes Multiple Nucleotide Polymorphism (MNP) - the alleles are all of the same length, and length > 1 Insertion - the polymorphism is an insertion relative to the reference assembly Deletion - the polymorphism is a deletion relative to the reference assembly Unknown - no classification provided by data contributor Validation: Method used to validate the variant (each variant may be validated by more than one method) By Frequency - at least one submitted SNP in cluster has frequency data submitted By Cluster - cluster has at least 2 submissions, with at least one submission assayed with a non-computational method By Submitter - at least one submitter SNP in cluster was validated by independent assay By 2 Hit/2 Allele - all alleles have been observed in at least 2 chromosomes By HapMap (human only) - submitted by HapMap project By 1000Genomes (human only) - submitted by 1000Genomes project Unknown - no validation has been reported for this variant Function: dbSNP's predicted functional effect of variant on RefSeq transcripts, both curated (NM_* and NR_*) as in the RefSeq Genes track and predicted (XM_* and XR_*), not shown in UCSC Genome Browser. A variant may have more than one functional role if it overlaps multiple transcripts. These terms and definitions are from the Sequence Ontology (SO); click on a term to view it in the MISO Sequence Ontology Browser. Unknown - no functional classification provided (possibly intergenic) synonymous_variant - A sequence variant where there is no resulting change to the encoded amino acid (dbSNP term: coding-synon) intron_variant - A transcript variant occurring within an intron (dbSNP term: intron) downstream_gene_variant - A sequence variant located 3' of a gene (dbSNP term: near-gene-3) upstream_gene_variant - A sequence variant located 5' of a gene (dbSNP term: near-gene-5) nc_transcript_variant - A transcript variant of a non coding RNA gene (dbSNP term: ncRNA) stop_gained - A sequence variant whereby at least one base of a codon is changed, resulting in a premature stop codon, leading to a shortened transcript (dbSNP term: nonsense) missense_variant - A sequence variant, where the change may be longer than 3 bases, and at least one base of a codon is changed resulting in a codon that encodes for a different amino acid (dbSNP term: missense) stop_lost - A sequence variant where at least one base of the terminator codon (stop) is changed, resulting in an elongated transcript (dbSNP term: stop-loss) frameshift_variant - A sequence variant which causes a disruption of the translational reading frame, because the number of nucleotides inserted or deleted is not a multiple of three (dbSNP term: frameshift) inframe_indel - A coding sequence variant where the change does not alter the frame of the transcript (dbSNP term: cds-indel) 3_prime_UTR_variant - A UTR variant of the 3' UTR (dbSNP term: untranslated-3) 5_prime_UTR_variant - A UTR variant of the 5' UTR (dbSNP term: untranslated-5) splice_acceptor_variant - A splice variant that changes the 2 base region at the 3' end of an intron (dbSNP term: splice-3) splice_donor_variant - A splice variant that changes the 2 base region at the 5' end of an intron (dbSNP term: splice-5) In the Coloring Options section of the track controls page, function terms are grouped into several categories, shown here with default colors. If a SNP has more than one of these attributes, the stronger color will override the weaker color. The order of colors, from strongest to weakest, is red, green, blue, gray, and black. Locus: downstream_gene_variant, upstream_gene_variant Coding - Synonymous: synonymous_variant Coding - Non-Synonymous: stop_gained, missense_variant, stop_lost, frameshift_variant, inframe_indel Untranslated: 5_prime_UTR_variant, 3_prime_UTR_variant Intron: intron_variant Splice Site: splice_acceptor_variant, splice_donor_variant Non-coding (ncRNA): (nc_transcript_variant) are colored blue. Molecule Type: Sample used to find this variant Genomic - variant discovered using a genomic template cDNA - variant discovered using a cDNA template Unknown - sample type not known Unusual Conditions (UCSC): UCSC checks for several anomalies that may indicate a problem with the mapping, and reports them in the Annotations section of the SNP details page if found: AlleleFreqSumNot1 - Allele frequencies do not sum to 1.0 (+-0.01). This SNP's allele frequency data are probably incomplete. DuplicateObserved, MixedObserved - Multiple distinct insertion SNPs have been mapped to this location, with either the same inserted sequence (Duplicate) or different inserted sequence (Mixed). FlankMismatchGenomeEqual, FlankMismatchGenomeLonger, FlankMismatchGenomeShorter - NCBI's alignment of the flanking sequences had at least one mismatch or gap near the mapped SNP position. (UCSC's re-alignment of flanking sequences to the genome may be informative.) MultipleAlignments - This SNP's flanking sequences align to more than one location in the reference assembly. NamedDeletionZeroSpan - A deletion (from the genome) was observed but the annotation spans 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) NamedInsertionNonzeroSpan - An insertion (into the genome) was observed but the annotation spans more than 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) NonIntegerChromCount - At least one allele frequency corresponds to a non-integer (+-0.010000) count of chromosomes on which the allele was observed. The reported total sample count for this SNP is probably incorrect. ObservedContainsIupac - At least one observed allele from dbSNP contains an IUPAC ambiguous base (e.g., R, Y, N). ObservedMismatch - UCSC reference allele does not match any observed allele from dbSNP. This is tested only for SNPs whose class is single, in-del, insertion, deletion, mnp or mixed. ObservedTooLong - Observed allele not given (length too long). ObservedWrongFormat - Observed allele(s) from dbSNP have unexpected format for the given class. RefAlleleMismatch - The reference allele from dbSNP does not match the UCSC reference allele, i.e., the bases in the mapped position range. RefAlleleRevComp - The reference allele from dbSNP matches the reverse complement of the UCSC reference allele. SingleClassLongerSpan - All observed alleles are single-base, but the annotation spans more than 1 base. (UCSC's re-alignment of flanking sequences to the genome may be informative.) SingleClassZeroSpan - All observed alleles are single-base, but the annotation spans 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) Another condition, which does not necessarily imply any problem, is noted: SingleClassTriAllelic, SingleClassQuadAllelic - Class is single and three or four different bases have been observed (usually there are only two). Miscellaneous Attributes (dbSNP): several properties extracted from dbSNP's SNP_bitfield table (see dbSNP_BitField_v5.pdf for details) Clinically Associated (human only) - SNP is in OMIM and/or at least one submitter is a Locus-Specific Database. This does not necessarily imply that the variant causes any disease, only that it has been observed in clinical studies. Appears in OMIM/OMIA - SNP is mentioned in Online Mendelian Inheritance in Man for human SNPs, or Online Mendelian Inheritance in Animals for non-human animal SNPs. Some of these SNPs are quite common, others are known to cause disease; see OMIM/OMIA for more information. Has Microattribution/Third-Party Annotation - At least one of the SNP's submitters studied this SNP in a biomedical setting, but is not a Locus-Specific Database or OMIM/OMIA. Submitted by Locus-Specific Database - At least one of the SNP's submitters is associated with a database of variants associated with a particular gene. These variants may or may not be known to be causative. MAF >= 5% in Some Population - Minor Allele Frequency is at least 5% in at least one population assayed. MAF >= 5% in All Populations - Minor Allele Frequency is at least 5% in all populations assayed. Genotype Conflict - Quality check: different genotypes have been submitted for the same individual. Ref SNP Cluster has Non-overlapping Alleles - Quality check: this reference SNP was clustered from submitted SNPs with non-overlapping sets of observed alleles. Some Assembly's Allele Does Not Match Observed - Quality check: at least one assembly mapped by dbSNP has an allele at the mapped position that is not present in this SNP's observed alleles. Several other properties do not have coloring options, but do have some filtering options: Average heterozygosity: Calculated by dbSNP as described in Computation of Average Heterozygosity and Standard Error for dbSNP RefSNP Clusters. Average heterozygosity should not exceed 0.5 for bi-allelic single-base substitutions. Weight: Alignment quality assigned by dbSNP. Before dbSNP build 147, weight had values 1, 2 or 3, with 1 being the highest quality (mapped to a single genomic location). As of dbSNP build 147, dbSNP now releases only the variants with weight 1. Submitter handles: These are short, single-word identifiers of labs or consortia that submitted SNPs that were clustered into this reference SNP by dbSNP (e.g., 1000GENOMES, ENSEMBL, KWOK). Some SNPs have been observed by many different submitters, and some by only a single submitter (although that single submitter may have tested a large number of samples). AlleleFrequencies: Some submissions to dbSNP include allele frequencies and the study's sample size (i.e., the number of distinct chromosomes, which is two times the number of individuals assayed, a.k.a. 2N). dbSNP combines all available frequencies and counts from submitted SNPs that are clustered together into a reference SNP. You can configure this track such that the details page displays the function and coding differences relative to particular gene sets. Choose the gene sets from the list on the SNP configuration page displayed beneath this heading: On details page, show function and coding differences relative to. When one or more gene tracks are selected, the SNP details page lists all genes that the SNP hits (or is close to), with the same keywords used in the function category. The function usually agrees with NCBI's function, except when NCBI's functional annotation is relative to an XM_* predicted RefSeq (not included in the UCSC Genome Browser's RefSeq Genes track) and/or UCSC's functional annotation is relative to a transcript that is not in RefSeq. Insertions/Deletions dbSNP uses a class called 'in-del'. We compare the length of the reference allele to the length(s) of observed alleles; if the reference allele is shorter than all other observed alleles, we change 'in-del' to 'insertion'. Likewise, if the reference allele is longer than all other observed alleles, we change 'in-del' to 'deletion'. UCSC Re-alignment of flanking sequences dbSNP determines the genomic locations of SNPs by aligning their flanking sequences to the genome. UCSC displays SNPs in the locations determined by dbSNP, but does not have access to the alignments on which dbSNP based its mappings. Instead, UCSC re-aligns the flanking sequences to the neighboring genomic sequence for display on SNP details pages. While the recomputed alignments may differ from dbSNP's alignments, they often are informative when UCSC has annotated an unusual condition. Non-repetitive genomic sequence is shown in upper case like the flanking sequence, and a "|" indicates each match between genomic and flanking bases. Repetitive genomic sequence (annotated by RepeatMasker and/or the Tandem Repeats Finder with period >= 12) is shown in lower case, and matching bases are indicated by a "+". Data Sources and Methods The data that comprise this track were extracted from database dump files and headers of fasta files downloaded from NCBI. The database dump files were downloaded from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b151_GRCh37p13/database/data/organism_data/ for hg19 and from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b151_GRCh38p7/database/data/organism_data/ for hg38. The fasta files were downloaded from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b151_GRCh37p13/rs_fasta/ for hg19 and from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b151_GRCh38p7/rs_fasta/ for hg38. Coordinates, orientation, location type and dbSNP reference allele data were obtained from b151_SNPContigLoc_N.bcp.gz and b151_ContigInfo_N.bcp.gz. (N = 105 for hg19, 108 for hg38) b151_SNPMapInfo_N.bcp.gz provided the alignment weights. Functional classification was obtained from b151_SNPContigLocusId_N.bcp.gz. The internal database representation uses dbSNP's function terms, but for display in SNP details pages, these are translated into Sequence Ontology terms. Validation status and heterozygosity were obtained from SNP.bcp.gz. SNPAlleleFreq.bcp.gz and ../shared/Allele.bcp.gz provided allele frequencies. For the human assembly, allele frequencies were also taken from SNPAlleleFreq_TGP.bcp.gz . Submitter handles were extracted from Batch.bcp.gz, SubSNP.bcp.gz and SNPSubSNPLink.bcp.gz. SNP_bitfield.bcp.gz provided miscellaneous properties annotated by dbSNP, such as clinically-associated. See the document dbSNP_BitField_v5.pdf for details. The header lines in the rs_fasta files were used for molecule type, class and observed polymorphism. Data Access The raw data can be explored interactively with the Table Browser, Data Integrator, or Variant Annotation Integrator. For automated analysis, the genome annotation can be downloaded from the downloads server for hg38 and hg19 (snp151*.txt.gz) or the public MySQL server. Please refer to our mailing list archives for questions and example queries, or our Data Access FAQ for more information. Orthologous Alleles (human assemblies only) For the human assembly, we provide a related table that contains orthologous alleles in the chimpanzee, orangutan and rhesus macaque reference genome assemblies. We use our liftOver utility to identify the orthologous alleles. The candidate human SNPs are a filtered list that meet the criteria: class = 'single' mapped position in the human reference genome is one base long aligned to only one location in the human reference genome not aligned to a chrN_random chrom biallelic (not tri- or quad-allelic) In some cases the orthologous allele is unknown; these are set to 'N'. If a lift was not possible, we set the orthologous allele to '?' and the orthologous start and end position to 0 (zero). Masked FASTA Files (human assemblies only) FASTA files that have been modified to use IUPAC ambiguous nucleotide characters at each base covered by a single-base substitution are available for download: GRCh37/hg19, GRCh38/hg38. Note that only single-base substitutions (no insertions or deletions) were used to mask the sequence, and these were filtered to exclude problematic SNPs. References Sherry ST, Ward MH, Kholodov M, Baker J, Phan L, Smigielski EM, Sirotkin K. dbSNP: the NCBI database of genetic variation. Nucleic Acids Res. 2001 Jan 1;29(1):308-11. PMID: 11125122; PMC: PMC29783 
snp151 All SNPs(151) Simple Nucleotide Polymorphisms (dbSNP 151) Variation Description This track contains information about single nucleotide polymorphisms and small insertions and deletions (indels) — collectively Simple Nucleotide Polymorphisms — from dbSNP build 151, available from ftp.ncbi.nlm.nih.gov/snp. Three tracks contain subsets of the items in this track: Common SNPs(151): SNPs that have a minor allele frequency of at least 1% and are mapped to a single location in the reference genome assembly. Frequency data are not available for all SNPs, so this subset is incomplete. Flagged SNPs(151): SNPs flagged as clinically associated by dbSNP, mapped to a single location in the reference genome assembly, and not known to have a minor allele frequency of at least 1%. Frequency data are not available for all SNPs, so this subset may include some SNPs whose true minor allele frequency is 1% or greater. Mult. SNPs(151): SNPs that have been mapped to multiple locations in the reference genome assembly. There are very few SNPs in this category because dbSNP has been filtering out almost all multiple-mapping SNPs since build 149. The default maximum weight for this track is 1, so unless the setting is changed in the track controls, SNPs that map to multiple genomic locations will be omitted from display. When a SNP's flanking sequences map to multiple locations in the reference genome, it calls into question whether there is true variation at those sites, or whether the sequences at those sites are merely highly similar but not identical. The remainder of this page is identical on the following tracks: Common SNPs(151) - SNPs with >= 1% minor allele frequency (MAF), mapping only once to reference assembly. Flagged SNPs(151) - SNPs < 1% minor allele frequency (MAF) (or unknown), mapping only once to reference assembly, flagged in dbSnp as "clinically associated" -- not necessarily a risk allele! Mult. SNPs(151) - SNPs mapping in more than one place on reference assembly. All SNPs(151) - all SNPs from dbSNP mapping to reference assembly. Interpreting and Configuring the Graphical Display Variants are shown as single tick marks at most zoom levels. When viewing the track at or near base-level resolution, the displayed width of the SNP corresponds to the width of the variant in the reference sequence. Insertions are indicated by a single tick mark displayed between two nucleotides, single nucleotide polymorphisms are displayed as the width of a single base, and multiple nucleotide variants are represented by a block that spans two or more bases. On the track controls page, SNPs can be colored and/or filtered from the display according to several attributes: Class: Describes the observed alleles Single - single nucleotide variation: all observed alleles are single nucleotides (can have 2, 3 or 4 alleles) In-del - insertion/deletion Heterozygous - heterozygous (undetermined) variation: allele contains string '(heterozygous)' Microsatellite - the observed allele from dbSNP is a variation in counts of short tandem repeats Named - the observed allele from dbSNP is given as a text name instead of raw sequence, e.g., (Alu)/- No Variation - the submission reports an invariant region in the surveyed sequence Mixed - the cluster contains submissions from multiple classes Multiple Nucleotide Polymorphism (MNP) - the alleles are all of the same length, and length > 1 Insertion - the polymorphism is an insertion relative to the reference assembly Deletion - the polymorphism is a deletion relative to the reference assembly Unknown - no classification provided by data contributor Validation: Method used to validate the variant (each variant may be validated by more than one method) By Frequency - at least one submitted SNP in cluster has frequency data submitted By Cluster - cluster has at least 2 submissions, with at least one submission assayed with a non-computational method By Submitter - at least one submitter SNP in cluster was validated by independent assay By 2 Hit/2 Allele - all alleles have been observed in at least 2 chromosomes By HapMap (human only) - submitted by HapMap project By 1000Genomes (human only) - submitted by 1000Genomes project Unknown - no validation has been reported for this variant Function: dbSNP's predicted functional effect of variant on RefSeq transcripts, both curated (NM_* and NR_*) as in the RefSeq Genes track and predicted (XM_* and XR_*), not shown in UCSC Genome Browser. A variant may have more than one functional role if it overlaps multiple transcripts. These terms and definitions are from the Sequence Ontology (SO); click on a term to view it in the MISO Sequence Ontology Browser. Unknown - no functional classification provided (possibly intergenic) synonymous_variant - A sequence variant where there is no resulting change to the encoded amino acid (dbSNP term: coding-synon) intron_variant - A transcript variant occurring within an intron (dbSNP term: intron) downstream_gene_variant - A sequence variant located 3' of a gene (dbSNP term: near-gene-3) upstream_gene_variant - A sequence variant located 5' of a gene (dbSNP term: near-gene-5) nc_transcript_variant - A transcript variant of a non coding RNA gene (dbSNP term: ncRNA) stop_gained - A sequence variant whereby at least one base of a codon is changed, resulting in a premature stop codon, leading to a shortened transcript (dbSNP term: nonsense) missense_variant - A sequence variant, where the change may be longer than 3 bases, and at least one base of a codon is changed resulting in a codon that encodes for a different amino acid (dbSNP term: missense) stop_lost - A sequence variant where at least one base of the terminator codon (stop) is changed, resulting in an elongated transcript (dbSNP term: stop-loss) frameshift_variant - A sequence variant which causes a disruption of the translational reading frame, because the number of nucleotides inserted or deleted is not a multiple of three (dbSNP term: frameshift) inframe_indel - A coding sequence variant where the change does not alter the frame of the transcript (dbSNP term: cds-indel) 3_prime_UTR_variant - A UTR variant of the 3' UTR (dbSNP term: untranslated-3) 5_prime_UTR_variant - A UTR variant of the 5' UTR (dbSNP term: untranslated-5) splice_acceptor_variant - A splice variant that changes the 2 base region at the 3' end of an intron (dbSNP term: splice-3) splice_donor_variant - A splice variant that changes the 2 base region at the 5' end of an intron (dbSNP term: splice-5) In the Coloring Options section of the track controls page, function terms are grouped into several categories, shown here with default colors. If a SNP has more than one of these attributes, the stronger color will override the weaker color. The order of colors, from strongest to weakest, is red, green, blue, gray, and black. Locus: downstream_gene_variant, upstream_gene_variant Coding - Synonymous: synonymous_variant Coding - Non-Synonymous: stop_gained, missense_variant, stop_lost, frameshift_variant, inframe_indel Untranslated: 5_prime_UTR_variant, 3_prime_UTR_variant Intron: intron_variant Splice Site: splice_acceptor_variant, splice_donor_variant Non-coding (ncRNA): (nc_transcript_variant) are colored blue. Molecule Type: Sample used to find this variant Genomic - variant discovered using a genomic template cDNA - variant discovered using a cDNA template Unknown - sample type not known Unusual Conditions (UCSC): UCSC checks for several anomalies that may indicate a problem with the mapping, and reports them in the Annotations section of the SNP details page if found: AlleleFreqSumNot1 - Allele frequencies do not sum to 1.0 (+-0.01). This SNP's allele frequency data are probably incomplete. DuplicateObserved, MixedObserved - Multiple distinct insertion SNPs have been mapped to this location, with either the same inserted sequence (Duplicate) or different inserted sequence (Mixed). FlankMismatchGenomeEqual, FlankMismatchGenomeLonger, FlankMismatchGenomeShorter - NCBI's alignment of the flanking sequences had at least one mismatch or gap near the mapped SNP position. (UCSC's re-alignment of flanking sequences to the genome may be informative.) MultipleAlignments - This SNP's flanking sequences align to more than one location in the reference assembly. NamedDeletionZeroSpan - A deletion (from the genome) was observed but the annotation spans 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) NamedInsertionNonzeroSpan - An insertion (into the genome) was observed but the annotation spans more than 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) NonIntegerChromCount - At least one allele frequency corresponds to a non-integer (+-0.010000) count of chromosomes on which the allele was observed. The reported total sample count for this SNP is probably incorrect. ObservedContainsIupac - At least one observed allele from dbSNP contains an IUPAC ambiguous base (e.g., R, Y, N). ObservedMismatch - UCSC reference allele does not match any observed allele from dbSNP. This is tested only for SNPs whose class is single, in-del, insertion, deletion, mnp or mixed. ObservedTooLong - Observed allele not given (length too long). ObservedWrongFormat - Observed allele(s) from dbSNP have unexpected format for the given class. RefAlleleMismatch - The reference allele from dbSNP does not match the UCSC reference allele, i.e., the bases in the mapped position range. RefAlleleRevComp - The reference allele from dbSNP matches the reverse complement of the UCSC reference allele. SingleClassLongerSpan - All observed alleles are single-base, but the annotation spans more than 1 base. (UCSC's re-alignment of flanking sequences to the genome may be informative.) SingleClassZeroSpan - All observed alleles are single-base, but the annotation spans 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) Another condition, which does not necessarily imply any problem, is noted: SingleClassTriAllelic, SingleClassQuadAllelic - Class is single and three or four different bases have been observed (usually there are only two). Miscellaneous Attributes (dbSNP): several properties extracted from dbSNP's SNP_bitfield table (see dbSNP_BitField_v5.pdf for details) Clinically Associated (human only) - SNP is in OMIM and/or at least one submitter is a Locus-Specific Database. This does not necessarily imply that the variant causes any disease, only that it has been observed in clinical studies. Appears in OMIM/OMIA - SNP is mentioned in Online Mendelian Inheritance in Man for human SNPs, or Online Mendelian Inheritance in Animals for non-human animal SNPs. Some of these SNPs are quite common, others are known to cause disease; see OMIM/OMIA for more information. Has Microattribution/Third-Party Annotation - At least one of the SNP's submitters studied this SNP in a biomedical setting, but is not a Locus-Specific Database or OMIM/OMIA. Submitted by Locus-Specific Database - At least one of the SNP's submitters is associated with a database of variants associated with a particular gene. These variants may or may not be known to be causative. MAF >= 5% in Some Population - Minor Allele Frequency is at least 5% in at least one population assayed. MAF >= 5% in All Populations - Minor Allele Frequency is at least 5% in all populations assayed. Genotype Conflict - Quality check: different genotypes have been submitted for the same individual. Ref SNP Cluster has Non-overlapping Alleles - Quality check: this reference SNP was clustered from submitted SNPs with non-overlapping sets of observed alleles. Some Assembly's Allele Does Not Match Observed - Quality check: at least one assembly mapped by dbSNP has an allele at the mapped position that is not present in this SNP's observed alleles. Several other properties do not have coloring options, but do have some filtering options: Average heterozygosity: Calculated by dbSNP as described in Computation of Average Heterozygosity and Standard Error for dbSNP RefSNP Clusters. Average heterozygosity should not exceed 0.5 for bi-allelic single-base substitutions. Weight: Alignment quality assigned by dbSNP. Before dbSNP build 147, weight had values 1, 2 or 3, with 1 being the highest quality (mapped to a single genomic location). As of dbSNP build 147, dbSNP now releases only the variants with weight 1. Submitter handles: These are short, single-word identifiers of labs or consortia that submitted SNPs that were clustered into this reference SNP by dbSNP (e.g., 1000GENOMES, ENSEMBL, KWOK). Some SNPs have been observed by many different submitters, and some by only a single submitter (although that single submitter may have tested a large number of samples). AlleleFrequencies: Some submissions to dbSNP include allele frequencies and the study's sample size (i.e., the number of distinct chromosomes, which is two times the number of individuals assayed, a.k.a. 2N). dbSNP combines all available frequencies and counts from submitted SNPs that are clustered together into a reference SNP. You can configure this track such that the details page displays the function and coding differences relative to particular gene sets. Choose the gene sets from the list on the SNP configuration page displayed beneath this heading: On details page, show function and coding differences relative to. When one or more gene tracks are selected, the SNP details page lists all genes that the SNP hits (or is close to), with the same keywords used in the function category. The function usually agrees with NCBI's function, except when NCBI's functional annotation is relative to an XM_* predicted RefSeq (not included in the UCSC Genome Browser's RefSeq Genes track) and/or UCSC's functional annotation is relative to a transcript that is not in RefSeq. Insertions/Deletions dbSNP uses a class called 'in-del'. We compare the length of the reference allele to the length(s) of observed alleles; if the reference allele is shorter than all other observed alleles, we change 'in-del' to 'insertion'. Likewise, if the reference allele is longer than all other observed alleles, we change 'in-del' to 'deletion'. UCSC Re-alignment of flanking sequences dbSNP determines the genomic locations of SNPs by aligning their flanking sequences to the genome. UCSC displays SNPs in the locations determined by dbSNP, but does not have access to the alignments on which dbSNP based its mappings. Instead, UCSC re-aligns the flanking sequences to the neighboring genomic sequence for display on SNP details pages. While the recomputed alignments may differ from dbSNP's alignments, they often are informative when UCSC has annotated an unusual condition. Non-repetitive genomic sequence is shown in upper case like the flanking sequence, and a "|" indicates each match between genomic and flanking bases. Repetitive genomic sequence (annotated by RepeatMasker and/or the Tandem Repeats Finder with period >= 12) is shown in lower case, and matching bases are indicated by a "+". Data Sources and Methods The data that comprise this track were extracted from database dump files and headers of fasta files downloaded from NCBI. The database dump files were downloaded from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b151_GRCh37p13/database/data/organism_data/ for hg19 and from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b151_GRCh38p7/database/data/organism_data/ for hg38. The fasta files were downloaded from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b151_GRCh37p13/rs_fasta/ for hg19 and from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b151_GRCh38p7/rs_fasta/ for hg38. Coordinates, orientation, location type and dbSNP reference allele data were obtained from b151_SNPContigLoc_N.bcp.gz and b151_ContigInfo_N.bcp.gz. (N = 105 for hg19, 108 for hg38) b151_SNPMapInfo_N.bcp.gz provided the alignment weights. Functional classification was obtained from b151_SNPContigLocusId_N.bcp.gz. The internal database representation uses dbSNP's function terms, but for display in SNP details pages, these are translated into Sequence Ontology terms. Validation status and heterozygosity were obtained from SNP.bcp.gz. SNPAlleleFreq.bcp.gz and ../shared/Allele.bcp.gz provided allele frequencies. For the human assembly, allele frequencies were also taken from SNPAlleleFreq_TGP.bcp.gz . Submitter handles were extracted from Batch.bcp.gz, SubSNP.bcp.gz and SNPSubSNPLink.bcp.gz. SNP_bitfield.bcp.gz provided miscellaneous properties annotated by dbSNP, such as clinically-associated. See the document dbSNP_BitField_v5.pdf for details. The header lines in the rs_fasta files were used for molecule type, class and observed polymorphism. Data Access The raw data can be explored interactively with the Table Browser, Data Integrator, or Variant Annotation Integrator. For automated analysis, the genome annotation can be downloaded from the downloads server for hg38 and hg19 (snp151*.txt.gz) or the public MySQL server. Please refer to our mailing list archives for questions and example queries, or our Data Access FAQ for more information. Orthologous Alleles (human assemblies only) For the human assembly, we provide a related table that contains orthologous alleles in the chimpanzee, orangutan and rhesus macaque reference genome assemblies. We use our liftOver utility to identify the orthologous alleles. The candidate human SNPs are a filtered list that meet the criteria: class = 'single' mapped position in the human reference genome is one base long aligned to only one location in the human reference genome not aligned to a chrN_random chrom biallelic (not tri- or quad-allelic) In some cases the orthologous allele is unknown; these are set to 'N'. If a lift was not possible, we set the orthologous allele to '?' and the orthologous start and end position to 0 (zero). Masked FASTA Files (human assemblies only) FASTA files that have been modified to use IUPAC ambiguous nucleotide characters at each base covered by a single-base substitution are available for download: GRCh37/hg19, GRCh38/hg38. Note that only single-base substitutions (no insertions or deletions) were used to mask the sequence, and these were filtered to exclude problematic SNPs. References Sherry ST, Ward MH, Kholodov M, Baker J, Phan L, Smigielski EM, Sirotkin K. dbSNP: the NCBI database of genetic variation. Nucleic Acids Res. 2001 Jan 1;29(1):308-11. PMID: 11125122; PMC: PMC29783 
snp151Flagged Flagged SNPs(151) Simple Nucleotide Polymorphisms (dbSNP 151) Flagged by dbSNP as Clinically Assoc Variation Description This track contains information about a subset of the single nucleotide polymorphisms and small insertions and deletions (indels) — collectively Simple Nucleotide Polymorphisms — from dbSNP build 151, available from ftp.ncbi.nlm.nih.gov/snp. Only SNPs flagged as clinically associated by dbSNP, mapped to a single location in the reference genome assembly, and not known to have a minor allele frequency of at least 1%, are included in this subset. Frequency data are not available for all SNPs, so this subset probably includes some SNPs whose true minor allele frequency is 1% or greater. The significance of any particular variant in this track should be interpreted only by a trained medical geneticist using all available information. For example, some variants are included in this track because of their inclusion in a Locus-Specific Database (LSDB) or mention in OMIM, but are not thought to be disease-causing, so inclusion of a variant in this track is not necessarily an indicator of risk. Again, all available information must be carefully considered by a qualified professional. The remainder of this page is identical on the following tracks: Common SNPs(151) - SNPs with >= 1% minor allele frequency (MAF), mapping only once to reference assembly. Flagged SNPs(151) - SNPs < 1% minor allele frequency (MAF) (or unknown), mapping only once to reference assembly, flagged in dbSnp as "clinically associated" -- not necessarily a risk allele! Mult. SNPs(151) - SNPs mapping in more than one place on reference assembly. All SNPs(151) - all SNPs from dbSNP mapping to reference assembly. Interpreting and Configuring the Graphical Display Variants are shown as single tick marks at most zoom levels. When viewing the track at or near base-level resolution, the displayed width of the SNP corresponds to the width of the variant in the reference sequence. Insertions are indicated by a single tick mark displayed between two nucleotides, single nucleotide polymorphisms are displayed as the width of a single base, and multiple nucleotide variants are represented by a block that spans two or more bases. On the track controls page, SNPs can be colored and/or filtered from the display according to several attributes: Class: Describes the observed alleles Single - single nucleotide variation: all observed alleles are single nucleotides (can have 2, 3 or 4 alleles) In-del - insertion/deletion Heterozygous - heterozygous (undetermined) variation: allele contains string '(heterozygous)' Microsatellite - the observed allele from dbSNP is a variation in counts of short tandem repeats Named - the observed allele from dbSNP is given as a text name instead of raw sequence, e.g., (Alu)/- No Variation - the submission reports an invariant region in the surveyed sequence Mixed - the cluster contains submissions from multiple classes Multiple Nucleotide Polymorphism (MNP) - the alleles are all of the same length, and length > 1 Insertion - the polymorphism is an insertion relative to the reference assembly Deletion - the polymorphism is a deletion relative to the reference assembly Unknown - no classification provided by data contributor Validation: Method used to validate the variant (each variant may be validated by more than one method) By Frequency - at least one submitted SNP in cluster has frequency data submitted By Cluster - cluster has at least 2 submissions, with at least one submission assayed with a non-computational method By Submitter - at least one submitter SNP in cluster was validated by independent assay By 2 Hit/2 Allele - all alleles have been observed in at least 2 chromosomes By HapMap (human only) - submitted by HapMap project By 1000Genomes (human only) - submitted by 1000Genomes project Unknown - no validation has been reported for this variant Function: dbSNP's predicted functional effect of variant on RefSeq transcripts, both curated (NM_* and NR_*) as in the RefSeq Genes track and predicted (XM_* and XR_*), not shown in UCSC Genome Browser. A variant may have more than one functional role if it overlaps multiple transcripts. These terms and definitions are from the Sequence Ontology (SO); click on a term to view it in the MISO Sequence Ontology Browser. Unknown - no functional classification provided (possibly intergenic) synonymous_variant - A sequence variant where there is no resulting change to the encoded amino acid (dbSNP term: coding-synon) intron_variant - A transcript variant occurring within an intron (dbSNP term: intron) downstream_gene_variant - A sequence variant located 3' of a gene (dbSNP term: near-gene-3) upstream_gene_variant - A sequence variant located 5' of a gene (dbSNP term: near-gene-5) nc_transcript_variant - A transcript variant of a non coding RNA gene (dbSNP term: ncRNA) stop_gained - A sequence variant whereby at least one base of a codon is changed, resulting in a premature stop codon, leading to a shortened transcript (dbSNP term: nonsense) missense_variant - A sequence variant, where the change may be longer than 3 bases, and at least one base of a codon is changed resulting in a codon that encodes for a different amino acid (dbSNP term: missense) stop_lost - A sequence variant where at least one base of the terminator codon (stop) is changed, resulting in an elongated transcript (dbSNP term: stop-loss) frameshift_variant - A sequence variant which causes a disruption of the translational reading frame, because the number of nucleotides inserted or deleted is not a multiple of three (dbSNP term: frameshift) inframe_indel - A coding sequence variant where the change does not alter the frame of the transcript (dbSNP term: cds-indel) 3_prime_UTR_variant - A UTR variant of the 3' UTR (dbSNP term: untranslated-3) 5_prime_UTR_variant - A UTR variant of the 5' UTR (dbSNP term: untranslated-5) splice_acceptor_variant - A splice variant that changes the 2 base region at the 3' end of an intron (dbSNP term: splice-3) splice_donor_variant - A splice variant that changes the 2 base region at the 5' end of an intron (dbSNP term: splice-5) In the Coloring Options section of the track controls page, function terms are grouped into several categories, shown here with default colors. If a SNP has more than one of these attributes, the stronger color will override the weaker color. The order of colors, from strongest to weakest, is red, green, blue, gray, and black. Locus: downstream_gene_variant, upstream_gene_variant Coding - Synonymous: synonymous_variant Coding - Non-Synonymous: stop_gained, missense_variant, stop_lost, frameshift_variant, inframe_indel Untranslated: 5_prime_UTR_variant, 3_prime_UTR_variant Intron: intron_variant Splice Site: splice_acceptor_variant, splice_donor_variant Non-coding (ncRNA): (nc_transcript_variant) are colored blue. Molecule Type: Sample used to find this variant Genomic - variant discovered using a genomic template cDNA - variant discovered using a cDNA template Unknown - sample type not known Unusual Conditions (UCSC): UCSC checks for several anomalies that may indicate a problem with the mapping, and reports them in the Annotations section of the SNP details page if found: AlleleFreqSumNot1 - Allele frequencies do not sum to 1.0 (+-0.01). This SNP's allele frequency data are probably incomplete. DuplicateObserved, MixedObserved - Multiple distinct insertion SNPs have been mapped to this location, with either the same inserted sequence (Duplicate) or different inserted sequence (Mixed). FlankMismatchGenomeEqual, FlankMismatchGenomeLonger, FlankMismatchGenomeShorter - NCBI's alignment of the flanking sequences had at least one mismatch or gap near the mapped SNP position. (UCSC's re-alignment of flanking sequences to the genome may be informative.) MultipleAlignments - This SNP's flanking sequences align to more than one location in the reference assembly. NamedDeletionZeroSpan - A deletion (from the genome) was observed but the annotation spans 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) NamedInsertionNonzeroSpan - An insertion (into the genome) was observed but the annotation spans more than 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) NonIntegerChromCount - At least one allele frequency corresponds to a non-integer (+-0.010000) count of chromosomes on which the allele was observed. The reported total sample count for this SNP is probably incorrect. ObservedContainsIupac - At least one observed allele from dbSNP contains an IUPAC ambiguous base (e.g., R, Y, N). ObservedMismatch - UCSC reference allele does not match any observed allele from dbSNP. This is tested only for SNPs whose class is single, in-del, insertion, deletion, mnp or mixed. ObservedTooLong - Observed allele not given (length too long). ObservedWrongFormat - Observed allele(s) from dbSNP have unexpected format for the given class. RefAlleleMismatch - The reference allele from dbSNP does not match the UCSC reference allele, i.e., the bases in the mapped position range. RefAlleleRevComp - The reference allele from dbSNP matches the reverse complement of the UCSC reference allele. SingleClassLongerSpan - All observed alleles are single-base, but the annotation spans more than 1 base. (UCSC's re-alignment of flanking sequences to the genome may be informative.) SingleClassZeroSpan - All observed alleles are single-base, but the annotation spans 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) Another condition, which does not necessarily imply any problem, is noted: SingleClassTriAllelic, SingleClassQuadAllelic - Class is single and three or four different bases have been observed (usually there are only two). Miscellaneous Attributes (dbSNP): several properties extracted from dbSNP's SNP_bitfield table (see dbSNP_BitField_v5.pdf for details) Clinically Associated (human only) - SNP is in OMIM and/or at least one submitter is a Locus-Specific Database. This does not necessarily imply that the variant causes any disease, only that it has been observed in clinical studies. Appears in OMIM/OMIA - SNP is mentioned in Online Mendelian Inheritance in Man for human SNPs, or Online Mendelian Inheritance in Animals for non-human animal SNPs. Some of these SNPs are quite common, others are known to cause disease; see OMIM/OMIA for more information. Has Microattribution/Third-Party Annotation - At least one of the SNP's submitters studied this SNP in a biomedical setting, but is not a Locus-Specific Database or OMIM/OMIA. Submitted by Locus-Specific Database - At least one of the SNP's submitters is associated with a database of variants associated with a particular gene. These variants may or may not be known to be causative. MAF >= 5% in Some Population - Minor Allele Frequency is at least 5% in at least one population assayed. MAF >= 5% in All Populations - Minor Allele Frequency is at least 5% in all populations assayed. Genotype Conflict - Quality check: different genotypes have been submitted for the same individual. Ref SNP Cluster has Non-overlapping Alleles - Quality check: this reference SNP was clustered from submitted SNPs with non-overlapping sets of observed alleles. Some Assembly's Allele Does Not Match Observed - Quality check: at least one assembly mapped by dbSNP has an allele at the mapped position that is not present in this SNP's observed alleles. Several other properties do not have coloring options, but do have some filtering options: Average heterozygosity: Calculated by dbSNP as described in Computation of Average Heterozygosity and Standard Error for dbSNP RefSNP Clusters. Average heterozygosity should not exceed 0.5 for bi-allelic single-base substitutions. Weight: Alignment quality assigned by dbSNP. Before dbSNP build 147, weight had values 1, 2 or 3, with 1 being the highest quality (mapped to a single genomic location). As of dbSNP build 147, dbSNP now releases only the variants with weight 1. Submitter handles: These are short, single-word identifiers of labs or consortia that submitted SNPs that were clustered into this reference SNP by dbSNP (e.g., 1000GENOMES, ENSEMBL, KWOK). Some SNPs have been observed by many different submitters, and some by only a single submitter (although that single submitter may have tested a large number of samples). AlleleFrequencies: Some submissions to dbSNP include allele frequencies and the study's sample size (i.e., the number of distinct chromosomes, which is two times the number of individuals assayed, a.k.a. 2N). dbSNP combines all available frequencies and counts from submitted SNPs that are clustered together into a reference SNP. You can configure this track such that the details page displays the function and coding differences relative to particular gene sets. Choose the gene sets from the list on the SNP configuration page displayed beneath this heading: On details page, show function and coding differences relative to. When one or more gene tracks are selected, the SNP details page lists all genes that the SNP hits (or is close to), with the same keywords used in the function category. The function usually agrees with NCBI's function, except when NCBI's functional annotation is relative to an XM_* predicted RefSeq (not included in the UCSC Genome Browser's RefSeq Genes track) and/or UCSC's functional annotation is relative to a transcript that is not in RefSeq. Insertions/Deletions dbSNP uses a class called 'in-del'. We compare the length of the reference allele to the length(s) of observed alleles; if the reference allele is shorter than all other observed alleles, we change 'in-del' to 'insertion'. Likewise, if the reference allele is longer than all other observed alleles, we change 'in-del' to 'deletion'. UCSC Re-alignment of flanking sequences dbSNP determines the genomic locations of SNPs by aligning their flanking sequences to the genome. UCSC displays SNPs in the locations determined by dbSNP, but does not have access to the alignments on which dbSNP based its mappings. Instead, UCSC re-aligns the flanking sequences to the neighboring genomic sequence for display on SNP details pages. While the recomputed alignments may differ from dbSNP's alignments, they often are informative when UCSC has annotated an unusual condition. Non-repetitive genomic sequence is shown in upper case like the flanking sequence, and a "|" indicates each match between genomic and flanking bases. Repetitive genomic sequence (annotated by RepeatMasker and/or the Tandem Repeats Finder with period >= 12) is shown in lower case, and matching bases are indicated by a "+". Data Sources and Methods The data that comprise this track were extracted from database dump files and headers of fasta files downloaded from NCBI. The database dump files were downloaded from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b151_GRCh37p13/database/data/organism_data/ for hg19 and from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b151_GRCh38p7/database/data/organism_data/ for hg38. The fasta files were downloaded from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b151_GRCh37p13/rs_fasta/ for hg19 and from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b151_GRCh38p7/rs_fasta/ for hg38. Coordinates, orientation, location type and dbSNP reference allele data were obtained from b151_SNPContigLoc_N.bcp.gz and b151_ContigInfo_N.bcp.gz. (N = 105 for hg19, 108 for hg38) b151_SNPMapInfo_N.bcp.gz provided the alignment weights. Functional classification was obtained from b151_SNPContigLocusId_N.bcp.gz. The internal database representation uses dbSNP's function terms, but for display in SNP details pages, these are translated into Sequence Ontology terms. Validation status and heterozygosity were obtained from SNP.bcp.gz. SNPAlleleFreq.bcp.gz and ../shared/Allele.bcp.gz provided allele frequencies. For the human assembly, allele frequencies were also taken from SNPAlleleFreq_TGP.bcp.gz . Submitter handles were extracted from Batch.bcp.gz, SubSNP.bcp.gz and SNPSubSNPLink.bcp.gz. SNP_bitfield.bcp.gz provided miscellaneous properties annotated by dbSNP, such as clinically-associated. See the document dbSNP_BitField_v5.pdf for details. The header lines in the rs_fasta files were used for molecule type, class and observed polymorphism. Data Access The raw data can be explored interactively with the Table Browser, Data Integrator, or Variant Annotation Integrator. For automated analysis, the genome annotation can be downloaded from the downloads server for hg38 and hg19 (snp151*.txt.gz) or the public MySQL server. Please refer to our mailing list archives for questions and example queries, or our Data Access FAQ for more information. Orthologous Alleles (human assemblies only) For the human assembly, we provide a related table that contains orthologous alleles in the chimpanzee, orangutan and rhesus macaque reference genome assemblies. We use our liftOver utility to identify the orthologous alleles. The candidate human SNPs are a filtered list that meet the criteria: class = 'single' mapped position in the human reference genome is one base long aligned to only one location in the human reference genome not aligned to a chrN_random chrom biallelic (not tri- or quad-allelic) In some cases the orthologous allele is unknown; these are set to 'N'. If a lift was not possible, we set the orthologous allele to '?' and the orthologous start and end position to 0 (zero). Masked FASTA Files (human assemblies only) FASTA files that have been modified to use IUPAC ambiguous nucleotide characters at each base covered by a single-base substitution are available for download: GRCh37/hg19, GRCh38/hg38. Note that only single-base substitutions (no insertions or deletions) were used to mask the sequence, and these were filtered to exclude problematic SNPs. References Sherry ST, Ward MH, Kholodov M, Baker J, Phan L, Smigielski EM, Sirotkin K. dbSNP: the NCBI database of genetic variation. Nucleic Acids Res. 2001 Jan 1;29(1):308-11. PMID: 11125122; PMC: PMC29783 
snp151Mult Mult. SNPs(151) Simple Nucleotide Polymorphisms (dbSNP 151) That Map to Multiple Genomic Loci Variation Description This track contains information about a subset of the single nucleotide polymorphisms and small insertions and deletions (indels) — collectively Simple Nucleotide Polymorphisms — from dbSNP build 150, available from ftp.ncbi.nlm.nih.gov/snp. Only SNPs that have been mapped to multiple locations in the reference genome assembly are included in this subset. When a SNP's flanking sequences map to multiple locations in the reference genome, it calls into question whether there is true variation at those sites, or whether the sequences at those sites are merely highly similar but not identical. Since build 149, dbSNP has been filtering out almost all such "SNPs" so there are very few items in this track. The default maximum weight for this track is 3, unlike the other dbSNP build 150 tracks which have a maximum weight of 1. That enables these multiply-mapped SNPs to appear in the display, while by default they will not appear in the All SNPs(150) track because of its maximum weight filter. The remainder of this page is identical on the following tracks: Common SNPs(150) - SNPs with >= 1% minor allele frequency (MAF), mapping only once to reference assembly. Flagged SNPs(150) - SNPs < 1% minor allele frequency (MAF) (or unknown), mapping only once to reference assembly, flagged in dbSnp as "clinically associated" -- not necessarily a risk allele! Mult. SNPs(150) - SNPs mapping in more than one place on reference assembly. All SNPs(150) - all SNPs from dbSNP mapping to reference assembly. Interpreting and Configuring the Graphical Display Variants are shown as single tick marks at most zoom levels. When viewing the track at or near base-level resolution, the displayed width of the SNP corresponds to the width of the variant in the reference sequence. Insertions are indicated by a single tick mark displayed between two nucleotides, single nucleotide polymorphisms are displayed as the width of a single base, and multiple nucleotide variants are represented by a block that spans two or more bases. On the track controls page, SNPs can be colored and/or filtered from the display according to several attributes: Class: Describes the observed alleles Single - single nucleotide variation: all observed alleles are single nucleotides (can have 2, 3 or 4 alleles) In-del - insertion/deletion Heterozygous - heterozygous (undetermined) variation: allele contains string '(heterozygous)' Microsatellite - the observed allele from dbSNP is a variation in counts of short tandem repeats Named - the observed allele from dbSNP is given as a text name instead of raw sequence, e.g., (Alu)/- No Variation - the submission reports an invariant region in the surveyed sequence Mixed - the cluster contains submissions from multiple classes Multiple Nucleotide Polymorphism (MNP) - the alleles are all of the same length, and length > 1 Insertion - the polymorphism is an insertion relative to the reference assembly Deletion - the polymorphism is a deletion relative to the reference assembly Unknown - no classification provided by data contributor Validation: Method used to validate the variant (each variant may be validated by more than one method) By Frequency - at least one submitted SNP in cluster has frequency data submitted By Cluster - cluster has at least 2 submissions, with at least one submission assayed with a non-computational method By Submitter - at least one submitter SNP in cluster was validated by independent assay By 2 Hit/2 Allele - all alleles have been observed in at least 2 chromosomes By HapMap (human only) - submitted by HapMap project By 1000Genomes (human only) - submitted by 1000Genomes project Unknown - no validation has been reported for this variant Function: dbSNP's predicted functional effect of variant on RefSeq transcripts, both curated (NM_* and NR_*) as in the RefSeq Genes track and predicted (XM_* and XR_*), not shown in UCSC Genome Browser. A variant may have more than one functional role if it overlaps multiple transcripts. These terms and definitions are from the Sequence Ontology (SO); click on a term to view it in the MISO Sequence Ontology Browser. Unknown - no functional classification provided (possibly intergenic) synonymous_variant - A sequence variant where there is no resulting change to the encoded amino acid (dbSNP term: coding-synon) intron_variant - A transcript variant occurring within an intron (dbSNP term: intron) downstream_gene_variant - A sequence variant located 3' of a gene (dbSNP term: near-gene-3) upstream_gene_variant - A sequence variant located 5' of a gene (dbSNP term: near-gene-5) nc_transcript_variant - A transcript variant of a non coding RNA gene (dbSNP term: ncRNA) stop_gained - A sequence variant whereby at least one base of a codon is changed, resulting in a premature stop codon, leading to a shortened transcript (dbSNP term: nonsense) missense_variant - A sequence variant, where the change may be longer than 3 bases, and at least one base of a codon is changed resulting in a codon that encodes for a different amino acid (dbSNP term: missense) stop_lost - A sequence variant where at least one base of the terminator codon (stop) is changed, resulting in an elongated transcript (dbSNP term: stop-loss) frameshift_variant - A sequence variant which causes a disruption of the translational reading frame, because the number of nucleotides inserted or deleted is not a multiple of three (dbSNP term: frameshift) inframe_indel - A coding sequence variant where the change does not alter the frame of the transcript (dbSNP term: cds-indel) 3_prime_UTR_variant - A UTR variant of the 3' UTR (dbSNP term: untranslated-3) 5_prime_UTR_variant - A UTR variant of the 5' UTR (dbSNP term: untranslated-5) splice_acceptor_variant - A splice variant that changes the 2 base region at the 3' end of an intron (dbSNP term: splice-3) splice_donor_variant - A splice variant that changes the 2 base region at the 5' end of an intron (dbSNP term: splice-5) In the Coloring Options section of the track controls page, function terms are grouped into several categories, shown here with default colors. If a SNP has more than one of these attributes, the stronger color will override the weaker color. The order of colors, from strongest to weakest, is red, green, blue, gray, and black. Locus: downstream_gene_variant, upstream_gene_variant Coding - Synonymous: synonymous_variant Coding - Non-Synonymous: stop_gained, missense_variant, stop_lost, frameshift_variant, inframe_indel Untranslated: 5_prime_UTR_variant, 3_prime_UTR_variant Intron: intron_variant Splice Site: splice_acceptor_variant, splice_donor_variant Non-coding (ncRNA): (nc_transcript_variant) are colored blue. Molecule Type: Sample used to find this variant Genomic - variant discovered using a genomic template cDNA - variant discovered using a cDNA template Unknown - sample type not known Unusual Conditions (UCSC): UCSC checks for several anomalies that may indicate a problem with the mapping, and reports them in the Annotations section of the SNP details page if found: AlleleFreqSumNot1 - Allele frequencies do not sum to 1.0 (+-0.01). This SNP's allele frequency data are probably incomplete. DuplicateObserved, MixedObserved - Multiple distinct insertion SNPs have been mapped to this location, with either the same inserted sequence (Duplicate) or different inserted sequence (Mixed). FlankMismatchGenomeEqual, FlankMismatchGenomeLonger, FlankMismatchGenomeShorter - NCBI's alignment of the flanking sequences had at least one mismatch or gap near the mapped SNP position. (UCSC's re-alignment of flanking sequences to the genome may be informative.) MultipleAlignments - This SNP's flanking sequences align to more than one location in the reference assembly. NamedDeletionZeroSpan - A deletion (from the genome) was observed but the annotation spans 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) NamedInsertionNonzeroSpan - An insertion (into the genome) was observed but the annotation spans more than 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) NonIntegerChromCount - At least one allele frequency corresponds to a non-integer (+-0.010000) count of chromosomes on which the allele was observed. The reported total sample count for this SNP is probably incorrect. ObservedContainsIupac - At least one observed allele from dbSNP contains an IUPAC ambiguous base (e.g., R, Y, N). ObservedMismatch - UCSC reference allele does not match any observed allele from dbSNP. This is tested only for SNPs whose class is single, in-del, insertion, deletion, mnp or mixed. ObservedTooLong - Observed allele not given (length too long). ObservedWrongFormat - Observed allele(s) from dbSNP have unexpected format for the given class. RefAlleleMismatch - The reference allele from dbSNP does not match the UCSC reference allele, i.e., the bases in the mapped position range. RefAlleleRevComp - The reference allele from dbSNP matches the reverse complement of the UCSC reference allele. SingleClassLongerSpan - All observed alleles are single-base, but the annotation spans more than 1 base. (UCSC's re-alignment of flanking sequences to the genome may be informative.) SingleClassZeroSpan - All observed alleles are single-base, but the annotation spans 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) Another condition, which does not necessarily imply any problem, is noted: SingleClassTriAllelic, SingleClassQuadAllelic - Class is single and three or four different bases have been observed (usually there are only two). Miscellaneous Attributes (dbSNP): several properties extracted from dbSNP's SNP_bitfield table (see dbSNP_BitField_v5.pdf for details) Clinically Associated (human only) - SNP is in OMIM and/or at least one submitter is a Locus-Specific Database. This does not necessarily imply that the variant causes any disease, only that it has been observed in clinical studies. Appears in OMIM/OMIA - SNP is mentioned in Online Mendelian Inheritance in Man for human SNPs, or Online Mendelian Inheritance in Animals for non-human animal SNPs. Some of these SNPs are quite common, others are known to cause disease; see OMIM/OMIA for more information. Has Microattribution/Third-Party Annotation - At least one of the SNP's submitters studied this SNP in a biomedical setting, but is not a Locus-Specific Database or OMIM/OMIA. Submitted by Locus-Specific Database - At least one of the SNP's submitters is associated with a database of variants associated with a particular gene. These variants may or may not be known to be causative. MAF >= 5% in Some Population - Minor Allele Frequency is at least 5% in at least one population assayed. MAF >= 5% in All Populations - Minor Allele Frequency is at least 5% in all populations assayed. Genotype Conflict - Quality check: different genotypes have been submitted for the same individual. Ref SNP Cluster has Non-overlapping Alleles - Quality check: this reference SNP was clustered from submitted SNPs with non-overlapping sets of observed alleles. Some Assembly's Allele Does Not Match Observed - Quality check: at least one assembly mapped by dbSNP has an allele at the mapped position that is not present in this SNP's observed alleles. Several other properties do not have coloring options, but do have some filtering options: Average heterozygosity: Calculated by dbSNP as described in Computation of Average Heterozygosity and Standard Error for dbSNP RefSNP Clusters. Average heterozygosity should not exceed 0.5 for bi-allelic single-base substitutions. Weight: Alignment quality assigned by dbSNP. Before dbSNP build 147, weight had values 1, 2 or 3, with 1 being the highest quality (mapped to a single genomic location). As of dbSNP build 147, dbSNP now releases only the variants with weight 1. Submitter handles: These are short, single-word identifiers of labs or consortia that submitted SNPs that were clustered into this reference SNP by dbSNP (e.g., 1000GENOMES, ENSEMBL, KWOK). Some SNPs have been observed by many different submitters, and some by only a single submitter (although that single submitter may have tested a large number of samples). AlleleFrequencies: Some submissions to dbSNP include allele frequencies and the study's sample size (i.e., the number of distinct chromosomes, which is two times the number of individuals assayed, a.k.a. 2N). dbSNP combines all available frequencies and counts from submitted SNPs that are clustered together into a reference SNP. You can configure this track such that the details page displays the function and coding differences relative to particular gene sets. Choose the gene sets from the list on the SNP configuration page displayed beneath this heading: On details page, show function and coding differences relative to. When one or more gene tracks are selected, the SNP details page lists all genes that the SNP hits (or is close to), with the same keywords used in the function category. The function usually agrees with NCBI's function, except when NCBI's functional annotation is relative to an XM_* predicted RefSeq (not included in the UCSC Genome Browser's RefSeq Genes track) and/or UCSC's functional annotation is relative to a transcript that is not in RefSeq. Insertions/Deletions dbSNP uses a class called 'in-del'. We compare the length of the reference allele to the length(s) of observed alleles; if the reference allele is shorter than all other observed alleles, we change 'in-del' to 'insertion'. Likewise, if the reference allele is longer than all other observed alleles, we change 'in-del' to 'deletion'. UCSC Re-alignment of flanking sequences dbSNP determines the genomic locations of SNPs by aligning their flanking sequences to the genome. UCSC displays SNPs in the locations determined by dbSNP, but does not have access to the alignments on which dbSNP based its mappings. Instead, UCSC re-aligns the flanking sequences to the neighboring genomic sequence for display on SNP details pages. While the recomputed alignments may differ from dbSNP's alignments, they often are informative when UCSC has annotated an unusual condition. Non-repetitive genomic sequence is shown in upper case like the flanking sequence, and a "|" indicates each match between genomic and flanking bases. Repetitive genomic sequence (annotated by RepeatMasker and/or the Tandem Repeats Finder with period >= 12) is shown in lower case, and matching bases are indicated by a "+". Data Sources and Methods The data that comprise this track were extracted from database dump files and headers of fasta files downloaded from NCBI. The database dump files were downloaded from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b150_GRCh37p13/database/data/organism_data/ for hg19 and from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b150_GRCh38p7/database/data/organism_data/ for hg38. The fasta files were downloaded from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b150_GRCh37p13/rs_fasta/ for hg19 and from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b150_GRCh38p7/rs_fasta/ for hg38. Coordinates, orientation, location type and dbSNP reference allele data were obtained from b150_SNPContigLoc_N.bcp.gz and b150_ContigInfo_N.bcp.gz. (N = 105 for hg19, 107 for hg38) b150_SNPMapInfo_N.bcp.gz provided the alignment weights. Functional classification was obtained from b150_SNPContigLocusId_N.bcp.gz. The internal database representation uses dbSNP's function terms, but for display in SNP details pages, these are translated into Sequence Ontology terms. Validation status and heterozygosity were obtained from SNP.bcp.gz. SNPAlleleFreq.bcp.gz and ../shared/Allele.bcp.gz provided allele frequencies. For the human assembly, allele frequencies were also taken from SNPAlleleFreq_TGP.bcp.gz . Submitter handles were extracted from Batch.bcp.gz, SubSNP.bcp.gz and SNPSubSNPLink.bcp.gz. SNP_bitfield.bcp.gz provided miscellaneous properties annotated by dbSNP, such as clinically-associated. See the document dbSNP_BitField_v5.pdf for details. The header lines in the rs_fasta files were used for molecule type, class and observed polymorphism. Data Access The raw data can be explored interactively with the Table Browser, Data Integrator, or Variant Annotation Integrator. For automated analysis, the genome annotation can be downloaded from the downloads server for hg38 and hg19 (snp150*.txt.gz) or the public MySQL server. Please refer to our mailing list archives for questions and example queries, or our Data Access FAQ for more information. Orthologous Alleles (human assemblies only) For the human assembly, we provide a related table that contains orthologous alleles in the chimpanzee, orangutan and rhesus macaque reference genome assemblies. We use our liftOver utility to identify the orthologous alleles. The candidate human SNPs are a filtered list that meet the criteria: class = 'single' mapped position in the human reference genome is one base long aligned to only one location in the human reference genome not aligned to a chrN_random chrom biallelic (not tri- or quad-allelic) In some cases the orthologous allele is unknown; these are set to 'N'. If a lift was not possible, we set the orthologous allele to '?' and the orthologous start and end position to 0 (zero). Masked FASTA Files (human assemblies only) FASTA files that have been modified to use IUPAC ambiguous nucleotide characters at each base covered by a single-base substitution are available for download: GRCh37/hg19, GRCh38/hg38. Note that only single-base substitutions (no insertions or deletions) were used to mask the sequence, and these were filtered to exclude problematic SNPs. References Sherry ST, Ward MH, Kholodov M, Baker J, Phan L, Smigielski EM, Sirotkin K. dbSNP: the NCBI database of genetic variation. Nucleic Acids Res. 2001 Jan 1;29(1):308-11. PMID: 11125122; PMC: PMC29783 
snp150Mult Mult. SNPs(150) Simple Nucleotide Polymorphisms (dbSNP 150) That Map to Multiple Genomic Loci Variation Description This track contains information about a subset of the single nucleotide polymorphisms and small insertions and deletions (indels) — collectively Simple Nucleotide Polymorphisms — from dbSNP build 150, available from ftp.ncbi.nlm.nih.gov/snp. Only SNPs that have been mapped to multiple locations in the reference genome assembly are included in this subset. When a SNP's flanking sequences map to multiple locations in the reference genome, it calls into question whether there is true variation at those sites, or whether the sequences at those sites are merely highly similar but not identical. Since build 149, dbSNP has been filtering out almost all such "SNPs" so there are very few items in this track. The default maximum weight for this track is 3, unlike the other dbSNP build 150 tracks which have a maximum weight of 1. That enables these multiply-mapped SNPs to appear in the display, while by default they will not appear in the All SNPs(150) track because of its maximum weight filter. The remainder of this page is identical on the following tracks: Common SNPs(150) - SNPs with >= 1% minor allele frequency (MAF), mapping only once to reference assembly. Flagged SNPs(150) - SNPs < 1% minor allele frequency (MAF) (or unknown), mapping only once to reference assembly, flagged in dbSnp as "clinically associated" -- not necessarily a risk allele! Mult. SNPs(150) - SNPs mapping in more than one place on reference assembly. All SNPs(150) - all SNPs from dbSNP mapping to reference assembly. Interpreting and Configuring the Graphical Display Variants are shown as single tick marks at most zoom levels. When viewing the track at or near base-level resolution, the displayed width of the SNP corresponds to the width of the variant in the reference sequence. Insertions are indicated by a single tick mark displayed between two nucleotides, single nucleotide polymorphisms are displayed as the width of a single base, and multiple nucleotide variants are represented by a block that spans two or more bases. On the track controls page, SNPs can be colored and/or filtered from the display according to several attributes: Class: Describes the observed alleles Single - single nucleotide variation: all observed alleles are single nucleotides (can have 2, 3 or 4 alleles) In-del - insertion/deletion Heterozygous - heterozygous (undetermined) variation: allele contains string '(heterozygous)' Microsatellite - the observed allele from dbSNP is a variation in counts of short tandem repeats Named - the observed allele from dbSNP is given as a text name instead of raw sequence, e.g., (Alu)/- No Variation - the submission reports an invariant region in the surveyed sequence Mixed - the cluster contains submissions from multiple classes Multiple Nucleotide Polymorphism (MNP) - the alleles are all of the same length, and length > 1 Insertion - the polymorphism is an insertion relative to the reference assembly Deletion - the polymorphism is a deletion relative to the reference assembly Unknown - no classification provided by data contributor Validation: Method used to validate the variant (each variant may be validated by more than one method) By Frequency - at least one submitted SNP in cluster has frequency data submitted By Cluster - cluster has at least 2 submissions, with at least one submission assayed with a non-computational method By Submitter - at least one submitter SNP in cluster was validated by independent assay By 2 Hit/2 Allele - all alleles have been observed in at least 2 chromosomes By HapMap (human only) - submitted by HapMap project By 1000Genomes (human only) - submitted by 1000Genomes project Unknown - no validation has been reported for this variant Function: dbSNP's predicted functional effect of variant on RefSeq transcripts, both curated (NM_* and NR_*) as in the RefSeq Genes track and predicted (XM_* and XR_*), not shown in UCSC Genome Browser. A variant may have more than one functional role if it overlaps multiple transcripts. These terms and definitions are from the Sequence Ontology (SO); click on a term to view it in the MISO Sequence Ontology Browser. Unknown - no functional classification provided (possibly intergenic) synonymous_variant - A sequence variant where there is no resulting change to the encoded amino acid (dbSNP term: coding-synon) intron_variant - A transcript variant occurring within an intron (dbSNP term: intron) downstream_gene_variant - A sequence variant located 3' of a gene (dbSNP term: near-gene-3) upstream_gene_variant - A sequence variant located 5' of a gene (dbSNP term: near-gene-5) nc_transcript_variant - A transcript variant of a non coding RNA gene (dbSNP term: ncRNA) stop_gained - A sequence variant whereby at least one base of a codon is changed, resulting in a premature stop codon, leading to a shortened transcript (dbSNP term: nonsense) missense_variant - A sequence variant, where the change may be longer than 3 bases, and at least one base of a codon is changed resulting in a codon that encodes for a different amino acid (dbSNP term: missense) stop_lost - A sequence variant where at least one base of the terminator codon (stop) is changed, resulting in an elongated transcript (dbSNP term: stop-loss) frameshift_variant - A sequence variant which causes a disruption of the translational reading frame, because the number of nucleotides inserted or deleted is not a multiple of three (dbSNP term: frameshift) inframe_indel - A coding sequence variant where the change does not alter the frame of the transcript (dbSNP term: cds-indel) 3_prime_UTR_variant - A UTR variant of the 3' UTR (dbSNP term: untranslated-3) 5_prime_UTR_variant - A UTR variant of the 5' UTR (dbSNP term: untranslated-5) splice_acceptor_variant - A splice variant that changes the 2 base region at the 3' end of an intron (dbSNP term: splice-3) splice_donor_variant - A splice variant that changes the 2 base region at the 5' end of an intron (dbSNP term: splice-5) In the Coloring Options section of the track controls page, function terms are grouped into several categories, shown here with default colors. If a SNP has more than one of these attributes, the stronger color will override the weaker color. The order of colors, from strongest to weakest, is red, green, blue, gray, and black. Locus: downstream_gene_variant, upstream_gene_variant Coding - Synonymous: synonymous_variant Coding - Non-Synonymous: stop_gained, missense_variant, stop_lost, frameshift_variant, inframe_indel Untranslated: 5_prime_UTR_variant, 3_prime_UTR_variant Intron: intron_variant Splice Site: splice_acceptor_variant, splice_donor_variant Non-coding (ncRNA): (nc_transcript_variant) are colored blue. Molecule Type: Sample used to find this variant Genomic - variant discovered using a genomic template cDNA - variant discovered using a cDNA template Unknown - sample type not known Unusual Conditions (UCSC): UCSC checks for several anomalies that may indicate a problem with the mapping, and reports them in the Annotations section of the SNP details page if found: AlleleFreqSumNot1 - Allele frequencies do not sum to 1.0 (+-0.01). This SNP's allele frequency data are probably incomplete. DuplicateObserved, MixedObserved - Multiple distinct insertion SNPs have been mapped to this location, with either the same inserted sequence (Duplicate) or different inserted sequence (Mixed). FlankMismatchGenomeEqual, FlankMismatchGenomeLonger, FlankMismatchGenomeShorter - NCBI's alignment of the flanking sequences had at least one mismatch or gap near the mapped SNP position. (UCSC's re-alignment of flanking sequences to the genome may be informative.) MultipleAlignments - This SNP's flanking sequences align to more than one location in the reference assembly. NamedDeletionZeroSpan - A deletion (from the genome) was observed but the annotation spans 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) NamedInsertionNonzeroSpan - An insertion (into the genome) was observed but the annotation spans more than 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) NonIntegerChromCount - At least one allele frequency corresponds to a non-integer (+-0.010000) count of chromosomes on which the allele was observed. The reported total sample count for this SNP is probably incorrect. ObservedContainsIupac - At least one observed allele from dbSNP contains an IUPAC ambiguous base (e.g., R, Y, N). ObservedMismatch - UCSC reference allele does not match any observed allele from dbSNP. This is tested only for SNPs whose class is single, in-del, insertion, deletion, mnp or mixed. ObservedTooLong - Observed allele not given (length too long). ObservedWrongFormat - Observed allele(s) from dbSNP have unexpected format for the given class. RefAlleleMismatch - The reference allele from dbSNP does not match the UCSC reference allele, i.e., the bases in the mapped position range. RefAlleleRevComp - The reference allele from dbSNP matches the reverse complement of the UCSC reference allele. SingleClassLongerSpan - All observed alleles are single-base, but the annotation spans more than 1 base. (UCSC's re-alignment of flanking sequences to the genome may be informative.) SingleClassZeroSpan - All observed alleles are single-base, but the annotation spans 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) Another condition, which does not necessarily imply any problem, is noted: SingleClassTriAllelic, SingleClassQuadAllelic - Class is single and three or four different bases have been observed (usually there are only two). Miscellaneous Attributes (dbSNP): several properties extracted from dbSNP's SNP_bitfield table (see dbSNP_BitField_v5.pdf for details) Clinically Associated (human only) - SNP is in OMIM and/or at least one submitter is a Locus-Specific Database. This does not necessarily imply that the variant causes any disease, only that it has been observed in clinical studies. Appears in OMIM/OMIA - SNP is mentioned in Online Mendelian Inheritance in Man for human SNPs, or Online Mendelian Inheritance in Animals for non-human animal SNPs. Some of these SNPs are quite common, others are known to cause disease; see OMIM/OMIA for more information. Has Microattribution/Third-Party Annotation - At least one of the SNP's submitters studied this SNP in a biomedical setting, but is not a Locus-Specific Database or OMIM/OMIA. Submitted by Locus-Specific Database - At least one of the SNP's submitters is associated with a database of variants associated with a particular gene. These variants may or may not be known to be causative. MAF >= 5% in Some Population - Minor Allele Frequency is at least 5% in at least one population assayed. MAF >= 5% in All Populations - Minor Allele Frequency is at least 5% in all populations assayed. Genotype Conflict - Quality check: different genotypes have been submitted for the same individual. Ref SNP Cluster has Non-overlapping Alleles - Quality check: this reference SNP was clustered from submitted SNPs with non-overlapping sets of observed alleles. Some Assembly's Allele Does Not Match Observed - Quality check: at least one assembly mapped by dbSNP has an allele at the mapped position that is not present in this SNP's observed alleles. Several other properties do not have coloring options, but do have some filtering options: Average heterozygosity: Calculated by dbSNP as described in Computation of Average Heterozygosity and Standard Error for dbSNP RefSNP Clusters. Average heterozygosity should not exceed 0.5 for bi-allelic single-base substitutions. Weight: Alignment quality assigned by dbSNP. Before dbSNP build 147, weight had values 1, 2 or 3, with 1 being the highest quality (mapped to a single genomic location). As of dbSNP build 147, dbSNP now releases only the variants with weight 1. Submitter handles: These are short, single-word identifiers of labs or consortia that submitted SNPs that were clustered into this reference SNP by dbSNP (e.g., 1000GENOMES, ENSEMBL, KWOK). Some SNPs have been observed by many different submitters, and some by only a single submitter (although that single submitter may have tested a large number of samples). AlleleFrequencies: Some submissions to dbSNP include allele frequencies and the study's sample size (i.e., the number of distinct chromosomes, which is two times the number of individuals assayed, a.k.a. 2N). dbSNP combines all available frequencies and counts from submitted SNPs that are clustered together into a reference SNP. You can configure this track such that the details page displays the function and coding differences relative to particular gene sets. Choose the gene sets from the list on the SNP configuration page displayed beneath this heading: On details page, show function and coding differences relative to. When one or more gene tracks are selected, the SNP details page lists all genes that the SNP hits (or is close to), with the same keywords used in the function category. The function usually agrees with NCBI's function, except when NCBI's functional annotation is relative to an XM_* predicted RefSeq (not included in the UCSC Genome Browser's RefSeq Genes track) and/or UCSC's functional annotation is relative to a transcript that is not in RefSeq. Insertions/Deletions dbSNP uses a class called 'in-del'. We compare the length of the reference allele to the length(s) of observed alleles; if the reference allele is shorter than all other observed alleles, we change 'in-del' to 'insertion'. Likewise, if the reference allele is longer than all other observed alleles, we change 'in-del' to 'deletion'. UCSC Re-alignment of flanking sequences dbSNP determines the genomic locations of SNPs by aligning their flanking sequences to the genome. UCSC displays SNPs in the locations determined by dbSNP, but does not have access to the alignments on which dbSNP based its mappings. Instead, UCSC re-aligns the flanking sequences to the neighboring genomic sequence for display on SNP details pages. While the recomputed alignments may differ from dbSNP's alignments, they often are informative when UCSC has annotated an unusual condition. Non-repetitive genomic sequence is shown in upper case like the flanking sequence, and a "|" indicates each match between genomic and flanking bases. Repetitive genomic sequence (annotated by RepeatMasker and/or the Tandem Repeats Finder with period >= 12) is shown in lower case, and matching bases are indicated by a "+". Data Sources and Methods The data that comprise this track were extracted from database dump files and headers of fasta files downloaded from NCBI. The database dump files were downloaded from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b150_GRCh37p13/database/data/organism_data/ for hg19 and from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b150_GRCh38p7/database/data/organism_data/ for hg38. The fasta files were downloaded from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b150_GRCh37p13/rs_fasta/ for hg19 and from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b150_GRCh38p7/rs_fasta/ for hg38. Coordinates, orientation, location type and dbSNP reference allele data were obtained from b150_SNPContigLoc_N.bcp.gz and b150_ContigInfo_N.bcp.gz. (N = 105 for hg19, 107 for hg38) b150_SNPMapInfo_N.bcp.gz provided the alignment weights. Functional classification was obtained from b150_SNPContigLocusId_N.bcp.gz. The internal database representation uses dbSNP's function terms, but for display in SNP details pages, these are translated into Sequence Ontology terms. Validation status and heterozygosity were obtained from SNP.bcp.gz. SNPAlleleFreq.bcp.gz and ../shared/Allele.bcp.gz provided allele frequencies. For the human assembly, allele frequencies were also taken from SNPAlleleFreq_TGP.bcp.gz . Submitter handles were extracted from Batch.bcp.gz, SubSNP.bcp.gz and SNPSubSNPLink.bcp.gz. SNP_bitfield.bcp.gz provided miscellaneous properties annotated by dbSNP, such as clinically-associated. See the document dbSNP_BitField_v5.pdf for details. The header lines in the rs_fasta files were used for molecule type, class and observed polymorphism. Data Access The raw data can be explored interactively with the Table Browser, Data Integrator, or Variant Annotation Integrator. For automated analysis, the genome annotation can be downloaded from the downloads server for hg38 and hg19 (snp150*.txt.gz) or the public MySQL server. Please refer to our mailing list archives for questions and example queries, or our Data Access FAQ for more information. Orthologous Alleles (human assemblies only) For the human assembly, we provide a related table that contains orthologous alleles in the chimpanzee, orangutan and rhesus macaque reference genome assemblies. We use our liftOver utility to identify the orthologous alleles. The candidate human SNPs are a filtered list that meet the criteria: class = 'single' mapped position in the human reference genome is one base long aligned to only one location in the human reference genome not aligned to a chrN_random chrom biallelic (not tri- or quad-allelic) In some cases the orthologous allele is unknown; these are set to 'N'. If a lift was not possible, we set the orthologous allele to '?' and the orthologous start and end position to 0 (zero). Masked FASTA Files (human assemblies only) FASTA files that have been modified to use IUPAC ambiguous nucleotide characters at each base covered by a single-base substitution are available for download: GRCh37/hg19, GRCh38/hg38. Note that only single-base substitutions (no insertions or deletions) were used to mask the sequence, and these were filtered to exclude problematic SNPs. References Sherry ST, Ward MH, Kholodov M, Baker J, Phan L, Smigielski EM, Sirotkin K. dbSNP: the NCBI database of genetic variation. Nucleic Acids Res. 2001 Jan 1;29(1):308-11. PMID: 11125122; PMC: PMC29783 
snp150 All SNPs(150) Simple Nucleotide Polymorphisms (dbSNP 150) Variation Description This track contains information about single nucleotide polymorphisms and small insertions and deletions (indels) — collectively Simple Nucleotide Polymorphisms — from dbSNP build 150, available from ftp.ncbi.nlm.nih.gov/snp. Three tracks contain subsets of the items in this track: Common SNPs(150): SNPs that have a minor allele frequency of at least 1% and are mapped to a single location in the reference genome assembly. Frequency data are not available for all SNPs, so this subset is incomplete. Flagged SNPs(150): SNPs flagged as clinically associated by dbSNP, mapped to a single location in the reference genome assembly, and not known to have a minor allele frequency of at least 1%. Frequency data are not available for all SNPs, so this subset may include some SNPs whose true minor allele frequency is 1% or greater. Mult. SNPs(150): SNPs that have been mapped to multiple locations in the reference genome assembly. There are very few SNPs in this category because dbSNP has been filtering out almost all multiple-mapping SNPs since build 149. The default maximum weight for this track is 1, so unless the setting is changed in the track controls, SNPs that map to multiple genomic locations will be omitted from display. When a SNP's flanking sequences map to multiple locations in the reference genome, it calls into question whether there is true variation at those sites, or whether the sequences at those sites are merely highly similar but not identical. The remainder of this page is identical on the following tracks: Common SNPs(150) - SNPs with >= 1% minor allele frequency (MAF), mapping only once to reference assembly. Flagged SNPs(150) - SNPs < 1% minor allele frequency (MAF) (or unknown), mapping only once to reference assembly, flagged in dbSnp as "clinically associated" -- not necessarily a risk allele! Mult. SNPs(150) - SNPs mapping in more than one place on reference assembly. All SNPs(150) - all SNPs from dbSNP mapping to reference assembly. Interpreting and Configuring the Graphical Display Variants are shown as single tick marks at most zoom levels. When viewing the track at or near base-level resolution, the displayed width of the SNP corresponds to the width of the variant in the reference sequence. Insertions are indicated by a single tick mark displayed between two nucleotides, single nucleotide polymorphisms are displayed as the width of a single base, and multiple nucleotide variants are represented by a block that spans two or more bases. On the track controls page, SNPs can be colored and/or filtered from the display according to several attributes: Class: Describes the observed alleles Single - single nucleotide variation: all observed alleles are single nucleotides (can have 2, 3 or 4 alleles) In-del - insertion/deletion Heterozygous - heterozygous (undetermined) variation: allele contains string '(heterozygous)' Microsatellite - the observed allele from dbSNP is a variation in counts of short tandem repeats Named - the observed allele from dbSNP is given as a text name instead of raw sequence, e.g., (Alu)/- No Variation - the submission reports an invariant region in the surveyed sequence Mixed - the cluster contains submissions from multiple classes Multiple Nucleotide Polymorphism (MNP) - the alleles are all of the same length, and length > 1 Insertion - the polymorphism is an insertion relative to the reference assembly Deletion - the polymorphism is a deletion relative to the reference assembly Unknown - no classification provided by data contributor Validation: Method used to validate the variant (each variant may be validated by more than one method) By Frequency - at least one submitted SNP in cluster has frequency data submitted By Cluster - cluster has at least 2 submissions, with at least one submission assayed with a non-computational method By Submitter - at least one submitter SNP in cluster was validated by independent assay By 2 Hit/2 Allele - all alleles have been observed in at least 2 chromosomes By HapMap (human only) - submitted by HapMap project By 1000Genomes (human only) - submitted by 1000Genomes project Unknown - no validation has been reported for this variant Function: dbSNP's predicted functional effect of variant on RefSeq transcripts, both curated (NM_* and NR_*) as in the RefSeq Genes track and predicted (XM_* and XR_*), not shown in UCSC Genome Browser. A variant may have more than one functional role if it overlaps multiple transcripts. These terms and definitions are from the Sequence Ontology (SO); click on a term to view it in the MISO Sequence Ontology Browser. Unknown - no functional classification provided (possibly intergenic) synonymous_variant - A sequence variant where there is no resulting change to the encoded amino acid (dbSNP term: coding-synon) intron_variant - A transcript variant occurring within an intron (dbSNP term: intron) downstream_gene_variant - A sequence variant located 3' of a gene (dbSNP term: near-gene-3) upstream_gene_variant - A sequence variant located 5' of a gene (dbSNP term: near-gene-5) nc_transcript_variant - A transcript variant of a non coding RNA gene (dbSNP term: ncRNA) stop_gained - A sequence variant whereby at least one base of a codon is changed, resulting in a premature stop codon, leading to a shortened transcript (dbSNP term: nonsense) missense_variant - A sequence variant, where the change may be longer than 3 bases, and at least one base of a codon is changed resulting in a codon that encodes for a different amino acid (dbSNP term: missense) stop_lost - A sequence variant where at least one base of the terminator codon (stop) is changed, resulting in an elongated transcript (dbSNP term: stop-loss) frameshift_variant - A sequence variant which causes a disruption of the translational reading frame, because the number of nucleotides inserted or deleted is not a multiple of three (dbSNP term: frameshift) inframe_indel - A coding sequence variant where the change does not alter the frame of the transcript (dbSNP term: cds-indel) 3_prime_UTR_variant - A UTR variant of the 3' UTR (dbSNP term: untranslated-3) 5_prime_UTR_variant - A UTR variant of the 5' UTR (dbSNP term: untranslated-5) splice_acceptor_variant - A splice variant that changes the 2 base region at the 3' end of an intron (dbSNP term: splice-3) splice_donor_variant - A splice variant that changes the 2 base region at the 5' end of an intron (dbSNP term: splice-5) In the Coloring Options section of the track controls page, function terms are grouped into several categories, shown here with default colors. If a SNP has more than one of these attributes, the stronger color will override the weaker color. The order of colors, from strongest to weakest, is red, green, blue, gray, and black. Locus: downstream_gene_variant, upstream_gene_variant Coding - Synonymous: synonymous_variant Coding - Non-Synonymous: stop_gained, missense_variant, stop_lost, frameshift_variant, inframe_indel Untranslated: 5_prime_UTR_variant, 3_prime_UTR_variant Intron: intron_variant Splice Site: splice_acceptor_variant, splice_donor_variant Non-coding (ncRNA): (nc_transcript_variant) are colored blue. Molecule Type: Sample used to find this variant Genomic - variant discovered using a genomic template cDNA - variant discovered using a cDNA template Unknown - sample type not known Unusual Conditions (UCSC): UCSC checks for several anomalies that may indicate a problem with the mapping, and reports them in the Annotations section of the SNP details page if found: AlleleFreqSumNot1 - Allele frequencies do not sum to 1.0 (+-0.01). This SNP's allele frequency data are probably incomplete. DuplicateObserved, MixedObserved - Multiple distinct insertion SNPs have been mapped to this location, with either the same inserted sequence (Duplicate) or different inserted sequence (Mixed). FlankMismatchGenomeEqual, FlankMismatchGenomeLonger, FlankMismatchGenomeShorter - NCBI's alignment of the flanking sequences had at least one mismatch or gap near the mapped SNP position. (UCSC's re-alignment of flanking sequences to the genome may be informative.) MultipleAlignments - This SNP's flanking sequences align to more than one location in the reference assembly. NamedDeletionZeroSpan - A deletion (from the genome) was observed but the annotation spans 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) NamedInsertionNonzeroSpan - An insertion (into the genome) was observed but the annotation spans more than 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) NonIntegerChromCount - At least one allele frequency corresponds to a non-integer (+-0.010000) count of chromosomes on which the allele was observed. The reported total sample count for this SNP is probably incorrect. ObservedContainsIupac - At least one observed allele from dbSNP contains an IUPAC ambiguous base (e.g., R, Y, N). ObservedMismatch - UCSC reference allele does not match any observed allele from dbSNP. This is tested only for SNPs whose class is single, in-del, insertion, deletion, mnp or mixed. ObservedTooLong - Observed allele not given (length too long). ObservedWrongFormat - Observed allele(s) from dbSNP have unexpected format for the given class. RefAlleleMismatch - The reference allele from dbSNP does not match the UCSC reference allele, i.e., the bases in the mapped position range. RefAlleleRevComp - The reference allele from dbSNP matches the reverse complement of the UCSC reference allele. SingleClassLongerSpan - All observed alleles are single-base, but the annotation spans more than 1 base. (UCSC's re-alignment of flanking sequences to the genome may be informative.) SingleClassZeroSpan - All observed alleles are single-base, but the annotation spans 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) Another condition, which does not necessarily imply any problem, is noted: SingleClassTriAllelic, SingleClassQuadAllelic - Class is single and three or four different bases have been observed (usually there are only two). Miscellaneous Attributes (dbSNP): several properties extracted from dbSNP's SNP_bitfield table (see dbSNP_BitField_v5.pdf for details) Clinically Associated (human only) - SNP is in OMIM and/or at least one submitter is a Locus-Specific Database. This does not necessarily imply that the variant causes any disease, only that it has been observed in clinical studies. Appears in OMIM/OMIA - SNP is mentioned in Online Mendelian Inheritance in Man for human SNPs, or Online Mendelian Inheritance in Animals for non-human animal SNPs. Some of these SNPs are quite common, others are known to cause disease; see OMIM/OMIA for more information. Has Microattribution/Third-Party Annotation - At least one of the SNP's submitters studied this SNP in a biomedical setting, but is not a Locus-Specific Database or OMIM/OMIA. Submitted by Locus-Specific Database - At least one of the SNP's submitters is associated with a database of variants associated with a particular gene. These variants may or may not be known to be causative. MAF >= 5% in Some Population - Minor Allele Frequency is at least 5% in at least one population assayed. MAF >= 5% in All Populations - Minor Allele Frequency is at least 5% in all populations assayed. Genotype Conflict - Quality check: different genotypes have been submitted for the same individual. Ref SNP Cluster has Non-overlapping Alleles - Quality check: this reference SNP was clustered from submitted SNPs with non-overlapping sets of observed alleles. Some Assembly's Allele Does Not Match Observed - Quality check: at least one assembly mapped by dbSNP has an allele at the mapped position that is not present in this SNP's observed alleles. Several other properties do not have coloring options, but do have some filtering options: Average heterozygosity: Calculated by dbSNP as described in Computation of Average Heterozygosity and Standard Error for dbSNP RefSNP Clusters. Average heterozygosity should not exceed 0.5 for bi-allelic single-base substitutions. Weight: Alignment quality assigned by dbSNP. Before dbSNP build 147, weight had values 1, 2 or 3, with 1 being the highest quality (mapped to a single genomic location). As of dbSNP build 147, dbSNP now releases only the variants with weight 1. Submitter handles: These are short, single-word identifiers of labs or consortia that submitted SNPs that were clustered into this reference SNP by dbSNP (e.g., 1000GENOMES, ENSEMBL, KWOK). Some SNPs have been observed by many different submitters, and some by only a single submitter (although that single submitter may have tested a large number of samples). AlleleFrequencies: Some submissions to dbSNP include allele frequencies and the study's sample size (i.e., the number of distinct chromosomes, which is two times the number of individuals assayed, a.k.a. 2N). dbSNP combines all available frequencies and counts from submitted SNPs that are clustered together into a reference SNP. You can configure this track such that the details page displays the function and coding differences relative to particular gene sets. Choose the gene sets from the list on the SNP configuration page displayed beneath this heading: On details page, show function and coding differences relative to. When one or more gene tracks are selected, the SNP details page lists all genes that the SNP hits (or is close to), with the same keywords used in the function category. The function usually agrees with NCBI's function, except when NCBI's functional annotation is relative to an XM_* predicted RefSeq (not included in the UCSC Genome Browser's RefSeq Genes track) and/or UCSC's functional annotation is relative to a transcript that is not in RefSeq. Insertions/Deletions dbSNP uses a class called 'in-del'. We compare the length of the reference allele to the length(s) of observed alleles; if the reference allele is shorter than all other observed alleles, we change 'in-del' to 'insertion'. Likewise, if the reference allele is longer than all other observed alleles, we change 'in-del' to 'deletion'. UCSC Re-alignment of flanking sequences dbSNP determines the genomic locations of SNPs by aligning their flanking sequences to the genome. UCSC displays SNPs in the locations determined by dbSNP, but does not have access to the alignments on which dbSNP based its mappings. Instead, UCSC re-aligns the flanking sequences to the neighboring genomic sequence for display on SNP details pages. While the recomputed alignments may differ from dbSNP's alignments, they often are informative when UCSC has annotated an unusual condition. Non-repetitive genomic sequence is shown in upper case like the flanking sequence, and a "|" indicates each match between genomic and flanking bases. Repetitive genomic sequence (annotated by RepeatMasker and/or the Tandem Repeats Finder with period >= 12) is shown in lower case, and matching bases are indicated by a "+". Data Sources and Methods The data that comprise this track were extracted from database dump files and headers of fasta files downloaded from NCBI. The database dump files were downloaded from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b150_GRCh37p13/database/data/organism_data/ for hg19 and from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b150_GRCh38p7/database/data/organism_data/ for hg38. The fasta files were downloaded from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b150_GRCh37p13/rs_fasta/ for hg19 and from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b150_GRCh38p7/rs_fasta/ for hg38. Coordinates, orientation, location type and dbSNP reference allele data were obtained from b150_SNPContigLoc_N.bcp.gz and b150_ContigInfo_N.bcp.gz. (N = 105 for hg19, 107 for hg38) b150_SNPMapInfo_N.bcp.gz provided the alignment weights. Functional classification was obtained from b150_SNPContigLocusId_N.bcp.gz. The internal database representation uses dbSNP's function terms, but for display in SNP details pages, these are translated into Sequence Ontology terms. Validation status and heterozygosity were obtained from SNP.bcp.gz. SNPAlleleFreq.bcp.gz and ../shared/Allele.bcp.gz provided allele frequencies. For the human assembly, allele frequencies were also taken from SNPAlleleFreq_TGP.bcp.gz . Submitter handles were extracted from Batch.bcp.gz, SubSNP.bcp.gz and SNPSubSNPLink.bcp.gz. SNP_bitfield.bcp.gz provided miscellaneous properties annotated by dbSNP, such as clinically-associated. See the document dbSNP_BitField_v5.pdf for details. The header lines in the rs_fasta files were used for molecule type, class and observed polymorphism. Data Access The raw data can be explored interactively with the Table Browser, Data Integrator, or Variant Annotation Integrator. For automated analysis, the genome annotation can be downloaded from the downloads server for hg38 and hg19 (snp150*.txt.gz) or the public MySQL server. Please refer to our mailing list archives for questions and example queries, or our Data Access FAQ for more information. Orthologous Alleles (human assemblies only) For the human assembly, we provide a related table that contains orthologous alleles in the chimpanzee, orangutan and rhesus macaque reference genome assemblies. We use our liftOver utility to identify the orthologous alleles. The candidate human SNPs are a filtered list that meet the criteria: class = 'single' mapped position in the human reference genome is one base long aligned to only one location in the human reference genome not aligned to a chrN_random chrom biallelic (not tri- or quad-allelic) In some cases the orthologous allele is unknown; these are set to 'N'. If a lift was not possible, we set the orthologous allele to '?' and the orthologous start and end position to 0 (zero). Masked FASTA Files (human assemblies only) FASTA files that have been modified to use IUPAC ambiguous nucleotide characters at each base covered by a single-base substitution are available for download: GRCh37/hg19, GRCh38/hg38. Note that only single-base substitutions (no insertions or deletions) were used to mask the sequence, and these were filtered to exclude problematic SNPs. References Sherry ST, Ward MH, Kholodov M, Baker J, Phan L, Smigielski EM, Sirotkin K. dbSNP: the NCBI database of genetic variation. Nucleic Acids Res. 2001 Jan 1;29(1):308-11. PMID: 11125122; PMC: PMC29783 
snp150Common Common SNPs(150) Simple Nucleotide Polymorphisms (dbSNP 150) Found in >= 1% of Samples Variation Description This track contains information about a subset of the single nucleotide polymorphisms and small insertions and deletions (indels) — collectively Simple Nucleotide Polymorphisms — from dbSNP build 150, available from ftp.ncbi.nlm.nih.gov/snp. Only SNPs that have a minor allele frequency (MAF) of at least 1% and are mapped to a single location in the reference genome assembly are included in this subset. Frequency data are not available for all SNPs, so this subset is incomplete. Allele counts from all submissions that include frequency data are combined when determining MAF, so for example the allele counts from the 1000 Genomes Project and an independent submitter may be combined for the same variant. dbSNP provides download files in the Variant Call Format (VCF) that include a "COMMON" flag in the INFO column. That is determined by a different method, and is generally a superset of the UCSC Common set. dbSNP uses frequency data from the 1000 Genomes Project only, and considers a variant COMMON if it has a MAF of at least 0.01 in any of the five super-populations: African (AFR) Admixed American (AMR) East Asian (EAS) European (EUR) South Asian (SAS) In build 151 (which has replaced build 150 on the dbSNP web and download site), dbSNP marks approximately 38M variants as COMMON; 23M of those have a global MAF < 0.01. The remainder should be in agreement with UCSC's Common subset. The selection of SNPs with a minor allele frequency of 1% or greater is an attempt to identify variants that appear to be reasonably common in the general population. Taken as a set, common variants should be less likely to be associated with severe genetic diseases due to the effects of natural selection, following the view that deleterious variants are not likely to become common in the population. However, the significance of any particular variant should be interpreted only by a trained medical geneticist using all available information. The remainder of this page is identical on the following tracks: Common SNPs(150) - SNPs with >= 1% minor allele frequency (MAF), mapping only once to reference assembly. Flagged SNPs(150) - SNPs < 1% minor allele frequency (MAF) (or unknown), mapping only once to reference assembly, flagged in dbSnp as "clinically associated" -- not necessarily a risk allele! Mult. SNPs(150) - SNPs mapping in more than one place on reference assembly. All SNPs(150) - all SNPs from dbSNP mapping to reference assembly. Interpreting and Configuring the Graphical Display Variants are shown as single tick marks at most zoom levels. When viewing the track at or near base-level resolution, the displayed width of the SNP corresponds to the width of the variant in the reference sequence. Insertions are indicated by a single tick mark displayed between two nucleotides, single nucleotide polymorphisms are displayed as the width of a single base, and multiple nucleotide variants are represented by a block that spans two or more bases. On the track controls page, SNPs can be colored and/or filtered from the display according to several attributes: Class: Describes the observed alleles Single - single nucleotide variation: all observed alleles are single nucleotides (can have 2, 3 or 4 alleles) In-del - insertion/deletion Heterozygous - heterozygous (undetermined) variation: allele contains string '(heterozygous)' Microsatellite - the observed allele from dbSNP is a variation in counts of short tandem repeats Named - the observed allele from dbSNP is given as a text name instead of raw sequence, e.g., (Alu)/- No Variation - the submission reports an invariant region in the surveyed sequence Mixed - the cluster contains submissions from multiple classes Multiple Nucleotide Polymorphism (MNP) - the alleles are all of the same length, and length > 1 Insertion - the polymorphism is an insertion relative to the reference assembly Deletion - the polymorphism is a deletion relative to the reference assembly Unknown - no classification provided by data contributor Validation: Method used to validate the variant (each variant may be validated by more than one method) By Frequency - at least one submitted SNP in cluster has frequency data submitted By Cluster - cluster has at least 2 submissions, with at least one submission assayed with a non-computational method By Submitter - at least one submitter SNP in cluster was validated by independent assay By 2 Hit/2 Allele - all alleles have been observed in at least 2 chromosomes By HapMap (human only) - submitted by HapMap project By 1000Genomes (human only) - submitted by 1000Genomes project Unknown - no validation has been reported for this variant Function: dbSNP's predicted functional effect of variant on RefSeq transcripts, both curated (NM_* and NR_*) as in the RefSeq Genes track and predicted (XM_* and XR_*), not shown in UCSC Genome Browser. A variant may have more than one functional role if it overlaps multiple transcripts. These terms and definitions are from the Sequence Ontology (SO); click on a term to view it in the MISO Sequence Ontology Browser. Unknown - no functional classification provided (possibly intergenic) synonymous_variant - A sequence variant where there is no resulting change to the encoded amino acid (dbSNP term: coding-synon) intron_variant - A transcript variant occurring within an intron (dbSNP term: intron) downstream_gene_variant - A sequence variant located 3' of a gene (dbSNP term: near-gene-3) upstream_gene_variant - A sequence variant located 5' of a gene (dbSNP term: near-gene-5) nc_transcript_variant - A transcript variant of a non coding RNA gene (dbSNP term: ncRNA) stop_gained - A sequence variant whereby at least one base of a codon is changed, resulting in a premature stop codon, leading to a shortened transcript (dbSNP term: nonsense) missense_variant - A sequence variant, where the change may be longer than 3 bases, and at least one base of a codon is changed resulting in a codon that encodes for a different amino acid (dbSNP term: missense) stop_lost - A sequence variant where at least one base of the terminator codon (stop) is changed, resulting in an elongated transcript (dbSNP term: stop-loss) frameshift_variant - A sequence variant which causes a disruption of the translational reading frame, because the number of nucleotides inserted or deleted is not a multiple of three (dbSNP term: frameshift) inframe_indel - A coding sequence variant where the change does not alter the frame of the transcript (dbSNP term: cds-indel) 3_prime_UTR_variant - A UTR variant of the 3' UTR (dbSNP term: untranslated-3) 5_prime_UTR_variant - A UTR variant of the 5' UTR (dbSNP term: untranslated-5) splice_acceptor_variant - A splice variant that changes the 2 base region at the 3' end of an intron (dbSNP term: splice-3) splice_donor_variant - A splice variant that changes the 2 base region at the 5' end of an intron (dbSNP term: splice-5) In the Coloring Options section of the track controls page, function terms are grouped into several categories, shown here with default colors. If a SNP has more than one of these attributes, the stronger color will override the weaker color. The order of colors, from strongest to weakest, is red, green, blue, gray, and black. Locus: downstream_gene_variant, upstream_gene_variant Coding - Synonymous: synonymous_variant Coding - Non-Synonymous: stop_gained, missense_variant, stop_lost, frameshift_variant, inframe_indel Untranslated: 5_prime_UTR_variant, 3_prime_UTR_variant Intron: intron_variant Splice Site: splice_acceptor_variant, splice_donor_variant Non-coding (ncRNA): (nc_transcript_variant) are colored blue. Molecule Type: Sample used to find this variant Genomic - variant discovered using a genomic template cDNA - variant discovered using a cDNA template Unknown - sample type not known Unusual Conditions (UCSC): UCSC checks for several anomalies that may indicate a problem with the mapping, and reports them in the Annotations section of the SNP details page if found: AlleleFreqSumNot1 - Allele frequencies do not sum to 1.0 (+-0.01). This SNP's allele frequency data are probably incomplete. DuplicateObserved, MixedObserved - Multiple distinct insertion SNPs have been mapped to this location, with either the same inserted sequence (Duplicate) or different inserted sequence (Mixed). FlankMismatchGenomeEqual, FlankMismatchGenomeLonger, FlankMismatchGenomeShorter - NCBI's alignment of the flanking sequences had at least one mismatch or gap near the mapped SNP position. (UCSC's re-alignment of flanking sequences to the genome may be informative.) MultipleAlignments - This SNP's flanking sequences align to more than one location in the reference assembly. NamedDeletionZeroSpan - A deletion (from the genome) was observed but the annotation spans 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) NamedInsertionNonzeroSpan - An insertion (into the genome) was observed but the annotation spans more than 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) NonIntegerChromCount - At least one allele frequency corresponds to a non-integer (+-0.010000) count of chromosomes on which the allele was observed. The reported total sample count for this SNP is probably incorrect. ObservedContainsIupac - At least one observed allele from dbSNP contains an IUPAC ambiguous base (e.g., R, Y, N). ObservedMismatch - UCSC reference allele does not match any observed allele from dbSNP. This is tested only for SNPs whose class is single, in-del, insertion, deletion, mnp or mixed. ObservedTooLong - Observed allele not given (length too long). ObservedWrongFormat - Observed allele(s) from dbSNP have unexpected format for the given class. RefAlleleMismatch - The reference allele from dbSNP does not match the UCSC reference allele, i.e., the bases in the mapped position range. RefAlleleRevComp - The reference allele from dbSNP matches the reverse complement of the UCSC reference allele. SingleClassLongerSpan - All observed alleles are single-base, but the annotation spans more than 1 base. (UCSC's re-alignment of flanking sequences to the genome may be informative.) SingleClassZeroSpan - All observed alleles are single-base, but the annotation spans 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) Another condition, which does not necessarily imply any problem, is noted: SingleClassTriAllelic, SingleClassQuadAllelic - Class is single and three or four different bases have been observed (usually there are only two). Miscellaneous Attributes (dbSNP): several properties extracted from dbSNP's SNP_bitfield table (see dbSNP_BitField_v5.pdf for details) Clinically Associated (human only) - SNP is in OMIM and/or at least one submitter is a Locus-Specific Database. This does not necessarily imply that the variant causes any disease, only that it has been observed in clinical studies. Appears in OMIM/OMIA - SNP is mentioned in Online Mendelian Inheritance in Man for human SNPs, or Online Mendelian Inheritance in Animals for non-human animal SNPs. Some of these SNPs are quite common, others are known to cause disease; see OMIM/OMIA for more information. Has Microattribution/Third-Party Annotation - At least one of the SNP's submitters studied this SNP in a biomedical setting, but is not a Locus-Specific Database or OMIM/OMIA. Submitted by Locus-Specific Database - At least one of the SNP's submitters is associated with a database of variants associated with a particular gene. These variants may or may not be known to be causative. MAF >= 5% in Some Population - Minor Allele Frequency is at least 5% in at least one population assayed. MAF >= 5% in All Populations - Minor Allele Frequency is at least 5% in all populations assayed. Genotype Conflict - Quality check: different genotypes have been submitted for the same individual. Ref SNP Cluster has Non-overlapping Alleles - Quality check: this reference SNP was clustered from submitted SNPs with non-overlapping sets of observed alleles. Some Assembly's Allele Does Not Match Observed - Quality check: at least one assembly mapped by dbSNP has an allele at the mapped position that is not present in this SNP's observed alleles. Several other properties do not have coloring options, but do have some filtering options: Average heterozygosity: Calculated by dbSNP as described in Computation of Average Heterozygosity and Standard Error for dbSNP RefSNP Clusters. Average heterozygosity should not exceed 0.5 for bi-allelic single-base substitutions. Weight: Alignment quality assigned by dbSNP. Before dbSNP build 147, weight had values 1, 2 or 3, with 1 being the highest quality (mapped to a single genomic location). As of dbSNP build 147, dbSNP now releases only the variants with weight 1. Submitter handles: These are short, single-word identifiers of labs or consortia that submitted SNPs that were clustered into this reference SNP by dbSNP (e.g., 1000GENOMES, ENSEMBL, KWOK). Some SNPs have been observed by many different submitters, and some by only a single submitter (although that single submitter may have tested a large number of samples). AlleleFrequencies: Some submissions to dbSNP include allele frequencies and the study's sample size (i.e., the number of distinct chromosomes, which is two times the number of individuals assayed, a.k.a. 2N). dbSNP combines all available frequencies and counts from submitted SNPs that are clustered together into a reference SNP. You can configure this track such that the details page displays the function and coding differences relative to particular gene sets. Choose the gene sets from the list on the SNP configuration page displayed beneath this heading: On details page, show function and coding differences relative to. When one or more gene tracks are selected, the SNP details page lists all genes that the SNP hits (or is close to), with the same keywords used in the function category. The function usually agrees with NCBI's function, except when NCBI's functional annotation is relative to an XM_* predicted RefSeq (not included in the UCSC Genome Browser's RefSeq Genes track) and/or UCSC's functional annotation is relative to a transcript that is not in RefSeq. Insertions/Deletions dbSNP uses a class called 'in-del'. We compare the length of the reference allele to the length(s) of observed alleles; if the reference allele is shorter than all other observed alleles, we change 'in-del' to 'insertion'. Likewise, if the reference allele is longer than all other observed alleles, we change 'in-del' to 'deletion'. UCSC Re-alignment of flanking sequences dbSNP determines the genomic locations of SNPs by aligning their flanking sequences to the genome. UCSC displays SNPs in the locations determined by dbSNP, but does not have access to the alignments on which dbSNP based its mappings. Instead, UCSC re-aligns the flanking sequences to the neighboring genomic sequence for display on SNP details pages. While the recomputed alignments may differ from dbSNP's alignments, they often are informative when UCSC has annotated an unusual condition. Non-repetitive genomic sequence is shown in upper case like the flanking sequence, and a "|" indicates each match between genomic and flanking bases. Repetitive genomic sequence (annotated by RepeatMasker and/or the Tandem Repeats Finder with period >= 12) is shown in lower case, and matching bases are indicated by a "+". Data Sources and Methods The data that comprise this track were extracted from database dump files and headers of fasta files downloaded from NCBI. The database dump files were downloaded from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b150_GRCh37p13/database/data/organism_data/ for hg19 and from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b150_GRCh38p7/database/data/organism_data/ for hg38. The fasta files were downloaded from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b150_GRCh37p13/rs_fasta/ for hg19 and from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b150_GRCh38p7/rs_fasta/ for hg38. Coordinates, orientation, location type and dbSNP reference allele data were obtained from b150_SNPContigLoc_N.bcp.gz and b150_ContigInfo_N.bcp.gz. (N = 105 for hg19, 107 for hg38) b150_SNPMapInfo_N.bcp.gz provided the alignment weights. Functional classification was obtained from b150_SNPContigLocusId_N.bcp.gz. The internal database representation uses dbSNP's function terms, but for display in SNP details pages, these are translated into Sequence Ontology terms. Validation status and heterozygosity were obtained from SNP.bcp.gz. SNPAlleleFreq.bcp.gz and ../shared/Allele.bcp.gz provided allele frequencies. For the human assembly, allele frequencies were also taken from SNPAlleleFreq_TGP.bcp.gz . Submitter handles were extracted from Batch.bcp.gz, SubSNP.bcp.gz and SNPSubSNPLink.bcp.gz. SNP_bitfield.bcp.gz provided miscellaneous properties annotated by dbSNP, such as clinically-associated. See the document dbSNP_BitField_v5.pdf for details. The header lines in the rs_fasta files were used for molecule type, class and observed polymorphism. Data Access The raw data can be explored interactively with the Table Browser, Data Integrator, or Variant Annotation Integrator. For automated analysis, the genome annotation can be downloaded from the downloads server for hg38 and hg19 (snp150*.txt.gz) or the public MySQL server. Please refer to our mailing list archives for questions and example queries, or our Data Access FAQ for more information. Orthologous Alleles (human assemblies only) For the human assembly, we provide a related table that contains orthologous alleles in the chimpanzee, orangutan and rhesus macaque reference genome assemblies. We use our liftOver utility to identify the orthologous alleles. The candidate human SNPs are a filtered list that meet the criteria: class = 'single' mapped position in the human reference genome is one base long aligned to only one location in the human reference genome not aligned to a chrN_random chrom biallelic (not tri- or quad-allelic) In some cases the orthologous allele is unknown; these are set to 'N'. If a lift was not possible, we set the orthologous allele to '?' and the orthologous start and end position to 0 (zero). Masked FASTA Files (human assemblies only) FASTA files that have been modified to use IUPAC ambiguous nucleotide characters at each base covered by a single-base substitution are available for download: GRCh37/hg19, GRCh38/hg38. Note that only single-base substitutions (no insertions or deletions) were used to mask the sequence, and these were filtered to exclude problematic SNPs. References Sherry ST, Ward MH, Kholodov M, Baker J, Phan L, Smigielski EM, Sirotkin K. dbSNP: the NCBI database of genetic variation. Nucleic Acids Res. 2001 Jan 1;29(1):308-11. PMID: 11125122; PMC: PMC29783 
snp150Flagged Flagged SNPs(150) Simple Nucleotide Polymorphisms (dbSNP 150) Flagged by dbSNP as Clinically Assoc Variation Description This track contains information about a subset of the single nucleotide polymorphisms and small insertions and deletions (indels) — collectively Simple Nucleotide Polymorphisms — from dbSNP build 150, available from ftp.ncbi.nlm.nih.gov/snp. Only SNPs flagged as clinically associated by dbSNP, mapped to a single location in the reference genome assembly, and not known to have a minor allele frequency of at least 1%, are included in this subset. Frequency data are not available for all SNPs, so this subset probably includes some SNPs whose true minor allele frequency is 1% or greater. The significance of any particular variant in this track should be interpreted only by a trained medical geneticist using all available information. For example, some variants are included in this track because of their inclusion in a Locus-Specific Database (LSDB) or mention in OMIM, but are not thought to be disease-causing, so inclusion of a variant in this track is not necessarily an indicator of risk. Again, all available information must be carefully considered by a qualified professional. The remainder of this page is identical on the following tracks: Common SNPs(150) - SNPs with >= 1% minor allele frequency (MAF), mapping only once to reference assembly. Flagged SNPs(150) - SNPs < 1% minor allele frequency (MAF) (or unknown), mapping only once to reference assembly, flagged in dbSnp as "clinically associated" -- not necessarily a risk allele! Mult. SNPs(150) - SNPs mapping in more than one place on reference assembly. All SNPs(150) - all SNPs from dbSNP mapping to reference assembly. Interpreting and Configuring the Graphical Display Variants are shown as single tick marks at most zoom levels. When viewing the track at or near base-level resolution, the displayed width of the SNP corresponds to the width of the variant in the reference sequence. Insertions are indicated by a single tick mark displayed between two nucleotides, single nucleotide polymorphisms are displayed as the width of a single base, and multiple nucleotide variants are represented by a block that spans two or more bases. On the track controls page, SNPs can be colored and/or filtered from the display according to several attributes: Class: Describes the observed alleles Single - single nucleotide variation: all observed alleles are single nucleotides (can have 2, 3 or 4 alleles) In-del - insertion/deletion Heterozygous - heterozygous (undetermined) variation: allele contains string '(heterozygous)' Microsatellite - the observed allele from dbSNP is a variation in counts of short tandem repeats Named - the observed allele from dbSNP is given as a text name instead of raw sequence, e.g., (Alu)/- No Variation - the submission reports an invariant region in the surveyed sequence Mixed - the cluster contains submissions from multiple classes Multiple Nucleotide Polymorphism (MNP) - the alleles are all of the same length, and length > 1 Insertion - the polymorphism is an insertion relative to the reference assembly Deletion - the polymorphism is a deletion relative to the reference assembly Unknown - no classification provided by data contributor Validation: Method used to validate the variant (each variant may be validated by more than one method) By Frequency - at least one submitted SNP in cluster has frequency data submitted By Cluster - cluster has at least 2 submissions, with at least one submission assayed with a non-computational method By Submitter - at least one submitter SNP in cluster was validated by independent assay By 2 Hit/2 Allele - all alleles have been observed in at least 2 chromosomes By HapMap (human only) - submitted by HapMap project By 1000Genomes (human only) - submitted by 1000Genomes project Unknown - no validation has been reported for this variant Function: dbSNP's predicted functional effect of variant on RefSeq transcripts, both curated (NM_* and NR_*) as in the RefSeq Genes track and predicted (XM_* and XR_*), not shown in UCSC Genome Browser. A variant may have more than one functional role if it overlaps multiple transcripts. These terms and definitions are from the Sequence Ontology (SO); click on a term to view it in the MISO Sequence Ontology Browser. Unknown - no functional classification provided (possibly intergenic) synonymous_variant - A sequence variant where there is no resulting change to the encoded amino acid (dbSNP term: coding-synon) intron_variant - A transcript variant occurring within an intron (dbSNP term: intron) downstream_gene_variant - A sequence variant located 3' of a gene (dbSNP term: near-gene-3) upstream_gene_variant - A sequence variant located 5' of a gene (dbSNP term: near-gene-5) nc_transcript_variant - A transcript variant of a non coding RNA gene (dbSNP term: ncRNA) stop_gained - A sequence variant whereby at least one base of a codon is changed, resulting in a premature stop codon, leading to a shortened transcript (dbSNP term: nonsense) missense_variant - A sequence variant, where the change may be longer than 3 bases, and at least one base of a codon is changed resulting in a codon that encodes for a different amino acid (dbSNP term: missense) stop_lost - A sequence variant where at least one base of the terminator codon (stop) is changed, resulting in an elongated transcript (dbSNP term: stop-loss) frameshift_variant - A sequence variant which causes a disruption of the translational reading frame, because the number of nucleotides inserted or deleted is not a multiple of three (dbSNP term: frameshift) inframe_indel - A coding sequence variant where the change does not alter the frame of the transcript (dbSNP term: cds-indel) 3_prime_UTR_variant - A UTR variant of the 3' UTR (dbSNP term: untranslated-3) 5_prime_UTR_variant - A UTR variant of the 5' UTR (dbSNP term: untranslated-5) splice_acceptor_variant - A splice variant that changes the 2 base region at the 3' end of an intron (dbSNP term: splice-3) splice_donor_variant - A splice variant that changes the 2 base region at the 5' end of an intron (dbSNP term: splice-5) In the Coloring Options section of the track controls page, function terms are grouped into several categories, shown here with default colors. If a SNP has more than one of these attributes, the stronger color will override the weaker color. The order of colors, from strongest to weakest, is red, green, blue, gray, and black. Locus: downstream_gene_variant, upstream_gene_variant Coding - Synonymous: synonymous_variant Coding - Non-Synonymous: stop_gained, missense_variant, stop_lost, frameshift_variant, inframe_indel Untranslated: 5_prime_UTR_variant, 3_prime_UTR_variant Intron: intron_variant Splice Site: splice_acceptor_variant, splice_donor_variant Non-coding (ncRNA): (nc_transcript_variant) are colored blue. Molecule Type: Sample used to find this variant Genomic - variant discovered using a genomic template cDNA - variant discovered using a cDNA template Unknown - sample type not known Unusual Conditions (UCSC): UCSC checks for several anomalies that may indicate a problem with the mapping, and reports them in the Annotations section of the SNP details page if found: AlleleFreqSumNot1 - Allele frequencies do not sum to 1.0 (+-0.01). This SNP's allele frequency data are probably incomplete. DuplicateObserved, MixedObserved - Multiple distinct insertion SNPs have been mapped to this location, with either the same inserted sequence (Duplicate) or different inserted sequence (Mixed). FlankMismatchGenomeEqual, FlankMismatchGenomeLonger, FlankMismatchGenomeShorter - NCBI's alignment of the flanking sequences had at least one mismatch or gap near the mapped SNP position. (UCSC's re-alignment of flanking sequences to the genome may be informative.) MultipleAlignments - This SNP's flanking sequences align to more than one location in the reference assembly. NamedDeletionZeroSpan - A deletion (from the genome) was observed but the annotation spans 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) NamedInsertionNonzeroSpan - An insertion (into the genome) was observed but the annotation spans more than 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) NonIntegerChromCount - At least one allele frequency corresponds to a non-integer (+-0.010000) count of chromosomes on which the allele was observed. The reported total sample count for this SNP is probably incorrect. ObservedContainsIupac - At least one observed allele from dbSNP contains an IUPAC ambiguous base (e.g., R, Y, N). ObservedMismatch - UCSC reference allele does not match any observed allele from dbSNP. This is tested only for SNPs whose class is single, in-del, insertion, deletion, mnp or mixed. ObservedTooLong - Observed allele not given (length too long). ObservedWrongFormat - Observed allele(s) from dbSNP have unexpected format for the given class. RefAlleleMismatch - The reference allele from dbSNP does not match the UCSC reference allele, i.e., the bases in the mapped position range. RefAlleleRevComp - The reference allele from dbSNP matches the reverse complement of the UCSC reference allele. SingleClassLongerSpan - All observed alleles are single-base, but the annotation spans more than 1 base. (UCSC's re-alignment of flanking sequences to the genome may be informative.) SingleClassZeroSpan - All observed alleles are single-base, but the annotation spans 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) Another condition, which does not necessarily imply any problem, is noted: SingleClassTriAllelic, SingleClassQuadAllelic - Class is single and three or four different bases have been observed (usually there are only two). Miscellaneous Attributes (dbSNP): several properties extracted from dbSNP's SNP_bitfield table (see dbSNP_BitField_v5.pdf for details) Clinically Associated (human only) - SNP is in OMIM and/or at least one submitter is a Locus-Specific Database. This does not necessarily imply that the variant causes any disease, only that it has been observed in clinical studies. Appears in OMIM/OMIA - SNP is mentioned in Online Mendelian Inheritance in Man for human SNPs, or Online Mendelian Inheritance in Animals for non-human animal SNPs. Some of these SNPs are quite common, others are known to cause disease; see OMIM/OMIA for more information. Has Microattribution/Third-Party Annotation - At least one of the SNP's submitters studied this SNP in a biomedical setting, but is not a Locus-Specific Database or OMIM/OMIA. Submitted by Locus-Specific Database - At least one of the SNP's submitters is associated with a database of variants associated with a particular gene. These variants may or may not be known to be causative. MAF >= 5% in Some Population - Minor Allele Frequency is at least 5% in at least one population assayed. MAF >= 5% in All Populations - Minor Allele Frequency is at least 5% in all populations assayed. Genotype Conflict - Quality check: different genotypes have been submitted for the same individual. Ref SNP Cluster has Non-overlapping Alleles - Quality check: this reference SNP was clustered from submitted SNPs with non-overlapping sets of observed alleles. Some Assembly's Allele Does Not Match Observed - Quality check: at least one assembly mapped by dbSNP has an allele at the mapped position that is not present in this SNP's observed alleles. Several other properties do not have coloring options, but do have some filtering options: Average heterozygosity: Calculated by dbSNP as described in Computation of Average Heterozygosity and Standard Error for dbSNP RefSNP Clusters. Average heterozygosity should not exceed 0.5 for bi-allelic single-base substitutions. Weight: Alignment quality assigned by dbSNP. Before dbSNP build 147, weight had values 1, 2 or 3, with 1 being the highest quality (mapped to a single genomic location). As of dbSNP build 147, dbSNP now releases only the variants with weight 1. Submitter handles: These are short, single-word identifiers of labs or consortia that submitted SNPs that were clustered into this reference SNP by dbSNP (e.g., 1000GENOMES, ENSEMBL, KWOK). Some SNPs have been observed by many different submitters, and some by only a single submitter (although that single submitter may have tested a large number of samples). AlleleFrequencies: Some submissions to dbSNP include allele frequencies and the study's sample size (i.e., the number of distinct chromosomes, which is two times the number of individuals assayed, a.k.a. 2N). dbSNP combines all available frequencies and counts from submitted SNPs that are clustered together into a reference SNP. You can configure this track such that the details page displays the function and coding differences relative to particular gene sets. Choose the gene sets from the list on the SNP configuration page displayed beneath this heading: On details page, show function and coding differences relative to. When one or more gene tracks are selected, the SNP details page lists all genes that the SNP hits (or is close to), with the same keywords used in the function category. The function usually agrees with NCBI's function, except when NCBI's functional annotation is relative to an XM_* predicted RefSeq (not included in the UCSC Genome Browser's RefSeq Genes track) and/or UCSC's functional annotation is relative to a transcript that is not in RefSeq. Insertions/Deletions dbSNP uses a class called 'in-del'. We compare the length of the reference allele to the length(s) of observed alleles; if the reference allele is shorter than all other observed alleles, we change 'in-del' to 'insertion'. Likewise, if the reference allele is longer than all other observed alleles, we change 'in-del' to 'deletion'. UCSC Re-alignment of flanking sequences dbSNP determines the genomic locations of SNPs by aligning their flanking sequences to the genome. UCSC displays SNPs in the locations determined by dbSNP, but does not have access to the alignments on which dbSNP based its mappings. Instead, UCSC re-aligns the flanking sequences to the neighboring genomic sequence for display on SNP details pages. While the recomputed alignments may differ from dbSNP's alignments, they often are informative when UCSC has annotated an unusual condition. Non-repetitive genomic sequence is shown in upper case like the flanking sequence, and a "|" indicates each match between genomic and flanking bases. Repetitive genomic sequence (annotated by RepeatMasker and/or the Tandem Repeats Finder with period >= 12) is shown in lower case, and matching bases are indicated by a "+". Data Sources and Methods The data that comprise this track were extracted from database dump files and headers of fasta files downloaded from NCBI. The database dump files were downloaded from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b150_GRCh37p13/database/data/organism_data/ for hg19 and from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b150_GRCh38p7/database/data/organism_data/ for hg38. The fasta files were downloaded from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b150_GRCh37p13/rs_fasta/ for hg19 and from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b150_GRCh38p7/rs_fasta/ for hg38. Coordinates, orientation, location type and dbSNP reference allele data were obtained from b150_SNPContigLoc_N.bcp.gz and b150_ContigInfo_N.bcp.gz. (N = 105 for hg19, 107 for hg38) b150_SNPMapInfo_N.bcp.gz provided the alignment weights. Functional classification was obtained from b150_SNPContigLocusId_N.bcp.gz. The internal database representation uses dbSNP's function terms, but for display in SNP details pages, these are translated into Sequence Ontology terms. Validation status and heterozygosity were obtained from SNP.bcp.gz. SNPAlleleFreq.bcp.gz and ../shared/Allele.bcp.gz provided allele frequencies. For the human assembly, allele frequencies were also taken from SNPAlleleFreq_TGP.bcp.gz . Submitter handles were extracted from Batch.bcp.gz, SubSNP.bcp.gz and SNPSubSNPLink.bcp.gz. SNP_bitfield.bcp.gz provided miscellaneous properties annotated by dbSNP, such as clinically-associated. See the document dbSNP_BitField_v5.pdf for details. The header lines in the rs_fasta files were used for molecule type, class and observed polymorphism. Data Access The raw data can be explored interactively with the Table Browser, Data Integrator, or Variant Annotation Integrator. For automated analysis, the genome annotation can be downloaded from the downloads server for hg38 and hg19 (snp150*.txt.gz) or the public MySQL server. Please refer to our mailing list archives for questions and example queries, or our Data Access FAQ for more information. Orthologous Alleles (human assemblies only) For the human assembly, we provide a related table that contains orthologous alleles in the chimpanzee, orangutan and rhesus macaque reference genome assemblies. We use our liftOver utility to identify the orthologous alleles. The candidate human SNPs are a filtered list that meet the criteria: class = 'single' mapped position in the human reference genome is one base long aligned to only one location in the human reference genome not aligned to a chrN_random chrom biallelic (not tri- or quad-allelic) In some cases the orthologous allele is unknown; these are set to 'N'. If a lift was not possible, we set the orthologous allele to '?' and the orthologous start and end position to 0 (zero). Masked FASTA Files (human assemblies only) FASTA files that have been modified to use IUPAC ambiguous nucleotide characters at each base covered by a single-base substitution are available for download: GRCh37/hg19, GRCh38/hg38. Note that only single-base substitutions (no insertions or deletions) were used to mask the sequence, and these were filtered to exclude problematic SNPs. References Sherry ST, Ward MH, Kholodov M, Baker J, Phan L, Smigielski EM, Sirotkin K. dbSNP: the NCBI database of genetic variation. Nucleic Acids Res. 2001 Jan 1;29(1):308-11. PMID: 11125122; PMC: PMC29783 
snp147Mult Mult. SNPs(147) Simple Nucleotide Polymorphisms (dbSNP 147) That Map to Multiple Genomic Loci Variation Description This track contains information about a subset of the single nucleotide polymorphisms and small insertions and deletions (indels) — collectively Simple Nucleotide Polymorphisms — from dbSNP build 147, available from ftp.ncbi.nlm.nih.gov/snp. Only SNPs that have been mapped to multiple locations in the reference genome assembly are included in this subset. When a SNP's flanking sequences map to multiple locations in the reference genome, it calls into question whether there is true variation at those sites, or whether the sequences at those sites are merely highly similar but not identical. The default maximum weight for this track is 3, unlike the other dbSNP build 147 tracks which have a maximum weight of 1. That enables these multiply-mapped SNPs to appear in the display, while by default they will not appear in the All SNPs(147) track because of its maximum weight filter. The remainder of this page is identical on the following tracks: Common SNPs(147) - SNPs with >= 1% minor allele frequency (MAF), mapping only once to reference assembly. Flagged SNPs(147) - SNPs < 1% minor allele frequency (MAF) (or unknown), mapping only once to reference assembly, flagged in dbSnp as "clinically associated" -- not necessarily a risk allele! Mult. SNPs(147) - SNPs mapping in more than one place on reference assembly. All SNPs(147) - all SNPs from dbSNP mapping to reference assembly. Interpreting and Configuring the Graphical Display Variants are shown as single tick marks at most zoom levels. When viewing the track at or near base-level resolution, the displayed width of the SNP corresponds to the width of the variant in the reference sequence. Insertions are indicated by a single tick mark displayed between two nucleotides, single nucleotide polymorphisms are displayed as the width of a single base, and multiple nucleotide variants are represented by a block that spans two or more bases. On the track controls page, SNPs can be colored and/or filtered from the display according to several attributes: Class: Describes the observed alleles Single - single nucleotide variation: all observed alleles are single nucleotides (can have 2, 3 or 4 alleles) In-del - insertion/deletion Heterozygous - heterozygous (undetermined) variation: allele contains string '(heterozygous)' Microsatellite - the observed allele from dbSNP is a variation in counts of short tandem repeats Named - the observed allele from dbSNP is given as a text name instead of raw sequence, e.g., (Alu)/- No Variation - the submission reports an invariant region in the surveyed sequence Mixed - the cluster contains submissions from multiple classes Multiple Nucleotide Polymorphism (MNP) - the alleles are all of the same length, and length > 1 Insertion - the polymorphism is an insertion relative to the reference assembly Deletion - the polymorphism is a deletion relative to the reference assembly Unknown - no classification provided by data contributor Validation: Method used to validate the variant (each variant may be validated by more than one method) By Frequency - at least one submitted SNP in cluster has frequency data submitted By Cluster - cluster has at least 2 submissions, with at least one submission assayed with a non-computational method By Submitter - at least one submitter SNP in cluster was validated by independent assay By 2 Hit/2 Allele - all alleles have been observed in at least 2 chromosomes By HapMap (human only) - submitted by HapMap project By 1000Genomes (human only) - submitted by 1000Genomes project Unknown - no validation has been reported for this variant Function: dbSNP's predicted functional effect of variant on RefSeq transcripts, both curated (NM_* and NR_*) as in the RefSeq Genes track and predicted (XM_* and XR_*), not shown in UCSC Genome Browser. A variant may have more than one functional role if it overlaps multiple transcripts. These terms and definitions are from the Sequence Ontology (SO); click on a term to view it in the MISO Sequence Ontology Browser. Unknown - no functional classification provided (possibly intergenic) synonymous_variant - A sequence variant where there is no resulting change to the encoded amino acid (dbSNP term: coding-synon) intron_variant - A transcript variant occurring within an intron (dbSNP term: intron) downstream_gene_variant - A sequence variant located 3' of a gene (dbSNP term: near-gene-3) upstream_gene_variant - A sequence variant located 5' of a gene (dbSNP term: near-gene-5) nc_transcript_variant - A transcript variant of a non coding RNA gene (dbSNP term: ncRNA) stop_gained - A sequence variant whereby at least one base of a codon is changed, resulting in a premature stop codon, leading to a shortened transcript (dbSNP term: nonsense) missense_variant - A sequence variant, where the change may be longer than 3 bases, and at least one base of a codon is changed resulting in a codon that encodes for a different amino acid (dbSNP term: missense) stop_lost - A sequence variant where at least one base of the terminator codon (stop) is changed, resulting in an elongated transcript (dbSNP term: stop-loss) frameshift_variant - A sequence variant which causes a disruption of the translational reading frame, because the number of nucleotides inserted or deleted is not a multiple of three (dbSNP term: frameshift) inframe_indel - A coding sequence variant where the change does not alter the frame of the transcript (dbSNP term: cds-indel) 3_prime_UTR_variant - A UTR variant of the 3' UTR (dbSNP term: untranslated-3) 5_prime_UTR_variant - A UTR variant of the 5' UTR (dbSNP term: untranslated-5) splice_acceptor_variant - A splice variant that changes the 2 base region at the 3' end of an intron (dbSNP term: splice-3) splice_donor_variant - A splice variant that changes the 2 base region at the 5' end of an intron (dbSNP term: splice-5) In the Coloring Options section of the track controls page, function terms are grouped into several categories, shown here with default colors: Locus: downstream_gene_variant, upstream_gene_variant Coding - Synonymous: synonymous_variant Coding - Non-Synonymous: stop_gained, missense_variant, stop_lost, frameshift_variant, inframe_indel Untranslated: 5_prime_UTR_variant, 3_prime_UTR_variant Intron: intron_variant Splice Site: splice_acceptor_variant, splice_donor_variant Non-coding (ncRNA): (nc_transcript_variant) are always colored blue. Molecule Type: Sample used to find this variant Genomic - variant discovered using a genomic template cDNA - variant discovered using a cDNA template Unknown - sample type not known Unusual Conditions (UCSC): UCSC checks for several anomalies that may indicate a problem with the mapping, and reports them in the Annotations section of the SNP details page if found: AlleleFreqSumNot1 - Allele frequencies do not sum to 1.0 (+-0.01). This SNP's allele frequency data are probably incomplete. DuplicateObserved, MixedObserved - Multiple distinct insertion SNPs have been mapped to this location, with either the same inserted sequence (Duplicate) or different inserted sequence (Mixed). FlankMismatchGenomeEqual, FlankMismatchGenomeLonger, FlankMismatchGenomeShorter - NCBI's alignment of the flanking sequences had at least one mismatch or gap near the mapped SNP position. (UCSC's re-alignment of flanking sequences to the genome may be informative.) MultipleAlignments - This SNP's flanking sequences align to more than one location in the reference assembly. NamedDeletionZeroSpan - A deletion (from the genome) was observed but the annotation spans 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) NamedInsertionNonzeroSpan - An insertion (into the genome) was observed but the annotation spans more than 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) NonIntegerChromCount - At least one allele frequency corresponds to a non-integer (+-0.010000) count of chromosomes on which the allele was observed. The reported total sample count for this SNP is probably incorrect. ObservedContainsIupac - At least one observed allele from dbSNP contains an IUPAC ambiguous base (e.g., R, Y, N). ObservedMismatch - UCSC reference allele does not match any observed allele from dbSNP. This is tested only for SNPs whose class is single, in-del, insertion, deletion, mnp or mixed. ObservedTooLong - Observed allele not given (length too long). ObservedWrongFormat - Observed allele(s) from dbSNP have unexpected format for the given class. RefAlleleMismatch - The reference allele from dbSNP does not match the UCSC reference allele, i.e., the bases in the mapped position range. RefAlleleRevComp - The reference allele from dbSNP matches the reverse complement of the UCSC reference allele. SingleClassLongerSpan - All observed alleles are single-base, but the annotation spans more than 1 base. (UCSC's re-alignment of flanking sequences to the genome may be informative.) SingleClassZeroSpan - All observed alleles are single-base, but the annotation spans 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) Another condition, which does not necessarily imply any problem, is noted: SingleClassTriAllelic, SingleClassQuadAllelic - Class is single and three or four different bases have been observed (usually there are only two). Miscellaneous Attributes (dbSNP): several properties extracted from dbSNP's SNP_bitfield table (see dbSNP_BitField_v5.pdf for details) Clinically Associated (human only) - SNP is in OMIM and/or at least one submitter is a Locus-Specific Database. This does not necessarily imply that the variant causes any disease, only that it has been observed in clinical studies. Appears in OMIM/OMIA - SNP is mentioned in Online Mendelian Inheritance in Man for human SNPs, or Online Mendelian Inheritance in Animals for non-human animal SNPs. Some of these SNPs are quite common, others are known to cause disease; see OMIM/OMIA for more information. Has Microattribution/Third-Party Annotation - At least one of the SNP's submitters studied this SNP in a biomedical setting, but is not a Locus-Specific Database or OMIM/OMIA. Submitted by Locus-Specific Database - At least one of the SNP's submitters is associated with a database of variants associated with a particular gene. These variants may or may not be known to be causative. MAF >= 5% in Some Population - Minor Allele Frequency is at least 5% in at least one population assayed. MAF >= 5% in All Populations - Minor Allele Frequency is at least 5% in all populations assayed. Genotype Conflict - Quality check: different genotypes have been submitted for the same individual. Ref SNP Cluster has Non-overlapping Alleles - Quality check: this reference SNP was clustered from submitted SNPs with non-overlapping sets of observed alleles. Some Assembly's Allele Does Not Match Observed - Quality check: at least one assembly mapped by dbSNP has an allele at the mapped position that is not present in this SNP's observed alleles. Several other properties do not have coloring options, but do have some filtering options: Average heterozygosity: Calculated by dbSNP as described in Computation of Average Heterozygosity and Standard Error for dbSNP RefSNP Clusters. Average heterozygosity should not exceed 0.5 for bi-allelic single-base substitutions. Weight: Alignment quality assigned by dbSNP. Before dbSNP build 147, weight had values 1, 2 or 3, with 1 being the highest quality (mapped to a single genomic location). As of dbSNP build 147, dbSNP now releases only the variants with weight 1. Submitter handles: These are short, single-word identifiers of labs or consortia that submitted SNPs that were clustered into this reference SNP by dbSNP (e.g., 1000GENOMES, ENSEMBL, KWOK). Some SNPs have been observed by many different submitters, and some by only a single submitter (although that single submitter may have tested a large number of samples). AlleleFrequencies: Some submissions to dbSNP include allele frequencies and the study's sample size (i.e., the number of distinct chromosomes, which is two times the number of individuals assayed, a.k.a. 2N). dbSNP combines all available frequencies and counts from submitted SNPs that are clustered together into a reference SNP. You can configure this track such that the details page displays the function and coding differences relative to particular gene sets. Choose the gene sets from the list on the SNP configuration page displayed beneath this heading: On details page, show function and coding differences relative to. When one or more gene tracks are selected, the SNP details page lists all genes that the SNP hits (or is close to), with the same keywords used in the function category. The function usually agrees with NCBI's function, except when NCBI's functional annotation is relative to an XM_* predicted RefSeq (not included in the UCSC Genome Browser's RefSeq Genes track) and/or UCSC's functional annotation is relative to a transcript that is not in RefSeq. Insertions/Deletions dbSNP uses a class called 'in-del'. We compare the length of the reference allele to the length(s) of observed alleles; if the reference allele is shorter than all other observed alleles, we change 'in-del' to 'insertion'. Likewise, if the reference allele is longer than all other observed alleles, we change 'in-del' to 'deletion'. UCSC Re-alignment of flanking sequences dbSNP determines the genomic locations of SNPs by aligning their flanking sequences to the genome. UCSC displays SNPs in the locations determined by dbSNP, but does not have access to the alignments on which dbSNP based its mappings. Instead, UCSC re-aligns the flanking sequences to the neighboring genomic sequence for display on SNP details pages. While the recomputed alignments may differ from dbSNP's alignments, they often are informative when UCSC has annotated an unusual condition. Non-repetitive genomic sequence is shown in upper case like the flanking sequence, and a "|" indicates each match between genomic and flanking bases. Repetitive genomic sequence (annotated by RepeatMasker and/or the Tandem Repeats Finder with period >= 12) is shown in lower case, and matching bases are indicated by a "+". Data Sources and Methods The data that comprise this track were extracted from database dump files and headers of fasta files downloaded from NCBI. The database dump files were downloaded from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b147_GRCh37p13/database/organism_data/ for hg19 and from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b147_GRCh38p2/database/organism_data/ for hg38. The fasta files were downloaded from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b147_GRCh37p13/rs_fasta/ for hg19 and from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b147_GRCh38p2/rs_fasta/ for hg38. Coordinates, orientation, location type and dbSNP reference allele data were obtained from b147_SNPContigLoc_N.bcp.gz and b147_ContigInfo_N.bcp.gz. (N = 105 for hg19, 107 for hg38) b147_SNPMapInfo_N.bcp.gz provided the alignment weights. Functional classification was obtained from b147_SNPContigLocusId_N.bcp.gz. The internal database representation uses dbSNP's function terms, but for display in SNP details pages, these are translated into Sequence Ontology terms. Validation status and heterozygosity were obtained from SNP.bcp.gz. SNPAlleleFreq.bcp.gz and ../shared/Allele.bcp.gz provided allele frequencies. For the human assembly, allele frequencies were also taken from SNPAlleleFreq_TGP.bcp.gz . Submitter handles were extracted from Batch.bcp.gz, SubSNP.bcp.gz and SNPSubSNPLink.bcp.gz. SNP_bitfield.bcp.gz provided miscellaneous properties annotated by dbSNP, such as clinically-associated. See the document dbSNP_BitField_v5.pdf for details. The header lines in the rs_fasta files were used for molecule type, class and observed polymorphism. Data Access The raw data can be explored interactively with the Table Browser, Data Integrator, or Variant Annotation Integrator. For automated analysis, the genome annotation can be downloaded from the downloads server for hg38 and hg19 (snp147*.txt.gz) or the public MySQL server. Please refer to our mailing list archives for questions and example queries, or our Data Access FAQ for more information. Orthologous Alleles (human assemblies only) For the human assembly, we provide a related table that contains orthologous alleles in the chimpanzee, orangutan and rhesus macaque reference genome assemblies. We use our liftOver utility to identify the orthologous alleles. The candidate human SNPs are a filtered list that meet the criteria: class = 'single' mapped position in the human reference genome is one base long aligned to only one location in the human reference genome not aligned to a chrN_random chrom biallelic (not tri- or quad-allelic) In some cases the orthologous allele is unknown; these are set to 'N'. If a lift was not possible, we set the orthologous allele to '?' and the orthologous start and end position to 0 (zero). Masked FASTA Files (human assemblies only) FASTA files that have been modified to use IUPAC ambiguous nucleotide characters at each base covered by a single-base substitution are available for download: GRCh37/hg19, GRCh38/hg38. Note that only single-base substitutions (no insertions or deletions) were used to mask the sequence, and these were filtered to exclude problematic SNPs. References Sherry ST, Ward MH, Kholodov M, Baker J, Phan L, Smigielski EM, Sirotkin K. dbSNP: the NCBI database of genetic variation. Nucleic Acids Res. 2001 Jan 1;29(1):308-11. PMID: 11125122; PMC: PMC29783 
snp147Flagged Flagged SNPs(147) Simple Nucleotide Polymorphisms (dbSNP 147) Flagged by dbSNP as Clinically Assoc Variation Description This track contains information about a subset of the single nucleotide polymorphisms and small insertions and deletions (indels) — collectively Simple Nucleotide Polymorphisms — from dbSNP build 147, available from ftp.ncbi.nlm.nih.gov/snp. Only SNPs flagged as clinically associated by dbSNP, mapped to a single location in the reference genome assembly, and not known to have a minor allele frequency of at least 1%, are included in this subset. Frequency data are not available for all SNPs, so this subset probably includes some SNPs whose true minor allele frequency is 1% or greater. The significance of any particular variant in this track should be interpreted only by a trained medical geneticist using all available information. For example, some variants are included in this track because of their inclusion in a Locus-Specific Database (LSDB) or mention in OMIM, but are not thought to be disease-causing, so inclusion of a variant in this track is not necessarily an indicator of risk. Again, all available information must be carefully considered by a qualified professional. The remainder of this page is identical on the following tracks: Common SNPs(147) - SNPs with >= 1% minor allele frequency (MAF), mapping only once to reference assembly. Flagged SNPs(147) - SNPs < 1% minor allele frequency (MAF) (or unknown), mapping only once to reference assembly, flagged in dbSnp as "clinically associated" -- not necessarily a risk allele! Mult. SNPs(147) - SNPs mapping in more than one place on reference assembly. All SNPs(147) - all SNPs from dbSNP mapping to reference assembly. Interpreting and Configuring the Graphical Display Variants are shown as single tick marks at most zoom levels. When viewing the track at or near base-level resolution, the displayed width of the SNP corresponds to the width of the variant in the reference sequence. Insertions are indicated by a single tick mark displayed between two nucleotides, single nucleotide polymorphisms are displayed as the width of a single base, and multiple nucleotide variants are represented by a block that spans two or more bases. On the track controls page, SNPs can be colored and/or filtered from the display according to several attributes: Class: Describes the observed alleles Single - single nucleotide variation: all observed alleles are single nucleotides (can have 2, 3 or 4 alleles) In-del - insertion/deletion Heterozygous - heterozygous (undetermined) variation: allele contains string '(heterozygous)' Microsatellite - the observed allele from dbSNP is a variation in counts of short tandem repeats Named - the observed allele from dbSNP is given as a text name instead of raw sequence, e.g., (Alu)/- No Variation - the submission reports an invariant region in the surveyed sequence Mixed - the cluster contains submissions from multiple classes Multiple Nucleotide Polymorphism (MNP) - the alleles are all of the same length, and length > 1 Insertion - the polymorphism is an insertion relative to the reference assembly Deletion - the polymorphism is a deletion relative to the reference assembly Unknown - no classification provided by data contributor Validation: Method used to validate the variant (each variant may be validated by more than one method) By Frequency - at least one submitted SNP in cluster has frequency data submitted By Cluster - cluster has at least 2 submissions, with at least one submission assayed with a non-computational method By Submitter - at least one submitter SNP in cluster was validated by independent assay By 2 Hit/2 Allele - all alleles have been observed in at least 2 chromosomes By HapMap (human only) - submitted by HapMap project By 1000Genomes (human only) - submitted by 1000Genomes project Unknown - no validation has been reported for this variant Function: dbSNP's predicted functional effect of variant on RefSeq transcripts, both curated (NM_* and NR_*) as in the RefSeq Genes track and predicted (XM_* and XR_*), not shown in UCSC Genome Browser. A variant may have more than one functional role if it overlaps multiple transcripts. These terms and definitions are from the Sequence Ontology (SO); click on a term to view it in the MISO Sequence Ontology Browser. Unknown - no functional classification provided (possibly intergenic) synonymous_variant - A sequence variant where there is no resulting change to the encoded amino acid (dbSNP term: coding-synon) intron_variant - A transcript variant occurring within an intron (dbSNP term: intron) downstream_gene_variant - A sequence variant located 3' of a gene (dbSNP term: near-gene-3) upstream_gene_variant - A sequence variant located 5' of a gene (dbSNP term: near-gene-5) nc_transcript_variant - A transcript variant of a non coding RNA gene (dbSNP term: ncRNA) stop_gained - A sequence variant whereby at least one base of a codon is changed, resulting in a premature stop codon, leading to a shortened transcript (dbSNP term: nonsense) missense_variant - A sequence variant, where the change may be longer than 3 bases, and at least one base of a codon is changed resulting in a codon that encodes for a different amino acid (dbSNP term: missense) stop_lost - A sequence variant where at least one base of the terminator codon (stop) is changed, resulting in an elongated transcript (dbSNP term: stop-loss) frameshift_variant - A sequence variant which causes a disruption of the translational reading frame, because the number of nucleotides inserted or deleted is not a multiple of three (dbSNP term: frameshift) inframe_indel - A coding sequence variant where the change does not alter the frame of the transcript (dbSNP term: cds-indel) 3_prime_UTR_variant - A UTR variant of the 3' UTR (dbSNP term: untranslated-3) 5_prime_UTR_variant - A UTR variant of the 5' UTR (dbSNP term: untranslated-5) splice_acceptor_variant - A splice variant that changes the 2 base region at the 3' end of an intron (dbSNP term: splice-3) splice_donor_variant - A splice variant that changes the 2 base region at the 5' end of an intron (dbSNP term: splice-5) In the Coloring Options section of the track controls page, function terms are grouped into several categories, shown here with default colors: Locus: downstream_gene_variant, upstream_gene_variant Coding - Synonymous: synonymous_variant Coding - Non-Synonymous: stop_gained, missense_variant, stop_lost, frameshift_variant, inframe_indel Untranslated: 5_prime_UTR_variant, 3_prime_UTR_variant Intron: intron_variant Splice Site: splice_acceptor_variant, splice_donor_variant Non-coding (ncRNA): (nc_transcript_variant) are always colored blue. Molecule Type: Sample used to find this variant Genomic - variant discovered using a genomic template cDNA - variant discovered using a cDNA template Unknown - sample type not known Unusual Conditions (UCSC): UCSC checks for several anomalies that may indicate a problem with the mapping, and reports them in the Annotations section of the SNP details page if found: AlleleFreqSumNot1 - Allele frequencies do not sum to 1.0 (+-0.01). This SNP's allele frequency data are probably incomplete. DuplicateObserved, MixedObserved - Multiple distinct insertion SNPs have been mapped to this location, with either the same inserted sequence (Duplicate) or different inserted sequence (Mixed). FlankMismatchGenomeEqual, FlankMismatchGenomeLonger, FlankMismatchGenomeShorter - NCBI's alignment of the flanking sequences had at least one mismatch or gap near the mapped SNP position. (UCSC's re-alignment of flanking sequences to the genome may be informative.) MultipleAlignments - This SNP's flanking sequences align to more than one location in the reference assembly. NamedDeletionZeroSpan - A deletion (from the genome) was observed but the annotation spans 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) NamedInsertionNonzeroSpan - An insertion (into the genome) was observed but the annotation spans more than 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) NonIntegerChromCount - At least one allele frequency corresponds to a non-integer (+-0.010000) count of chromosomes on which the allele was observed. The reported total sample count for this SNP is probably incorrect. ObservedContainsIupac - At least one observed allele from dbSNP contains an IUPAC ambiguous base (e.g., R, Y, N). ObservedMismatch - UCSC reference allele does not match any observed allele from dbSNP. This is tested only for SNPs whose class is single, in-del, insertion, deletion, mnp or mixed. ObservedTooLong - Observed allele not given (length too long). ObservedWrongFormat - Observed allele(s) from dbSNP have unexpected format for the given class. RefAlleleMismatch - The reference allele from dbSNP does not match the UCSC reference allele, i.e., the bases in the mapped position range. RefAlleleRevComp - The reference allele from dbSNP matches the reverse complement of the UCSC reference allele. SingleClassLongerSpan - All observed alleles are single-base, but the annotation spans more than 1 base. (UCSC's re-alignment of flanking sequences to the genome may be informative.) SingleClassZeroSpan - All observed alleles are single-base, but the annotation spans 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) Another condition, which does not necessarily imply any problem, is noted: SingleClassTriAllelic, SingleClassQuadAllelic - Class is single and three or four different bases have been observed (usually there are only two). Miscellaneous Attributes (dbSNP): several properties extracted from dbSNP's SNP_bitfield table (see dbSNP_BitField_v5.pdf for details) Clinically Associated (human only) - SNP is in OMIM and/or at least one submitter is a Locus-Specific Database. This does not necessarily imply that the variant causes any disease, only that it has been observed in clinical studies. Appears in OMIM/OMIA - SNP is mentioned in Online Mendelian Inheritance in Man for human SNPs, or Online Mendelian Inheritance in Animals for non-human animal SNPs. Some of these SNPs are quite common, others are known to cause disease; see OMIM/OMIA for more information. Has Microattribution/Third-Party Annotation - At least one of the SNP's submitters studied this SNP in a biomedical setting, but is not a Locus-Specific Database or OMIM/OMIA. Submitted by Locus-Specific Database - At least one of the SNP's submitters is associated with a database of variants associated with a particular gene. These variants may or may not be known to be causative. MAF >= 5% in Some Population - Minor Allele Frequency is at least 5% in at least one population assayed. MAF >= 5% in All Populations - Minor Allele Frequency is at least 5% in all populations assayed. Genotype Conflict - Quality check: different genotypes have been submitted for the same individual. Ref SNP Cluster has Non-overlapping Alleles - Quality check: this reference SNP was clustered from submitted SNPs with non-overlapping sets of observed alleles. Some Assembly's Allele Does Not Match Observed - Quality check: at least one assembly mapped by dbSNP has an allele at the mapped position that is not present in this SNP's observed alleles. Several other properties do not have coloring options, but do have some filtering options: Average heterozygosity: Calculated by dbSNP as described in Computation of Average Heterozygosity and Standard Error for dbSNP RefSNP Clusters. Average heterozygosity should not exceed 0.5 for bi-allelic single-base substitutions. Weight: Alignment quality assigned by dbSNP. Before dbSNP build 147, weight had values 1, 2 or 3, with 1 being the highest quality (mapped to a single genomic location). As of dbSNP build 147, dbSNP now releases only the variants with weight 1. Submitter handles: These are short, single-word identifiers of labs or consortia that submitted SNPs that were clustered into this reference SNP by dbSNP (e.g., 1000GENOMES, ENSEMBL, KWOK). Some SNPs have been observed by many different submitters, and some by only a single submitter (although that single submitter may have tested a large number of samples). AlleleFrequencies: Some submissions to dbSNP include allele frequencies and the study's sample size (i.e., the number of distinct chromosomes, which is two times the number of individuals assayed, a.k.a. 2N). dbSNP combines all available frequencies and counts from submitted SNPs that are clustered together into a reference SNP. You can configure this track such that the details page displays the function and coding differences relative to particular gene sets. Choose the gene sets from the list on the SNP configuration page displayed beneath this heading: On details page, show function and coding differences relative to. When one or more gene tracks are selected, the SNP details page lists all genes that the SNP hits (or is close to), with the same keywords used in the function category. The function usually agrees with NCBI's function, except when NCBI's functional annotation is relative to an XM_* predicted RefSeq (not included in the UCSC Genome Browser's RefSeq Genes track) and/or UCSC's functional annotation is relative to a transcript that is not in RefSeq. Insertions/Deletions dbSNP uses a class called 'in-del'. We compare the length of the reference allele to the length(s) of observed alleles; if the reference allele is shorter than all other observed alleles, we change 'in-del' to 'insertion'. Likewise, if the reference allele is longer than all other observed alleles, we change 'in-del' to 'deletion'. UCSC Re-alignment of flanking sequences dbSNP determines the genomic locations of SNPs by aligning their flanking sequences to the genome. UCSC displays SNPs in the locations determined by dbSNP, but does not have access to the alignments on which dbSNP based its mappings. Instead, UCSC re-aligns the flanking sequences to the neighboring genomic sequence for display on SNP details pages. While the recomputed alignments may differ from dbSNP's alignments, they often are informative when UCSC has annotated an unusual condition. Non-repetitive genomic sequence is shown in upper case like the flanking sequence, and a "|" indicates each match between genomic and flanking bases. Repetitive genomic sequence (annotated by RepeatMasker and/or the Tandem Repeats Finder with period >= 12) is shown in lower case, and matching bases are indicated by a "+". Data Sources and Methods The data that comprise this track were extracted from database dump files and headers of fasta files downloaded from NCBI. The database dump files were downloaded from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b147_GRCh37p13/database/organism_data/ for hg19 and from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b147_GRCh38p2/database/organism_data/ for hg38. The fasta files were downloaded from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b147_GRCh37p13/rs_fasta/ for hg19 and from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b147_GRCh38p2/rs_fasta/ for hg38. Coordinates, orientation, location type and dbSNP reference allele data were obtained from b147_SNPContigLoc_N.bcp.gz and b147_ContigInfo_N.bcp.gz. (N = 105 for hg19, 107 for hg38) b147_SNPMapInfo_N.bcp.gz provided the alignment weights. Functional classification was obtained from b147_SNPContigLocusId_N.bcp.gz. The internal database representation uses dbSNP's function terms, but for display in SNP details pages, these are translated into Sequence Ontology terms. Validation status and heterozygosity were obtained from SNP.bcp.gz. SNPAlleleFreq.bcp.gz and ../shared/Allele.bcp.gz provided allele frequencies. For the human assembly, allele frequencies were also taken from SNPAlleleFreq_TGP.bcp.gz . Submitter handles were extracted from Batch.bcp.gz, SubSNP.bcp.gz and SNPSubSNPLink.bcp.gz. SNP_bitfield.bcp.gz provided miscellaneous properties annotated by dbSNP, such as clinically-associated. See the document dbSNP_BitField_v5.pdf for details. The header lines in the rs_fasta files were used for molecule type, class and observed polymorphism. Data Access The raw data can be explored interactively with the Table Browser, Data Integrator, or Variant Annotation Integrator. For automated analysis, the genome annotation can be downloaded from the downloads server for hg38 and hg19 (snp147*.txt.gz) or the public MySQL server. Please refer to our mailing list archives for questions and example queries, or our Data Access FAQ for more information. Orthologous Alleles (human assemblies only) For the human assembly, we provide a related table that contains orthologous alleles in the chimpanzee, orangutan and rhesus macaque reference genome assemblies. We use our liftOver utility to identify the orthologous alleles. The candidate human SNPs are a filtered list that meet the criteria: class = 'single' mapped position in the human reference genome is one base long aligned to only one location in the human reference genome not aligned to a chrN_random chrom biallelic (not tri- or quad-allelic) In some cases the orthologous allele is unknown; these are set to 'N'. If a lift was not possible, we set the orthologous allele to '?' and the orthologous start and end position to 0 (zero). Masked FASTA Files (human assemblies only) FASTA files that have been modified to use IUPAC ambiguous nucleotide characters at each base covered by a single-base substitution are available for download: GRCh37/hg19, GRCh38/hg38. Note that only single-base substitutions (no insertions or deletions) were used to mask the sequence, and these were filtered to exclude problematic SNPs. References Sherry ST, Ward MH, Kholodov M, Baker J, Phan L, Smigielski EM, Sirotkin K. dbSNP: the NCBI database of genetic variation. Nucleic Acids Res. 2001 Jan 1;29(1):308-11. PMID: 11125122; PMC: PMC29783 
snp147Common Common SNPs(147) Simple Nucleotide Polymorphisms (dbSNP 147) Found in >= 1% of Samples Variation Description This track contains information about a subset of the single nucleotide polymorphisms and small insertions and deletions (indels) — collectively Simple Nucleotide Polymorphisms — from dbSNP build 147, available from ftp.ncbi.nlm.nih.gov/snp. Only SNPs that have a minor allele frequency of at least 1% and are mapped to a single location in the reference genome assembly are included in this subset. Frequency data are not available for all SNPs, so this subset is incomplete. The selection of SNPs with a minor allele frequency of 1% or greater is an attempt to identify variants that appear to be reasonably common in the general population. Taken as a set, common variants should be less likely to be associated with severe genetic diseases due to the effects of natural selection, following the view that deleterious variants are not likely to become common in the population. However, the significance of any particular variant should be interpreted only by a trained medical geneticist using all available information. The remainder of this page is identical on the following tracks: Common SNPs(147) - SNPs with >= 1% minor allele frequency (MAF), mapping only once to reference assembly. Flagged SNPs(147) - SNPs < 1% minor allele frequency (MAF) (or unknown), mapping only once to reference assembly, flagged in dbSnp as "clinically associated" -- not necessarily a risk allele! Mult. SNPs(147) - SNPs mapping in more than one place on reference assembly. All SNPs(147) - all SNPs from dbSNP mapping to reference assembly. Interpreting and Configuring the Graphical Display Variants are shown as single tick marks at most zoom levels. When viewing the track at or near base-level resolution, the displayed width of the SNP corresponds to the width of the variant in the reference sequence. Insertions are indicated by a single tick mark displayed between two nucleotides, single nucleotide polymorphisms are displayed as the width of a single base, and multiple nucleotide variants are represented by a block that spans two or more bases. On the track controls page, SNPs can be colored and/or filtered from the display according to several attributes: Class: Describes the observed alleles Single - single nucleotide variation: all observed alleles are single nucleotides (can have 2, 3 or 4 alleles) In-del - insertion/deletion Heterozygous - heterozygous (undetermined) variation: allele contains string '(heterozygous)' Microsatellite - the observed allele from dbSNP is a variation in counts of short tandem repeats Named - the observed allele from dbSNP is given as a text name instead of raw sequence, e.g., (Alu)/- No Variation - the submission reports an invariant region in the surveyed sequence Mixed - the cluster contains submissions from multiple classes Multiple Nucleotide Polymorphism (MNP) - the alleles are all of the same length, and length > 1 Insertion - the polymorphism is an insertion relative to the reference assembly Deletion - the polymorphism is a deletion relative to the reference assembly Unknown - no classification provided by data contributor Validation: Method used to validate the variant (each variant may be validated by more than one method) By Frequency - at least one submitted SNP in cluster has frequency data submitted By Cluster - cluster has at least 2 submissions, with at least one submission assayed with a non-computational method By Submitter - at least one submitter SNP in cluster was validated by independent assay By 2 Hit/2 Allele - all alleles have been observed in at least 2 chromosomes By HapMap (human only) - submitted by HapMap project By 1000Genomes (human only) - submitted by 1000Genomes project Unknown - no validation has been reported for this variant Function: dbSNP's predicted functional effect of variant on RefSeq transcripts, both curated (NM_* and NR_*) as in the RefSeq Genes track and predicted (XM_* and XR_*), not shown in UCSC Genome Browser. A variant may have more than one functional role if it overlaps multiple transcripts. These terms and definitions are from the Sequence Ontology (SO); click on a term to view it in the MISO Sequence Ontology Browser. Unknown - no functional classification provided (possibly intergenic) synonymous_variant - A sequence variant where there is no resulting change to the encoded amino acid (dbSNP term: coding-synon) intron_variant - A transcript variant occurring within an intron (dbSNP term: intron) downstream_gene_variant - A sequence variant located 3' of a gene (dbSNP term: near-gene-3) upstream_gene_variant - A sequence variant located 5' of a gene (dbSNP term: near-gene-5) nc_transcript_variant - A transcript variant of a non coding RNA gene (dbSNP term: ncRNA) stop_gained - A sequence variant whereby at least one base of a codon is changed, resulting in a premature stop codon, leading to a shortened transcript (dbSNP term: nonsense) missense_variant - A sequence variant, where the change may be longer than 3 bases, and at least one base of a codon is changed resulting in a codon that encodes for a different amino acid (dbSNP term: missense) stop_lost - A sequence variant where at least one base of the terminator codon (stop) is changed, resulting in an elongated transcript (dbSNP term: stop-loss) frameshift_variant - A sequence variant which causes a disruption of the translational reading frame, because the number of nucleotides inserted or deleted is not a multiple of three (dbSNP term: frameshift) inframe_indel - A coding sequence variant where the change does not alter the frame of the transcript (dbSNP term: cds-indel) 3_prime_UTR_variant - A UTR variant of the 3' UTR (dbSNP term: untranslated-3) 5_prime_UTR_variant - A UTR variant of the 5' UTR (dbSNP term: untranslated-5) splice_acceptor_variant - A splice variant that changes the 2 base region at the 3' end of an intron (dbSNP term: splice-3) splice_donor_variant - A splice variant that changes the 2 base region at the 5' end of an intron (dbSNP term: splice-5) In the Coloring Options section of the track controls page, function terms are grouped into several categories, shown here with default colors: Locus: downstream_gene_variant, upstream_gene_variant Coding - Synonymous: synonymous_variant Coding - Non-Synonymous: stop_gained, missense_variant, stop_lost, frameshift_variant, inframe_indel Untranslated: 5_prime_UTR_variant, 3_prime_UTR_variant Intron: intron_variant Splice Site: splice_acceptor_variant, splice_donor_variant Non-coding (ncRNA): (nc_transcript_variant) are always colored blue. Molecule Type: Sample used to find this variant Genomic - variant discovered using a genomic template cDNA - variant discovered using a cDNA template Unknown - sample type not known Unusual Conditions (UCSC): UCSC checks for several anomalies that may indicate a problem with the mapping, and reports them in the Annotations section of the SNP details page if found: AlleleFreqSumNot1 - Allele frequencies do not sum to 1.0 (+-0.01). This SNP's allele frequency data are probably incomplete. DuplicateObserved, MixedObserved - Multiple distinct insertion SNPs have been mapped to this location, with either the same inserted sequence (Duplicate) or different inserted sequence (Mixed). FlankMismatchGenomeEqual, FlankMismatchGenomeLonger, FlankMismatchGenomeShorter - NCBI's alignment of the flanking sequences had at least one mismatch or gap near the mapped SNP position. (UCSC's re-alignment of flanking sequences to the genome may be informative.) MultipleAlignments - This SNP's flanking sequences align to more than one location in the reference assembly. NamedDeletionZeroSpan - A deletion (from the genome) was observed but the annotation spans 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) NamedInsertionNonzeroSpan - An insertion (into the genome) was observed but the annotation spans more than 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) NonIntegerChromCount - At least one allele frequency corresponds to a non-integer (+-0.010000) count of chromosomes on which the allele was observed. The reported total sample count for this SNP is probably incorrect. ObservedContainsIupac - At least one observed allele from dbSNP contains an IUPAC ambiguous base (e.g., R, Y, N). ObservedMismatch - UCSC reference allele does not match any observed allele from dbSNP. This is tested only for SNPs whose class is single, in-del, insertion, deletion, mnp or mixed. ObservedTooLong - Observed allele not given (length too long). ObservedWrongFormat - Observed allele(s) from dbSNP have unexpected format for the given class. RefAlleleMismatch - The reference allele from dbSNP does not match the UCSC reference allele, i.e., the bases in the mapped position range. RefAlleleRevComp - The reference allele from dbSNP matches the reverse complement of the UCSC reference allele. SingleClassLongerSpan - All observed alleles are single-base, but the annotation spans more than 1 base. (UCSC's re-alignment of flanking sequences to the genome may be informative.) SingleClassZeroSpan - All observed alleles are single-base, but the annotation spans 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) Another condition, which does not necessarily imply any problem, is noted: SingleClassTriAllelic, SingleClassQuadAllelic - Class is single and three or four different bases have been observed (usually there are only two). Miscellaneous Attributes (dbSNP): several properties extracted from dbSNP's SNP_bitfield table (see dbSNP_BitField_v5.pdf for details) Clinically Associated (human only) - SNP is in OMIM and/or at least one submitter is a Locus-Specific Database. This does not necessarily imply that the variant causes any disease, only that it has been observed in clinical studies. Appears in OMIM/OMIA - SNP is mentioned in Online Mendelian Inheritance in Man for human SNPs, or Online Mendelian Inheritance in Animals for non-human animal SNPs. Some of these SNPs are quite common, others are known to cause disease; see OMIM/OMIA for more information. Has Microattribution/Third-Party Annotation - At least one of the SNP's submitters studied this SNP in a biomedical setting, but is not a Locus-Specific Database or OMIM/OMIA. Submitted by Locus-Specific Database - At least one of the SNP's submitters is associated with a database of variants associated with a particular gene. These variants may or may not be known to be causative. MAF >= 5% in Some Population - Minor Allele Frequency is at least 5% in at least one population assayed. MAF >= 5% in All Populations - Minor Allele Frequency is at least 5% in all populations assayed. Genotype Conflict - Quality check: different genotypes have been submitted for the same individual. Ref SNP Cluster has Non-overlapping Alleles - Quality check: this reference SNP was clustered from submitted SNPs with non-overlapping sets of observed alleles. Some Assembly's Allele Does Not Match Observed - Quality check: at least one assembly mapped by dbSNP has an allele at the mapped position that is not present in this SNP's observed alleles. Several other properties do not have coloring options, but do have some filtering options: Average heterozygosity: Calculated by dbSNP as described in Computation of Average Heterozygosity and Standard Error for dbSNP RefSNP Clusters. Average heterozygosity should not exceed 0.5 for bi-allelic single-base substitutions. Weight: Alignment quality assigned by dbSNP. Before dbSNP build 147, weight had values 1, 2 or 3, with 1 being the highest quality (mapped to a single genomic location). As of dbSNP build 147, dbSNP now releases only the variants with weight 1. Submitter handles: These are short, single-word identifiers of labs or consortia that submitted SNPs that were clustered into this reference SNP by dbSNP (e.g., 1000GENOMES, ENSEMBL, KWOK). Some SNPs have been observed by many different submitters, and some by only a single submitter (although that single submitter may have tested a large number of samples). AlleleFrequencies: Some submissions to dbSNP include allele frequencies and the study's sample size (i.e., the number of distinct chromosomes, which is two times the number of individuals assayed, a.k.a. 2N). dbSNP combines all available frequencies and counts from submitted SNPs that are clustered together into a reference SNP. You can configure this track such that the details page displays the function and coding differences relative to particular gene sets. Choose the gene sets from the list on the SNP configuration page displayed beneath this heading: On details page, show function and coding differences relative to. When one or more gene tracks are selected, the SNP details page lists all genes that the SNP hits (or is close to), with the same keywords used in the function category. The function usually agrees with NCBI's function, except when NCBI's functional annotation is relative to an XM_* predicted RefSeq (not included in the UCSC Genome Browser's RefSeq Genes track) and/or UCSC's functional annotation is relative to a transcript that is not in RefSeq. Insertions/Deletions dbSNP uses a class called 'in-del'. We compare the length of the reference allele to the length(s) of observed alleles; if the reference allele is shorter than all other observed alleles, we change 'in-del' to 'insertion'. Likewise, if the reference allele is longer than all other observed alleles, we change 'in-del' to 'deletion'. UCSC Re-alignment of flanking sequences dbSNP determines the genomic locations of SNPs by aligning their flanking sequences to the genome. UCSC displays SNPs in the locations determined by dbSNP, but does not have access to the alignments on which dbSNP based its mappings. Instead, UCSC re-aligns the flanking sequences to the neighboring genomic sequence for display on SNP details pages. While the recomputed alignments may differ from dbSNP's alignments, they often are informative when UCSC has annotated an unusual condition. Non-repetitive genomic sequence is shown in upper case like the flanking sequence, and a "|" indicates each match between genomic and flanking bases. Repetitive genomic sequence (annotated by RepeatMasker and/or the Tandem Repeats Finder with period >= 12) is shown in lower case, and matching bases are indicated by a "+". Data Sources and Methods The data that comprise this track were extracted from database dump files and headers of fasta files downloaded from NCBI. The database dump files were downloaded from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b147_GRCh37p13/database/organism_data/ for hg19 and from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b147_GRCh38p2/database/organism_data/ for hg38. The fasta files were downloaded from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b147_GRCh37p13/rs_fasta/ for hg19 and from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b147_GRCh38p2/rs_fasta/ for hg38. Coordinates, orientation, location type and dbSNP reference allele data were obtained from b147_SNPContigLoc_N.bcp.gz and b147_ContigInfo_N.bcp.gz. (N = 105 for hg19, 107 for hg38) b147_SNPMapInfo_N.bcp.gz provided the alignment weights. Functional classification was obtained from b147_SNPContigLocusId_N.bcp.gz. The internal database representation uses dbSNP's function terms, but for display in SNP details pages, these are translated into Sequence Ontology terms. Validation status and heterozygosity were obtained from SNP.bcp.gz. SNPAlleleFreq.bcp.gz and ../shared/Allele.bcp.gz provided allele frequencies. For the human assembly, allele frequencies were also taken from SNPAlleleFreq_TGP.bcp.gz . Submitter handles were extracted from Batch.bcp.gz, SubSNP.bcp.gz and SNPSubSNPLink.bcp.gz. SNP_bitfield.bcp.gz provided miscellaneous properties annotated by dbSNP, such as clinically-associated. See the document dbSNP_BitField_v5.pdf for details. The header lines in the rs_fasta files were used for molecule type, class and observed polymorphism. Data Access The raw data can be explored interactively with the Table Browser, Data Integrator, or Variant Annotation Integrator. For automated analysis, the genome annotation can be downloaded from the downloads server for hg38 and hg19 (snp147*.txt.gz) or the public MySQL server. Please refer to our mailing list archives for questions and example queries, or our Data Access FAQ for more information. Orthologous Alleles (human assemblies only) For the human assembly, we provide a related table that contains orthologous alleles in the chimpanzee, orangutan and rhesus macaque reference genome assemblies. We use our liftOver utility to identify the orthologous alleles. The candidate human SNPs are a filtered list that meet the criteria: class = 'single' mapped position in the human reference genome is one base long aligned to only one location in the human reference genome not aligned to a chrN_random chrom biallelic (not tri- or quad-allelic) In some cases the orthologous allele is unknown; these are set to 'N'. If a lift was not possible, we set the orthologous allele to '?' and the orthologous start and end position to 0 (zero). Masked FASTA Files (human assemblies only) FASTA files that have been modified to use IUPAC ambiguous nucleotide characters at each base covered by a single-base substitution are available for download: GRCh37/hg19, GRCh38/hg38. Note that only single-base substitutions (no insertions or deletions) were used to mask the sequence, and these were filtered to exclude problematic SNPs. References Sherry ST, Ward MH, Kholodov M, Baker J, Phan L, Smigielski EM, Sirotkin K. dbSNP: the NCBI database of genetic variation. Nucleic Acids Res. 2001 Jan 1;29(1):308-11. PMID: 11125122; PMC: PMC29783 
snp147 All SNPs(147) Simple Nucleotide Polymorphisms (dbSNP 147) Variation Description This track contains information about single nucleotide polymorphisms and small insertions and deletions (indels) — collectively Simple Nucleotide Polymorphisms — from dbSNP build 147, available from ftp.ncbi.nlm.nih.gov/snp. Three tracks contain subsets of the items in this track: Common SNPs(147): SNPs that have a minor allele frequency of at least 1% and are mapped to a single location in the reference genome assembly. Frequency data are not available for all SNPs, so this subset is incomplete. Flagged SNPs(147): SNPs flagged as clinically associated by dbSNP, mapped to a single location in the reference genome assembly, and not known to have a minor allele frequency of at least 1%. Frequency data are not available for all SNPs, so this subset may include some SNPs whose true minor allele frequency is 1% or greater. Mult. SNPs(147): SNPs that have been mapped to multiple locations in the reference genome assembly. The default maximum weight for this track is 1, so unless the setting is changed in the track controls, SNPs that map to multiple genomic locations will be omitted from display. When a SNP's flanking sequences map to multiple locations in the reference genome, it calls into question whether there is true variation at those sites, or whether the sequences at those sites are merely highly similar but not identical. The remainder of this page is identical on the following tracks: Common SNPs(147) - SNPs with >= 1% minor allele frequency (MAF), mapping only once to reference assembly. Flagged SNPs(147) - SNPs < 1% minor allele frequency (MAF) (or unknown), mapping only once to reference assembly, flagged in dbSnp as "clinically associated" -- not necessarily a risk allele! Mult. SNPs(147) - SNPs mapping in more than one place on reference assembly. All SNPs(147) - all SNPs from dbSNP mapping to reference assembly. Interpreting and Configuring the Graphical Display Variants are shown as single tick marks at most zoom levels. When viewing the track at or near base-level resolution, the displayed width of the SNP corresponds to the width of the variant in the reference sequence. Insertions are indicated by a single tick mark displayed between two nucleotides, single nucleotide polymorphisms are displayed as the width of a single base, and multiple nucleotide variants are represented by a block that spans two or more bases. On the track controls page, SNPs can be colored and/or filtered from the display according to several attributes: Class: Describes the observed alleles Single - single nucleotide variation: all observed alleles are single nucleotides (can have 2, 3 or 4 alleles) In-del - insertion/deletion Heterozygous - heterozygous (undetermined) variation: allele contains string '(heterozygous)' Microsatellite - the observed allele from dbSNP is a variation in counts of short tandem repeats Named - the observed allele from dbSNP is given as a text name instead of raw sequence, e.g., (Alu)/- No Variation - the submission reports an invariant region in the surveyed sequence Mixed - the cluster contains submissions from multiple classes Multiple Nucleotide Polymorphism (MNP) - the alleles are all of the same length, and length > 1 Insertion - the polymorphism is an insertion relative to the reference assembly Deletion - the polymorphism is a deletion relative to the reference assembly Unknown - no classification provided by data contributor Validation: Method used to validate the variant (each variant may be validated by more than one method) By Frequency - at least one submitted SNP in cluster has frequency data submitted By Cluster - cluster has at least 2 submissions, with at least one submission assayed with a non-computational method By Submitter - at least one submitter SNP in cluster was validated by independent assay By 2 Hit/2 Allele - all alleles have been observed in at least 2 chromosomes By HapMap (human only) - submitted by HapMap project By 1000Genomes (human only) - submitted by 1000Genomes project Unknown - no validation has been reported for this variant Function: dbSNP's predicted functional effect of variant on RefSeq transcripts, both curated (NM_* and NR_*) as in the RefSeq Genes track and predicted (XM_* and XR_*), not shown in UCSC Genome Browser. A variant may have more than one functional role if it overlaps multiple transcripts. These terms and definitions are from the Sequence Ontology (SO); click on a term to view it in the MISO Sequence Ontology Browser. Unknown - no functional classification provided (possibly intergenic) synonymous_variant - A sequence variant where there is no resulting change to the encoded amino acid (dbSNP term: coding-synon) intron_variant - A transcript variant occurring within an intron (dbSNP term: intron) downstream_gene_variant - A sequence variant located 3' of a gene (dbSNP term: near-gene-3) upstream_gene_variant - A sequence variant located 5' of a gene (dbSNP term: near-gene-5) nc_transcript_variant - A transcript variant of a non coding RNA gene (dbSNP term: ncRNA) stop_gained - A sequence variant whereby at least one base of a codon is changed, resulting in a premature stop codon, leading to a shortened transcript (dbSNP term: nonsense) missense_variant - A sequence variant, where the change may be longer than 3 bases, and at least one base of a codon is changed resulting in a codon that encodes for a different amino acid (dbSNP term: missense) stop_lost - A sequence variant where at least one base of the terminator codon (stop) is changed, resulting in an elongated transcript (dbSNP term: stop-loss) frameshift_variant - A sequence variant which causes a disruption of the translational reading frame, because the number of nucleotides inserted or deleted is not a multiple of three (dbSNP term: frameshift) inframe_indel - A coding sequence variant where the change does not alter the frame of the transcript (dbSNP term: cds-indel) 3_prime_UTR_variant - A UTR variant of the 3' UTR (dbSNP term: untranslated-3) 5_prime_UTR_variant - A UTR variant of the 5' UTR (dbSNP term: untranslated-5) splice_acceptor_variant - A splice variant that changes the 2 base region at the 3' end of an intron (dbSNP term: splice-3) splice_donor_variant - A splice variant that changes the 2 base region at the 5' end of an intron (dbSNP term: splice-5) In the Coloring Options section of the track controls page, function terms are grouped into several categories, shown here with default colors: Locus: downstream_gene_variant, upstream_gene_variant Coding - Synonymous: synonymous_variant Coding - Non-Synonymous: stop_gained, missense_variant, stop_lost, frameshift_variant, inframe_indel Untranslated: 5_prime_UTR_variant, 3_prime_UTR_variant Intron: intron_variant Splice Site: splice_acceptor_variant, splice_donor_variant Non-coding (ncRNA): (nc_transcript_variant) are always colored blue. Molecule Type: Sample used to find this variant Genomic - variant discovered using a genomic template cDNA - variant discovered using a cDNA template Unknown - sample type not known Unusual Conditions (UCSC): UCSC checks for several anomalies that may indicate a problem with the mapping, and reports them in the Annotations section of the SNP details page if found: AlleleFreqSumNot1 - Allele frequencies do not sum to 1.0 (+-0.01). This SNP's allele frequency data are probably incomplete. DuplicateObserved, MixedObserved - Multiple distinct insertion SNPs have been mapped to this location, with either the same inserted sequence (Duplicate) or different inserted sequence (Mixed). FlankMismatchGenomeEqual, FlankMismatchGenomeLonger, FlankMismatchGenomeShorter - NCBI's alignment of the flanking sequences had at least one mismatch or gap near the mapped SNP position. (UCSC's re-alignment of flanking sequences to the genome may be informative.) MultipleAlignments - This SNP's flanking sequences align to more than one location in the reference assembly. NamedDeletionZeroSpan - A deletion (from the genome) was observed but the annotation spans 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) NamedInsertionNonzeroSpan - An insertion (into the genome) was observed but the annotation spans more than 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) NonIntegerChromCount - At least one allele frequency corresponds to a non-integer (+-0.010000) count of chromosomes on which the allele was observed. The reported total sample count for this SNP is probably incorrect. ObservedContainsIupac - At least one observed allele from dbSNP contains an IUPAC ambiguous base (e.g., R, Y, N). ObservedMismatch - UCSC reference allele does not match any observed allele from dbSNP. This is tested only for SNPs whose class is single, in-del, insertion, deletion, mnp or mixed. ObservedTooLong - Observed allele not given (length too long). ObservedWrongFormat - Observed allele(s) from dbSNP have unexpected format for the given class. RefAlleleMismatch - The reference allele from dbSNP does not match the UCSC reference allele, i.e., the bases in the mapped position range. RefAlleleRevComp - The reference allele from dbSNP matches the reverse complement of the UCSC reference allele. SingleClassLongerSpan - All observed alleles are single-base, but the annotation spans more than 1 base. (UCSC's re-alignment of flanking sequences to the genome may be informative.) SingleClassZeroSpan - All observed alleles are single-base, but the annotation spans 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) Another condition, which does not necessarily imply any problem, is noted: SingleClassTriAllelic, SingleClassQuadAllelic - Class is single and three or four different bases have been observed (usually there are only two). Miscellaneous Attributes (dbSNP): several properties extracted from dbSNP's SNP_bitfield table (see dbSNP_BitField_v5.pdf for details) Clinically Associated (human only) - SNP is in OMIM and/or at least one submitter is a Locus-Specific Database. This does not necessarily imply that the variant causes any disease, only that it has been observed in clinical studies. Appears in OMIM/OMIA - SNP is mentioned in Online Mendelian Inheritance in Man for human SNPs, or Online Mendelian Inheritance in Animals for non-human animal SNPs. Some of these SNPs are quite common, others are known to cause disease; see OMIM/OMIA for more information. Has Microattribution/Third-Party Annotation - At least one of the SNP's submitters studied this SNP in a biomedical setting, but is not a Locus-Specific Database or OMIM/OMIA. Submitted by Locus-Specific Database - At least one of the SNP's submitters is associated with a database of variants associated with a particular gene. These variants may or may not be known to be causative. MAF >= 5% in Some Population - Minor Allele Frequency is at least 5% in at least one population assayed. MAF >= 5% in All Populations - Minor Allele Frequency is at least 5% in all populations assayed. Genotype Conflict - Quality check: different genotypes have been submitted for the same individual. Ref SNP Cluster has Non-overlapping Alleles - Quality check: this reference SNP was clustered from submitted SNPs with non-overlapping sets of observed alleles. Some Assembly's Allele Does Not Match Observed - Quality check: at least one assembly mapped by dbSNP has an allele at the mapped position that is not present in this SNP's observed alleles. Several other properties do not have coloring options, but do have some filtering options: Average heterozygosity: Calculated by dbSNP as described in Computation of Average Heterozygosity and Standard Error for dbSNP RefSNP Clusters. Average heterozygosity should not exceed 0.5 for bi-allelic single-base substitutions. Weight: Alignment quality assigned by dbSNP. Before dbSNP build 147, weight had values 1, 2 or 3, with 1 being the highest quality (mapped to a single genomic location). As of dbSNP build 147, dbSNP now releases only the variants with weight 1. Submitter handles: These are short, single-word identifiers of labs or consortia that submitted SNPs that were clustered into this reference SNP by dbSNP (e.g., 1000GENOMES, ENSEMBL, KWOK). Some SNPs have been observed by many different submitters, and some by only a single submitter (although that single submitter may have tested a large number of samples). AlleleFrequencies: Some submissions to dbSNP include allele frequencies and the study's sample size (i.e., the number of distinct chromosomes, which is two times the number of individuals assayed, a.k.a. 2N). dbSNP combines all available frequencies and counts from submitted SNPs that are clustered together into a reference SNP. You can configure this track such that the details page displays the function and coding differences relative to particular gene sets. Choose the gene sets from the list on the SNP configuration page displayed beneath this heading: On details page, show function and coding differences relative to. When one or more gene tracks are selected, the SNP details page lists all genes that the SNP hits (or is close to), with the same keywords used in the function category. The function usually agrees with NCBI's function, except when NCBI's functional annotation is relative to an XM_* predicted RefSeq (not included in the UCSC Genome Browser's RefSeq Genes track) and/or UCSC's functional annotation is relative to a transcript that is not in RefSeq. Insertions/Deletions dbSNP uses a class called 'in-del'. We compare the length of the reference allele to the length(s) of observed alleles; if the reference allele is shorter than all other observed alleles, we change 'in-del' to 'insertion'. Likewise, if the reference allele is longer than all other observed alleles, we change 'in-del' to 'deletion'. UCSC Re-alignment of flanking sequences dbSNP determines the genomic locations of SNPs by aligning their flanking sequences to the genome. UCSC displays SNPs in the locations determined by dbSNP, but does not have access to the alignments on which dbSNP based its mappings. Instead, UCSC re-aligns the flanking sequences to the neighboring genomic sequence for display on SNP details pages. While the recomputed alignments may differ from dbSNP's alignments, they often are informative when UCSC has annotated an unusual condition. Non-repetitive genomic sequence is shown in upper case like the flanking sequence, and a "|" indicates each match between genomic and flanking bases. Repetitive genomic sequence (annotated by RepeatMasker and/or the Tandem Repeats Finder with period >= 12) is shown in lower case, and matching bases are indicated by a "+". Data Sources and Methods The data that comprise this track were extracted from database dump files and headers of fasta files downloaded from NCBI. The database dump files were downloaded from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b147_GRCh37p13/database/organism_data/ for hg19 and from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b147_GRCh38p2/database/organism_data/ for hg38. The fasta files were downloaded from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b147_GRCh37p13/rs_fasta/ for hg19 and from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b147_GRCh38p2/rs_fasta/ for hg38. Coordinates, orientation, location type and dbSNP reference allele data were obtained from b147_SNPContigLoc_N.bcp.gz and b147_ContigInfo_N.bcp.gz. (N = 105 for hg19, 107 for hg38) b147_SNPMapInfo_N.bcp.gz provided the alignment weights. Functional classification was obtained from b147_SNPContigLocusId_N.bcp.gz. The internal database representation uses dbSNP's function terms, but for display in SNP details pages, these are translated into Sequence Ontology terms. Validation status and heterozygosity were obtained from SNP.bcp.gz. SNPAlleleFreq.bcp.gz and ../shared/Allele.bcp.gz provided allele frequencies. For the human assembly, allele frequencies were also taken from SNPAlleleFreq_TGP.bcp.gz . Submitter handles were extracted from Batch.bcp.gz, SubSNP.bcp.gz and SNPSubSNPLink.bcp.gz. SNP_bitfield.bcp.gz provided miscellaneous properties annotated by dbSNP, such as clinically-associated. See the document dbSNP_BitField_v5.pdf for details. The header lines in the rs_fasta files were used for molecule type, class and observed polymorphism. Data Access The raw data can be explored interactively with the Table Browser, Data Integrator, or Variant Annotation Integrator. For automated analysis, the genome annotation can be downloaded from the downloads server for hg38 and hg19 (snp147*.txt.gz) or the public MySQL server. Please refer to our mailing list archives for questions and example queries, or our Data Access FAQ for more information. Orthologous Alleles (human assemblies only) For the human assembly, we provide a related table that contains orthologous alleles in the chimpanzee, orangutan and rhesus macaque reference genome assemblies. We use our liftOver utility to identify the orthologous alleles. The candidate human SNPs are a filtered list that meet the criteria: class = 'single' mapped position in the human reference genome is one base long aligned to only one location in the human reference genome not aligned to a chrN_random chrom biallelic (not tri- or quad-allelic) In some cases the orthologous allele is unknown; these are set to 'N'. If a lift was not possible, we set the orthologous allele to '?' and the orthologous start and end position to 0 (zero). Masked FASTA Files (human assemblies only) FASTA files that have been modified to use IUPAC ambiguous nucleotide characters at each base covered by a single-base substitution are available for download: GRCh37/hg19, GRCh38/hg38. Note that only single-base substitutions (no insertions or deletions) were used to mask the sequence, and these were filtered to exclude problematic SNPs. References Sherry ST, Ward MH, Kholodov M, Baker J, Phan L, Smigielski EM, Sirotkin K. dbSNP: the NCBI database of genetic variation. Nucleic Acids Res. 2001 Jan 1;29(1):308-11. PMID: 11125122; PMC: PMC29783 
snp146Mult Mult. SNPs(146) Simple Nucleotide Polymorphisms (dbSNP 146) That Map to Multiple Genomic Loci Variation Description This track contains information about a subset of the single nucleotide polymorphisms and small insertions and deletions (indels) — collectively Simple Nucleotide Polymorphisms — from dbSNP build 146, available from ftp.ncbi.nih.gov/snp. Only SNPs that have been mapped to multiple locations in the reference genome assembly are included in this subset. When a SNP's flanking sequences map to multiple locations in the reference genome, it calls into question whether there is true variation at those sites, or whether the sequences at those sites are merely highly similar but not identical. The default maximum weight for this track is 3, unlike the other dbSNP build 146 tracks which have a maximum weight of 1. That enables these multiply-mapped SNPs to appear in the display, while by default they will not appear in the All SNPs(146) track because of its maximum weight filter. The remainder of this page is identical on the following tracks: Common SNPs(146) - SNPs with >= 1% minor allele frequency (MAF), mapping only once to reference assembly. Flagged SNPs(146) - SNPs < 1% minor allele frequency (MAF) (or unknown), mapping only once to reference assembly, flagged in dbSnp as "clinically associated" -- not necessarily a risk allele! Mult. SNPs(146) - SNPs mapping in more than one place on reference assembly. All SNPs(146) - all SNPs from dbSNP mapping to reference assembly. Interpreting and Configuring the Graphical Display Variants are shown as single tick marks at most zoom levels. When viewing the track at or near base-level resolution, the displayed width of the SNP corresponds to the width of the variant in the reference sequence. Insertions are indicated by a single tick mark displayed between two nucleotides, single nucleotide polymorphisms are displayed as the width of a single base, and multiple nucleotide variants are represented by a block that spans two or more bases. On the track controls page, SNPs can be colored and/or filtered from the display according to several attributes: Class: Describes the observed alleles Single - single nucleotide variation: all observed alleles are single nucleotides (can have 2, 3 or 4 alleles) In-del - insertion/deletion Heterozygous - heterozygous (undetermined) variation: allele contains string '(heterozygous)' Microsatellite - the observed allele from dbSNP is a variation in counts of short tandem repeats Named - the observed allele from dbSNP is given as a text name instead of raw sequence, e.g., (Alu)/- No Variation - the submission reports an invariant region in the surveyed sequence Mixed - the cluster contains submissions from multiple classes Multiple Nucleotide Polymorphism (MNP) - the alleles are all of the same length, and length > 1 Insertion - the polymorphism is an insertion relative to the reference assembly Deletion - the polymorphism is a deletion relative to the reference assembly Unknown - no classification provided by data contributor Validation: Method used to validate the variant (each variant may be validated by more than one method) By Frequency - at least one submitted SNP in cluster has frequency data submitted By Cluster - cluster has at least 2 submissions, with at least one submission assayed with a non-computational method By Submitter - at least one submitter SNP in cluster was validated by independent assay By 2 Hit/2 Allele - all alleles have been observed in at least 2 chromosomes By HapMap (human only) - submitted by HapMap project By 1000Genomes (human only) - submitted by 1000Genomes project Unknown - no validation has been reported for this variant Function: dbSNP's predicted functional effect of variant on RefSeq transcripts, both curated (NM_* and NR_*) as in the RefSeq Genes track and predicted (XM_* and XR_*), not shown in UCSC Genome Browser. A variant may have more than one functional role if it overlaps multiple transcripts. These terms and definitions are from the Sequence Ontology (SO); click on a term to view it in the MISO Sequence Ontology Browser. Unknown - no functional classification provided (possibly intergenic) synonymous_variant - A sequence variant where there is no resulting change to the encoded amino acid (dbSNP term: coding-synon) intron_variant - A transcript variant occurring within an intron (dbSNP term: intron) downstream_gene_variant - A sequence variant located 3' of a gene (dbSNP term: near-gene-3) upstream_gene_variant - A sequence variant located 5' of a gene (dbSNP term: near-gene-5) nc_transcript_variant - A transcript variant of a non coding RNA gene (dbSNP term: ncRNA) stop_gained - A sequence variant whereby at least one base of a codon is changed, resulting in a premature stop codon, leading to a shortened transcript (dbSNP term: nonsense) missense_variant - A sequence variant, where the change may be longer than 3 bases, and at least one base of a codon is changed resulting in a codon that encodes for a different amino acid (dbSNP term: missense) stop_lost - A sequence variant where at least one base of the terminator codon (stop) is changed, resulting in an elongated transcript (dbSNP term: stop-loss) frameshift_variant - A sequence variant which causes a disruption of the translational reading frame, because the number of nucleotides inserted or deleted is not a multiple of three (dbSNP term: frameshift) inframe_indel - A coding sequence variant where the change does not alter the frame of the transcript (dbSNP term: cds-indel) 3_prime_UTR_variant - A UTR variant of the 3' UTR (dbSNP term: untranslated-3) 5_prime_UTR_variant - A UTR variant of the 5' UTR (dbSNP term: untranslated-5) splice_acceptor_variant - A splice variant that changes the 2 base region at the 3' end of an intron (dbSNP term: splice-3) splice_donor_variant - A splice variant that changes the 2 base region at the 5' end of an intron (dbSNP term: splice-5) In the Coloring Options section of the track controls page, function terms are grouped into several categories, shown here with default colors: Locus: downstream_gene_variant, upstream_gene_variant Coding - Synonymous: synonymous_variant Coding - Non-Synonymous: stop_gained, missense_variant, stop_lost, frameshift_variant, inframe_indel Untranslated: 5_prime_UTR_variant, 3_prime_UTR_variant Intron: intron_variant Splice Site: splice_acceptor_variant, splice_donor_variant Molecule Type: Sample used to find this variant Genomic - variant discovered using a genomic template cDNA - variant discovered using a cDNA template Unknown - sample type not known Unusual Conditions (UCSC): UCSC checks for several anomalies that may indicate a problem with the mapping, and reports them in the Annotations section of the SNP details page if found: AlleleFreqSumNot1 - Allele frequencies do not sum to 1.0 (+-0.01). This SNP's allele frequency data are probably incomplete. DuplicateObserved, MixedObserved - Multiple distinct insertion SNPs have been mapped to this location, with either the same inserted sequence (Duplicate) or different inserted sequence (Mixed). FlankMismatchGenomeEqual, FlankMismatchGenomeLonger, FlankMismatchGenomeShorter - NCBI's alignment of the flanking sequences had at least one mismatch or gap near the mapped SNP position. (UCSC's re-alignment of flanking sequences to the genome may be informative.) MultipleAlignments - This SNP's flanking sequences align to more than one location in the reference assembly. NamedDeletionZeroSpan - A deletion (from the genome) was observed but the annotation spans 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) NamedInsertionNonzeroSpan - An insertion (into the genome) was observed but the annotation spans more than 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) NonIntegerChromCount - At least one allele frequency corresponds to a non-integer (+-0.010000) count of chromosomes on which the allele was observed. The reported total sample count for this SNP is probably incorrect. ObservedContainsIupac - At least one observed allele from dbSNP contains an IUPAC ambiguous base (e.g., R, Y, N). ObservedMismatch - UCSC reference allele does not match any observed allele from dbSNP. This is tested only for SNPs whose class is single, in-del, insertion, deletion, mnp or mixed. ObservedTooLong - Observed allele not given (length too long). ObservedWrongFormat - Observed allele(s) from dbSNP have unexpected format for the given class. RefAlleleMismatch - The reference allele from dbSNP does not match the UCSC reference allele, i.e., the bases in the mapped position range. RefAlleleRevComp - The reference allele from dbSNP matches the reverse complement of the UCSC reference allele. SingleClassLongerSpan - All observed alleles are single-base, but the annotation spans more than 1 base. (UCSC's re-alignment of flanking sequences to the genome may be informative.) SingleClassZeroSpan - All observed alleles are single-base, but the annotation spans 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) Another condition, which does not necessarily imply any problem, is noted: SingleClassTriAllelic, SingleClassQuadAllelic - Class is single and three or four different bases have been observed (usually there are only two). Miscellaneous Attributes (dbSNP): several properties extracted from dbSNP's SNP_bitfield table (see dbSNP_BitField_v5.pdf for details) Clinically Associated (human only) - SNP is in OMIM and/or at least one submitter is a Locus-Specific Database. This does not necessarily imply that the variant causes any disease, only that it has been observed in clinical studies. Appears in OMIM/OMIA - SNP is mentioned in Online Mendelian Inheritance in Man for human SNPs, or Online Mendelian Inheritance in Animals for non-human animal SNPs. Some of these SNPs are quite common, others are known to cause disease; see OMIM/OMIA for more information. Has Microattribution/Third-Party Annotation - At least one of the SNP's submitters studied this SNP in a biomedical setting, but is not a Locus-Specific Database or OMIM/OMIA. Submitted by Locus-Specific Database - At least one of the SNP's submitters is associated with a database of variants associated with a particular gene. These variants may or may not be known to be causative. MAF >= 5% in Some Population - Minor Allele Frequency is at least 5% in at least one population assayed. MAF >= 5% in All Populations - Minor Allele Frequency is at least 5% in all populations assayed. Genotype Conflict - Quality check: different genotypes have been submitted for the same individual. Ref SNP Cluster has Non-overlapping Alleles - Quality check: this reference SNP was clustered from submitted SNPs with non-overlapping sets of observed alleles. Some Assembly's Allele Does Not Match Observed - Quality check: at least one assembly mapped by dbSNP has an allele at the mapped position that is not present in this SNP's observed alleles. Several other properties do not have coloring options, but do have some filtering options: Average heterozygosity: Calculated by dbSNP as described in Computation of Average Heterozygosity and Standard Error for dbSNP RefSNP Clusters. Average heterozygosity should not exceed 0.5 for bi-allelic single-base substitutions. Weight: Alignment quality assigned by dbSNP Weight can be 0, 1, 2, 3 or 10. Weight = 1 are the highest quality alignments. Weight = 0 and weight = 10 are excluded from the data set. A filter on maximum weight value is supported, which defaults to 1 on all tracks except the Mult. SNPs track, which defaults to 3. Submitter handles: These are short, single-word identifiers of labs or consortia that submitted SNPs that were clustered into this reference SNP by dbSNP (e.g., 1000GENOMES, ENSEMBL, KWOK). Some SNPs have been observed by many different submitters, and some by only a single submitter (although that single submitter may have tested a large number of samples). AlleleFrequencies: Some submissions to dbSNP include allele frequencies and the study's sample size (i.e., the number of distinct chromosomes, which is two times the number of individuals assayed, a.k.a. 2N). dbSNP combines all available frequencies and counts from submitted SNPs that are clustered together into a reference SNP. You can configure this track such that the details page displays the function and coding differences relative to particular gene sets. Choose the gene sets from the list on the SNP configuration page displayed beneath this heading: On details page, show function and coding differences relative to. When one or more gene tracks are selected, the SNP details page lists all genes that the SNP hits (or is close to), with the same keywords used in the function category. The function usually agrees with NCBI's function, except when NCBI's functional annotation is relative to an XM_* predicted RefSeq (not included in the UCSC Genome Browser's RefSeq Genes track) and/or UCSC's functional annotation is relative to a transcript that is not in RefSeq. Insertions/Deletions dbSNP uses a class called 'in-del'. We compare the length of the reference allele to the length(s) of observed alleles; if the reference allele is shorter than all other observed alleles, we change 'in-del' to 'insertion'. Likewise, if the reference allele is longer than all other observed alleles, we change 'in-del' to 'deletion'. UCSC Re-alignment of flanking sequences dbSNP determines the genomic locations of SNPs by aligning their flanking sequences to the genome. UCSC displays SNPs in the locations determined by dbSNP, but does not have access to the alignments on which dbSNP based its mappings. Instead, UCSC re-aligns the flanking sequences to the neighboring genomic sequence for display on SNP details pages. While the recomputed alignments may differ from dbSNP's alignments, they often are informative when UCSC has annotated an unusual condition. Non-repetitive genomic sequence is shown in upper case like the flanking sequence, and a "|" indicates each match between genomic and flanking bases. Repetitive genomic sequence (annotated by RepeatMasker and/or the Tandem Repeats Finder with period Data Sources and Methods The data that comprise this track were extracted from database dump files and headers of fasta files downloaded from NCBI. The database dump files were downloaded from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b146_GRCh37p13/database/organism_data/ for hg19 and from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b146_GRCh38p2/database/organism_data/ for hg38. The fasta files were downloaded from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b146_GRCh37p13/rs_fasta/ for hg19 and from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b146_GRCh38p2/rs_fasta/ for hg38. Coordinates, orientation, location type and dbSNP reference allele data were obtained from b146_SNPContigLoc_N.bcp.gz and b146_ContigInfo_N.bcp.gz. (N = 105 for hg19, 107 for hg38) b146_SNPMapInfo_N.bcp.gz provided the alignment weights. Functional classification was obtained from b146_SNPContigLocusId_N.bcp.gz. The internal database representation uses dbSNP's function terms, but for display in SNP details pages, these are translated into Sequence Ontology terms. Validation status and heterozygosity were obtained from SNP.bcp.gz. SNPAlleleFreq.bcp.gz and ../shared/Allele.bcp.gz provided allele frequencies. For the human assembly, allele frequencies were also taken from SNPAlleleFreq_TGP.bcp.gz . Submitter handles were extracted from Batch.bcp.gz, SubSNP.bcp.gz and SNPSubSNPLink.bcp.gz. SNP_bitfield.bcp.gz provided miscellaneous properties annotated by dbSNP, such as clinically-associated. See the document dbSNP_BitField_v5.pdf for details. The header lines in the rs_fasta files were used for molecule type, class and observed polymorphism. Data Access The raw data can be explored interactively with the Table Browser, Data Integrator, or Variant Annotation Integrator. For automated analysis, the genome annotation can be downloaded from the downloads server for hg38 and hg19 (snp146*.txt.gz) or the public MySQL server. Please refer to our mailing list archives for questions and example queries, or our Data Access FAQ for more information. Orthologous Alleles (human assemblies only) For the human assembly, we provide a related table that contains orthologous alleles in the chimpanzee, orangutan and rhesus macaque reference genome assemblies. We use our liftOver utility to identify the orthologous alleles. The candidate human SNPs are a filtered list that meet the criteria: class = 'single' mapped position in the human reference genome is one base long aligned to only one location in the human reference genome not aligned to a chrN_random chrom biallelic (not tri- or quad-allelic) In some cases the orthologous allele is unknown; these are set to 'N'. If a lift was not possible, we set the orthologous allele to '?' and the orthologous start and end position to 0 (zero). Masked FASTA Files (human assemblies only) FASTA files that have been modified to use IUPAC ambiguous nucleotide characters at each base covered by a single-base substitution are available for download: GRCh37/hg19, GRCh38/hg38. Note that only single-base substitutions (no insertions or deletions) were used to mask the sequence, and these were filtered to exclude problematic SNPs. References Sherry ST, Ward MH, Kholodov M, Baker J, Phan L, Smigielski EM, Sirotkin K. dbSNP: the NCBI database of genetic variation. Nucleic Acids Res. 2001 Jan 1;29(1):308-11. PMID: 11125122; PMC: PMC29783 
snp146Flagged Flagged SNPs(146) Simple Nucleotide Polymorphisms (dbSNP 146) Flagged by dbSNP as Clinically Assoc Variation Description This track contains information about a subset of the single nucleotide polymorphisms and small insertions and deletions (indels) — collectively Simple Nucleotide Polymorphisms — from dbSNP build 146, available from ftp.ncbi.nih.gov/snp. Only SNPs flagged as clinically associated by dbSNP, mapped to a single location in the reference genome assembly, and not known to have a minor allele frequency of at least 1%, are included in this subset. Frequency data are not available for all SNPs, so this subset probably includes some SNPs whose true minor allele frequency is 1% or greater. The significance of any particular variant in this track should be interpreted only by a trained medical geneticist using all available information. For example, some variants are included in this track because of their inclusion in a Locus-Specific Database (LSDB) or mention in OMIM, but are not thought to be disease-causing, so inclusion of a variant in this track is not necessarily an indicator of risk. Again, all available information must be carefully considered by a qualified professional. The remainder of this page is identical on the following tracks: Common SNPs(146) - SNPs with >= 1% minor allele frequency (MAF), mapping only once to reference assembly. Flagged SNPs(146) - SNPs < 1% minor allele frequency (MAF) (or unknown), mapping only once to reference assembly, flagged in dbSnp as "clinically associated" -- not necessarily a risk allele! Mult. SNPs(146) - SNPs mapping in more than one place on reference assembly. All SNPs(146) - all SNPs from dbSNP mapping to reference assembly. Interpreting and Configuring the Graphical Display Variants are shown as single tick marks at most zoom levels. When viewing the track at or near base-level resolution, the displayed width of the SNP corresponds to the width of the variant in the reference sequence. Insertions are indicated by a single tick mark displayed between two nucleotides, single nucleotide polymorphisms are displayed as the width of a single base, and multiple nucleotide variants are represented by a block that spans two or more bases. On the track controls page, SNPs can be colored and/or filtered from the display according to several attributes: Class: Describes the observed alleles Single - single nucleotide variation: all observed alleles are single nucleotides (can have 2, 3 or 4 alleles) In-del - insertion/deletion Heterozygous - heterozygous (undetermined) variation: allele contains string '(heterozygous)' Microsatellite - the observed allele from dbSNP is a variation in counts of short tandem repeats Named - the observed allele from dbSNP is given as a text name instead of raw sequence, e.g., (Alu)/- No Variation - the submission reports an invariant region in the surveyed sequence Mixed - the cluster contains submissions from multiple classes Multiple Nucleotide Polymorphism (MNP) - the alleles are all of the same length, and length > 1 Insertion - the polymorphism is an insertion relative to the reference assembly Deletion - the polymorphism is a deletion relative to the reference assembly Unknown - no classification provided by data contributor Validation: Method used to validate the variant (each variant may be validated by more than one method) By Frequency - at least one submitted SNP in cluster has frequency data submitted By Cluster - cluster has at least 2 submissions, with at least one submission assayed with a non-computational method By Submitter - at least one submitter SNP in cluster was validated by independent assay By 2 Hit/2 Allele - all alleles have been observed in at least 2 chromosomes By HapMap (human only) - submitted by HapMap project By 1000Genomes (human only) - submitted by 1000Genomes project Unknown - no validation has been reported for this variant Function: dbSNP's predicted functional effect of variant on RefSeq transcripts, both curated (NM_* and NR_*) as in the RefSeq Genes track and predicted (XM_* and XR_*), not shown in UCSC Genome Browser. A variant may have more than one functional role if it overlaps multiple transcripts. These terms and definitions are from the Sequence Ontology (SO); click on a term to view it in the MISO Sequence Ontology Browser. Unknown - no functional classification provided (possibly intergenic) synonymous_variant - A sequence variant where there is no resulting change to the encoded amino acid (dbSNP term: coding-synon) intron_variant - A transcript variant occurring within an intron (dbSNP term: intron) downstream_gene_variant - A sequence variant located 3' of a gene (dbSNP term: near-gene-3) upstream_gene_variant - A sequence variant located 5' of a gene (dbSNP term: near-gene-5) nc_transcript_variant - A transcript variant of a non coding RNA gene (dbSNP term: ncRNA) stop_gained - A sequence variant whereby at least one base of a codon is changed, resulting in a premature stop codon, leading to a shortened transcript (dbSNP term: nonsense) missense_variant - A sequence variant, where the change may be longer than 3 bases, and at least one base of a codon is changed resulting in a codon that encodes for a different amino acid (dbSNP term: missense) stop_lost - A sequence variant where at least one base of the terminator codon (stop) is changed, resulting in an elongated transcript (dbSNP term: stop-loss) frameshift_variant - A sequence variant which causes a disruption of the translational reading frame, because the number of nucleotides inserted or deleted is not a multiple of three (dbSNP term: frameshift) inframe_indel - A coding sequence variant where the change does not alter the frame of the transcript (dbSNP term: cds-indel) 3_prime_UTR_variant - A UTR variant of the 3' UTR (dbSNP term: untranslated-3) 5_prime_UTR_variant - A UTR variant of the 5' UTR (dbSNP term: untranslated-5) splice_acceptor_variant - A splice variant that changes the 2 base region at the 3' end of an intron (dbSNP term: splice-3) splice_donor_variant - A splice variant that changes the 2 base region at the 5' end of an intron (dbSNP term: splice-5) In the Coloring Options section of the track controls page, function terms are grouped into several categories, shown here with default colors: Locus: downstream_gene_variant, upstream_gene_variant Coding - Synonymous: synonymous_variant Coding - Non-Synonymous: stop_gained, missense_variant, stop_lost, frameshift_variant, inframe_indel Untranslated: 5_prime_UTR_variant, 3_prime_UTR_variant Intron: intron_variant Splice Site: splice_acceptor_variant, splice_donor_variant Molecule Type: Sample used to find this variant Genomic - variant discovered using a genomic template cDNA - variant discovered using a cDNA template Unknown - sample type not known Unusual Conditions (UCSC): UCSC checks for several anomalies that may indicate a problem with the mapping, and reports them in the Annotations section of the SNP details page if found: AlleleFreqSumNot1 - Allele frequencies do not sum to 1.0 (+-0.01). This SNP's allele frequency data are probably incomplete. DuplicateObserved, MixedObserved - Multiple distinct insertion SNPs have been mapped to this location, with either the same inserted sequence (Duplicate) or different inserted sequence (Mixed). FlankMismatchGenomeEqual, FlankMismatchGenomeLonger, FlankMismatchGenomeShorter - NCBI's alignment of the flanking sequences had at least one mismatch or gap near the mapped SNP position. (UCSC's re-alignment of flanking sequences to the genome may be informative.) MultipleAlignments - This SNP's flanking sequences align to more than one location in the reference assembly. NamedDeletionZeroSpan - A deletion (from the genome) was observed but the annotation spans 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) NamedInsertionNonzeroSpan - An insertion (into the genome) was observed but the annotation spans more than 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) NonIntegerChromCount - At least one allele frequency corresponds to a non-integer (+-0.010000) count of chromosomes on which the allele was observed. The reported total sample count for this SNP is probably incorrect. ObservedContainsIupac - At least one observed allele from dbSNP contains an IUPAC ambiguous base (e.g., R, Y, N). ObservedMismatch - UCSC reference allele does not match any observed allele from dbSNP. This is tested only for SNPs whose class is single, in-del, insertion, deletion, mnp or mixed. ObservedTooLong - Observed allele not given (length too long). ObservedWrongFormat - Observed allele(s) from dbSNP have unexpected format for the given class. RefAlleleMismatch - The reference allele from dbSNP does not match the UCSC reference allele, i.e., the bases in the mapped position range. RefAlleleRevComp - The reference allele from dbSNP matches the reverse complement of the UCSC reference allele. SingleClassLongerSpan - All observed alleles are single-base, but the annotation spans more than 1 base. (UCSC's re-alignment of flanking sequences to the genome may be informative.) SingleClassZeroSpan - All observed alleles are single-base, but the annotation spans 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) Another condition, which does not necessarily imply any problem, is noted: SingleClassTriAllelic, SingleClassQuadAllelic - Class is single and three or four different bases have been observed (usually there are only two). Miscellaneous Attributes (dbSNP): several properties extracted from dbSNP's SNP_bitfield table (see dbSNP_BitField_v5.pdf for details) Clinically Associated (human only) - SNP is in OMIM and/or at least one submitter is a Locus-Specific Database. This does not necessarily imply that the variant causes any disease, only that it has been observed in clinical studies. Appears in OMIM/OMIA - SNP is mentioned in Online Mendelian Inheritance in Man for human SNPs, or Online Mendelian Inheritance in Animals for non-human animal SNPs. Some of these SNPs are quite common, others are known to cause disease; see OMIM/OMIA for more information. Has Microattribution/Third-Party Annotation - At least one of the SNP's submitters studied this SNP in a biomedical setting, but is not a Locus-Specific Database or OMIM/OMIA. Submitted by Locus-Specific Database - At least one of the SNP's submitters is associated with a database of variants associated with a particular gene. These variants may or may not be known to be causative. MAF >= 5% in Some Population - Minor Allele Frequency is at least 5% in at least one population assayed. MAF >= 5% in All Populations - Minor Allele Frequency is at least 5% in all populations assayed. Genotype Conflict - Quality check: different genotypes have been submitted for the same individual. Ref SNP Cluster has Non-overlapping Alleles - Quality check: this reference SNP was clustered from submitted SNPs with non-overlapping sets of observed alleles. Some Assembly's Allele Does Not Match Observed - Quality check: at least one assembly mapped by dbSNP has an allele at the mapped position that is not present in this SNP's observed alleles. Several other properties do not have coloring options, but do have some filtering options: Average heterozygosity: Calculated by dbSNP as described in Computation of Average Heterozygosity and Standard Error for dbSNP RefSNP Clusters. Average heterozygosity should not exceed 0.5 for bi-allelic single-base substitutions. Weight: Alignment quality assigned by dbSNP Weight can be 0, 1, 2, 3 or 10. Weight = 1 are the highest quality alignments. Weight = 0 and weight = 10 are excluded from the data set. A filter on maximum weight value is supported, which defaults to 1 on all tracks except the Mult. SNPs track, which defaults to 3. Submitter handles: These are short, single-word identifiers of labs or consortia that submitted SNPs that were clustered into this reference SNP by dbSNP (e.g., 1000GENOMES, ENSEMBL, KWOK). Some SNPs have been observed by many different submitters, and some by only a single submitter (although that single submitter may have tested a large number of samples). AlleleFrequencies: Some submissions to dbSNP include allele frequencies and the study's sample size (i.e., the number of distinct chromosomes, which is two times the number of individuals assayed, a.k.a. 2N). dbSNP combines all available frequencies and counts from submitted SNPs that are clustered together into a reference SNP. You can configure this track such that the details page displays the function and coding differences relative to particular gene sets. Choose the gene sets from the list on the SNP configuration page displayed beneath this heading: On details page, show function and coding differences relative to. When one or more gene tracks are selected, the SNP details page lists all genes that the SNP hits (or is close to), with the same keywords used in the function category. The function usually agrees with NCBI's function, except when NCBI's functional annotation is relative to an XM_* predicted RefSeq (not included in the UCSC Genome Browser's RefSeq Genes track) and/or UCSC's functional annotation is relative to a transcript that is not in RefSeq. Insertions/Deletions dbSNP uses a class called 'in-del'. We compare the length of the reference allele to the length(s) of observed alleles; if the reference allele is shorter than all other observed alleles, we change 'in-del' to 'insertion'. Likewise, if the reference allele is longer than all other observed alleles, we change 'in-del' to 'deletion'. UCSC Re-alignment of flanking sequences dbSNP determines the genomic locations of SNPs by aligning their flanking sequences to the genome. UCSC displays SNPs in the locations determined by dbSNP, but does not have access to the alignments on which dbSNP based its mappings. Instead, UCSC re-aligns the flanking sequences to the neighboring genomic sequence for display on SNP details pages. While the recomputed alignments may differ from dbSNP's alignments, they often are informative when UCSC has annotated an unusual condition. Non-repetitive genomic sequence is shown in upper case like the flanking sequence, and a "|" indicates each match between genomic and flanking bases. Repetitive genomic sequence (annotated by RepeatMasker and/or the Tandem Repeats Finder with period Data Sources and Methods The data that comprise this track were extracted from database dump files and headers of fasta files downloaded from NCBI. The database dump files were downloaded from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b146_GRCh37p13/database/organism_data/ for hg19 and from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b146_GRCh38p2/database/organism_data/ for hg38. The fasta files were downloaded from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b146_GRCh37p13/rs_fasta/ for hg19 and from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b146_GRCh38p2/rs_fasta/ for hg38. Coordinates, orientation, location type and dbSNP reference allele data were obtained from b146_SNPContigLoc_N.bcp.gz and b146_ContigInfo_N.bcp.gz. (N = 105 for hg19, 107 for hg38) b146_SNPMapInfo_N.bcp.gz provided the alignment weights. Functional classification was obtained from b146_SNPContigLocusId_N.bcp.gz. The internal database representation uses dbSNP's function terms, but for display in SNP details pages, these are translated into Sequence Ontology terms. Validation status and heterozygosity were obtained from SNP.bcp.gz. SNPAlleleFreq.bcp.gz and ../shared/Allele.bcp.gz provided allele frequencies. For the human assembly, allele frequencies were also taken from SNPAlleleFreq_TGP.bcp.gz . Submitter handles were extracted from Batch.bcp.gz, SubSNP.bcp.gz and SNPSubSNPLink.bcp.gz. SNP_bitfield.bcp.gz provided miscellaneous properties annotated by dbSNP, such as clinically-associated. See the document dbSNP_BitField_v5.pdf for details. The header lines in the rs_fasta files were used for molecule type, class and observed polymorphism. Data Access The raw data can be explored interactively with the Table Browser, Data Integrator, or Variant Annotation Integrator. For automated analysis, the genome annotation can be downloaded from the downloads server for hg38 and hg19 (snp146*.txt.gz) or the public MySQL server. Please refer to our mailing list archives for questions and example queries, or our Data Access FAQ for more information. Orthologous Alleles (human assemblies only) For the human assembly, we provide a related table that contains orthologous alleles in the chimpanzee, orangutan and rhesus macaque reference genome assemblies. We use our liftOver utility to identify the orthologous alleles. The candidate human SNPs are a filtered list that meet the criteria: class = 'single' mapped position in the human reference genome is one base long aligned to only one location in the human reference genome not aligned to a chrN_random chrom biallelic (not tri- or quad-allelic) In some cases the orthologous allele is unknown; these are set to 'N'. If a lift was not possible, we set the orthologous allele to '?' and the orthologous start and end position to 0 (zero). Masked FASTA Files (human assemblies only) FASTA files that have been modified to use IUPAC ambiguous nucleotide characters at each base covered by a single-base substitution are available for download: GRCh37/hg19, GRCh38/hg38. Note that only single-base substitutions (no insertions or deletions) were used to mask the sequence, and these were filtered to exclude problematic SNPs. References Sherry ST, Ward MH, Kholodov M, Baker J, Phan L, Smigielski EM, Sirotkin K. dbSNP: the NCBI database of genetic variation. Nucleic Acids Res. 2001 Jan 1;29(1):308-11. PMID: 11125122; PMC: PMC29783 
snp146Common Common SNPs(146) Simple Nucleotide Polymorphisms (dbSNP 146) Found in >= 1% of Samples Variation Description This track contains information about a subset of the single nucleotide polymorphisms and small insertions and deletions (indels) — collectively Simple Nucleotide Polymorphisms — from dbSNP build 146, available from ftp.ncbi.nih.gov/snp. Only SNPs that have a minor allele frequency of at least 1% and are mapped to a single location in the reference genome assembly are included in this subset. Frequency data are not available for all SNPs, so this subset is incomplete. The selection of SNPs with a minor allele frequency of 1% or greater is an attempt to identify variants that appear to be reasonably common in the general population. Taken as a set, common variants should be less likely to be associated with severe genetic diseases due to the effects of natural selection, following the view that deleterious variants are not likely to become common in the population. However, the significance of any particular variant should be interpreted only by a trained medical geneticist using all available information. The remainder of this page is identical on the following tracks: Common SNPs(146) - SNPs with >= 1% minor allele frequency (MAF), mapping only once to reference assembly. Flagged SNPs(146) - SNPs < 1% minor allele frequency (MAF) (or unknown), mapping only once to reference assembly, flagged in dbSnp as "clinically associated" -- not necessarily a risk allele! Mult. SNPs(146) - SNPs mapping in more than one place on reference assembly. All SNPs(146) - all SNPs from dbSNP mapping to reference assembly. Interpreting and Configuring the Graphical Display Variants are shown as single tick marks at most zoom levels. When viewing the track at or near base-level resolution, the displayed width of the SNP corresponds to the width of the variant in the reference sequence. Insertions are indicated by a single tick mark displayed between two nucleotides, single nucleotide polymorphisms are displayed as the width of a single base, and multiple nucleotide variants are represented by a block that spans two or more bases. On the track controls page, SNPs can be colored and/or filtered from the display according to several attributes: Class: Describes the observed alleles Single - single nucleotide variation: all observed alleles are single nucleotides (can have 2, 3 or 4 alleles) In-del - insertion/deletion Heterozygous - heterozygous (undetermined) variation: allele contains string '(heterozygous)' Microsatellite - the observed allele from dbSNP is a variation in counts of short tandem repeats Named - the observed allele from dbSNP is given as a text name instead of raw sequence, e.g., (Alu)/- No Variation - the submission reports an invariant region in the surveyed sequence Mixed - the cluster contains submissions from multiple classes Multiple Nucleotide Polymorphism (MNP) - the alleles are all of the same length, and length > 1 Insertion - the polymorphism is an insertion relative to the reference assembly Deletion - the polymorphism is a deletion relative to the reference assembly Unknown - no classification provided by data contributor Validation: Method used to validate the variant (each variant may be validated by more than one method) By Frequency - at least one submitted SNP in cluster has frequency data submitted By Cluster - cluster has at least 2 submissions, with at least one submission assayed with a non-computational method By Submitter - at least one submitter SNP in cluster was validated by independent assay By 2 Hit/2 Allele - all alleles have been observed in at least 2 chromosomes By HapMap (human only) - submitted by HapMap project By 1000Genomes (human only) - submitted by 1000Genomes project Unknown - no validation has been reported for this variant Function: dbSNP's predicted functional effect of variant on RefSeq transcripts, both curated (NM_* and NR_*) as in the RefSeq Genes track and predicted (XM_* and XR_*), not shown in UCSC Genome Browser. A variant may have more than one functional role if it overlaps multiple transcripts. These terms and definitions are from the Sequence Ontology (SO); click on a term to view it in the MISO Sequence Ontology Browser. Unknown - no functional classification provided (possibly intergenic) synonymous_variant - A sequence variant where there is no resulting change to the encoded amino acid (dbSNP term: coding-synon) intron_variant - A transcript variant occurring within an intron (dbSNP term: intron) downstream_gene_variant - A sequence variant located 3' of a gene (dbSNP term: near-gene-3) upstream_gene_variant - A sequence variant located 5' of a gene (dbSNP term: near-gene-5) nc_transcript_variant - A transcript variant of a non coding RNA gene (dbSNP term: ncRNA) stop_gained - A sequence variant whereby at least one base of a codon is changed, resulting in a premature stop codon, leading to a shortened transcript (dbSNP term: nonsense) missense_variant - A sequence variant, where the change may be longer than 3 bases, and at least one base of a codon is changed resulting in a codon that encodes for a different amino acid (dbSNP term: missense) stop_lost - A sequence variant where at least one base of the terminator codon (stop) is changed, resulting in an elongated transcript (dbSNP term: stop-loss) frameshift_variant - A sequence variant which causes a disruption of the translational reading frame, because the number of nucleotides inserted or deleted is not a multiple of three (dbSNP term: frameshift) inframe_indel - A coding sequence variant where the change does not alter the frame of the transcript (dbSNP term: cds-indel) 3_prime_UTR_variant - A UTR variant of the 3' UTR (dbSNP term: untranslated-3) 5_prime_UTR_variant - A UTR variant of the 5' UTR (dbSNP term: untranslated-5) splice_acceptor_variant - A splice variant that changes the 2 base region at the 3' end of an intron (dbSNP term: splice-3) splice_donor_variant - A splice variant that changes the 2 base region at the 5' end of an intron (dbSNP term: splice-5) In the Coloring Options section of the track controls page, function terms are grouped into several categories, shown here with default colors: Locus: downstream_gene_variant, upstream_gene_variant Coding - Synonymous: synonymous_variant Coding - Non-Synonymous: stop_gained, missense_variant, stop_lost, frameshift_variant, inframe_indel Untranslated: 5_prime_UTR_variant, 3_prime_UTR_variant Intron: intron_variant Splice Site: splice_acceptor_variant, splice_donor_variant Molecule Type: Sample used to find this variant Genomic - variant discovered using a genomic template cDNA - variant discovered using a cDNA template Unknown - sample type not known Unusual Conditions (UCSC): UCSC checks for several anomalies that may indicate a problem with the mapping, and reports them in the Annotations section of the SNP details page if found: AlleleFreqSumNot1 - Allele frequencies do not sum to 1.0 (+-0.01). This SNP's allele frequency data are probably incomplete. DuplicateObserved, MixedObserved - Multiple distinct insertion SNPs have been mapped to this location, with either the same inserted sequence (Duplicate) or different inserted sequence (Mixed). FlankMismatchGenomeEqual, FlankMismatchGenomeLonger, FlankMismatchGenomeShorter - NCBI's alignment of the flanking sequences had at least one mismatch or gap near the mapped SNP position. (UCSC's re-alignment of flanking sequences to the genome may be informative.) MultipleAlignments - This SNP's flanking sequences align to more than one location in the reference assembly. NamedDeletionZeroSpan - A deletion (from the genome) was observed but the annotation spans 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) NamedInsertionNonzeroSpan - An insertion (into the genome) was observed but the annotation spans more than 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) NonIntegerChromCount - At least one allele frequency corresponds to a non-integer (+-0.010000) count of chromosomes on which the allele was observed. The reported total sample count for this SNP is probably incorrect. ObservedContainsIupac - At least one observed allele from dbSNP contains an IUPAC ambiguous base (e.g., R, Y, N). ObservedMismatch - UCSC reference allele does not match any observed allele from dbSNP. This is tested only for SNPs whose class is single, in-del, insertion, deletion, mnp or mixed. ObservedTooLong - Observed allele not given (length too long). ObservedWrongFormat - Observed allele(s) from dbSNP have unexpected format for the given class. RefAlleleMismatch - The reference allele from dbSNP does not match the UCSC reference allele, i.e., the bases in the mapped position range. RefAlleleRevComp - The reference allele from dbSNP matches the reverse complement of the UCSC reference allele. SingleClassLongerSpan - All observed alleles are single-base, but the annotation spans more than 1 base. (UCSC's re-alignment of flanking sequences to the genome may be informative.) SingleClassZeroSpan - All observed alleles are single-base, but the annotation spans 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) Another condition, which does not necessarily imply any problem, is noted: SingleClassTriAllelic, SingleClassQuadAllelic - Class is single and three or four different bases have been observed (usually there are only two). Miscellaneous Attributes (dbSNP): several properties extracted from dbSNP's SNP_bitfield table (see dbSNP_BitField_v5.pdf for details) Clinically Associated (human only) - SNP is in OMIM and/or at least one submitter is a Locus-Specific Database. This does not necessarily imply that the variant causes any disease, only that it has been observed in clinical studies. Appears in OMIM/OMIA - SNP is mentioned in Online Mendelian Inheritance in Man for human SNPs, or Online Mendelian Inheritance in Animals for non-human animal SNPs. Some of these SNPs are quite common, others are known to cause disease; see OMIM/OMIA for more information. Has Microattribution/Third-Party Annotation - At least one of the SNP's submitters studied this SNP in a biomedical setting, but is not a Locus-Specific Database or OMIM/OMIA. Submitted by Locus-Specific Database - At least one of the SNP's submitters is associated with a database of variants associated with a particular gene. These variants may or may not be known to be causative. MAF >= 5% in Some Population - Minor Allele Frequency is at least 5% in at least one population assayed. MAF >= 5% in All Populations - Minor Allele Frequency is at least 5% in all populations assayed. Genotype Conflict - Quality check: different genotypes have been submitted for the same individual. Ref SNP Cluster has Non-overlapping Alleles - Quality check: this reference SNP was clustered from submitted SNPs with non-overlapping sets of observed alleles. Some Assembly's Allele Does Not Match Observed - Quality check: at least one assembly mapped by dbSNP has an allele at the mapped position that is not present in this SNP's observed alleles. Several other properties do not have coloring options, but do have some filtering options: Average heterozygosity: Calculated by dbSNP as described in Computation of Average Heterozygosity and Standard Error for dbSNP RefSNP Clusters. Average heterozygosity should not exceed 0.5 for bi-allelic single-base substitutions. Weight: Alignment quality assigned by dbSNP Weight can be 0, 1, 2, 3 or 10. Weight = 1 are the highest quality alignments. Weight = 0 and weight = 10 are excluded from the data set. A filter on maximum weight value is supported, which defaults to 1 on all tracks except the Mult. SNPs track, which defaults to 3. Submitter handles: These are short, single-word identifiers of labs or consortia that submitted SNPs that were clustered into this reference SNP by dbSNP (e.g., 1000GENOMES, ENSEMBL, KWOK). Some SNPs have been observed by many different submitters, and some by only a single submitter (although that single submitter may have tested a large number of samples). AlleleFrequencies: Some submissions to dbSNP include allele frequencies and the study's sample size (i.e., the number of distinct chromosomes, which is two times the number of individuals assayed, a.k.a. 2N). dbSNP combines all available frequencies and counts from submitted SNPs that are clustered together into a reference SNP. You can configure this track such that the details page displays the function and coding differences relative to particular gene sets. Choose the gene sets from the list on the SNP configuration page displayed beneath this heading: On details page, show function and coding differences relative to. When one or more gene tracks are selected, the SNP details page lists all genes that the SNP hits (or is close to), with the same keywords used in the function category. The function usually agrees with NCBI's function, except when NCBI's functional annotation is relative to an XM_* predicted RefSeq (not included in the UCSC Genome Browser's RefSeq Genes track) and/or UCSC's functional annotation is relative to a transcript that is not in RefSeq. Insertions/Deletions dbSNP uses a class called 'in-del'. We compare the length of the reference allele to the length(s) of observed alleles; if the reference allele is shorter than all other observed alleles, we change 'in-del' to 'insertion'. Likewise, if the reference allele is longer than all other observed alleles, we change 'in-del' to 'deletion'. UCSC Re-alignment of flanking sequences dbSNP determines the genomic locations of SNPs by aligning their flanking sequences to the genome. UCSC displays SNPs in the locations determined by dbSNP, but does not have access to the alignments on which dbSNP based its mappings. Instead, UCSC re-aligns the flanking sequences to the neighboring genomic sequence for display on SNP details pages. While the recomputed alignments may differ from dbSNP's alignments, they often are informative when UCSC has annotated an unusual condition. Non-repetitive genomic sequence is shown in upper case like the flanking sequence, and a "|" indicates each match between genomic and flanking bases. Repetitive genomic sequence (annotated by RepeatMasker and/or the Tandem Repeats Finder with period Data Sources and Methods The data that comprise this track were extracted from database dump files and headers of fasta files downloaded from NCBI. The database dump files were downloaded from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b146_GRCh37p13/database/organism_data/ for hg19 and from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b146_GRCh38p2/database/organism_data/ for hg38. The fasta files were downloaded from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b146_GRCh37p13/rs_fasta/ for hg19 and from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b146_GRCh38p2/rs_fasta/ for hg38. Coordinates, orientation, location type and dbSNP reference allele data were obtained from b146_SNPContigLoc_N.bcp.gz and b146_ContigInfo_N.bcp.gz. (N = 105 for hg19, 107 for hg38) b146_SNPMapInfo_N.bcp.gz provided the alignment weights. Functional classification was obtained from b146_SNPContigLocusId_N.bcp.gz. The internal database representation uses dbSNP's function terms, but for display in SNP details pages, these are translated into Sequence Ontology terms. Validation status and heterozygosity were obtained from SNP.bcp.gz. SNPAlleleFreq.bcp.gz and ../shared/Allele.bcp.gz provided allele frequencies. For the human assembly, allele frequencies were also taken from SNPAlleleFreq_TGP.bcp.gz . Submitter handles were extracted from Batch.bcp.gz, SubSNP.bcp.gz and SNPSubSNPLink.bcp.gz. SNP_bitfield.bcp.gz provided miscellaneous properties annotated by dbSNP, such as clinically-associated. See the document dbSNP_BitField_v5.pdf for details. The header lines in the rs_fasta files were used for molecule type, class and observed polymorphism. Data Access The raw data can be explored interactively with the Table Browser, Data Integrator, or Variant Annotation Integrator. For automated analysis, the genome annotation can be downloaded from the downloads server for hg38 and hg19 (snp146*.txt.gz) or the public MySQL server. Please refer to our mailing list archives for questions and example queries, or our Data Access FAQ for more information. Orthologous Alleles (human assemblies only) For the human assembly, we provide a related table that contains orthologous alleles in the chimpanzee, orangutan and rhesus macaque reference genome assemblies. We use our liftOver utility to identify the orthologous alleles. The candidate human SNPs are a filtered list that meet the criteria: class = 'single' mapped position in the human reference genome is one base long aligned to only one location in the human reference genome not aligned to a chrN_random chrom biallelic (not tri- or quad-allelic) In some cases the orthologous allele is unknown; these are set to 'N'. If a lift was not possible, we set the orthologous allele to '?' and the orthologous start and end position to 0 (zero). Masked FASTA Files (human assemblies only) FASTA files that have been modified to use IUPAC ambiguous nucleotide characters at each base covered by a single-base substitution are available for download: GRCh37/hg19, GRCh38/hg38. Note that only single-base substitutions (no insertions or deletions) were used to mask the sequence, and these were filtered to exclude problematic SNPs. References Sherry ST, Ward MH, Kholodov M, Baker J, Phan L, Smigielski EM, Sirotkin K. dbSNP: the NCBI database of genetic variation. Nucleic Acids Res. 2001 Jan 1;29(1):308-11. PMID: 11125122; PMC: PMC29783 
snp146 All SNPs(146) Simple Nucleotide Polymorphisms (dbSNP 146) Variation Description This track contains information about single nucleotide polymorphisms and small insertions and deletions (indels) — collectively Simple Nucleotide Polymorphisms — from dbSNP build 146, available from ftp.ncbi.nih.gov/snp. Three tracks contain subsets of the items in this track: Common SNPs(146): SNPs that have a minor allele frequency of at least 1% and are mapped to a single location in the reference genome assembly. Frequency data are not available for all SNPs, so this subset is incomplete. Flagged SNPs(146): SNPs flagged as clinically associated by dbSNP, mapped to a single location in the reference genome assembly, and not known to have a minor allele frequency of at least 1%. Frequency data are not available for all SNPs, so this subset may include some SNPs whose true minor allele frequency is 1% or greater. Mult. SNPs(146): SNPs that have been mapped to multiple locations in the reference genome assembly. The default maximum weight for this track is 1, so unless the setting is changed in the track controls, SNPs that map to multiple genomic locations will be omitted from display. When a SNP's flanking sequences map to multiple locations in the reference genome, it calls into question whether there is true variation at those sites, or whether the sequences at those sites are merely highly similar but not identical. The remainder of this page is identical on the following tracks: Common SNPs(146) - SNPs with >= 1% minor allele frequency (MAF), mapping only once to reference assembly. Flagged SNPs(146) - SNPs < 1% minor allele frequency (MAF) (or unknown), mapping only once to reference assembly, flagged in dbSnp as "clinically associated" -- not necessarily a risk allele! Mult. SNPs(146) - SNPs mapping in more than one place on reference assembly. All SNPs(146) - all SNPs from dbSNP mapping to reference assembly. Interpreting and Configuring the Graphical Display Variants are shown as single tick marks at most zoom levels. When viewing the track at or near base-level resolution, the displayed width of the SNP corresponds to the width of the variant in the reference sequence. Insertions are indicated by a single tick mark displayed between two nucleotides, single nucleotide polymorphisms are displayed as the width of a single base, and multiple nucleotide variants are represented by a block that spans two or more bases. On the track controls page, SNPs can be colored and/or filtered from the display according to several attributes: Class: Describes the observed alleles Single - single nucleotide variation: all observed alleles are single nucleotides (can have 2, 3 or 4 alleles) In-del - insertion/deletion Heterozygous - heterozygous (undetermined) variation: allele contains string '(heterozygous)' Microsatellite - the observed allele from dbSNP is a variation in counts of short tandem repeats Named - the observed allele from dbSNP is given as a text name instead of raw sequence, e.g., (Alu)/- No Variation - the submission reports an invariant region in the surveyed sequence Mixed - the cluster contains submissions from multiple classes Multiple Nucleotide Polymorphism (MNP) - the alleles are all of the same length, and length > 1 Insertion - the polymorphism is an insertion relative to the reference assembly Deletion - the polymorphism is a deletion relative to the reference assembly Unknown - no classification provided by data contributor Validation: Method used to validate the variant (each variant may be validated by more than one method) By Frequency - at least one submitted SNP in cluster has frequency data submitted By Cluster - cluster has at least 2 submissions, with at least one submission assayed with a non-computational method By Submitter - at least one submitter SNP in cluster was validated by independent assay By 2 Hit/2 Allele - all alleles have been observed in at least 2 chromosomes By HapMap (human only) - submitted by HapMap project By 1000Genomes (human only) - submitted by 1000Genomes project Unknown - no validation has been reported for this variant Function: dbSNP's predicted functional effect of variant on RefSeq transcripts, both curated (NM_* and NR_*) as in the RefSeq Genes track and predicted (XM_* and XR_*), not shown in UCSC Genome Browser. A variant may have more than one functional role if it overlaps multiple transcripts. These terms and definitions are from the Sequence Ontology (SO); click on a term to view it in the MISO Sequence Ontology Browser. Unknown - no functional classification provided (possibly intergenic) synonymous_variant - A sequence variant where there is no resulting change to the encoded amino acid (dbSNP term: coding-synon) intron_variant - A transcript variant occurring within an intron (dbSNP term: intron) downstream_gene_variant - A sequence variant located 3' of a gene (dbSNP term: near-gene-3) upstream_gene_variant - A sequence variant located 5' of a gene (dbSNP term: near-gene-5) nc_transcript_variant - A transcript variant of a non coding RNA gene (dbSNP term: ncRNA) stop_gained - A sequence variant whereby at least one base of a codon is changed, resulting in a premature stop codon, leading to a shortened transcript (dbSNP term: nonsense) missense_variant - A sequence variant, where the change may be longer than 3 bases, and at least one base of a codon is changed resulting in a codon that encodes for a different amino acid (dbSNP term: missense) stop_lost - A sequence variant where at least one base of the terminator codon (stop) is changed, resulting in an elongated transcript (dbSNP term: stop-loss) frameshift_variant - A sequence variant which causes a disruption of the translational reading frame, because the number of nucleotides inserted or deleted is not a multiple of three (dbSNP term: frameshift) inframe_indel - A coding sequence variant where the change does not alter the frame of the transcript (dbSNP term: cds-indel) 3_prime_UTR_variant - A UTR variant of the 3' UTR (dbSNP term: untranslated-3) 5_prime_UTR_variant - A UTR variant of the 5' UTR (dbSNP term: untranslated-5) splice_acceptor_variant - A splice variant that changes the 2 base region at the 3' end of an intron (dbSNP term: splice-3) splice_donor_variant - A splice variant that changes the 2 base region at the 5' end of an intron (dbSNP term: splice-5) In the Coloring Options section of the track controls page, function terms are grouped into several categories, shown here with default colors: Locus: downstream_gene_variant, upstream_gene_variant Coding - Synonymous: synonymous_variant Coding - Non-Synonymous: stop_gained, missense_variant, stop_lost, frameshift_variant, inframe_indel Untranslated: 5_prime_UTR_variant, 3_prime_UTR_variant Intron: intron_variant Splice Site: splice_acceptor_variant, splice_donor_variant Molecule Type: Sample used to find this variant Genomic - variant discovered using a genomic template cDNA - variant discovered using a cDNA template Unknown - sample type not known Unusual Conditions (UCSC): UCSC checks for several anomalies that may indicate a problem with the mapping, and reports them in the Annotations section of the SNP details page if found: AlleleFreqSumNot1 - Allele frequencies do not sum to 1.0 (+-0.01). This SNP's allele frequency data are probably incomplete. DuplicateObserved, MixedObserved - Multiple distinct insertion SNPs have been mapped to this location, with either the same inserted sequence (Duplicate) or different inserted sequence (Mixed). FlankMismatchGenomeEqual, FlankMismatchGenomeLonger, FlankMismatchGenomeShorter - NCBI's alignment of the flanking sequences had at least one mismatch or gap near the mapped SNP position. (UCSC's re-alignment of flanking sequences to the genome may be informative.) MultipleAlignments - This SNP's flanking sequences align to more than one location in the reference assembly. NamedDeletionZeroSpan - A deletion (from the genome) was observed but the annotation spans 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) NamedInsertionNonzeroSpan - An insertion (into the genome) was observed but the annotation spans more than 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) NonIntegerChromCount - At least one allele frequency corresponds to a non-integer (+-0.010000) count of chromosomes on which the allele was observed. The reported total sample count for this SNP is probably incorrect. ObservedContainsIupac - At least one observed allele from dbSNP contains an IUPAC ambiguous base (e.g., R, Y, N). ObservedMismatch - UCSC reference allele does not match any observed allele from dbSNP. This is tested only for SNPs whose class is single, in-del, insertion, deletion, mnp or mixed. ObservedTooLong - Observed allele not given (length too long). ObservedWrongFormat - Observed allele(s) from dbSNP have unexpected format for the given class. RefAlleleMismatch - The reference allele from dbSNP does not match the UCSC reference allele, i.e., the bases in the mapped position range. RefAlleleRevComp - The reference allele from dbSNP matches the reverse complement of the UCSC reference allele. SingleClassLongerSpan - All observed alleles are single-base, but the annotation spans more than 1 base. (UCSC's re-alignment of flanking sequences to the genome may be informative.) SingleClassZeroSpan - All observed alleles are single-base, but the annotation spans 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) Another condition, which does not necessarily imply any problem, is noted: SingleClassTriAllelic, SingleClassQuadAllelic - Class is single and three or four different bases have been observed (usually there are only two). Miscellaneous Attributes (dbSNP): several properties extracted from dbSNP's SNP_bitfield table (see dbSNP_BitField_v5.pdf for details) Clinically Associated (human only) - SNP is in OMIM and/or at least one submitter is a Locus-Specific Database. This does not necessarily imply that the variant causes any disease, only that it has been observed in clinical studies. Appears in OMIM/OMIA - SNP is mentioned in Online Mendelian Inheritance in Man for human SNPs, or Online Mendelian Inheritance in Animals for non-human animal SNPs. Some of these SNPs are quite common, others are known to cause disease; see OMIM/OMIA for more information. Has Microattribution/Third-Party Annotation - At least one of the SNP's submitters studied this SNP in a biomedical setting, but is not a Locus-Specific Database or OMIM/OMIA. Submitted by Locus-Specific Database - At least one of the SNP's submitters is associated with a database of variants associated with a particular gene. These variants may or may not be known to be causative. MAF >= 5% in Some Population - Minor Allele Frequency is at least 5% in at least one population assayed. MAF >= 5% in All Populations - Minor Allele Frequency is at least 5% in all populations assayed. Genotype Conflict - Quality check: different genotypes have been submitted for the same individual. Ref SNP Cluster has Non-overlapping Alleles - Quality check: this reference SNP was clustered from submitted SNPs with non-overlapping sets of observed alleles. Some Assembly's Allele Does Not Match Observed - Quality check: at least one assembly mapped by dbSNP has an allele at the mapped position that is not present in this SNP's observed alleles. Several other properties do not have coloring options, but do have some filtering options: Average heterozygosity: Calculated by dbSNP as described in Computation of Average Heterozygosity and Standard Error for dbSNP RefSNP Clusters. Average heterozygosity should not exceed 0.5 for bi-allelic single-base substitutions. Weight: Alignment quality assigned by dbSNP Weight can be 0, 1, 2, 3 or 10. Weight = 1 are the highest quality alignments. Weight = 0 and weight = 10 are excluded from the data set. A filter on maximum weight value is supported, which defaults to 1 on all tracks except the Mult. SNPs track, which defaults to 3. Submitter handles: These are short, single-word identifiers of labs or consortia that submitted SNPs that were clustered into this reference SNP by dbSNP (e.g., 1000GENOMES, ENSEMBL, KWOK). Some SNPs have been observed by many different submitters, and some by only a single submitter (although that single submitter may have tested a large number of samples). AlleleFrequencies: Some submissions to dbSNP include allele frequencies and the study's sample size (i.e., the number of distinct chromosomes, which is two times the number of individuals assayed, a.k.a. 2N). dbSNP combines all available frequencies and counts from submitted SNPs that are clustered together into a reference SNP. You can configure this track such that the details page displays the function and coding differences relative to particular gene sets. Choose the gene sets from the list on the SNP configuration page displayed beneath this heading: On details page, show function and coding differences relative to. When one or more gene tracks are selected, the SNP details page lists all genes that the SNP hits (or is close to), with the same keywords used in the function category. The function usually agrees with NCBI's function, except when NCBI's functional annotation is relative to an XM_* predicted RefSeq (not included in the UCSC Genome Browser's RefSeq Genes track) and/or UCSC's functional annotation is relative to a transcript that is not in RefSeq. Insertions/Deletions dbSNP uses a class called 'in-del'. We compare the length of the reference allele to the length(s) of observed alleles; if the reference allele is shorter than all other observed alleles, we change 'in-del' to 'insertion'. Likewise, if the reference allele is longer than all other observed alleles, we change 'in-del' to 'deletion'. UCSC Re-alignment of flanking sequences dbSNP determines the genomic locations of SNPs by aligning their flanking sequences to the genome. UCSC displays SNPs in the locations determined by dbSNP, but does not have access to the alignments on which dbSNP based its mappings. Instead, UCSC re-aligns the flanking sequences to the neighboring genomic sequence for display on SNP details pages. While the recomputed alignments may differ from dbSNP's alignments, they often are informative when UCSC has annotated an unusual condition. Non-repetitive genomic sequence is shown in upper case like the flanking sequence, and a "|" indicates each match between genomic and flanking bases. Repetitive genomic sequence (annotated by RepeatMasker and/or the Tandem Repeats Finder with period Data Sources and Methods The data that comprise this track were extracted from database dump files and headers of fasta files downloaded from NCBI. The database dump files were downloaded from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b146_GRCh37p13/database/organism_data/ for hg19 and from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b146_GRCh38p2/database/organism_data/ for hg38. The fasta files were downloaded from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b146_GRCh37p13/rs_fasta/ for hg19 and from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b146_GRCh38p2/rs_fasta/ for hg38. Coordinates, orientation, location type and dbSNP reference allele data were obtained from b146_SNPContigLoc_N.bcp.gz and b146_ContigInfo_N.bcp.gz. (N = 105 for hg19, 107 for hg38) b146_SNPMapInfo_N.bcp.gz provided the alignment weights. Functional classification was obtained from b146_SNPContigLocusId_N.bcp.gz. The internal database representation uses dbSNP's function terms, but for display in SNP details pages, these are translated into Sequence Ontology terms. Validation status and heterozygosity were obtained from SNP.bcp.gz. SNPAlleleFreq.bcp.gz and ../shared/Allele.bcp.gz provided allele frequencies. For the human assembly, allele frequencies were also taken from SNPAlleleFreq_TGP.bcp.gz . Submitter handles were extracted from Batch.bcp.gz, SubSNP.bcp.gz and SNPSubSNPLink.bcp.gz. SNP_bitfield.bcp.gz provided miscellaneous properties annotated by dbSNP, such as clinically-associated. See the document dbSNP_BitField_v5.pdf for details. The header lines in the rs_fasta files were used for molecule type, class and observed polymorphism. Data Access The raw data can be explored interactively with the Table Browser, Data Integrator, or Variant Annotation Integrator. For automated analysis, the genome annotation can be downloaded from the downloads server for hg38 and hg19 (snp146*.txt.gz) or the public MySQL server. Please refer to our mailing list archives for questions and example queries, or our Data Access FAQ for more information. Orthologous Alleles (human assemblies only) For the human assembly, we provide a related table that contains orthologous alleles in the chimpanzee, orangutan and rhesus macaque reference genome assemblies. We use our liftOver utility to identify the orthologous alleles. The candidate human SNPs are a filtered list that meet the criteria: class = 'single' mapped position in the human reference genome is one base long aligned to only one location in the human reference genome not aligned to a chrN_random chrom biallelic (not tri- or quad-allelic) In some cases the orthologous allele is unknown; these are set to 'N'. If a lift was not possible, we set the orthologous allele to '?' and the orthologous start and end position to 0 (zero). Masked FASTA Files (human assemblies only) FASTA files that have been modified to use IUPAC ambiguous nucleotide characters at each base covered by a single-base substitution are available for download: GRCh37/hg19, GRCh38/hg38. Note that only single-base substitutions (no insertions or deletions) were used to mask the sequence, and these were filtered to exclude problematic SNPs. References Sherry ST, Ward MH, Kholodov M, Baker J, Phan L, Smigielski EM, Sirotkin K. dbSNP: the NCBI database of genetic variation. Nucleic Acids Res. 2001 Jan 1;29(1):308-11. PMID: 11125122; PMC: PMC29783 
snp144Mult Mult. SNPs(144) Simple Nucleotide Polymorphisms (dbSNP 144) That Map to Multiple Genomic Loci Variation Description This track contains information about a subset of the single nucleotide polymorphisms and small insertions and deletions (indels) — collectively Simple Nucleotide Polymorphisms — from dbSNP build 144, available from ftp.ncbi.nih.gov/snp. Only SNPs that have been mapped to multiple locations in the reference genome assembly are included in this subset. When a SNP's flanking sequences map to multiple locations in the reference genome, it calls into question whether there is true variation at those sites, or whether the sequences at those sites are merely highly similar but not identical. The default maximum weight for this track is 3, unlike the other dbSNP build 144 tracks which have a maximum weight of 1. That enables these multiply-mapped SNPs to appear in the display, while by default they will not appear in the All SNPs(144) track because of its maximum weight filter. The remainder of this page is identical on the following tracks: Common SNPs(144) - SNPs with >= 1% minor allele frequency (MAF), mapping only once to reference assembly. Flagged SNPs(144) - SNPs < 1% minor allele frequency (MAF) (or unknown), mapping only once to reference assembly, flagged in dbSnp as "clinically associated" -- not necessarily a risk allele! Mult. SNPs(144) - SNPs mapping in more than one place on reference assembly. All SNPs(144) - all SNPs from dbSNP mapping to reference assembly. Interpreting and Configuring the Graphical Display Variants are shown as single tick marks at most zoom levels. When viewing the track at or near base-level resolution, the displayed width of the SNP corresponds to the width of the variant in the reference sequence. Insertions are indicated by a single tick mark displayed between two nucleotides, single nucleotide polymorphisms are displayed as the width of a single base, and multiple nucleotide variants are represented by a block that spans two or more bases. On the track controls page, SNPs can be colored and/or filtered from the display according to several attributes: Class: Describes the observed alleles Single - single nucleotide variation: all observed alleles are single nucleotides (can have 2, 3 or 4 alleles) In-del - insertion/deletion Heterozygous - heterozygous (undetermined) variation: allele contains string '(heterozygous)' Microsatellite - the observed allele from dbSNP is a variation in counts of short tandem repeats Named - the observed allele from dbSNP is given as a text name instead of raw sequence, e.g., (Alu)/- No Variation - the submission reports an invariant region in the surveyed sequence Mixed - the cluster contains submissions from multiple classes Multiple Nucleotide Polymorphism (MNP) - the alleles are all of the same length, and length > 1 Insertion - the polymorphism is an insertion relative to the reference assembly Deletion - the polymorphism is a deletion relative to the reference assembly Unknown - no classification provided by data contributor Validation: Method used to validate the variant (each variant may be validated by more than one method) By Frequency - at least one submitted SNP in cluster has frequency data submitted By Cluster - cluster has at least 2 submissions, with at least one submission assayed with a non-computational method By Submitter - at least one submitter SNP in cluster was validated by independent assay By 2 Hit/2 Allele - all alleles have been observed in at least 2 chromosomes By HapMap (human only) - submitted by HapMap project By 1000Genomes (human only) - submitted by 1000Genomes project Unknown - no validation has been reported for this variant Function: dbSNP's predicted functional effect of variant on RefSeq transcripts, both curated (NM_* and NR_*) as in the RefSeq Genes track and predicted (XM_* and XR_*), not shown in UCSC Genome Browser. A variant may have more than one functional role if it overlaps multiple transcripts. These terms and definitions are from the Sequence Ontology (SO); click on a term to view it in the MISO Sequence Ontology Browser. Unknown - no functional classification provided (possibly intergenic) synonymous_variant - A sequence variant where there is no resulting change to the encoded amino acid (dbSNP term: coding-synon) intron_variant - A transcript variant occurring within an intron (dbSNP term: intron) downstream_gene_variant - A sequence variant located 3' of a gene (dbSNP term: near-gene-3) upstream_gene_variant - A sequence variant located 5' of a gene (dbSNP term: near-gene-5) nc_transcript_variant - A transcript variant of a non coding RNA gene (dbSNP term: ncRNA) stop_gained - A sequence variant whereby at least one base of a codon is changed, resulting in a premature stop codon, leading to a shortened transcript (dbSNP term: nonsense) missense_variant - A sequence variant, where the change may be longer than 3 bases, and at least one base of a codon is changed resulting in a codon that encodes for a different amino acid (dbSNP term: missense) stop_lost - A sequence variant where at least one base of the terminator codon (stop) is changed, resulting in an elongated transcript (dbSNP term: stop-loss) frameshift_variant - A sequence variant which causes a disruption of the translational reading frame, because the number of nucleotides inserted or deleted is not a multiple of three (dbSNP term: frameshift) inframe_indel - A coding sequence variant where the change does not alter the frame of the transcript (dbSNP term: cds-indel) 3_prime_UTR_variant - A UTR variant of the 3' UTR (dbSNP term: untranslated-3) 5_prime_UTR_variant - A UTR variant of the 5' UTR (dbSNP term: untranslated-5) splice_acceptor_variant - A splice variant that changes the 2 base region at the 3' end of an intron (dbSNP term: splice-3) splice_donor_variant - A splice variant that changes the 2 base region at the 5' end of an intron (dbSNP term: splice-5) In the Coloring Options section of the track controls page, function terms are grouped into several categories, shown here with default colors: Locus: downstream_gene_variant, upstream_gene_variant Coding - Synonymous: synonymous_variant Coding - Non-Synonymous: stop_gained, missense_variant, stop_lost, frameshift_variant, inframe_indel Untranslated: 5_prime_UTR_variant, 3_prime_UTR_variant Intron: intron_variant Splice Site: splice_acceptor_variant, splice_donor_variant Molecule Type: Sample used to find this variant Genomic - variant discovered using a genomic template cDNA - variant discovered using a cDNA template Unknown - sample type not known Unusual Conditions (UCSC): UCSC checks for several anomalies that may indicate a problem with the mapping, and reports them in the Annotations section of the SNP details page if found: AlleleFreqSumNot1 - Allele frequencies do not sum to 1.0 (+-0.01). This SNP's allele frequency data are probably incomplete. DuplicateObserved, MixedObserved - Multiple distinct insertion SNPs have been mapped to this location, with either the same inserted sequence (Duplicate) or different inserted sequence (Mixed). FlankMismatchGenomeEqual, FlankMismatchGenomeLonger, FlankMismatchGenomeShorter - NCBI's alignment of the flanking sequences had at least one mismatch or gap near the mapped SNP position. (UCSC's re-alignment of flanking sequences to the genome may be informative.) MultipleAlignments - This SNP's flanking sequences align to more than one location in the reference assembly. NamedDeletionZeroSpan - A deletion (from the genome) was observed but the annotation spans 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) NamedInsertionNonzeroSpan - An insertion (into the genome) was observed but the annotation spans more than 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) NonIntegerChromCount - At least one allele frequency corresponds to a non-integer (+-0.010000) count of chromosomes on which the allele was observed. The reported total sample count for this SNP is probably incorrect. ObservedContainsIupac - At least one observed allele from dbSNP contains an IUPAC ambiguous base (e.g., R, Y, N). ObservedMismatch - UCSC reference allele does not match any observed allele from dbSNP. This is tested only for SNPs whose class is single, in-del, insertion, deletion, mnp or mixed. ObservedTooLong - Observed allele not given (length too long). ObservedWrongFormat - Observed allele(s) from dbSNP have unexpected format for the given class. RefAlleleMismatch - The reference allele from dbSNP does not match the UCSC reference allele, i.e., the bases in the mapped position range. RefAlleleRevComp - The reference allele from dbSNP matches the reverse complement of the UCSC reference allele. SingleClassLongerSpan - All observed alleles are single-base, but the annotation spans more than 1 base. (UCSC's re-alignment of flanking sequences to the genome may be informative.) SingleClassZeroSpan - All observed alleles are single-base, but the annotation spans 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) Another condition, which does not necessarily imply any problem, is noted: SingleClassTriAllelic, SingleClassQuadAllelic - Class is single and three or four different bases have been observed (usually there are only two). Miscellaneous Attributes (dbSNP): several properties extracted from dbSNP's SNP_bitfield table (see dbSNP_BitField_v5.pdf for details) Clinically Associated (human only) - SNP is in OMIM and/or at least one submitter is a Locus-Specific Database. This does not necessarily imply that the variant causes any disease, only that it has been observed in clinical studies. Appears in OMIM/OMIA - SNP is mentioned in Online Mendelian Inheritance in Man for human SNPs, or Online Mendelian Inheritance in Animals for non-human animal SNPs. Some of these SNPs are quite common, others are known to cause disease; see OMIM/OMIA for more information. Has Microattribution/Third-Party Annotation - At least one of the SNP's submitters studied this SNP in a biomedical setting, but is not a Locus-Specific Database or OMIM/OMIA. Submitted by Locus-Specific Database - At least one of the SNP's submitters is associated with a database of variants associated with a particular gene. These variants may or may not be known to be causative. MAF >= 5% in Some Population - Minor Allele Frequency is at least 5% in at least one population assayed. MAF >= 5% in All Populations - Minor Allele Frequency is at least 5% in all populations assayed. Genotype Conflict - Quality check: different genotypes have been submitted for the same individual. Ref SNP Cluster has Non-overlapping Alleles - Quality check: this reference SNP was clustered from submitted SNPs with non-overlapping sets of observed alleles. Some Assembly's Allele Does Not Match Observed - Quality check: at least one assembly mapped by dbSNP has an allele at the mapped position that is not present in this SNP's observed alleles. Several other properties do not have coloring options, but do have some filtering options: Average heterozygosity: Calculated by dbSNP as described in Computation of Average Heterozygosity and Standard Error for dbSNP RefSNP Clusters. Average heterozygosity should not exceed 0.5 for bi-allelic single-base substitutions. Weight: Alignment quality assigned by dbSNP Weight can be 0, 1, 2, 3 or 10. Weight = 1 are the highest quality alignments. Weight = 0 and weight = 10 are excluded from the data set. A filter on maximum weight value is supported, which defaults to 1 on all tracks except the Mult. SNPs track, which defaults to 3. Submitter handles: These are short, single-word identifiers of labs or consortia that submitted SNPs that were clustered into this reference SNP by dbSNP (e.g., 1000GENOMES, ENSEMBL, KWOK). Some SNPs have been observed by many different submitters, and some by only a single submitter (although that single submitter may have tested a large number of samples). AlleleFrequencies: Some submissions to dbSNP include allele frequencies and the study's sample size (i.e., the number of distinct chromosomes, which is two times the number of individuals assayed, a.k.a. 2N). dbSNP combines all available frequencies and counts from submitted SNPs that are clustered together into a reference SNP. You can configure this track such that the details page displays the function and coding differences relative to particular gene sets. Choose the gene sets from the list on the SNP configuration page displayed beneath this heading: On details page, show function and coding differences relative to. When one or more gene tracks are selected, the SNP details page lists all genes that the SNP hits (or is close to), with the same keywords used in the function category. The function usually agrees with NCBI's function, except when NCBI's functional annotation is relative to an XM_* predicted RefSeq (not included in the UCSC Genome Browser's RefSeq Genes track) and/or UCSC's functional annotation is relative to a transcript that is not in RefSeq. Insertions/Deletions dbSNP uses a class called 'in-del'. We compare the length of the reference allele to the length(s) of observed alleles; if the reference allele is shorter than all other observed alleles, we change 'in-del' to 'insertion'. Likewise, if the reference allele is longer than all other observed alleles, we change 'in-del' to 'deletion'. UCSC Re-alignment of flanking sequences dbSNP determines the genomic locations of SNPs by aligning their flanking sequences to the genome. UCSC displays SNPs in the locations determined by dbSNP, but does not have access to the alignments on which dbSNP based its mappings. Instead, UCSC re-aligns the flanking sequences to the neighboring genomic sequence for display on SNP details pages. While the recomputed alignments may differ from dbSNP's alignments, they often are informative when UCSC has annotated an unusual condition. Non-repetitive genomic sequence is shown in upper case like the flanking sequence, and a "|" indicates each match between genomic and flanking bases. Repetitive genomic sequence (annotated by RepeatMasker and/or the Tandem Repeats Finder with period Data Sources and Methods The data that comprise this track were extracted from database dump files and headers of fasta files downloaded from NCBI. The database dump files were downloaded from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b144_GRCh37p13/database/organism_data/ for hg19 and from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b144_GRCh38p2/database/organism_data/ for hg38. The fasta files were downloaded from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b144_GRCh37p13/rs_fasta/ for hg19 and from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b144_GRCh38p2/rs_fasta/ for hg38. Coordinates, orientation, location type and dbSNP reference allele data were obtained from b144_SNPContigLoc_N.bcp.gz and b144_ContigInfo_N.bcp.gz. (N = 105 for hg19, 107 for hg38) b144_SNPMapInfo_N.bcp.gz provided the alignment weights. Functional classification was obtained from b144_SNPContigLocusId_N.bcp.gz. The internal database representation uses dbSNP's function terms, but for display in SNP details pages, these are translated into Sequence Ontology terms. Validation status and heterozygosity were obtained from SNP.bcp.gz. SNPAlleleFreq.bcp.gz and ../shared/Allele.bcp.gz provided allele frequencies. For the human assembly, allele frequencies were also taken from SNPAlleleFreq_TGP.bcp.gz . Submitter handles were extracted from Batch.bcp.gz, SubSNP.bcp.gz and SNPSubSNPLink.bcp.gz. SNP_bitfield.bcp.gz provided miscellaneous properties annotated by dbSNP, such as clinically-associated. See the document dbSNP_BitField_v5.pdf for details. The header lines in the rs_fasta files were used for molecule type, class and observed polymorphism. Data Access The raw data can be explored interactively with the Table Browser, Data Integrator, or Variant Annotation Integrator. For automated analysis, the genome annotation can be downloaded from the downloads server for hg38 and hg19 (snp144*.txt.gz) or the public MySQL server. Please refer to our mailing list archives for questions and example queries, or our Data Access FAQ for more information. Orthologous Alleles (human assemblies only) For the human assembly, we provide a related table that contains orthologous alleles in the chimpanzee, orangutan and rhesus macaque reference genome assemblies. We use our liftOver utility to identify the orthologous alleles. The candidate human SNPs are a filtered list that meet the criteria: class = 'single' mapped position in the human reference genome is one base long aligned to only one location in the human reference genome not aligned to a chrN_random chrom biallelic (not tri- or quad-allelic) In some cases the orthologous allele is unknown; these are set to 'N'. If a lift was not possible, we set the orthologous allele to '?' and the orthologous start and end position to 0 (zero). Masked FASTA Files (human assemblies only) FASTA files that have been modified to use IUPAC ambiguous nucleotide characters at each base covered by a single-base substitution are available for download: GRCh37/hg19, GRCh38/hg38. Note that only single-base substitutions (no insertions or deletions) were used to mask the sequence, and these were filtered to exclude problematic SNPs. References Sherry ST, Ward MH, Kholodov M, Baker J, Phan L, Smigielski EM, Sirotkin K. dbSNP: the NCBI database of genetic variation. Nucleic Acids Res. 2001 Jan 1;29(1):308-11. PMID: 11125122; PMC: PMC29783 
snp144Flagged Flagged SNPs(144) Simple Nucleotide Polymorphisms (dbSNP 144) Flagged by dbSNP as Clinically Assoc Variation Description This track contains information about a subset of the single nucleotide polymorphisms and small insertions and deletions (indels) — collectively Simple Nucleotide Polymorphisms — from dbSNP build 144, available from ftp.ncbi.nih.gov/snp. Only SNPs flagged as clinically associated by dbSNP, mapped to a single location in the reference genome assembly, and not known to have a minor allele frequency of at least 1%, are included in this subset. Frequency data are not available for all SNPs, so this subset probably includes some SNPs whose true minor allele frequency is 1% or greater. The significance of any particular variant in this track should be interpreted only by a trained medical geneticist using all available information. For example, some variants are included in this track because of their inclusion in a Locus-Specific Database (LSDB) or mention in OMIM, but are not thought to be disease-causing, so inclusion of a variant in this track is not necessarily an indicator of risk. Again, all available information must be carefully considered by a qualified professional. The remainder of this page is identical on the following tracks: Common SNPs(144) - SNPs with >= 1% minor allele frequency (MAF), mapping only once to reference assembly. Flagged SNPs(144) - SNPs < 1% minor allele frequency (MAF) (or unknown), mapping only once to reference assembly, flagged in dbSnp as "clinically associated" -- not necessarily a risk allele! Mult. SNPs(144) - SNPs mapping in more than one place on reference assembly. All SNPs(144) - all SNPs from dbSNP mapping to reference assembly. Interpreting and Configuring the Graphical Display Variants are shown as single tick marks at most zoom levels. When viewing the track at or near base-level resolution, the displayed width of the SNP corresponds to the width of the variant in the reference sequence. Insertions are indicated by a single tick mark displayed between two nucleotides, single nucleotide polymorphisms are displayed as the width of a single base, and multiple nucleotide variants are represented by a block that spans two or more bases. On the track controls page, SNPs can be colored and/or filtered from the display according to several attributes: Class: Describes the observed alleles Single - single nucleotide variation: all observed alleles are single nucleotides (can have 2, 3 or 4 alleles) In-del - insertion/deletion Heterozygous - heterozygous (undetermined) variation: allele contains string '(heterozygous)' Microsatellite - the observed allele from dbSNP is a variation in counts of short tandem repeats Named - the observed allele from dbSNP is given as a text name instead of raw sequence, e.g., (Alu)/- No Variation - the submission reports an invariant region in the surveyed sequence Mixed - the cluster contains submissions from multiple classes Multiple Nucleotide Polymorphism (MNP) - the alleles are all of the same length, and length > 1 Insertion - the polymorphism is an insertion relative to the reference assembly Deletion - the polymorphism is a deletion relative to the reference assembly Unknown - no classification provided by data contributor Validation: Method used to validate the variant (each variant may be validated by more than one method) By Frequency - at least one submitted SNP in cluster has frequency data submitted By Cluster - cluster has at least 2 submissions, with at least one submission assayed with a non-computational method By Submitter - at least one submitter SNP in cluster was validated by independent assay By 2 Hit/2 Allele - all alleles have been observed in at least 2 chromosomes By HapMap (human only) - submitted by HapMap project By 1000Genomes (human only) - submitted by 1000Genomes project Unknown - no validation has been reported for this variant Function: dbSNP's predicted functional effect of variant on RefSeq transcripts, both curated (NM_* and NR_*) as in the RefSeq Genes track and predicted (XM_* and XR_*), not shown in UCSC Genome Browser. A variant may have more than one functional role if it overlaps multiple transcripts. These terms and definitions are from the Sequence Ontology (SO); click on a term to view it in the MISO Sequence Ontology Browser. Unknown - no functional classification provided (possibly intergenic) synonymous_variant - A sequence variant where there is no resulting change to the encoded amino acid (dbSNP term: coding-synon) intron_variant - A transcript variant occurring within an intron (dbSNP term: intron) downstream_gene_variant - A sequence variant located 3' of a gene (dbSNP term: near-gene-3) upstream_gene_variant - A sequence variant located 5' of a gene (dbSNP term: near-gene-5) nc_transcript_variant - A transcript variant of a non coding RNA gene (dbSNP term: ncRNA) stop_gained - A sequence variant whereby at least one base of a codon is changed, resulting in a premature stop codon, leading to a shortened transcript (dbSNP term: nonsense) missense_variant - A sequence variant, where the change may be longer than 3 bases, and at least one base of a codon is changed resulting in a codon that encodes for a different amino acid (dbSNP term: missense) stop_lost - A sequence variant where at least one base of the terminator codon (stop) is changed, resulting in an elongated transcript (dbSNP term: stop-loss) frameshift_variant - A sequence variant which causes a disruption of the translational reading frame, because the number of nucleotides inserted or deleted is not a multiple of three (dbSNP term: frameshift) inframe_indel - A coding sequence variant where the change does not alter the frame of the transcript (dbSNP term: cds-indel) 3_prime_UTR_variant - A UTR variant of the 3' UTR (dbSNP term: untranslated-3) 5_prime_UTR_variant - A UTR variant of the 5' UTR (dbSNP term: untranslated-5) splice_acceptor_variant - A splice variant that changes the 2 base region at the 3' end of an intron (dbSNP term: splice-3) splice_donor_variant - A splice variant that changes the 2 base region at the 5' end of an intron (dbSNP term: splice-5) In the Coloring Options section of the track controls page, function terms are grouped into several categories, shown here with default colors: Locus: downstream_gene_variant, upstream_gene_variant Coding - Synonymous: synonymous_variant Coding - Non-Synonymous: stop_gained, missense_variant, stop_lost, frameshift_variant, inframe_indel Untranslated: 5_prime_UTR_variant, 3_prime_UTR_variant Intron: intron_variant Splice Site: splice_acceptor_variant, splice_donor_variant Molecule Type: Sample used to find this variant Genomic - variant discovered using a genomic template cDNA - variant discovered using a cDNA template Unknown - sample type not known Unusual Conditions (UCSC): UCSC checks for several anomalies that may indicate a problem with the mapping, and reports them in the Annotations section of the SNP details page if found: AlleleFreqSumNot1 - Allele frequencies do not sum to 1.0 (+-0.01). This SNP's allele frequency data are probably incomplete. DuplicateObserved, MixedObserved - Multiple distinct insertion SNPs have been mapped to this location, with either the same inserted sequence (Duplicate) or different inserted sequence (Mixed). FlankMismatchGenomeEqual, FlankMismatchGenomeLonger, FlankMismatchGenomeShorter - NCBI's alignment of the flanking sequences had at least one mismatch or gap near the mapped SNP position. (UCSC's re-alignment of flanking sequences to the genome may be informative.) MultipleAlignments - This SNP's flanking sequences align to more than one location in the reference assembly. NamedDeletionZeroSpan - A deletion (from the genome) was observed but the annotation spans 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) NamedInsertionNonzeroSpan - An insertion (into the genome) was observed but the annotation spans more than 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) NonIntegerChromCount - At least one allele frequency corresponds to a non-integer (+-0.010000) count of chromosomes on which the allele was observed. The reported total sample count for this SNP is probably incorrect. ObservedContainsIupac - At least one observed allele from dbSNP contains an IUPAC ambiguous base (e.g., R, Y, N). ObservedMismatch - UCSC reference allele does not match any observed allele from dbSNP. This is tested only for SNPs whose class is single, in-del, insertion, deletion, mnp or mixed. ObservedTooLong - Observed allele not given (length too long). ObservedWrongFormat - Observed allele(s) from dbSNP have unexpected format for the given class. RefAlleleMismatch - The reference allele from dbSNP does not match the UCSC reference allele, i.e., the bases in the mapped position range. RefAlleleRevComp - The reference allele from dbSNP matches the reverse complement of the UCSC reference allele. SingleClassLongerSpan - All observed alleles are single-base, but the annotation spans more than 1 base. (UCSC's re-alignment of flanking sequences to the genome may be informative.) SingleClassZeroSpan - All observed alleles are single-base, but the annotation spans 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) Another condition, which does not necessarily imply any problem, is noted: SingleClassTriAllelic, SingleClassQuadAllelic - Class is single and three or four different bases have been observed (usually there are only two). Miscellaneous Attributes (dbSNP): several properties extracted from dbSNP's SNP_bitfield table (see dbSNP_BitField_v5.pdf for details) Clinically Associated (human only) - SNP is in OMIM and/or at least one submitter is a Locus-Specific Database. This does not necessarily imply that the variant causes any disease, only that it has been observed in clinical studies. Appears in OMIM/OMIA - SNP is mentioned in Online Mendelian Inheritance in Man for human SNPs, or Online Mendelian Inheritance in Animals for non-human animal SNPs. Some of these SNPs are quite common, others are known to cause disease; see OMIM/OMIA for more information. Has Microattribution/Third-Party Annotation - At least one of the SNP's submitters studied this SNP in a biomedical setting, but is not a Locus-Specific Database or OMIM/OMIA. Submitted by Locus-Specific Database - At least one of the SNP's submitters is associated with a database of variants associated with a particular gene. These variants may or may not be known to be causative. MAF >= 5% in Some Population - Minor Allele Frequency is at least 5% in at least one population assayed. MAF >= 5% in All Populations - Minor Allele Frequency is at least 5% in all populations assayed. Genotype Conflict - Quality check: different genotypes have been submitted for the same individual. Ref SNP Cluster has Non-overlapping Alleles - Quality check: this reference SNP was clustered from submitted SNPs with non-overlapping sets of observed alleles. Some Assembly's Allele Does Not Match Observed - Quality check: at least one assembly mapped by dbSNP has an allele at the mapped position that is not present in this SNP's observed alleles. Several other properties do not have coloring options, but do have some filtering options: Average heterozygosity: Calculated by dbSNP as described in Computation of Average Heterozygosity and Standard Error for dbSNP RefSNP Clusters. Average heterozygosity should not exceed 0.5 for bi-allelic single-base substitutions. Weight: Alignment quality assigned by dbSNP Weight can be 0, 1, 2, 3 or 10. Weight = 1 are the highest quality alignments. Weight = 0 and weight = 10 are excluded from the data set. A filter on maximum weight value is supported, which defaults to 1 on all tracks except the Mult. SNPs track, which defaults to 3. Submitter handles: These are short, single-word identifiers of labs or consortia that submitted SNPs that were clustered into this reference SNP by dbSNP (e.g., 1000GENOMES, ENSEMBL, KWOK). Some SNPs have been observed by many different submitters, and some by only a single submitter (although that single submitter may have tested a large number of samples). AlleleFrequencies: Some submissions to dbSNP include allele frequencies and the study's sample size (i.e., the number of distinct chromosomes, which is two times the number of individuals assayed, a.k.a. 2N). dbSNP combines all available frequencies and counts from submitted SNPs that are clustered together into a reference SNP. You can configure this track such that the details page displays the function and coding differences relative to particular gene sets. Choose the gene sets from the list on the SNP configuration page displayed beneath this heading: On details page, show function and coding differences relative to. When one or more gene tracks are selected, the SNP details page lists all genes that the SNP hits (or is close to), with the same keywords used in the function category. The function usually agrees with NCBI's function, except when NCBI's functional annotation is relative to an XM_* predicted RefSeq (not included in the UCSC Genome Browser's RefSeq Genes track) and/or UCSC's functional annotation is relative to a transcript that is not in RefSeq. Insertions/Deletions dbSNP uses a class called 'in-del'. We compare the length of the reference allele to the length(s) of observed alleles; if the reference allele is shorter than all other observed alleles, we change 'in-del' to 'insertion'. Likewise, if the reference allele is longer than all other observed alleles, we change 'in-del' to 'deletion'. UCSC Re-alignment of flanking sequences dbSNP determines the genomic locations of SNPs by aligning their flanking sequences to the genome. UCSC displays SNPs in the locations determined by dbSNP, but does not have access to the alignments on which dbSNP based its mappings. Instead, UCSC re-aligns the flanking sequences to the neighboring genomic sequence for display on SNP details pages. While the recomputed alignments may differ from dbSNP's alignments, they often are informative when UCSC has annotated an unusual condition. Non-repetitive genomic sequence is shown in upper case like the flanking sequence, and a "|" indicates each match between genomic and flanking bases. Repetitive genomic sequence (annotated by RepeatMasker and/or the Tandem Repeats Finder with period Data Sources and Methods The data that comprise this track were extracted from database dump files and headers of fasta files downloaded from NCBI. The database dump files were downloaded from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b144_GRCh37p13/database/organism_data/ for hg19 and from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b144_GRCh38p2/database/organism_data/ for hg38. The fasta files were downloaded from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b144_GRCh37p13/rs_fasta/ for hg19 and from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b144_GRCh38p2/rs_fasta/ for hg38. Coordinates, orientation, location type and dbSNP reference allele data were obtained from b144_SNPContigLoc_N.bcp.gz and b144_ContigInfo_N.bcp.gz. (N = 105 for hg19, 107 for hg38) b144_SNPMapInfo_N.bcp.gz provided the alignment weights. Functional classification was obtained from b144_SNPContigLocusId_N.bcp.gz. The internal database representation uses dbSNP's function terms, but for display in SNP details pages, these are translated into Sequence Ontology terms. Validation status and heterozygosity were obtained from SNP.bcp.gz. SNPAlleleFreq.bcp.gz and ../shared/Allele.bcp.gz provided allele frequencies. For the human assembly, allele frequencies were also taken from SNPAlleleFreq_TGP.bcp.gz . Submitter handles were extracted from Batch.bcp.gz, SubSNP.bcp.gz and SNPSubSNPLink.bcp.gz. SNP_bitfield.bcp.gz provided miscellaneous properties annotated by dbSNP, such as clinically-associated. See the document dbSNP_BitField_v5.pdf for details. The header lines in the rs_fasta files were used for molecule type, class and observed polymorphism. Data Access The raw data can be explored interactively with the Table Browser, Data Integrator, or Variant Annotation Integrator. For automated analysis, the genome annotation can be downloaded from the downloads server for hg38 and hg19 (snp144*.txt.gz) or the public MySQL server. Please refer to our mailing list archives for questions and example queries, or our Data Access FAQ for more information. Orthologous Alleles (human assemblies only) For the human assembly, we provide a related table that contains orthologous alleles in the chimpanzee, orangutan and rhesus macaque reference genome assemblies. We use our liftOver utility to identify the orthologous alleles. The candidate human SNPs are a filtered list that meet the criteria: class = 'single' mapped position in the human reference genome is one base long aligned to only one location in the human reference genome not aligned to a chrN_random chrom biallelic (not tri- or quad-allelic) In some cases the orthologous allele is unknown; these are set to 'N'. If a lift was not possible, we set the orthologous allele to '?' and the orthologous start and end position to 0 (zero). Masked FASTA Files (human assemblies only) FASTA files that have been modified to use IUPAC ambiguous nucleotide characters at each base covered by a single-base substitution are available for download: GRCh37/hg19, GRCh38/hg38. Note that only single-base substitutions (no insertions or deletions) were used to mask the sequence, and these were filtered to exclude problematic SNPs. References Sherry ST, Ward MH, Kholodov M, Baker J, Phan L, Smigielski EM, Sirotkin K. dbSNP: the NCBI database of genetic variation. Nucleic Acids Res. 2001 Jan 1;29(1):308-11. PMID: 11125122; PMC: PMC29783 
snp144Common Common SNPs(144) Simple Nucleotide Polymorphisms (dbSNP 144) Found in >= 1% of Samples Variation Description This track contains information about a subset of the single nucleotide polymorphisms and small insertions and deletions (indels) — collectively Simple Nucleotide Polymorphisms — from dbSNP build 144, available from ftp.ncbi.nih.gov/snp. Only SNPs that have a minor allele frequency of at least 1% and are mapped to a single location in the reference genome assembly are included in this subset. Frequency data are not available for all SNPs, so this subset is incomplete. The selection of SNPs with a minor allele frequency of 1% or greater is an attempt to identify variants that appear to be reasonably common in the general population. Taken as a set, common variants should be less likely to be associated with severe genetic diseases due to the effects of natural selection, following the view that deleterious variants are not likely to become common in the population. However, the significance of any particular variant should be interpreted only by a trained medical geneticist using all available information. The remainder of this page is identical on the following tracks: Common SNPs(144) - SNPs with >= 1% minor allele frequency (MAF), mapping only once to reference assembly. Flagged SNPs(144) - SNPs < 1% minor allele frequency (MAF) (or unknown), mapping only once to reference assembly, flagged in dbSnp as "clinically associated" -- not necessarily a risk allele! Mult. SNPs(144) - SNPs mapping in more than one place on reference assembly. All SNPs(144) - all SNPs from dbSNP mapping to reference assembly. Interpreting and Configuring the Graphical Display Variants are shown as single tick marks at most zoom levels. When viewing the track at or near base-level resolution, the displayed width of the SNP corresponds to the width of the variant in the reference sequence. Insertions are indicated by a single tick mark displayed between two nucleotides, single nucleotide polymorphisms are displayed as the width of a single base, and multiple nucleotide variants are represented by a block that spans two or more bases. On the track controls page, SNPs can be colored and/or filtered from the display according to several attributes: Class: Describes the observed alleles Single - single nucleotide variation: all observed alleles are single nucleotides (can have 2, 3 or 4 alleles) In-del - insertion/deletion Heterozygous - heterozygous (undetermined) variation: allele contains string '(heterozygous)' Microsatellite - the observed allele from dbSNP is a variation in counts of short tandem repeats Named - the observed allele from dbSNP is given as a text name instead of raw sequence, e.g., (Alu)/- No Variation - the submission reports an invariant region in the surveyed sequence Mixed - the cluster contains submissions from multiple classes Multiple Nucleotide Polymorphism (MNP) - the alleles are all of the same length, and length > 1 Insertion - the polymorphism is an insertion relative to the reference assembly Deletion - the polymorphism is a deletion relative to the reference assembly Unknown - no classification provided by data contributor Validation: Method used to validate the variant (each variant may be validated by more than one method) By Frequency - at least one submitted SNP in cluster has frequency data submitted By Cluster - cluster has at least 2 submissions, with at least one submission assayed with a non-computational method By Submitter - at least one submitter SNP in cluster was validated by independent assay By 2 Hit/2 Allele - all alleles have been observed in at least 2 chromosomes By HapMap (human only) - submitted by HapMap project By 1000Genomes (human only) - submitted by 1000Genomes project Unknown - no validation has been reported for this variant Function: dbSNP's predicted functional effect of variant on RefSeq transcripts, both curated (NM_* and NR_*) as in the RefSeq Genes track and predicted (XM_* and XR_*), not shown in UCSC Genome Browser. A variant may have more than one functional role if it overlaps multiple transcripts. These terms and definitions are from the Sequence Ontology (SO); click on a term to view it in the MISO Sequence Ontology Browser. Unknown - no functional classification provided (possibly intergenic) synonymous_variant - A sequence variant where there is no resulting change to the encoded amino acid (dbSNP term: coding-synon) intron_variant - A transcript variant occurring within an intron (dbSNP term: intron) downstream_gene_variant - A sequence variant located 3' of a gene (dbSNP term: near-gene-3) upstream_gene_variant - A sequence variant located 5' of a gene (dbSNP term: near-gene-5) nc_transcript_variant - A transcript variant of a non coding RNA gene (dbSNP term: ncRNA) stop_gained - A sequence variant whereby at least one base of a codon is changed, resulting in a premature stop codon, leading to a shortened transcript (dbSNP term: nonsense) missense_variant - A sequence variant, where the change may be longer than 3 bases, and at least one base of a codon is changed resulting in a codon that encodes for a different amino acid (dbSNP term: missense) stop_lost - A sequence variant where at least one base of the terminator codon (stop) is changed, resulting in an elongated transcript (dbSNP term: stop-loss) frameshift_variant - A sequence variant which causes a disruption of the translational reading frame, because the number of nucleotides inserted or deleted is not a multiple of three (dbSNP term: frameshift) inframe_indel - A coding sequence variant where the change does not alter the frame of the transcript (dbSNP term: cds-indel) 3_prime_UTR_variant - A UTR variant of the 3' UTR (dbSNP term: untranslated-3) 5_prime_UTR_variant - A UTR variant of the 5' UTR (dbSNP term: untranslated-5) splice_acceptor_variant - A splice variant that changes the 2 base region at the 3' end of an intron (dbSNP term: splice-3) splice_donor_variant - A splice variant that changes the 2 base region at the 5' end of an intron (dbSNP term: splice-5) In the Coloring Options section of the track controls page, function terms are grouped into several categories, shown here with default colors: Locus: downstream_gene_variant, upstream_gene_variant Coding - Synonymous: synonymous_variant Coding - Non-Synonymous: stop_gained, missense_variant, stop_lost, frameshift_variant, inframe_indel Untranslated: 5_prime_UTR_variant, 3_prime_UTR_variant Intron: intron_variant Splice Site: splice_acceptor_variant, splice_donor_variant Molecule Type: Sample used to find this variant Genomic - variant discovered using a genomic template cDNA - variant discovered using a cDNA template Unknown - sample type not known Unusual Conditions (UCSC): UCSC checks for several anomalies that may indicate a problem with the mapping, and reports them in the Annotations section of the SNP details page if found: AlleleFreqSumNot1 - Allele frequencies do not sum to 1.0 (+-0.01). This SNP's allele frequency data are probably incomplete. DuplicateObserved, MixedObserved - Multiple distinct insertion SNPs have been mapped to this location, with either the same inserted sequence (Duplicate) or different inserted sequence (Mixed). FlankMismatchGenomeEqual, FlankMismatchGenomeLonger, FlankMismatchGenomeShorter - NCBI's alignment of the flanking sequences had at least one mismatch or gap near the mapped SNP position. (UCSC's re-alignment of flanking sequences to the genome may be informative.) MultipleAlignments - This SNP's flanking sequences align to more than one location in the reference assembly. NamedDeletionZeroSpan - A deletion (from the genome) was observed but the annotation spans 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) NamedInsertionNonzeroSpan - An insertion (into the genome) was observed but the annotation spans more than 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) NonIntegerChromCount - At least one allele frequency corresponds to a non-integer (+-0.010000) count of chromosomes on which the allele was observed. The reported total sample count for this SNP is probably incorrect. ObservedContainsIupac - At least one observed allele from dbSNP contains an IUPAC ambiguous base (e.g., R, Y, N). ObservedMismatch - UCSC reference allele does not match any observed allele from dbSNP. This is tested only for SNPs whose class is single, in-del, insertion, deletion, mnp or mixed. ObservedTooLong - Observed allele not given (length too long). ObservedWrongFormat - Observed allele(s) from dbSNP have unexpected format for the given class. RefAlleleMismatch - The reference allele from dbSNP does not match the UCSC reference allele, i.e., the bases in the mapped position range. RefAlleleRevComp - The reference allele from dbSNP matches the reverse complement of the UCSC reference allele. SingleClassLongerSpan - All observed alleles are single-base, but the annotation spans more than 1 base. (UCSC's re-alignment of flanking sequences to the genome may be informative.) SingleClassZeroSpan - All observed alleles are single-base, but the annotation spans 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) Another condition, which does not necessarily imply any problem, is noted: SingleClassTriAllelic, SingleClassQuadAllelic - Class is single and three or four different bases have been observed (usually there are only two). Miscellaneous Attributes (dbSNP): several properties extracted from dbSNP's SNP_bitfield table (see dbSNP_BitField_v5.pdf for details) Clinically Associated (human only) - SNP is in OMIM and/or at least one submitter is a Locus-Specific Database. This does not necessarily imply that the variant causes any disease, only that it has been observed in clinical studies. Appears in OMIM/OMIA - SNP is mentioned in Online Mendelian Inheritance in Man for human SNPs, or Online Mendelian Inheritance in Animals for non-human animal SNPs. Some of these SNPs are quite common, others are known to cause disease; see OMIM/OMIA for more information. Has Microattribution/Third-Party Annotation - At least one of the SNP's submitters studied this SNP in a biomedical setting, but is not a Locus-Specific Database or OMIM/OMIA. Submitted by Locus-Specific Database - At least one of the SNP's submitters is associated with a database of variants associated with a particular gene. These variants may or may not be known to be causative. MAF >= 5% in Some Population - Minor Allele Frequency is at least 5% in at least one population assayed. MAF >= 5% in All Populations - Minor Allele Frequency is at least 5% in all populations assayed. Genotype Conflict - Quality check: different genotypes have been submitted for the same individual. Ref SNP Cluster has Non-overlapping Alleles - Quality check: this reference SNP was clustered from submitted SNPs with non-overlapping sets of observed alleles. Some Assembly's Allele Does Not Match Observed - Quality check: at least one assembly mapped by dbSNP has an allele at the mapped position that is not present in this SNP's observed alleles. Several other properties do not have coloring options, but do have some filtering options: Average heterozygosity: Calculated by dbSNP as described in Computation of Average Heterozygosity and Standard Error for dbSNP RefSNP Clusters. Average heterozygosity should not exceed 0.5 for bi-allelic single-base substitutions. Weight: Alignment quality assigned by dbSNP Weight can be 0, 1, 2, 3 or 10. Weight = 1 are the highest quality alignments. Weight = 0 and weight = 10 are excluded from the data set. A filter on maximum weight value is supported, which defaults to 1 on all tracks except the Mult. SNPs track, which defaults to 3. Submitter handles: These are short, single-word identifiers of labs or consortia that submitted SNPs that were clustered into this reference SNP by dbSNP (e.g., 1000GENOMES, ENSEMBL, KWOK). Some SNPs have been observed by many different submitters, and some by only a single submitter (although that single submitter may have tested a large number of samples). AlleleFrequencies: Some submissions to dbSNP include allele frequencies and the study's sample size (i.e., the number of distinct chromosomes, which is two times the number of individuals assayed, a.k.a. 2N). dbSNP combines all available frequencies and counts from submitted SNPs that are clustered together into a reference SNP. You can configure this track such that the details page displays the function and coding differences relative to particular gene sets. Choose the gene sets from the list on the SNP configuration page displayed beneath this heading: On details page, show function and coding differences relative to. When one or more gene tracks are selected, the SNP details page lists all genes that the SNP hits (or is close to), with the same keywords used in the function category. The function usually agrees with NCBI's function, except when NCBI's functional annotation is relative to an XM_* predicted RefSeq (not included in the UCSC Genome Browser's RefSeq Genes track) and/or UCSC's functional annotation is relative to a transcript that is not in RefSeq. Insertions/Deletions dbSNP uses a class called 'in-del'. We compare the length of the reference allele to the length(s) of observed alleles; if the reference allele is shorter than all other observed alleles, we change 'in-del' to 'insertion'. Likewise, if the reference allele is longer than all other observed alleles, we change 'in-del' to 'deletion'. UCSC Re-alignment of flanking sequences dbSNP determines the genomic locations of SNPs by aligning their flanking sequences to the genome. UCSC displays SNPs in the locations determined by dbSNP, but does not have access to the alignments on which dbSNP based its mappings. Instead, UCSC re-aligns the flanking sequences to the neighboring genomic sequence for display on SNP details pages. While the recomputed alignments may differ from dbSNP's alignments, they often are informative when UCSC has annotated an unusual condition. Non-repetitive genomic sequence is shown in upper case like the flanking sequence, and a "|" indicates each match between genomic and flanking bases. Repetitive genomic sequence (annotated by RepeatMasker and/or the Tandem Repeats Finder with period Data Sources and Methods The data that comprise this track were extracted from database dump files and headers of fasta files downloaded from NCBI. The database dump files were downloaded from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b144_GRCh37p13/database/organism_data/ for hg19 and from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b144_GRCh38p2/database/organism_data/ for hg38. The fasta files were downloaded from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b144_GRCh37p13/rs_fasta/ for hg19 and from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b144_GRCh38p2/rs_fasta/ for hg38. Coordinates, orientation, location type and dbSNP reference allele data were obtained from b144_SNPContigLoc_N.bcp.gz and b144_ContigInfo_N.bcp.gz. (N = 105 for hg19, 107 for hg38) b144_SNPMapInfo_N.bcp.gz provided the alignment weights. Functional classification was obtained from b144_SNPContigLocusId_N.bcp.gz. The internal database representation uses dbSNP's function terms, but for display in SNP details pages, these are translated into Sequence Ontology terms. Validation status and heterozygosity were obtained from SNP.bcp.gz. SNPAlleleFreq.bcp.gz and ../shared/Allele.bcp.gz provided allele frequencies. For the human assembly, allele frequencies were also taken from SNPAlleleFreq_TGP.bcp.gz . Submitter handles were extracted from Batch.bcp.gz, SubSNP.bcp.gz and SNPSubSNPLink.bcp.gz. SNP_bitfield.bcp.gz provided miscellaneous properties annotated by dbSNP, such as clinically-associated. See the document dbSNP_BitField_v5.pdf for details. The header lines in the rs_fasta files were used for molecule type, class and observed polymorphism. Data Access The raw data can be explored interactively with the Table Browser, Data Integrator, or Variant Annotation Integrator. For automated analysis, the genome annotation can be downloaded from the downloads server for hg38 and hg19 (snp144*.txt.gz) or the public MySQL server. Please refer to our mailing list archives for questions and example queries, or our Data Access FAQ for more information. Orthologous Alleles (human assemblies only) For the human assembly, we provide a related table that contains orthologous alleles in the chimpanzee, orangutan and rhesus macaque reference genome assemblies. We use our liftOver utility to identify the orthologous alleles. The candidate human SNPs are a filtered list that meet the criteria: class = 'single' mapped position in the human reference genome is one base long aligned to only one location in the human reference genome not aligned to a chrN_random chrom biallelic (not tri- or quad-allelic) In some cases the orthologous allele is unknown; these are set to 'N'. If a lift was not possible, we set the orthologous allele to '?' and the orthologous start and end position to 0 (zero). Masked FASTA Files (human assemblies only) FASTA files that have been modified to use IUPAC ambiguous nucleotide characters at each base covered by a single-base substitution are available for download: GRCh37/hg19, GRCh38/hg38. Note that only single-base substitutions (no insertions or deletions) were used to mask the sequence, and these were filtered to exclude problematic SNPs. References Sherry ST, Ward MH, Kholodov M, Baker J, Phan L, Smigielski EM, Sirotkin K. dbSNP: the NCBI database of genetic variation. Nucleic Acids Res. 2001 Jan 1;29(1):308-11. PMID: 11125122; PMC: PMC29783 
snp144 All SNPs(144) Simple Nucleotide Polymorphisms (dbSNP 144) Variation Description This track contains information about single nucleotide polymorphisms and small insertions and deletions (indels) — collectively Simple Nucleotide Polymorphisms — from dbSNP build 144, available from ftp.ncbi.nih.gov/snp. Three tracks contain subsets of the items in this track: Common SNPs(144): SNPs that have a minor allele frequency of at least 1% and are mapped to a single location in the reference genome assembly. Frequency data are not available for all SNPs, so this subset is incomplete. Flagged SNPs(144): SNPs flagged as clinically associated by dbSNP, mapped to a single location in the reference genome assembly, and not known to have a minor allele frequency of at least 1%. Frequency data are not available for all SNPs, so this subset may include some SNPs whose true minor allele frequency is 1% or greater. Mult. SNPs(144): SNPs that have been mapped to multiple locations in the reference genome assembly. The default maximum weight for this track is 1, so unless the setting is changed in the track controls, SNPs that map to multiple genomic locations will be omitted from display. When a SNP's flanking sequences map to multiple locations in the reference genome, it calls into question whether there is true variation at those sites, or whether the sequences at those sites are merely highly similar but not identical. The remainder of this page is identical on the following tracks: Common SNPs(144) - SNPs with >= 1% minor allele frequency (MAF), mapping only once to reference assembly. Flagged SNPs(144) - SNPs < 1% minor allele frequency (MAF) (or unknown), mapping only once to reference assembly, flagged in dbSnp as "clinically associated" -- not necessarily a risk allele! Mult. SNPs(144) - SNPs mapping in more than one place on reference assembly. All SNPs(144) - all SNPs from dbSNP mapping to reference assembly. Interpreting and Configuring the Graphical Display Variants are shown as single tick marks at most zoom levels. When viewing the track at or near base-level resolution, the displayed width of the SNP corresponds to the width of the variant in the reference sequence. Insertions are indicated by a single tick mark displayed between two nucleotides, single nucleotide polymorphisms are displayed as the width of a single base, and multiple nucleotide variants are represented by a block that spans two or more bases. On the track controls page, SNPs can be colored and/or filtered from the display according to several attributes: Class: Describes the observed alleles Single - single nucleotide variation: all observed alleles are single nucleotides (can have 2, 3 or 4 alleles) In-del - insertion/deletion Heterozygous - heterozygous (undetermined) variation: allele contains string '(heterozygous)' Microsatellite - the observed allele from dbSNP is a variation in counts of short tandem repeats Named - the observed allele from dbSNP is given as a text name instead of raw sequence, e.g., (Alu)/- No Variation - the submission reports an invariant region in the surveyed sequence Mixed - the cluster contains submissions from multiple classes Multiple Nucleotide Polymorphism (MNP) - the alleles are all of the same length, and length > 1 Insertion - the polymorphism is an insertion relative to the reference assembly Deletion - the polymorphism is a deletion relative to the reference assembly Unknown - no classification provided by data contributor Validation: Method used to validate the variant (each variant may be validated by more than one method) By Frequency - at least one submitted SNP in cluster has frequency data submitted By Cluster - cluster has at least 2 submissions, with at least one submission assayed with a non-computational method By Submitter - at least one submitter SNP in cluster was validated by independent assay By 2 Hit/2 Allele - all alleles have been observed in at least 2 chromosomes By HapMap (human only) - submitted by HapMap project By 1000Genomes (human only) - submitted by 1000Genomes project Unknown - no validation has been reported for this variant Function: dbSNP's predicted functional effect of variant on RefSeq transcripts, both curated (NM_* and NR_*) as in the RefSeq Genes track and predicted (XM_* and XR_*), not shown in UCSC Genome Browser. A variant may have more than one functional role if it overlaps multiple transcripts. These terms and definitions are from the Sequence Ontology (SO); click on a term to view it in the MISO Sequence Ontology Browser. Unknown - no functional classification provided (possibly intergenic) synonymous_variant - A sequence variant where there is no resulting change to the encoded amino acid (dbSNP term: coding-synon) intron_variant - A transcript variant occurring within an intron (dbSNP term: intron) downstream_gene_variant - A sequence variant located 3' of a gene (dbSNP term: near-gene-3) upstream_gene_variant - A sequence variant located 5' of a gene (dbSNP term: near-gene-5) nc_transcript_variant - A transcript variant of a non coding RNA gene (dbSNP term: ncRNA) stop_gained - A sequence variant whereby at least one base of a codon is changed, resulting in a premature stop codon, leading to a shortened transcript (dbSNP term: nonsense) missense_variant - A sequence variant, where the change may be longer than 3 bases, and at least one base of a codon is changed resulting in a codon that encodes for a different amino acid (dbSNP term: missense) stop_lost - A sequence variant where at least one base of the terminator codon (stop) is changed, resulting in an elongated transcript (dbSNP term: stop-loss) frameshift_variant - A sequence variant which causes a disruption of the translational reading frame, because the number of nucleotides inserted or deleted is not a multiple of three (dbSNP term: frameshift) inframe_indel - A coding sequence variant where the change does not alter the frame of the transcript (dbSNP term: cds-indel) 3_prime_UTR_variant - A UTR variant of the 3' UTR (dbSNP term: untranslated-3) 5_prime_UTR_variant - A UTR variant of the 5' UTR (dbSNP term: untranslated-5) splice_acceptor_variant - A splice variant that changes the 2 base region at the 3' end of an intron (dbSNP term: splice-3) splice_donor_variant - A splice variant that changes the 2 base region at the 5' end of an intron (dbSNP term: splice-5) In the Coloring Options section of the track controls page, function terms are grouped into several categories, shown here with default colors: Locus: downstream_gene_variant, upstream_gene_variant Coding - Synonymous: synonymous_variant Coding - Non-Synonymous: stop_gained, missense_variant, stop_lost, frameshift_variant, inframe_indel Untranslated: 5_prime_UTR_variant, 3_prime_UTR_variant Intron: intron_variant Splice Site: splice_acceptor_variant, splice_donor_variant Molecule Type: Sample used to find this variant Genomic - variant discovered using a genomic template cDNA - variant discovered using a cDNA template Unknown - sample type not known Unusual Conditions (UCSC): UCSC checks for several anomalies that may indicate a problem with the mapping, and reports them in the Annotations section of the SNP details page if found: AlleleFreqSumNot1 - Allele frequencies do not sum to 1.0 (+-0.01). This SNP's allele frequency data are probably incomplete. DuplicateObserved, MixedObserved - Multiple distinct insertion SNPs have been mapped to this location, with either the same inserted sequence (Duplicate) or different inserted sequence (Mixed). FlankMismatchGenomeEqual, FlankMismatchGenomeLonger, FlankMismatchGenomeShorter - NCBI's alignment of the flanking sequences had at least one mismatch or gap near the mapped SNP position. (UCSC's re-alignment of flanking sequences to the genome may be informative.) MultipleAlignments - This SNP's flanking sequences align to more than one location in the reference assembly. NamedDeletionZeroSpan - A deletion (from the genome) was observed but the annotation spans 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) NamedInsertionNonzeroSpan - An insertion (into the genome) was observed but the annotation spans more than 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) NonIntegerChromCount - At least one allele frequency corresponds to a non-integer (+-0.010000) count of chromosomes on which the allele was observed. The reported total sample count for this SNP is probably incorrect. ObservedContainsIupac - At least one observed allele from dbSNP contains an IUPAC ambiguous base (e.g., R, Y, N). ObservedMismatch - UCSC reference allele does not match any observed allele from dbSNP. This is tested only for SNPs whose class is single, in-del, insertion, deletion, mnp or mixed. ObservedTooLong - Observed allele not given (length too long). ObservedWrongFormat - Observed allele(s) from dbSNP have unexpected format for the given class. RefAlleleMismatch - The reference allele from dbSNP does not match the UCSC reference allele, i.e., the bases in the mapped position range. RefAlleleRevComp - The reference allele from dbSNP matches the reverse complement of the UCSC reference allele. SingleClassLongerSpan - All observed alleles are single-base, but the annotation spans more than 1 base. (UCSC's re-alignment of flanking sequences to the genome may be informative.) SingleClassZeroSpan - All observed alleles are single-base, but the annotation spans 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) Another condition, which does not necessarily imply any problem, is noted: SingleClassTriAllelic, SingleClassQuadAllelic - Class is single and three or four different bases have been observed (usually there are only two). Miscellaneous Attributes (dbSNP): several properties extracted from dbSNP's SNP_bitfield table (see dbSNP_BitField_v5.pdf for details) Clinically Associated (human only) - SNP is in OMIM and/or at least one submitter is a Locus-Specific Database. This does not necessarily imply that the variant causes any disease, only that it has been observed in clinical studies. Appears in OMIM/OMIA - SNP is mentioned in Online Mendelian Inheritance in Man for human SNPs, or Online Mendelian Inheritance in Animals for non-human animal SNPs. Some of these SNPs are quite common, others are known to cause disease; see OMIM/OMIA for more information. Has Microattribution/Third-Party Annotation - At least one of the SNP's submitters studied this SNP in a biomedical setting, but is not a Locus-Specific Database or OMIM/OMIA. Submitted by Locus-Specific Database - At least one of the SNP's submitters is associated with a database of variants associated with a particular gene. These variants may or may not be known to be causative. MAF >= 5% in Some Population - Minor Allele Frequency is at least 5% in at least one population assayed. MAF >= 5% in All Populations - Minor Allele Frequency is at least 5% in all populations assayed. Genotype Conflict - Quality check: different genotypes have been submitted for the same individual. Ref SNP Cluster has Non-overlapping Alleles - Quality check: this reference SNP was clustered from submitted SNPs with non-overlapping sets of observed alleles. Some Assembly's Allele Does Not Match Observed - Quality check: at least one assembly mapped by dbSNP has an allele at the mapped position that is not present in this SNP's observed alleles. Several other properties do not have coloring options, but do have some filtering options: Average heterozygosity: Calculated by dbSNP as described in Computation of Average Heterozygosity and Standard Error for dbSNP RefSNP Clusters. Average heterozygosity should not exceed 0.5 for bi-allelic single-base substitutions. Weight: Alignment quality assigned by dbSNP Weight can be 0, 1, 2, 3 or 10. Weight = 1 are the highest quality alignments. Weight = 0 and weight = 10 are excluded from the data set. A filter on maximum weight value is supported, which defaults to 1 on all tracks except the Mult. SNPs track, which defaults to 3. Submitter handles: These are short, single-word identifiers of labs or consortia that submitted SNPs that were clustered into this reference SNP by dbSNP (e.g., 1000GENOMES, ENSEMBL, KWOK). Some SNPs have been observed by many different submitters, and some by only a single submitter (although that single submitter may have tested a large number of samples). AlleleFrequencies: Some submissions to dbSNP include allele frequencies and the study's sample size (i.e., the number of distinct chromosomes, which is two times the number of individuals assayed, a.k.a. 2N). dbSNP combines all available frequencies and counts from submitted SNPs that are clustered together into a reference SNP. You can configure this track such that the details page displays the function and coding differences relative to particular gene sets. Choose the gene sets from the list on the SNP configuration page displayed beneath this heading: On details page, show function and coding differences relative to. When one or more gene tracks are selected, the SNP details page lists all genes that the SNP hits (or is close to), with the same keywords used in the function category. The function usually agrees with NCBI's function, except when NCBI's functional annotation is relative to an XM_* predicted RefSeq (not included in the UCSC Genome Browser's RefSeq Genes track) and/or UCSC's functional annotation is relative to a transcript that is not in RefSeq. Insertions/Deletions dbSNP uses a class called 'in-del'. We compare the length of the reference allele to the length(s) of observed alleles; if the reference allele is shorter than all other observed alleles, we change 'in-del' to 'insertion'. Likewise, if the reference allele is longer than all other observed alleles, we change 'in-del' to 'deletion'. UCSC Re-alignment of flanking sequences dbSNP determines the genomic locations of SNPs by aligning their flanking sequences to the genome. UCSC displays SNPs in the locations determined by dbSNP, but does not have access to the alignments on which dbSNP based its mappings. Instead, UCSC re-aligns the flanking sequences to the neighboring genomic sequence for display on SNP details pages. While the recomputed alignments may differ from dbSNP's alignments, they often are informative when UCSC has annotated an unusual condition. Non-repetitive genomic sequence is shown in upper case like the flanking sequence, and a "|" indicates each match between genomic and flanking bases. Repetitive genomic sequence (annotated by RepeatMasker and/or the Tandem Repeats Finder with period Data Sources and Methods The data that comprise this track were extracted from database dump files and headers of fasta files downloaded from NCBI. The database dump files were downloaded from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b144_GRCh37p13/database/organism_data/ for hg19 and from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b144_GRCh38p2/database/organism_data/ for hg38. The fasta files were downloaded from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b144_GRCh37p13/rs_fasta/ for hg19 and from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b144_GRCh38p2/rs_fasta/ for hg38. Coordinates, orientation, location type and dbSNP reference allele data were obtained from b144_SNPContigLoc_N.bcp.gz and b144_ContigInfo_N.bcp.gz. (N = 105 for hg19, 107 for hg38) b144_SNPMapInfo_N.bcp.gz provided the alignment weights. Functional classification was obtained from b144_SNPContigLocusId_N.bcp.gz. The internal database representation uses dbSNP's function terms, but for display in SNP details pages, these are translated into Sequence Ontology terms. Validation status and heterozygosity were obtained from SNP.bcp.gz. SNPAlleleFreq.bcp.gz and ../shared/Allele.bcp.gz provided allele frequencies. For the human assembly, allele frequencies were also taken from SNPAlleleFreq_TGP.bcp.gz . Submitter handles were extracted from Batch.bcp.gz, SubSNP.bcp.gz and SNPSubSNPLink.bcp.gz. SNP_bitfield.bcp.gz provided miscellaneous properties annotated by dbSNP, such as clinically-associated. See the document dbSNP_BitField_v5.pdf for details. The header lines in the rs_fasta files were used for molecule type, class and observed polymorphism. Data Access The raw data can be explored interactively with the Table Browser, Data Integrator, or Variant Annotation Integrator. For automated analysis, the genome annotation can be downloaded from the downloads server for hg38 and hg19 (snp144*.txt.gz) or the public MySQL server. Please refer to our mailing list archives for questions and example queries, or our Data Access FAQ for more information. Orthologous Alleles (human assemblies only) For the human assembly, we provide a related table that contains orthologous alleles in the chimpanzee, orangutan and rhesus macaque reference genome assemblies. We use our liftOver utility to identify the orthologous alleles. The candidate human SNPs are a filtered list that meet the criteria: class = 'single' mapped position in the human reference genome is one base long aligned to only one location in the human reference genome not aligned to a chrN_random chrom biallelic (not tri- or quad-allelic) In some cases the orthologous allele is unknown; these are set to 'N'. If a lift was not possible, we set the orthologous allele to '?' and the orthologous start and end position to 0 (zero). Masked FASTA Files (human assemblies only) FASTA files that have been modified to use IUPAC ambiguous nucleotide characters at each base covered by a single-base substitution are available for download: GRCh37/hg19, GRCh38/hg38. Note that only single-base substitutions (no insertions or deletions) were used to mask the sequence, and these were filtered to exclude problematic SNPs. References Sherry ST, Ward MH, Kholodov M, Baker J, Phan L, Smigielski EM, Sirotkin K. dbSNP: the NCBI database of genetic variation. Nucleic Acids Res. 2001 Jan 1;29(1):308-11. PMID: 11125122; PMC: PMC29783 
snp142Mult Mult. SNPs(142) Simple Nucleotide Polymorphisms (dbSNP 142) That Map to Multiple Genomic Loci Variation Description This track contains information about a subset of the single nucleotide polymorphisms and small insertions and deletions (indels) — collectively Simple Nucleotide Polymorphisms — from dbSNP build 142, available from ftp.ncbi.nih.gov/snp. Only SNPs that have been mapped to multiple locations in the reference genome assembly are included in this subset. When a SNP's flanking sequences map to multiple locations in the reference genome, it calls into question whether there is true variation at those sites, or whether the sequences at those sites are merely highly similar but not identical. The default maximum weight for this track is 3, unlike the other dbSNP build 142 tracks which have a maximum weight of 1. That enables these multiply-mapped SNPs to appear in the display, while by default they will not appear in the All SNPs(142) track because of its maximum weight filter. The remainder of this page is identical on the following tracks: Common SNPs(142) - SNPs with >= 1% minor allele frequency (MAF), mapping only once to reference assembly. Flagged SNPs(142) - SNPs < 1% minor allele frequency (MAF) (or unknown), mapping only once to reference assembly, flagged in dbSnp as "clinically associated" -- not necessarily a risk allele! Mult. SNPs(142) - SNPs mapping in more than one place on reference assembly. All SNPs(142) - all SNPs from dbSNP mapping to reference assembly. Interpreting and Configuring the Graphical Display Variants are shown as single tick marks at most zoom levels. When viewing the track at or near base-level resolution, the displayed width of the SNP corresponds to the width of the variant in the reference sequence. Insertions are indicated by a single tick mark displayed between two nucleotides, single nucleotide polymorphisms are displayed as the width of a single base, and multiple nucleotide variants are represented by a block that spans two or more bases. On the track controls page, SNPs can be colored and/or filtered from the display according to several attributes: Class: Describes the observed alleles Single - single nucleotide variation: all observed alleles are single nucleotides (can have 2, 3 or 4 alleles) In-del - insertion/deletion Heterozygous - heterozygous (undetermined) variation: allele contains string '(heterozygous)' Microsatellite - the observed allele from dbSNP is a variation in counts of short tandem repeats Named - the observed allele from dbSNP is given as a text name instead of raw sequence, e.g., (Alu)/- No Variation - the submission reports an invariant region in the surveyed sequence Mixed - the cluster contains submissions from multiple classes Multiple Nucleotide Polymorphism (MNP) - the alleles are all of the same length, and length > 1 Insertion - the polymorphism is an insertion relative to the reference assembly Deletion - the polymorphism is a deletion relative to the reference assembly Unknown - no classification provided by data contributor Validation: Method used to validate the variant (each variant may be validated by more than one method) By Frequency - at least one submitted SNP in cluster has frequency data submitted By Cluster - cluster has at least 2 submissions, with at least one submission assayed with a non-computational method By Submitter - at least one submitter SNP in cluster was validated by independent assay By 2 Hit/2 Allele - all alleles have been observed in at least 2 chromosomes By HapMap (human only) - submitted by HapMap project By 1000Genomes (human only) - submitted by 1000Genomes project Unknown - no validation has been reported for this variant Function: dbSNP's predicted functional effect of variant on RefSeq transcripts, both curated (NM_* and NR_*) as in the RefSeq Genes track and predicted (XM_* and XR_*), not shown in UCSC Genome Browser. A variant may have more than one functional role if it overlaps multiple transcripts. These terms and definitions are from the Sequence Ontology (SO); click on a term to view it in the MISO Sequence Ontology Browser. Unknown - no functional classification provided (possibly intergenic) synonymous_variant - A sequence variant where there is no resulting change to the encoded amino acid (dbSNP term: coding-synon) intron_variant - A transcript variant occurring within an intron (dbSNP term: intron) downstream_gene_variant - A sequence variant located 3' of a gene (dbSNP term: near-gene-3) upstream_gene_variant - A sequence variant located 5' of a gene (dbSNP term: near-gene-5) nc_transcript_variant - A transcript variant of a non coding RNA gene (dbSNP term: ncRNA) stop_gained - A sequence variant whereby at least one base of a codon is changed, resulting in a premature stop codon, leading to a shortened transcript (dbSNP term: nonsense) missense_variant - A sequence variant, where the change may be longer than 3 bases, and at least one base of a codon is changed resulting in a codon that encodes for a different amino acid (dbSNP term: missense) stop_lost - A sequence variant where at least one base of the terminator codon (stop) is changed, resulting in an elongated transcript (dbSNP term: stop-loss) frameshift_variant - A sequence variant which causes a disruption of the translational reading frame, because the number of nucleotides inserted or deleted is not a multiple of three (dbSNP term: frameshift) inframe_indel - A coding sequence variant where the change does not alter the frame of the transcript (dbSNP term: cds-indel) 3_prime_UTR_variant - A UTR variant of the 3' UTR (dbSNP term: untranslated-3) 5_prime_UTR_variant - A UTR variant of the 5' UTR (dbSNP term: untranslated-5) splice_acceptor_variant - A splice variant that changes the 2 base region at the 3' end of an intron (dbSNP term: splice-3) splice_donor_variant - A splice variant that changes the 2 base region at the 5' end of an intron (dbSNP term: splice-5) In the Coloring Options section of the track controls page, function terms are grouped into several categories, shown here with default colors: Locus: downstream_gene_variant, upstream_gene_variant Coding - Synonymous: synonymous_variant Coding - Non-Synonymous: stop_gained, missense_variant, stop_lost, frameshift_variant, inframe_indel Untranslated: 5_prime_UTR_variant, 3_prime_UTR_variant Intron: intron_variant Splice Site: splice_acceptor_variant, splice_donor_variant Molecule Type: Sample used to find this variant Genomic - variant discovered using a genomic template cDNA - variant discovered using a cDNA template Unknown - sample type not known Unusual Conditions (UCSC): UCSC checks for several anomalies that may indicate a problem with the mapping, and reports them in the Annotations section of the SNP details page if found: AlleleFreqSumNot1 - Allele frequencies do not sum to 1.0 (+-0.01). This SNP's allele frequency data are probably incomplete. DuplicateObserved, MixedObserved - Multiple distinct insertion SNPs have been mapped to this location, with either the same inserted sequence (Duplicate) or different inserted sequence (Mixed). FlankMismatchGenomeEqual, FlankMismatchGenomeLonger, FlankMismatchGenomeShorter - NCBI's alignment of the flanking sequences had at least one mismatch or gap near the mapped SNP position. (UCSC's re-alignment of flanking sequences to the genome may be informative.) MultipleAlignments - This SNP's flanking sequences align to more than one location in the reference assembly. NamedDeletionZeroSpan - A deletion (from the genome) was observed but the annotation spans 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) NamedInsertionNonzeroSpan - An insertion (into the genome) was observed but the annotation spans more than 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) NonIntegerChromCount - At least one allele frequency corresponds to a non-integer (+-0.010000) count of chromosomes on which the allele was observed. The reported total sample count for this SNP is probably incorrect. ObservedContainsIupac - At least one observed allele from dbSNP contains an IUPAC ambiguous base (e.g., R, Y, N). ObservedMismatch - UCSC reference allele does not match any observed allele from dbSNP. This is tested only for SNPs whose class is single, in-del, insertion, deletion, mnp or mixed. ObservedTooLong - Observed allele not given (length too long). ObservedWrongFormat - Observed allele(s) from dbSNP have unexpected format for the given class. RefAlleleMismatch - The reference allele from dbSNP does not match the UCSC reference allele, i.e., the bases in the mapped position range. RefAlleleRevComp - The reference allele from dbSNP matches the reverse complement of the UCSC reference allele. SingleClassLongerSpan - All observed alleles are single-base, but the annotation spans more than 1 base. (UCSC's re-alignment of flanking sequences to the genome may be informative.) SingleClassZeroSpan - All observed alleles are single-base, but the annotation spans 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) Another condition, which does not necessarily imply any problem, is noted: SingleClassTriAllelic, SingleClassQuadAllelic - Class is single and three or four different bases have been observed (usually there are only two). Miscellaneous Attributes (dbSNP): several properties extracted from dbSNP's SNP_bitfield table (see dbSNP_BitField_v5.pdf for details) Clinically Associated (human only) - SNP is in OMIM and/or at least one submitter is a Locus-Specific Database. This does not necessarily imply that the variant causes any disease, only that it has been observed in clinical studies. Appears in OMIM/OMIA - SNP is mentioned in Online Mendelian Inheritance in Man for human SNPs, or Online Mendelian Inheritance in Animals for non-human animal SNPs. Some of these SNPs are quite common, others are known to cause disease; see OMIM/OMIA for more information. Has Microattribution/Third-Party Annotation - At least one of the SNP's submitters studied this SNP in a biomedical setting, but is not a Locus-Specific Database or OMIM/OMIA. Submitted by Locus-Specific Database - At least one of the SNP's submitters is associated with a database of variants associated with a particular gene. These variants may or may not be known to be causative. MAF >= 5% in Some Population - Minor Allele Frequency is at least 5% in at least one population assayed. MAF >= 5% in All Populations - Minor Allele Frequency is at least 5% in all populations assayed. Genotype Conflict - Quality check: different genotypes have been submitted for the same individual. Ref SNP Cluster has Non-overlapping Alleles - Quality check: this reference SNP was clustered from submitted SNPs with non-overlapping sets of observed alleles. Some Assembly's Allele Does Not Match Observed - Quality check: at least one assembly mapped by dbSNP has an allele at the mapped position that is not present in this SNP's observed alleles. Several other properties do not have coloring options, but do have some filtering options: Average heterozygosity: Calculated by dbSNP as described in Computation of Average Heterozygosity and Standard Error for dbSNP RefSNP Clusters. Average heterozygosity should not exceed 0.5 for bi-allelic single-base substitutions. Weight: Alignment quality assigned by dbSNP Weight can be 0, 1, 2, 3 or 10. Weight = 1 are the highest quality alignments. Weight = 0 and weight = 10 are excluded from the data set. A filter on maximum weight value is supported, which defaults to 1 on all tracks except the Mult. SNPs track, which defaults to 3. Submitter handles: These are short, single-word identifiers of labs or consortia that submitted SNPs that were clustered into this reference SNP by dbSNP (e.g., 1000GENOMES, ENSEMBL, KWOK). Some SNPs have been observed by many different submitters, and some by only a single submitter (although that single submitter may have tested a large number of samples). AlleleFrequencies: Some submissions to dbSNP include allele frequencies and the study's sample size (i.e., the number of distinct chromosomes, which is two times the number of individuals assayed, a.k.a. 2N). dbSNP combines all available frequencies and counts from submitted SNPs that are clustered together into a reference SNP. You can configure this track such that the details page displays the function and coding differences relative to particular gene sets. Choose the gene sets from the list on the SNP configuration page displayed beneath this heading: On details page, show function and coding differences relative to. When one or more gene tracks are selected, the SNP details page lists all genes that the SNP hits (or is close to), with the same keywords used in the function category. The function usually agrees with NCBI's function, except when NCBI's functional annotation is relative to an XM_* predicted RefSeq (not included in the UCSC Genome Browser's RefSeq Genes track) and/or UCSC's functional annotation is relative to a transcript that is not in RefSeq. Insertions/Deletions dbSNP uses a class called 'in-del'. We compare the length of the reference allele to the length(s) of observed alleles; if the reference allele is shorter than all other observed alleles, we change 'in-del' to 'insertion'. Likewise, if the reference allele is longer than all other observed alleles, we change 'in-del' to 'deletion'. UCSC Re-alignment of flanking sequences dbSNP determines the genomic locations of SNPs by aligning their flanking sequences to the genome. UCSC displays SNPs in the locations determined by dbSNP, but does not have access to the alignments on which dbSNP based its mappings. Instead, UCSC re-aligns the flanking sequences to the neighboring genomic sequence for display on SNP details pages. While the recomputed alignments may differ from dbSNP's alignments, they often are informative when UCSC has annotated an unusual condition. Non-repetitive genomic sequence is shown in upper case like the flanking sequence, and a "|" indicates each match between genomic and flanking bases. Repetitive genomic sequence (annotated by RepeatMasker and/or the Tandem Repeats Finder with period Data Sources and Methods The data that comprise this track were extracted from database dump files and headers of fasta files downloaded from NCBI. The database dump files were downloaded from ftp://ftp.ncbi.nih.gov/snp/organisms/human_9606_b142_GRCh37p13/database/organism_data/ for hg19 and from ftp://ftp.ncbi.nih.gov/snp/organisms/human_9606_b142_GRCh38/database/organism_data/ for hg38. The fasta files were downloaded from ftp://ftp.ncbi.nih.gov/snp/organisms/human_9606_b142_GRCh37p13/rs_fasta/ for hg19 and from ftp://ftp.ncbi.nih.gov/snp/organisms/human_9606_b142_GRCh38/rs_fasta/ for hg38. Coordinates, orientation, location type and dbSNP reference allele data were obtained from b142_SNPContigLoc_N.bcp.gz and b142_ContigInfo_N.bcp.gz. (N = 105 for hg19, 106 for hg38) b142_SNPMapInfo_N.bcp.gz provided the alignment weights. Functional classification was obtained from b142_SNPContigLocusId_N.bcp.gz. The internal database representation uses dbSNP's function terms, but for display in SNP details pages, these are translated into Sequence Ontology terms. Validation status and heterozygosity were obtained from SNP.bcp.gz. SNPAlleleFreq.bcp.gz and ../shared/Allele.bcp.gz provided allele frequencies. For the human assembly, allele frequencies were also taken from SNPAlleleFreq_TGP.bcp.gz . Submitter handles were extracted from Batch.bcp.gz, SubSNP.bcp.gz and SNPSubSNPLink.bcp.gz. SNP_bitfield.bcp.gz provided miscellaneous properties annotated by dbSNP, such as clinically-associated. See the document dbSNP_BitField_v5.pdf for details. The header lines in the rs_fasta files were used for molecule type, class and observed polymorphism. Data Access The raw data can be explored interactively with the Table Browser, Data Integrator, or Variant Annotation Integrator. For automated analysis, the genome annotation can be downloaded from the downloads server for hg38 and hg19 (snp142*.txt.gz) or the public MySQL server. Please refer to our mailing list archives for questions and example queries, or our Data Access FAQ for more information. Orthologous Alleles (human assemblies only) For the human assembly, we provide a related table that contains orthologous alleles in the chimpanzee, orangutan and rhesus macaque reference genome assemblies. We use our liftOver utility to identify the orthologous alleles. The candidate human SNPs are a filtered list that meet the criteria: class = 'single' mapped position in the human reference genome is one base long aligned to only one location in the human reference genome not aligned to a chrN_random chrom biallelic (not tri- or quad-allelic) In some cases the orthologous allele is unknown; these are set to 'N'. If a lift was not possible, we set the orthologous allele to '?' and the orthologous start and end position to 0 (zero). Masked FASTA Files (human assemblies only) FASTA files that have been modified to use IUPAC ambiguous nucleotide characters at each base covered by a single-base substitution are available for download: GRCh37/hg19, GRCh38/hg38. Note that only single-base substitutions (no insertions or deletions) were used to mask the sequence, and these were filtered to exclude problematic SNPs. References Sherry ST, Ward MH, Kholodov M, Baker J, Phan L, Smigielski EM, Sirotkin K. dbSNP: the NCBI database of genetic variation. Nucleic Acids Res. 2001 Jan 1;29(1):308-11. PMID: 11125122; PMC: PMC29783 
snp142Flagged Flagged SNPs(142) Simple Nucleotide Polymorphisms (dbSNP 142) Flagged by dbSNP as Clinically Assoc Variation Description This track contains information about a subset of the single nucleotide polymorphisms and small insertions and deletions (indels) — collectively Simple Nucleotide Polymorphisms — from dbSNP build 142, available from ftp.ncbi.nih.gov/snp. Only SNPs flagged as clinically associated by dbSNP, mapped to a single location in the reference genome assembly, and not known to have a minor allele frequency of at least 1%, are included in this subset. Frequency data are not available for all SNPs, so this subset probably includes some SNPs whose true minor allele frequency is 1% or greater. The significance of any particular variant in this track should be interpreted only by a trained medical geneticist using all available information. For example, some variants are included in this track because of their inclusion in a Locus-Specific Database (LSDB) or mention in OMIM, but are not thought to be disease-causing, so inclusion of a variant in this track is not necessarily an indicator of risk. Again, all available information must be carefully considered by a qualified professional. The remainder of this page is identical on the following tracks: Common SNPs(142) - SNPs with >= 1% minor allele frequency (MAF), mapping only once to reference assembly. Flagged SNPs(142) - SNPs < 1% minor allele frequency (MAF) (or unknown), mapping only once to reference assembly, flagged in dbSnp as "clinically associated" -- not necessarily a risk allele! Mult. SNPs(142) - SNPs mapping in more than one place on reference assembly. All SNPs(142) - all SNPs from dbSNP mapping to reference assembly. Interpreting and Configuring the Graphical Display Variants are shown as single tick marks at most zoom levels. When viewing the track at or near base-level resolution, the displayed width of the SNP corresponds to the width of the variant in the reference sequence. Insertions are indicated by a single tick mark displayed between two nucleotides, single nucleotide polymorphisms are displayed as the width of a single base, and multiple nucleotide variants are represented by a block that spans two or more bases. On the track controls page, SNPs can be colored and/or filtered from the display according to several attributes: Class: Describes the observed alleles Single - single nucleotide variation: all observed alleles are single nucleotides (can have 2, 3 or 4 alleles) In-del - insertion/deletion Heterozygous - heterozygous (undetermined) variation: allele contains string '(heterozygous)' Microsatellite - the observed allele from dbSNP is a variation in counts of short tandem repeats Named - the observed allele from dbSNP is given as a text name instead of raw sequence, e.g., (Alu)/- No Variation - the submission reports an invariant region in the surveyed sequence Mixed - the cluster contains submissions from multiple classes Multiple Nucleotide Polymorphism (MNP) - the alleles are all of the same length, and length > 1 Insertion - the polymorphism is an insertion relative to the reference assembly Deletion - the polymorphism is a deletion relative to the reference assembly Unknown - no classification provided by data contributor Validation: Method used to validate the variant (each variant may be validated by more than one method) By Frequency - at least one submitted SNP in cluster has frequency data submitted By Cluster - cluster has at least 2 submissions, with at least one submission assayed with a non-computational method By Submitter - at least one submitter SNP in cluster was validated by independent assay By 2 Hit/2 Allele - all alleles have been observed in at least 2 chromosomes By HapMap (human only) - submitted by HapMap project By 1000Genomes (human only) - submitted by 1000Genomes project Unknown - no validation has been reported for this variant Function: dbSNP's predicted functional effect of variant on RefSeq transcripts, both curated (NM_* and NR_*) as in the RefSeq Genes track and predicted (XM_* and XR_*), not shown in UCSC Genome Browser. A variant may have more than one functional role if it overlaps multiple transcripts. These terms and definitions are from the Sequence Ontology (SO); click on a term to view it in the MISO Sequence Ontology Browser. Unknown - no functional classification provided (possibly intergenic) synonymous_variant - A sequence variant where there is no resulting change to the encoded amino acid (dbSNP term: coding-synon) intron_variant - A transcript variant occurring within an intron (dbSNP term: intron) downstream_gene_variant - A sequence variant located 3' of a gene (dbSNP term: near-gene-3) upstream_gene_variant - A sequence variant located 5' of a gene (dbSNP term: near-gene-5) nc_transcript_variant - A transcript variant of a non coding RNA gene (dbSNP term: ncRNA) stop_gained - A sequence variant whereby at least one base of a codon is changed, resulting in a premature stop codon, leading to a shortened transcript (dbSNP term: nonsense) missense_variant - A sequence variant, where the change may be longer than 3 bases, and at least one base of a codon is changed resulting in a codon that encodes for a different amino acid (dbSNP term: missense) stop_lost - A sequence variant where at least one base of the terminator codon (stop) is changed, resulting in an elongated transcript (dbSNP term: stop-loss) frameshift_variant - A sequence variant which causes a disruption of the translational reading frame, because the number of nucleotides inserted or deleted is not a multiple of three (dbSNP term: frameshift) inframe_indel - A coding sequence variant where the change does not alter the frame of the transcript (dbSNP term: cds-indel) 3_prime_UTR_variant - A UTR variant of the 3' UTR (dbSNP term: untranslated-3) 5_prime_UTR_variant - A UTR variant of the 5' UTR (dbSNP term: untranslated-5) splice_acceptor_variant - A splice variant that changes the 2 base region at the 3' end of an intron (dbSNP term: splice-3) splice_donor_variant - A splice variant that changes the 2 base region at the 5' end of an intron (dbSNP term: splice-5) In the Coloring Options section of the track controls page, function terms are grouped into several categories, shown here with default colors: Locus: downstream_gene_variant, upstream_gene_variant Coding - Synonymous: synonymous_variant Coding - Non-Synonymous: stop_gained, missense_variant, stop_lost, frameshift_variant, inframe_indel Untranslated: 5_prime_UTR_variant, 3_prime_UTR_variant Intron: intron_variant Splice Site: splice_acceptor_variant, splice_donor_variant Molecule Type: Sample used to find this variant Genomic - variant discovered using a genomic template cDNA - variant discovered using a cDNA template Unknown - sample type not known Unusual Conditions (UCSC): UCSC checks for several anomalies that may indicate a problem with the mapping, and reports them in the Annotations section of the SNP details page if found: AlleleFreqSumNot1 - Allele frequencies do not sum to 1.0 (+-0.01). This SNP's allele frequency data are probably incomplete. DuplicateObserved, MixedObserved - Multiple distinct insertion SNPs have been mapped to this location, with either the same inserted sequence (Duplicate) or different inserted sequence (Mixed). FlankMismatchGenomeEqual, FlankMismatchGenomeLonger, FlankMismatchGenomeShorter - NCBI's alignment of the flanking sequences had at least one mismatch or gap near the mapped SNP position. (UCSC's re-alignment of flanking sequences to the genome may be informative.) MultipleAlignments - This SNP's flanking sequences align to more than one location in the reference assembly. NamedDeletionZeroSpan - A deletion (from the genome) was observed but the annotation spans 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) NamedInsertionNonzeroSpan - An insertion (into the genome) was observed but the annotation spans more than 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) NonIntegerChromCount - At least one allele frequency corresponds to a non-integer (+-0.010000) count of chromosomes on which the allele was observed. The reported total sample count for this SNP is probably incorrect. ObservedContainsIupac - At least one observed allele from dbSNP contains an IUPAC ambiguous base (e.g., R, Y, N). ObservedMismatch - UCSC reference allele does not match any observed allele from dbSNP. This is tested only for SNPs whose class is single, in-del, insertion, deletion, mnp or mixed. ObservedTooLong - Observed allele not given (length too long). ObservedWrongFormat - Observed allele(s) from dbSNP have unexpected format for the given class. RefAlleleMismatch - The reference allele from dbSNP does not match the UCSC reference allele, i.e., the bases in the mapped position range. RefAlleleRevComp - The reference allele from dbSNP matches the reverse complement of the UCSC reference allele. SingleClassLongerSpan - All observed alleles are single-base, but the annotation spans more than 1 base. (UCSC's re-alignment of flanking sequences to the genome may be informative.) SingleClassZeroSpan - All observed alleles are single-base, but the annotation spans 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) Another condition, which does not necessarily imply any problem, is noted: SingleClassTriAllelic, SingleClassQuadAllelic - Class is single and three or four different bases have been observed (usually there are only two). Miscellaneous Attributes (dbSNP): several properties extracted from dbSNP's SNP_bitfield table (see dbSNP_BitField_v5.pdf for details) Clinically Associated (human only) - SNP is in OMIM and/or at least one submitter is a Locus-Specific Database. This does not necessarily imply that the variant causes any disease, only that it has been observed in clinical studies. Appears in OMIM/OMIA - SNP is mentioned in Online Mendelian Inheritance in Man for human SNPs, or Online Mendelian Inheritance in Animals for non-human animal SNPs. Some of these SNPs are quite common, others are known to cause disease; see OMIM/OMIA for more information. Has Microattribution/Third-Party Annotation - At least one of the SNP's submitters studied this SNP in a biomedical setting, but is not a Locus-Specific Database or OMIM/OMIA. Submitted by Locus-Specific Database - At least one of the SNP's submitters is associated with a database of variants associated with a particular gene. These variants may or may not be known to be causative. MAF >= 5% in Some Population - Minor Allele Frequency is at least 5% in at least one population assayed. MAF >= 5% in All Populations - Minor Allele Frequency is at least 5% in all populations assayed. Genotype Conflict - Quality check: different genotypes have been submitted for the same individual. Ref SNP Cluster has Non-overlapping Alleles - Quality check: this reference SNP was clustered from submitted SNPs with non-overlapping sets of observed alleles. Some Assembly's Allele Does Not Match Observed - Quality check: at least one assembly mapped by dbSNP has an allele at the mapped position that is not present in this SNP's observed alleles. Several other properties do not have coloring options, but do have some filtering options: Average heterozygosity: Calculated by dbSNP as described in Computation of Average Heterozygosity and Standard Error for dbSNP RefSNP Clusters. Average heterozygosity should not exceed 0.5 for bi-allelic single-base substitutions. Weight: Alignment quality assigned by dbSNP Weight can be 0, 1, 2, 3 or 10. Weight = 1 are the highest quality alignments. Weight = 0 and weight = 10 are excluded from the data set. A filter on maximum weight value is supported, which defaults to 1 on all tracks except the Mult. SNPs track, which defaults to 3. Submitter handles: These are short, single-word identifiers of labs or consortia that submitted SNPs that were clustered into this reference SNP by dbSNP (e.g., 1000GENOMES, ENSEMBL, KWOK). Some SNPs have been observed by many different submitters, and some by only a single submitter (although that single submitter may have tested a large number of samples). AlleleFrequencies: Some submissions to dbSNP include allele frequencies and the study's sample size (i.e., the number of distinct chromosomes, which is two times the number of individuals assayed, a.k.a. 2N). dbSNP combines all available frequencies and counts from submitted SNPs that are clustered together into a reference SNP. You can configure this track such that the details page displays the function and coding differences relative to particular gene sets. Choose the gene sets from the list on the SNP configuration page displayed beneath this heading: On details page, show function and coding differences relative to. When one or more gene tracks are selected, the SNP details page lists all genes that the SNP hits (or is close to), with the same keywords used in the function category. The function usually agrees with NCBI's function, except when NCBI's functional annotation is relative to an XM_* predicted RefSeq (not included in the UCSC Genome Browser's RefSeq Genes track) and/or UCSC's functional annotation is relative to a transcript that is not in RefSeq. Insertions/Deletions dbSNP uses a class called 'in-del'. We compare the length of the reference allele to the length(s) of observed alleles; if the reference allele is shorter than all other observed alleles, we change 'in-del' to 'insertion'. Likewise, if the reference allele is longer than all other observed alleles, we change 'in-del' to 'deletion'. UCSC Re-alignment of flanking sequences dbSNP determines the genomic locations of SNPs by aligning their flanking sequences to the genome. UCSC displays SNPs in the locations determined by dbSNP, but does not have access to the alignments on which dbSNP based its mappings. Instead, UCSC re-aligns the flanking sequences to the neighboring genomic sequence for display on SNP details pages. While the recomputed alignments may differ from dbSNP's alignments, they often are informative when UCSC has annotated an unusual condition. Non-repetitive genomic sequence is shown in upper case like the flanking sequence, and a "|" indicates each match between genomic and flanking bases. Repetitive genomic sequence (annotated by RepeatMasker and/or the Tandem Repeats Finder with period Data Sources and Methods The data that comprise this track were extracted from database dump files and headers of fasta files downloaded from NCBI. The database dump files were downloaded from ftp://ftp.ncbi.nih.gov/snp/organisms/human_9606_b142_GRCh37p13/database/organism_data/ for hg19 and from ftp://ftp.ncbi.nih.gov/snp/organisms/human_9606_b142_GRCh38/database/organism_data/ for hg38. The fasta files were downloaded from ftp://ftp.ncbi.nih.gov/snp/organisms/human_9606_b142_GRCh37p13/rs_fasta/ for hg19 and from ftp://ftp.ncbi.nih.gov/snp/organisms/human_9606_b142_GRCh38/rs_fasta/ for hg38. Coordinates, orientation, location type and dbSNP reference allele data were obtained from b142_SNPContigLoc_N.bcp.gz and b142_ContigInfo_N.bcp.gz. (N = 105 for hg19, 106 for hg38) b142_SNPMapInfo_N.bcp.gz provided the alignment weights. Functional classification was obtained from b142_SNPContigLocusId_N.bcp.gz. The internal database representation uses dbSNP's function terms, but for display in SNP details pages, these are translated into Sequence Ontology terms. Validation status and heterozygosity were obtained from SNP.bcp.gz. SNPAlleleFreq.bcp.gz and ../shared/Allele.bcp.gz provided allele frequencies. For the human assembly, allele frequencies were also taken from SNPAlleleFreq_TGP.bcp.gz . Submitter handles were extracted from Batch.bcp.gz, SubSNP.bcp.gz and SNPSubSNPLink.bcp.gz. SNP_bitfield.bcp.gz provided miscellaneous properties annotated by dbSNP, such as clinically-associated. See the document dbSNP_BitField_v5.pdf for details. The header lines in the rs_fasta files were used for molecule type, class and observed polymorphism. Data Access The raw data can be explored interactively with the Table Browser, Data Integrator, or Variant Annotation Integrator. For automated analysis, the genome annotation can be downloaded from the downloads server for hg38 and hg19 (snp142*.txt.gz) or the public MySQL server. Please refer to our mailing list archives for questions and example queries, or our Data Access FAQ for more information. Orthologous Alleles (human assemblies only) For the human assembly, we provide a related table that contains orthologous alleles in the chimpanzee, orangutan and rhesus macaque reference genome assemblies. We use our liftOver utility to identify the orthologous alleles. The candidate human SNPs are a filtered list that meet the criteria: class = 'single' mapped position in the human reference genome is one base long aligned to only one location in the human reference genome not aligned to a chrN_random chrom biallelic (not tri- or quad-allelic) In some cases the orthologous allele is unknown; these are set to 'N'. If a lift was not possible, we set the orthologous allele to '?' and the orthologous start and end position to 0 (zero). Masked FASTA Files (human assemblies only) FASTA files that have been modified to use IUPAC ambiguous nucleotide characters at each base covered by a single-base substitution are available for download: GRCh37/hg19, GRCh38/hg38. Note that only single-base substitutions (no insertions or deletions) were used to mask the sequence, and these were filtered to exclude problematic SNPs. References Sherry ST, Ward MH, Kholodov M, Baker J, Phan L, Smigielski EM, Sirotkin K. dbSNP: the NCBI database of genetic variation. Nucleic Acids Res. 2001 Jan 1;29(1):308-11. PMID: 11125122; PMC: PMC29783 
snp142Common Common SNPs(142) Simple Nucleotide Polymorphisms (dbSNP 142) Found in >= 1% of Samples Variation Description This track contains information about a subset of the single nucleotide polymorphisms and small insertions and deletions (indels) — collectively Simple Nucleotide Polymorphisms — from dbSNP build 142, available from ftp.ncbi.nih.gov/snp. Only SNPs that have a minor allele frequency of at least 1% and are mapped to a single location in the reference genome assembly are included in this subset. Frequency data are not available for all SNPs, so this subset is incomplete. The selection of SNPs with a minor allele frequency of 1% or greater is an attempt to identify variants that appear to be reasonably common in the general population. Taken as a set, common variants should be less likely to be associated with severe genetic diseases due to the effects of natural selection, following the view that deleterious variants are not likely to become common in the population. However, the significance of any particular variant should be interpreted only by a trained medical geneticist using all available information. The remainder of this page is identical on the following tracks: Common SNPs(142) - SNPs with >= 1% minor allele frequency (MAF), mapping only once to reference assembly. Flagged SNPs(142) - SNPs < 1% minor allele frequency (MAF) (or unknown), mapping only once to reference assembly, flagged in dbSnp as "clinically associated" -- not necessarily a risk allele! Mult. SNPs(142) - SNPs mapping in more than one place on reference assembly. All SNPs(142) - all SNPs from dbSNP mapping to reference assembly. Interpreting and Configuring the Graphical Display Variants are shown as single tick marks at most zoom levels. When viewing the track at or near base-level resolution, the displayed width of the SNP corresponds to the width of the variant in the reference sequence. Insertions are indicated by a single tick mark displayed between two nucleotides, single nucleotide polymorphisms are displayed as the width of a single base, and multiple nucleotide variants are represented by a block that spans two or more bases. On the track controls page, SNPs can be colored and/or filtered from the display according to several attributes: Class: Describes the observed alleles Single - single nucleotide variation: all observed alleles are single nucleotides (can have 2, 3 or 4 alleles) In-del - insertion/deletion Heterozygous - heterozygous (undetermined) variation: allele contains string '(heterozygous)' Microsatellite - the observed allele from dbSNP is a variation in counts of short tandem repeats Named - the observed allele from dbSNP is given as a text name instead of raw sequence, e.g., (Alu)/- No Variation - the submission reports an invariant region in the surveyed sequence Mixed - the cluster contains submissions from multiple classes Multiple Nucleotide Polymorphism (MNP) - the alleles are all of the same length, and length > 1 Insertion - the polymorphism is an insertion relative to the reference assembly Deletion - the polymorphism is a deletion relative to the reference assembly Unknown - no classification provided by data contributor Validation: Method used to validate the variant (each variant may be validated by more than one method) By Frequency - at least one submitted SNP in cluster has frequency data submitted By Cluster - cluster has at least 2 submissions, with at least one submission assayed with a non-computational method By Submitter - at least one submitter SNP in cluster was validated by independent assay By 2 Hit/2 Allele - all alleles have been observed in at least 2 chromosomes By HapMap (human only) - submitted by HapMap project By 1000Genomes (human only) - submitted by 1000Genomes project Unknown - no validation has been reported for this variant Function: dbSNP's predicted functional effect of variant on RefSeq transcripts, both curated (NM_* and NR_*) as in the RefSeq Genes track and predicted (XM_* and XR_*), not shown in UCSC Genome Browser. A variant may have more than one functional role if it overlaps multiple transcripts. These terms and definitions are from the Sequence Ontology (SO); click on a term to view it in the MISO Sequence Ontology Browser. Unknown - no functional classification provided (possibly intergenic) synonymous_variant - A sequence variant where there is no resulting change to the encoded amino acid (dbSNP term: coding-synon) intron_variant - A transcript variant occurring within an intron (dbSNP term: intron) downstream_gene_variant - A sequence variant located 3' of a gene (dbSNP term: near-gene-3) upstream_gene_variant - A sequence variant located 5' of a gene (dbSNP term: near-gene-5) nc_transcript_variant - A transcript variant of a non coding RNA gene (dbSNP term: ncRNA) stop_gained - A sequence variant whereby at least one base of a codon is changed, resulting in a premature stop codon, leading to a shortened transcript (dbSNP term: nonsense) missense_variant - A sequence variant, where the change may be longer than 3 bases, and at least one base of a codon is changed resulting in a codon that encodes for a different amino acid (dbSNP term: missense) stop_lost - A sequence variant where at least one base of the terminator codon (stop) is changed, resulting in an elongated transcript (dbSNP term: stop-loss) frameshift_variant - A sequence variant which causes a disruption of the translational reading frame, because the number of nucleotides inserted or deleted is not a multiple of three (dbSNP term: frameshift) inframe_indel - A coding sequence variant where the change does not alter the frame of the transcript (dbSNP term: cds-indel) 3_prime_UTR_variant - A UTR variant of the 3' UTR (dbSNP term: untranslated-3) 5_prime_UTR_variant - A UTR variant of the 5' UTR (dbSNP term: untranslated-5) splice_acceptor_variant - A splice variant that changes the 2 base region at the 3' end of an intron (dbSNP term: splice-3) splice_donor_variant - A splice variant that changes the 2 base region at the 5' end of an intron (dbSNP term: splice-5) In the Coloring Options section of the track controls page, function terms are grouped into several categories, shown here with default colors: Locus: downstream_gene_variant, upstream_gene_variant Coding - Synonymous: synonymous_variant Coding - Non-Synonymous: stop_gained, missense_variant, stop_lost, frameshift_variant, inframe_indel Untranslated: 5_prime_UTR_variant, 3_prime_UTR_variant Intron: intron_variant Splice Site: splice_acceptor_variant, splice_donor_variant Molecule Type: Sample used to find this variant Genomic - variant discovered using a genomic template cDNA - variant discovered using a cDNA template Unknown - sample type not known Unusual Conditions (UCSC): UCSC checks for several anomalies that may indicate a problem with the mapping, and reports them in the Annotations section of the SNP details page if found: AlleleFreqSumNot1 - Allele frequencies do not sum to 1.0 (+-0.01). This SNP's allele frequency data are probably incomplete. DuplicateObserved, MixedObserved - Multiple distinct insertion SNPs have been mapped to this location, with either the same inserted sequence (Duplicate) or different inserted sequence (Mixed). FlankMismatchGenomeEqual, FlankMismatchGenomeLonger, FlankMismatchGenomeShorter - NCBI's alignment of the flanking sequences had at least one mismatch or gap near the mapped SNP position. (UCSC's re-alignment of flanking sequences to the genome may be informative.) MultipleAlignments - This SNP's flanking sequences align to more than one location in the reference assembly. NamedDeletionZeroSpan - A deletion (from the genome) was observed but the annotation spans 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) NamedInsertionNonzeroSpan - An insertion (into the genome) was observed but the annotation spans more than 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) NonIntegerChromCount - At least one allele frequency corresponds to a non-integer (+-0.010000) count of chromosomes on which the allele was observed. The reported total sample count for this SNP is probably incorrect. ObservedContainsIupac - At least one observed allele from dbSNP contains an IUPAC ambiguous base (e.g., R, Y, N). ObservedMismatch - UCSC reference allele does not match any observed allele from dbSNP. This is tested only for SNPs whose class is single, in-del, insertion, deletion, mnp or mixed. ObservedTooLong - Observed allele not given (length too long). ObservedWrongFormat - Observed allele(s) from dbSNP have unexpected format for the given class. RefAlleleMismatch - The reference allele from dbSNP does not match the UCSC reference allele, i.e., the bases in the mapped position range. RefAlleleRevComp - The reference allele from dbSNP matches the reverse complement of the UCSC reference allele. SingleClassLongerSpan - All observed alleles are single-base, but the annotation spans more than 1 base. (UCSC's re-alignment of flanking sequences to the genome may be informative.) SingleClassZeroSpan - All observed alleles are single-base, but the annotation spans 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) Another condition, which does not necessarily imply any problem, is noted: SingleClassTriAllelic, SingleClassQuadAllelic - Class is single and three or four different bases have been observed (usually there are only two). Miscellaneous Attributes (dbSNP): several properties extracted from dbSNP's SNP_bitfield table (see dbSNP_BitField_v5.pdf for details) Clinically Associated (human only) - SNP is in OMIM and/or at least one submitter is a Locus-Specific Database. This does not necessarily imply that the variant causes any disease, only that it has been observed in clinical studies. Appears in OMIM/OMIA - SNP is mentioned in Online Mendelian Inheritance in Man for human SNPs, or Online Mendelian Inheritance in Animals for non-human animal SNPs. Some of these SNPs are quite common, others are known to cause disease; see OMIM/OMIA for more information. Has Microattribution/Third-Party Annotation - At least one of the SNP's submitters studied this SNP in a biomedical setting, but is not a Locus-Specific Database or OMIM/OMIA. Submitted by Locus-Specific Database - At least one of the SNP's submitters is associated with a database of variants associated with a particular gene. These variants may or may not be known to be causative. MAF >= 5% in Some Population - Minor Allele Frequency is at least 5% in at least one population assayed. MAF >= 5% in All Populations - Minor Allele Frequency is at least 5% in all populations assayed. Genotype Conflict - Quality check: different genotypes have been submitted for the same individual. Ref SNP Cluster has Non-overlapping Alleles - Quality check: this reference SNP was clustered from submitted SNPs with non-overlapping sets of observed alleles. Some Assembly's Allele Does Not Match Observed - Quality check: at least one assembly mapped by dbSNP has an allele at the mapped position that is not present in this SNP's observed alleles. Several other properties do not have coloring options, but do have some filtering options: Average heterozygosity: Calculated by dbSNP as described in Computation of Average Heterozygosity and Standard Error for dbSNP RefSNP Clusters. Average heterozygosity should not exceed 0.5 for bi-allelic single-base substitutions. Weight: Alignment quality assigned by dbSNP Weight can be 0, 1, 2, 3 or 10. Weight = 1 are the highest quality alignments. Weight = 0 and weight = 10 are excluded from the data set. A filter on maximum weight value is supported, which defaults to 1 on all tracks except the Mult. SNPs track, which defaults to 3. Submitter handles: These are short, single-word identifiers of labs or consortia that submitted SNPs that were clustered into this reference SNP by dbSNP (e.g., 1000GENOMES, ENSEMBL, KWOK). Some SNPs have been observed by many different submitters, and some by only a single submitter (although that single submitter may have tested a large number of samples). AlleleFrequencies: Some submissions to dbSNP include allele frequencies and the study's sample size (i.e., the number of distinct chromosomes, which is two times the number of individuals assayed, a.k.a. 2N). dbSNP combines all available frequencies and counts from submitted SNPs that are clustered together into a reference SNP. You can configure this track such that the details page displays the function and coding differences relative to particular gene sets. Choose the gene sets from the list on the SNP configuration page displayed beneath this heading: On details page, show function and coding differences relative to. When one or more gene tracks are selected, the SNP details page lists all genes that the SNP hits (or is close to), with the same keywords used in the function category. The function usually agrees with NCBI's function, except when NCBI's functional annotation is relative to an XM_* predicted RefSeq (not included in the UCSC Genome Browser's RefSeq Genes track) and/or UCSC's functional annotation is relative to a transcript that is not in RefSeq. Insertions/Deletions dbSNP uses a class called 'in-del'. We compare the length of the reference allele to the length(s) of observed alleles; if the reference allele is shorter than all other observed alleles, we change 'in-del' to 'insertion'. Likewise, if the reference allele is longer than all other observed alleles, we change 'in-del' to 'deletion'. UCSC Re-alignment of flanking sequences dbSNP determines the genomic locations of SNPs by aligning their flanking sequences to the genome. UCSC displays SNPs in the locations determined by dbSNP, but does not have access to the alignments on which dbSNP based its mappings. Instead, UCSC re-aligns the flanking sequences to the neighboring genomic sequence for display on SNP details pages. While the recomputed alignments may differ from dbSNP's alignments, they often are informative when UCSC has annotated an unusual condition. Non-repetitive genomic sequence is shown in upper case like the flanking sequence, and a "|" indicates each match between genomic and flanking bases. Repetitive genomic sequence (annotated by RepeatMasker and/or the Tandem Repeats Finder with period Data Sources and Methods The data that comprise this track were extracted from database dump files and headers of fasta files downloaded from NCBI. The database dump files were downloaded from ftp://ftp.ncbi.nih.gov/snp/organisms/human_9606_b142_GRCh37p13/database/organism_data/ for hg19 and from ftp://ftp.ncbi.nih.gov/snp/organisms/human_9606_b142_GRCh38/database/organism_data/ for hg38. The fasta files were downloaded from ftp://ftp.ncbi.nih.gov/snp/organisms/human_9606_b142_GRCh37p13/rs_fasta/ for hg19 and from ftp://ftp.ncbi.nih.gov/snp/organisms/human_9606_b142_GRCh38/rs_fasta/ for hg38. Coordinates, orientation, location type and dbSNP reference allele data were obtained from b142_SNPContigLoc_N.bcp.gz and b142_ContigInfo_N.bcp.gz. (N = 105 for hg19, 106 for hg38) b142_SNPMapInfo_N.bcp.gz provided the alignment weights. Functional classification was obtained from b142_SNPContigLocusId_N.bcp.gz. The internal database representation uses dbSNP's function terms, but for display in SNP details pages, these are translated into Sequence Ontology terms. Validation status and heterozygosity were obtained from SNP.bcp.gz. SNPAlleleFreq.bcp.gz and ../shared/Allele.bcp.gz provided allele frequencies. For the human assembly, allele frequencies were also taken from SNPAlleleFreq_TGP.bcp.gz . Submitter handles were extracted from Batch.bcp.gz, SubSNP.bcp.gz and SNPSubSNPLink.bcp.gz. SNP_bitfield.bcp.gz provided miscellaneous properties annotated by dbSNP, such as clinically-associated. See the document dbSNP_BitField_v5.pdf for details. The header lines in the rs_fasta files were used for molecule type, class and observed polymorphism. Data Access The raw data can be explored interactively with the Table Browser, Data Integrator, or Variant Annotation Integrator. For automated analysis, the genome annotation can be downloaded from the downloads server for hg38 and hg19 (snp142*.txt.gz) or the public MySQL server. Please refer to our mailing list archives for questions and example queries, or our Data Access FAQ for more information. Orthologous Alleles (human assemblies only) For the human assembly, we provide a related table that contains orthologous alleles in the chimpanzee, orangutan and rhesus macaque reference genome assemblies. We use our liftOver utility to identify the orthologous alleles. The candidate human SNPs are a filtered list that meet the criteria: class = 'single' mapped position in the human reference genome is one base long aligned to only one location in the human reference genome not aligned to a chrN_random chrom biallelic (not tri- or quad-allelic) In some cases the orthologous allele is unknown; these are set to 'N'. If a lift was not possible, we set the orthologous allele to '?' and the orthologous start and end position to 0 (zero). Masked FASTA Files (human assemblies only) FASTA files that have been modified to use IUPAC ambiguous nucleotide characters at each base covered by a single-base substitution are available for download: GRCh37/hg19, GRCh38/hg38. Note that only single-base substitutions (no insertions or deletions) were used to mask the sequence, and these were filtered to exclude problematic SNPs. References Sherry ST, Ward MH, Kholodov M, Baker J, Phan L, Smigielski EM, Sirotkin K. dbSNP: the NCBI database of genetic variation. Nucleic Acids Res. 2001 Jan 1;29(1):308-11. PMID: 11125122; PMC: PMC29783 
snp142 All SNPs(142) Simple Nucleotide Polymorphisms (dbSNP 142) Variation Description This track contains information about single nucleotide polymorphisms and small insertions and deletions (indels) — collectively Simple Nucleotide Polymorphisms — from dbSNP build 142, available from ftp.ncbi.nih.gov/snp. Three tracks contain subsets of the items in this track: Common SNPs(142): SNPs that have a minor allele frequency of at least 1% and are mapped to a single location in the reference genome assembly. Frequency data are not available for all SNPs, so this subset is incomplete. Flagged SNPs(142): SNPs flagged as clinically associated by dbSNP, mapped to a single location in the reference genome assembly, and not known to have a minor allele frequency of at least 1%. Frequency data are not available for all SNPs, so this subset may include some SNPs whose true minor allele frequency is 1% or greater. Mult. SNPs(142): SNPs that have been mapped to multiple locations in the reference genome assembly. The default maximum weight for this track is 1, so unless the setting is changed in the track controls, SNPs that map to multiple genomic locations will be omitted from display. When a SNP's flanking sequences map to multiple locations in the reference genome, it calls into question whether there is true variation at those sites, or whether the sequences at those sites are merely highly similar but not identical. The remainder of this page is identical on the following tracks: Common SNPs(142) - SNPs with >= 1% minor allele frequency (MAF), mapping only once to reference assembly. Flagged SNPs(142) - SNPs < 1% minor allele frequency (MAF) (or unknown), mapping only once to reference assembly, flagged in dbSnp as "clinically associated" -- not necessarily a risk allele! Mult. SNPs(142) - SNPs mapping in more than one place on reference assembly. All SNPs(142) - all SNPs from dbSNP mapping to reference assembly. Interpreting and Configuring the Graphical Display Variants are shown as single tick marks at most zoom levels. When viewing the track at or near base-level resolution, the displayed width of the SNP corresponds to the width of the variant in the reference sequence. Insertions are indicated by a single tick mark displayed between two nucleotides, single nucleotide polymorphisms are displayed as the width of a single base, and multiple nucleotide variants are represented by a block that spans two or more bases. On the track controls page, SNPs can be colored and/or filtered from the display according to several attributes: Class: Describes the observed alleles Single - single nucleotide variation: all observed alleles are single nucleotides (can have 2, 3 or 4 alleles) In-del - insertion/deletion Heterozygous - heterozygous (undetermined) variation: allele contains string '(heterozygous)' Microsatellite - the observed allele from dbSNP is a variation in counts of short tandem repeats Named - the observed allele from dbSNP is given as a text name instead of raw sequence, e.g., (Alu)/- No Variation - the submission reports an invariant region in the surveyed sequence Mixed - the cluster contains submissions from multiple classes Multiple Nucleotide Polymorphism (MNP) - the alleles are all of the same length, and length > 1 Insertion - the polymorphism is an insertion relative to the reference assembly Deletion - the polymorphism is a deletion relative to the reference assembly Unknown - no classification provided by data contributor Validation: Method used to validate the variant (each variant may be validated by more than one method) By Frequency - at least one submitted SNP in cluster has frequency data submitted By Cluster - cluster has at least 2 submissions, with at least one submission assayed with a non-computational method By Submitter - at least one submitter SNP in cluster was validated by independent assay By 2 Hit/2 Allele - all alleles have been observed in at least 2 chromosomes By HapMap (human only) - submitted by HapMap project By 1000Genomes (human only) - submitted by 1000Genomes project Unknown - no validation has been reported for this variant Function: dbSNP's predicted functional effect of variant on RefSeq transcripts, both curated (NM_* and NR_*) as in the RefSeq Genes track and predicted (XM_* and XR_*), not shown in UCSC Genome Browser. A variant may have more than one functional role if it overlaps multiple transcripts. These terms and definitions are from the Sequence Ontology (SO); click on a term to view it in the MISO Sequence Ontology Browser. Unknown - no functional classification provided (possibly intergenic) synonymous_variant - A sequence variant where there is no resulting change to the encoded amino acid (dbSNP term: coding-synon) intron_variant - A transcript variant occurring within an intron (dbSNP term: intron) downstream_gene_variant - A sequence variant located 3' of a gene (dbSNP term: near-gene-3) upstream_gene_variant - A sequence variant located 5' of a gene (dbSNP term: near-gene-5) nc_transcript_variant - A transcript variant of a non coding RNA gene (dbSNP term: ncRNA) stop_gained - A sequence variant whereby at least one base of a codon is changed, resulting in a premature stop codon, leading to a shortened transcript (dbSNP term: nonsense) missense_variant - A sequence variant, where the change may be longer than 3 bases, and at least one base of a codon is changed resulting in a codon that encodes for a different amino acid (dbSNP term: missense) stop_lost - A sequence variant where at least one base of the terminator codon (stop) is changed, resulting in an elongated transcript (dbSNP term: stop-loss) frameshift_variant - A sequence variant which causes a disruption of the translational reading frame, because the number of nucleotides inserted or deleted is not a multiple of three (dbSNP term: frameshift) inframe_indel - A coding sequence variant where the change does not alter the frame of the transcript (dbSNP term: cds-indel) 3_prime_UTR_variant - A UTR variant of the 3' UTR (dbSNP term: untranslated-3) 5_prime_UTR_variant - A UTR variant of the 5' UTR (dbSNP term: untranslated-5) splice_acceptor_variant - A splice variant that changes the 2 base region at the 3' end of an intron (dbSNP term: splice-3) splice_donor_variant - A splice variant that changes the 2 base region at the 5' end of an intron (dbSNP term: splice-5) In the Coloring Options section of the track controls page, function terms are grouped into several categories, shown here with default colors: Locus: downstream_gene_variant, upstream_gene_variant Coding - Synonymous: synonymous_variant Coding - Non-Synonymous: stop_gained, missense_variant, stop_lost, frameshift_variant, inframe_indel Untranslated: 5_prime_UTR_variant, 3_prime_UTR_variant Intron: intron_variant Splice Site: splice_acceptor_variant, splice_donor_variant Molecule Type: Sample used to find this variant Genomic - variant discovered using a genomic template cDNA - variant discovered using a cDNA template Unknown - sample type not known Unusual Conditions (UCSC): UCSC checks for several anomalies that may indicate a problem with the mapping, and reports them in the Annotations section of the SNP details page if found: AlleleFreqSumNot1 - Allele frequencies do not sum to 1.0 (+-0.01). This SNP's allele frequency data are probably incomplete. DuplicateObserved, MixedObserved - Multiple distinct insertion SNPs have been mapped to this location, with either the same inserted sequence (Duplicate) or different inserted sequence (Mixed). FlankMismatchGenomeEqual, FlankMismatchGenomeLonger, FlankMismatchGenomeShorter - NCBI's alignment of the flanking sequences had at least one mismatch or gap near the mapped SNP position. (UCSC's re-alignment of flanking sequences to the genome may be informative.) MultipleAlignments - This SNP's flanking sequences align to more than one location in the reference assembly. NamedDeletionZeroSpan - A deletion (from the genome) was observed but the annotation spans 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) NamedInsertionNonzeroSpan - An insertion (into the genome) was observed but the annotation spans more than 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) NonIntegerChromCount - At least one allele frequency corresponds to a non-integer (+-0.010000) count of chromosomes on which the allele was observed. The reported total sample count for this SNP is probably incorrect. ObservedContainsIupac - At least one observed allele from dbSNP contains an IUPAC ambiguous base (e.g., R, Y, N). ObservedMismatch - UCSC reference allele does not match any observed allele from dbSNP. This is tested only for SNPs whose class is single, in-del, insertion, deletion, mnp or mixed. ObservedTooLong - Observed allele not given (length too long). ObservedWrongFormat - Observed allele(s) from dbSNP have unexpected format for the given class. RefAlleleMismatch - The reference allele from dbSNP does not match the UCSC reference allele, i.e., the bases in the mapped position range. RefAlleleRevComp - The reference allele from dbSNP matches the reverse complement of the UCSC reference allele. SingleClassLongerSpan - All observed alleles are single-base, but the annotation spans more than 1 base. (UCSC's re-alignment of flanking sequences to the genome may be informative.) SingleClassZeroSpan - All observed alleles are single-base, but the annotation spans 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) Another condition, which does not necessarily imply any problem, is noted: SingleClassTriAllelic, SingleClassQuadAllelic - Class is single and three or four different bases have been observed (usually there are only two). Miscellaneous Attributes (dbSNP): several properties extracted from dbSNP's SNP_bitfield table (see dbSNP_BitField_v5.pdf for details) Clinically Associated (human only) - SNP is in OMIM and/or at least one submitter is a Locus-Specific Database. This does not necessarily imply that the variant causes any disease, only that it has been observed in clinical studies. Appears in OMIM/OMIA - SNP is mentioned in Online Mendelian Inheritance in Man for human SNPs, or Online Mendelian Inheritance in Animals for non-human animal SNPs. Some of these SNPs are quite common, others are known to cause disease; see OMIM/OMIA for more information. Has Microattribution/Third-Party Annotation - At least one of the SNP's submitters studied this SNP in a biomedical setting, but is not a Locus-Specific Database or OMIM/OMIA. Submitted by Locus-Specific Database - At least one of the SNP's submitters is associated with a database of variants associated with a particular gene. These variants may or may not be known to be causative. MAF >= 5% in Some Population - Minor Allele Frequency is at least 5% in at least one population assayed. MAF >= 5% in All Populations - Minor Allele Frequency is at least 5% in all populations assayed. Genotype Conflict - Quality check: different genotypes have been submitted for the same individual. Ref SNP Cluster has Non-overlapping Alleles - Quality check: this reference SNP was clustered from submitted SNPs with non-overlapping sets of observed alleles. Some Assembly's Allele Does Not Match Observed - Quality check: at least one assembly mapped by dbSNP has an allele at the mapped position that is not present in this SNP's observed alleles. Several other properties do not have coloring options, but do have some filtering options: Average heterozygosity: Calculated by dbSNP as described in Computation of Average Heterozygosity and Standard Error for dbSNP RefSNP Clusters. Average heterozygosity should not exceed 0.5 for bi-allelic single-base substitutions. Weight: Alignment quality assigned by dbSNP Weight can be 0, 1, 2, 3 or 10. Weight = 1 are the highest quality alignments. Weight = 0 and weight = 10 are excluded from the data set. A filter on maximum weight value is supported, which defaults to 1 on all tracks except the Mult. SNPs track, which defaults to 3. Submitter handles: These are short, single-word identifiers of labs or consortia that submitted SNPs that were clustered into this reference SNP by dbSNP (e.g., 1000GENOMES, ENSEMBL, KWOK). Some SNPs have been observed by many different submitters, and some by only a single submitter (although that single submitter may have tested a large number of samples). AlleleFrequencies: Some submissions to dbSNP include allele frequencies and the study's sample size (i.e., the number of distinct chromosomes, which is two times the number of individuals assayed, a.k.a. 2N). dbSNP combines all available frequencies and counts from submitted SNPs that are clustered together into a reference SNP. You can configure this track such that the details page displays the function and coding differences relative to particular gene sets. Choose the gene sets from the list on the SNP configuration page displayed beneath this heading: On details page, show function and coding differences relative to. When one or more gene tracks are selected, the SNP details page lists all genes that the SNP hits (or is close to), with the same keywords used in the function category. The function usually agrees with NCBI's function, except when NCBI's functional annotation is relative to an XM_* predicted RefSeq (not included in the UCSC Genome Browser's RefSeq Genes track) and/or UCSC's functional annotation is relative to a transcript that is not in RefSeq. Insertions/Deletions dbSNP uses a class called 'in-del'. We compare the length of the reference allele to the length(s) of observed alleles; if the reference allele is shorter than all other observed alleles, we change 'in-del' to 'insertion'. Likewise, if the reference allele is longer than all other observed alleles, we change 'in-del' to 'deletion'. UCSC Re-alignment of flanking sequences dbSNP determines the genomic locations of SNPs by aligning their flanking sequences to the genome. UCSC displays SNPs in the locations determined by dbSNP, but does not have access to the alignments on which dbSNP based its mappings. Instead, UCSC re-aligns the flanking sequences to the neighboring genomic sequence for display on SNP details pages. While the recomputed alignments may differ from dbSNP's alignments, they often are informative when UCSC has annotated an unusual condition. Non-repetitive genomic sequence is shown in upper case like the flanking sequence, and a "|" indicates each match between genomic and flanking bases. Repetitive genomic sequence (annotated by RepeatMasker and/or the Tandem Repeats Finder with period Data Sources and Methods The data that comprise this track were extracted from database dump files and headers of fasta files downloaded from NCBI. The database dump files were downloaded from ftp://ftp.ncbi.nih.gov/snp/organisms/human_9606_b142_GRCh37p13/database/organism_data/ for hg19 and from ftp://ftp.ncbi.nih.gov/snp/organisms/human_9606_b142_GRCh38/database/organism_data/ for hg38. The fasta files were downloaded from ftp://ftp.ncbi.nih.gov/snp/organisms/human_9606_b142_GRCh37p13/rs_fasta/ for hg19 and from ftp://ftp.ncbi.nih.gov/snp/organisms/human_9606_b142_GRCh38/rs_fasta/ for hg38. Coordinates, orientation, location type and dbSNP reference allele data were obtained from b142_SNPContigLoc_N.bcp.gz and b142_ContigInfo_N.bcp.gz. (N = 105 for hg19, 106 for hg38) b142_SNPMapInfo_N.bcp.gz provided the alignment weights. Functional classification was obtained from b142_SNPContigLocusId_N.bcp.gz. The internal database representation uses dbSNP's function terms, but for display in SNP details pages, these are translated into Sequence Ontology terms. Validation status and heterozygosity were obtained from SNP.bcp.gz. SNPAlleleFreq.bcp.gz and ../shared/Allele.bcp.gz provided allele frequencies. For the human assembly, allele frequencies were also taken from SNPAlleleFreq_TGP.bcp.gz . Submitter handles were extracted from Batch.bcp.gz, SubSNP.bcp.gz and SNPSubSNPLink.bcp.gz. SNP_bitfield.bcp.gz provided miscellaneous properties annotated by dbSNP, such as clinically-associated. See the document dbSNP_BitField_v5.pdf for details. The header lines in the rs_fasta files were used for molecule type, class and observed polymorphism. Data Access The raw data can be explored interactively with the Table Browser, Data Integrator, or Variant Annotation Integrator. For automated analysis, the genome annotation can be downloaded from the downloads server for hg38 and hg19 (snp142*.txt.gz) or the public MySQL server. Please refer to our mailing list archives for questions and example queries, or our Data Access FAQ for more information. Orthologous Alleles (human assemblies only) For the human assembly, we provide a related table that contains orthologous alleles in the chimpanzee, orangutan and rhesus macaque reference genome assemblies. We use our liftOver utility to identify the orthologous alleles. The candidate human SNPs are a filtered list that meet the criteria: class = 'single' mapped position in the human reference genome is one base long aligned to only one location in the human reference genome not aligned to a chrN_random chrom biallelic (not tri- or quad-allelic) In some cases the orthologous allele is unknown; these are set to 'N'. If a lift was not possible, we set the orthologous allele to '?' and the orthologous start and end position to 0 (zero). Masked FASTA Files (human assemblies only) FASTA files that have been modified to use IUPAC ambiguous nucleotide characters at each base covered by a single-base substitution are available for download: GRCh37/hg19, GRCh38/hg38. Note that only single-base substitutions (no insertions or deletions) were used to mask the sequence, and these were filtered to exclude problematic SNPs. References Sherry ST, Ward MH, Kholodov M, Baker J, Phan L, Smigielski EM, Sirotkin K. dbSNP: the NCBI database of genetic variation. Nucleic Acids Res. 2001 Jan 1;29(1):308-11. PMID: 11125122; PMC: PMC29783 
snp141Mult Mult. SNPs(141) Simple Nucleotide Polymorphisms (dbSNP 141) That Map to Multiple Genomic Loci Variation Description This track contains information about a subset of the single nucleotide polymorphisms and small insertions and deletions (indels) — collectively Simple Nucleotide Polymorphisms — from dbSNP build 141, available from ftp.ncbi.nih.gov/snp. Only SNPs that have been mapped to multiple locations in the reference genome assembly are included in this subset. When a SNP's flanking sequences map to multiple locations in the reference genome, it calls into question whether there is true variation at those sites, or whether the sequences at those sites are merely highly similar but not identical. The default maximum weight for this track is 3, unlike the other dbSNP build 141 tracks which have a maximum weight of 1. That enables these multiply-mapped SNPs to appear in the display, while by default they will not appear in the All SNPs(141) track because of its maximum weight filter. The remainder of this page is identical on the following tracks: Common SNPs(141) - SNPs with >= 1% minor allele frequency (MAF), mapping only once to reference assembly. Flagged SNPs(141) - SNPs < 1% minor allele frequency (MAF) (or unknown), mapping only once to reference assembly, flagged in dbSnp as "clinically associated" -- not necessarily a risk allele! Mult. SNPs(141) - SNPs mapping in more than one place on reference assembly. All SNPs(141) - all SNPs from dbSNP mapping to reference assembly. Interpreting and Configuring the Graphical Display Variants are shown as single tick marks at most zoom levels. When viewing the track at or near base-level resolution, the displayed width of the SNP corresponds to the width of the variant in the reference sequence. Insertions are indicated by a single tick mark displayed between two nucleotides, single nucleotide polymorphisms are displayed as the width of a single base, and multiple nucleotide variants are represented by a block that spans two or more bases. On the track controls page, SNPs can be colored and/or filtered from the display according to several attributes: Class: Describes the observed alleles Single - single nucleotide variation: all observed alleles are single nucleotides (can have 2, 3 or 4 alleles) In-del - insertion/deletion Heterozygous - heterozygous (undetermined) variation: allele contains string '(heterozygous)' Microsatellite - the observed allele from dbSNP is a variation in counts of short tandem repeats Named - the observed allele from dbSNP is given as a text name instead of raw sequence, e.g., (Alu)/- No Variation - the submission reports an invariant region in the surveyed sequence Mixed - the cluster contains submissions from multiple classes Multiple Nucleotide Polymorphism (MNP) - the alleles are all of the same length, and length > 1 Insertion - the polymorphism is an insertion relative to the reference assembly Deletion - the polymorphism is a deletion relative to the reference assembly Unknown - no classification provided by data contributor Validation: Method used to validate the variant (each variant may be validated by more than one method) By Frequency - at least one submitted SNP in cluster has frequency data submitted By Cluster - cluster has at least 2 submissions, with at least one submission assayed with a non-computational method By Submitter - at least one submitter SNP in cluster was validated by independent assay By 2 Hit/2 Allele - all alleles have been observed in at least 2 chromosomes By HapMap (human only) - submitted by HapMap project By 1000Genomes (human only) - submitted by 1000Genomes project Unknown - no validation has been reported for this variant Function: dbSNP's predicted functional effect of variant on RefSeq transcripts, both curated (NM_* and NR_*) as in the RefSeq Genes track and predicted (XM_* and XR_*), not shown in UCSC Genome Browser. A variant may have more than one functional role if it overlaps multiple transcripts. These terms and definitions are from the Sequence Ontology (SO); click on a term to view it in the MISO Sequence Ontology Browser. Unknown - no functional classification provided (possibly intergenic) synonymous_variant - A sequence variant where there is no resulting change to the encoded amino acid (dbSNP term: coding-synon) intron_variant - A transcript variant occurring within an intron (dbSNP term: intron) downstream_gene_variant - A sequence variant located 3' of a gene (dbSNP term: near-gene-3) upstream_gene_variant - A sequence variant located 5' of a gene (dbSNP term: near-gene-5) nc_transcript_variant - A transcript variant of a non coding RNA gene (dbSNP term: ncRNA) stop_gained - A sequence variant whereby at least one base of a codon is changed, resulting in a premature stop codon, leading to a shortened transcript (dbSNP term: nonsense) missense_variant - A sequence variant, where the change may be longer than 3 bases, and at least one base of a codon is changed resulting in a codon that encodes for a different amino acid (dbSNP term: missense) stop_lost - A sequence variant where at least one base of the terminator codon (stop) is changed, resulting in an elongated transcript (dbSNP term: stop-loss) frameshift_variant - A sequence variant which causes a disruption of the translational reading frame, because the number of nucleotides inserted or deleted is not a multiple of three (dbSNP term: frameshift) inframe_indel - A coding sequence variant where the change does not alter the frame of the transcript (dbSNP term: cds-indel) 3_prime_UTR_variant - A UTR variant of the 3' UTR (dbSNP term: untranslated-3) 5_prime_UTR_variant - A UTR variant of the 5' UTR (dbSNP term: untranslated-5) splice_acceptor_variant - A splice variant that changes the 2 base region at the 3' end of an intron (dbSNP term: splice-3) splice_donor_variant - A splice variant that changes the 2 base region at the 5' end of an intron (dbSNP term: splice-5) In the Coloring Options section of the track controls page, function terms are grouped into several categories, shown here with default colors: Locus: downstream_gene_variant, upstream_gene_variant Coding - Synonymous: synonymous_variant Coding - Non-Synonymous: stop_gained, missense_variant, stop_lost, frameshift_variant, inframe_indel Untranslated: 5_prime_UTR_variant, 3_prime_UTR_variant Intron: intron_variant Splice Site: splice_acceptor_variant, splice_donor_variant Molecule Type: Sample used to find this variant Genomic - variant discovered using a genomic template cDNA - variant discovered using a cDNA template Unknown - sample type not known Unusual Conditions (UCSC): UCSC checks for several anomalies that may indicate a problem with the mapping, and reports them in the Annotations section of the SNP details page if found: AlleleFreqSumNot1 - Allele frequencies do not sum to 1.0 (+-0.01). This SNP's allele frequency data are probably incomplete. DuplicateObserved, MixedObserved - Multiple distinct insertion SNPs have been mapped to this location, with either the same inserted sequence (Duplicate) or different inserted sequence (Mixed). FlankMismatchGenomeEqual, FlankMismatchGenomeLonger, FlankMismatchGenomeShorter - NCBI's alignment of the flanking sequences had at least one mismatch or gap near the mapped SNP position. (UCSC's re-alignment of flanking sequences to the genome may be informative.) MultipleAlignments - This SNP's flanking sequences align to more than one location in the reference assembly. NamedDeletionZeroSpan - A deletion (from the genome) was observed but the annotation spans 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) NamedInsertionNonzeroSpan - An insertion (into the genome) was observed but the annotation spans more than 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) NonIntegerChromCount - At least one allele frequency corresponds to a non-integer (+-0.010000) count of chromosomes on which the allele was observed. The reported total sample count for this SNP is probably incorrect. ObservedContainsIupac - At least one observed allele from dbSNP contains an IUPAC ambiguous base (e.g., R, Y, N). ObservedMismatch - UCSC reference allele does not match any observed allele from dbSNP. This is tested only for SNPs whose class is single, in-del, insertion, deletion, mnp or mixed. ObservedTooLong - Observed allele not given (length too long). ObservedWrongFormat - Observed allele(s) from dbSNP have unexpected format for the given class. RefAlleleMismatch - The reference allele from dbSNP does not match the UCSC reference allele, i.e., the bases in the mapped position range. RefAlleleRevComp - The reference allele from dbSNP matches the reverse complement of the UCSC reference allele. SingleClassLongerSpan - All observed alleles are single-base, but the annotation spans more than 1 base. (UCSC's re-alignment of flanking sequences to the genome may be informative.) SingleClassZeroSpan - All observed alleles are single-base, but the annotation spans 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) Another condition, which does not necessarily imply any problem, is noted: SingleClassTriAllelic, SingleClassQuadAllelic - Class is single and three or four different bases have been observed (usually there are only two). Miscellaneous Attributes (dbSNP): several properties extracted from dbSNP's SNP_bitfield table (see dbSNP_BitField_v5.pdf for details) Clinically Associated (human only) - SNP is in OMIM and/or at least one submitter is a Locus-Specific Database. This does not necessarily imply that the variant causes any disease, only that it has been observed in clinical studies. Appears in OMIM/OMIA - SNP is mentioned in Online Mendelian Inheritance in Man for human SNPs, or Online Mendelian Inheritance in Animals for non-human animal SNPs. Some of these SNPs are quite common, others are known to cause disease; see OMIM/OMIA for more information. Has Microattribution/Third-Party Annotation - At least one of the SNP's submitters studied this SNP in a biomedical setting, but is not a Locus-Specific Database or OMIM/OMIA. Submitted by Locus-Specific Database - At least one of the SNP's submitters is associated with a database of variants associated with a particular gene. These variants may or may not be known to be causative. MAF >= 5% in Some Population - Minor Allele Frequency is at least 5% in at least one population assayed. MAF >= 5% in All Populations - Minor Allele Frequency is at least 5% in all populations assayed. Genotype Conflict - Quality check: different genotypes have been submitted for the same individual. Ref SNP Cluster has Non-overlapping Alleles - Quality check: this reference SNP was clustered from submitted SNPs with non-overlapping sets of observed alleles. Some Assembly's Allele Does Not Match Observed - Quality check: at least one assembly mapped by dbSNP has an allele at the mapped position that is not present in this SNP's observed alleles. Several other properties do not have coloring options, but do have some filtering options: Average heterozygosity: Calculated by dbSNP as described in Computation of Average Heterozygosity and Standard Error for dbSNP RefSNP Clusters. Average heterozygosity should not exceed 0.5 for bi-allelic single-base substitutions. Weight: Alignment quality assigned by dbSNP Weight can be 0, 1, 2, 3 or 10. Weight = 1 are the highest quality alignments. Weight = 0 and weight = 10 are excluded from the data set. A filter on maximum weight value is supported, which defaults to 1 on all tracks except the Mult. SNPs track, which defaults to 3. Submitter handles: These are short, single-word identifiers of labs or consortia that submitted SNPs that were clustered into this reference SNP by dbSNP (e.g., 1000GENOMES, ENSEMBL, KWOK). Some SNPs have been observed by many different submitters, and some by only a single submitter (although that single submitter may have tested a large number of samples). AlleleFrequencies: Some submissions to dbSNP include allele frequencies and the study's sample size (i.e., the number of distinct chromosomes, which is two times the number of individuals assayed, a.k.a. 2N). dbSNP combines all available frequencies and counts from submitted SNPs that are clustered together into a reference SNP. You can configure this track such that the details page displays the function and coding differences relative to particular gene sets. Choose the gene sets from the list on the SNP configuration page displayed beneath this heading: On details page, show function and coding differences relative to. When one or more gene tracks are selected, the SNP details page lists all genes that the SNP hits (or is close to), with the same keywords used in the function category. The function usually agrees with NCBI's function, except when NCBI's functional annotation is relative to an XM_* predicted RefSeq (not included in the UCSC Genome Browser's RefSeq Genes track) and/or UCSC's functional annotation is relative to a transcript that is not in RefSeq. Insertions/Deletions dbSNP uses a class called 'in-del'. We compare the length of the reference allele to the length(s) of observed alleles; if the reference allele is shorter than all other observed alleles, we change 'in-del' to 'insertion'. Likewise, if the reference allele is longer than all other observed alleles, we change 'in-del' to 'deletion'. UCSC Re-alignment of flanking sequences dbSNP determines the genomic locations of SNPs by aligning their flanking sequences to the genome. UCSC displays SNPs in the locations determined by dbSNP, but does not have access to the alignments on which dbSNP based its mappings. Instead, UCSC re-aligns the flanking sequences to the neighboring genomic sequence for display on SNP details pages. While the recomputed alignments may differ from dbSNP's alignments, they often are informative when UCSC has annotated an unusual condition. Non-repetitive genomic sequence is shown in upper case like the flanking sequence, and a "|" indicates each match between genomic and flanking bases. Repetitive genomic sequence (annotated by RepeatMasker and/or the Tandem Repeats Finder with period Data Sources and Methods The data that comprise this track were extracted from database dump files and headers of fasta files downloaded from NCBI. The database dump files were downloaded from ftp://ftp.ncbi.nih.gov/snp/organisms/ organism_tax_id/database/ (for human, organism_tax_id = human_9606; for mouse, organism_tax_id = mouse_10090). The fasta files were downloaded from ftp://ftp.ncbi.nih.gov/snp/organisms/ organism_tax_id/rs_fasta/ Coordinates, orientation, location type and dbSNP reference allele data were obtained from b141_SNPContigLoc.bcp.gz and b141_ContigInfo.bcp.gz. b141_SNPMapInfo.bcp.gz provided the alignment weights. Functional classification was obtained from b141_SNPContigLocusId.bcp.gz. The internal database representation uses dbSNP's function terms, but for display in SNP details pages, these are translated into Sequence Ontology terms. Validation status and heterozygosity were obtained from SNP.bcp.gz. SNPAlleleFreq.bcp.gz and ../shared/Allele.bcp.gz provided allele frequencies. For the human assembly, allele frequencies were also taken from SNPAlleleFreq_TGP.bcp.gz . Submitter handles were extracted from Batch.bcp.gz, SubSNP.bcp.gz and SNPSubSNPLink.bcp.gz. SNP_bitfield.bcp.gz provided miscellaneous properties annotated by dbSNP, such as clinically-associated. See the document dbSNP_BitField_v5.pdf for details. The header lines in the rs_fasta files were used for molecule type, class and observed polymorphism. Data Access The raw data can be explored interactively with the Table Browser, Data Integrator, or Variant Annotation Integrator. For automated analysis, the genome annotation can be downloaded from the downloads server for hg38 and hg19 (snp141*.txt.gz) or the public MySQL server. Please refer to our mailing list archives for questions and example queries, or our Data Access FAQ for more information. Orthologous Alleles (human assemblies only) For the human assembly, we provide a related table that contains orthologous alleles in the chimpanzee, orangutan and rhesus macaque reference genome assemblies. We use our liftOver utility to identify the orthologous alleles. The candidate human SNPs are a filtered list that meet the criteria: class = 'single' mapped position in the human reference genome is one base long aligned to only one location in the human reference genome not aligned to a chrN_random chrom biallelic (not tri- or quad-allelic) In some cases the orthologous allele is unknown; these are set to 'N'. If a lift was not possible, we set the orthologous allele to '?' and the orthologous start and end position to 0 (zero). Masked FASTA Files (human assemblies only) FASTA files that have been modified to use IUPAC ambiguous nucleotide characters at each base covered by a single-base substitution are available for download: GRCh37/hg19, GRCh38/hg38. Note that only single-base substitutions (no insertions or deletions) were used to mask the sequence, and these were filtered to exclude problematic SNPs. References Sherry ST, Ward MH, Kholodov M, Baker J, Phan L, Smigielski EM, Sirotkin K. dbSNP: the NCBI database of genetic variation. Nucleic Acids Res. 2001 Jan 1;29(1):308-11. PMID: 11125122; PMC: PMC29783 
snp141Flagged Flagged SNPs(141) Simple Nucleotide Polymorphisms (dbSNP 141) Flagged by dbSNP as Clinically Assoc Variation Description This track contains information about a subset of the single nucleotide polymorphisms and small insertions and deletions (indels) — collectively Simple Nucleotide Polymorphisms — from dbSNP build 141, available from ftp.ncbi.nih.gov/snp. Only SNPs flagged as clinically associated by dbSNP, mapped to a single location in the reference genome assembly, and not known to have a minor allele frequency of at least 1%, are included in this subset. Frequency data are not available for all SNPs, so this subset probably includes some SNPs whose true minor allele frequency is 1% or greater. The significance of any particular variant in this track should be interpreted only by a trained medical geneticist using all available information. For example, some variants are included in this track because of their inclusion in a Locus-Specific Database (LSDB) or mention in OMIM, but are not thought to be disease-causing, so inclusion of a variant in this track is not necessarily an indicator of risk. Again, all available information must be carefully considered by a qualified professional. The remainder of this page is identical on the following tracks: Common SNPs(141) - SNPs with >= 1% minor allele frequency (MAF), mapping only once to reference assembly. Flagged SNPs(141) - SNPs < 1% minor allele frequency (MAF) (or unknown), mapping only once to reference assembly, flagged in dbSnp as "clinically associated" -- not necessarily a risk allele! Mult. SNPs(141) - SNPs mapping in more than one place on reference assembly. All SNPs(141) - all SNPs from dbSNP mapping to reference assembly. Interpreting and Configuring the Graphical Display Variants are shown as single tick marks at most zoom levels. When viewing the track at or near base-level resolution, the displayed width of the SNP corresponds to the width of the variant in the reference sequence. Insertions are indicated by a single tick mark displayed between two nucleotides, single nucleotide polymorphisms are displayed as the width of a single base, and multiple nucleotide variants are represented by a block that spans two or more bases. On the track controls page, SNPs can be colored and/or filtered from the display according to several attributes: Class: Describes the observed alleles Single - single nucleotide variation: all observed alleles are single nucleotides (can have 2, 3 or 4 alleles) In-del - insertion/deletion Heterozygous - heterozygous (undetermined) variation: allele contains string '(heterozygous)' Microsatellite - the observed allele from dbSNP is a variation in counts of short tandem repeats Named - the observed allele from dbSNP is given as a text name instead of raw sequence, e.g., (Alu)/- No Variation - the submission reports an invariant region in the surveyed sequence Mixed - the cluster contains submissions from multiple classes Multiple Nucleotide Polymorphism (MNP) - the alleles are all of the same length, and length > 1 Insertion - the polymorphism is an insertion relative to the reference assembly Deletion - the polymorphism is a deletion relative to the reference assembly Unknown - no classification provided by data contributor Validation: Method used to validate the variant (each variant may be validated by more than one method) By Frequency - at least one submitted SNP in cluster has frequency data submitted By Cluster - cluster has at least 2 submissions, with at least one submission assayed with a non-computational method By Submitter - at least one submitter SNP in cluster was validated by independent assay By 2 Hit/2 Allele - all alleles have been observed in at least 2 chromosomes By HapMap (human only) - submitted by HapMap project By 1000Genomes (human only) - submitted by 1000Genomes project Unknown - no validation has been reported for this variant Function: dbSNP's predicted functional effect of variant on RefSeq transcripts, both curated (NM_* and NR_*) as in the RefSeq Genes track and predicted (XM_* and XR_*), not shown in UCSC Genome Browser. A variant may have more than one functional role if it overlaps multiple transcripts. These terms and definitions are from the Sequence Ontology (SO); click on a term to view it in the MISO Sequence Ontology Browser. Unknown - no functional classification provided (possibly intergenic) synonymous_variant - A sequence variant where there is no resulting change to the encoded amino acid (dbSNP term: coding-synon) intron_variant - A transcript variant occurring within an intron (dbSNP term: intron) downstream_gene_variant - A sequence variant located 3' of a gene (dbSNP term: near-gene-3) upstream_gene_variant - A sequence variant located 5' of a gene (dbSNP term: near-gene-5) nc_transcript_variant - A transcript variant of a non coding RNA gene (dbSNP term: ncRNA) stop_gained - A sequence variant whereby at least one base of a codon is changed, resulting in a premature stop codon, leading to a shortened transcript (dbSNP term: nonsense) missense_variant - A sequence variant, where the change may be longer than 3 bases, and at least one base of a codon is changed resulting in a codon that encodes for a different amino acid (dbSNP term: missense) stop_lost - A sequence variant where at least one base of the terminator codon (stop) is changed, resulting in an elongated transcript (dbSNP term: stop-loss) frameshift_variant - A sequence variant which causes a disruption of the translational reading frame, because the number of nucleotides inserted or deleted is not a multiple of three (dbSNP term: frameshift) inframe_indel - A coding sequence variant where the change does not alter the frame of the transcript (dbSNP term: cds-indel) 3_prime_UTR_variant - A UTR variant of the 3' UTR (dbSNP term: untranslated-3) 5_prime_UTR_variant - A UTR variant of the 5' UTR (dbSNP term: untranslated-5) splice_acceptor_variant - A splice variant that changes the 2 base region at the 3' end of an intron (dbSNP term: splice-3) splice_donor_variant - A splice variant that changes the 2 base region at the 5' end of an intron (dbSNP term: splice-5) In the Coloring Options section of the track controls page, function terms are grouped into several categories, shown here with default colors: Locus: downstream_gene_variant, upstream_gene_variant Coding - Synonymous: synonymous_variant Coding - Non-Synonymous: stop_gained, missense_variant, stop_lost, frameshift_variant, inframe_indel Untranslated: 5_prime_UTR_variant, 3_prime_UTR_variant Intron: intron_variant Splice Site: splice_acceptor_variant, splice_donor_variant Molecule Type: Sample used to find this variant Genomic - variant discovered using a genomic template cDNA - variant discovered using a cDNA template Unknown - sample type not known Unusual Conditions (UCSC): UCSC checks for several anomalies that may indicate a problem with the mapping, and reports them in the Annotations section of the SNP details page if found: AlleleFreqSumNot1 - Allele frequencies do not sum to 1.0 (+-0.01). This SNP's allele frequency data are probably incomplete. DuplicateObserved, MixedObserved - Multiple distinct insertion SNPs have been mapped to this location, with either the same inserted sequence (Duplicate) or different inserted sequence (Mixed). FlankMismatchGenomeEqual, FlankMismatchGenomeLonger, FlankMismatchGenomeShorter - NCBI's alignment of the flanking sequences had at least one mismatch or gap near the mapped SNP position. (UCSC's re-alignment of flanking sequences to the genome may be informative.) MultipleAlignments - This SNP's flanking sequences align to more than one location in the reference assembly. NamedDeletionZeroSpan - A deletion (from the genome) was observed but the annotation spans 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) NamedInsertionNonzeroSpan - An insertion (into the genome) was observed but the annotation spans more than 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) NonIntegerChromCount - At least one allele frequency corresponds to a non-integer (+-0.010000) count of chromosomes on which the allele was observed. The reported total sample count for this SNP is probably incorrect. ObservedContainsIupac - At least one observed allele from dbSNP contains an IUPAC ambiguous base (e.g., R, Y, N). ObservedMismatch - UCSC reference allele does not match any observed allele from dbSNP. This is tested only for SNPs whose class is single, in-del, insertion, deletion, mnp or mixed. ObservedTooLong - Observed allele not given (length too long). ObservedWrongFormat - Observed allele(s) from dbSNP have unexpected format for the given class. RefAlleleMismatch - The reference allele from dbSNP does not match the UCSC reference allele, i.e., the bases in the mapped position range. RefAlleleRevComp - The reference allele from dbSNP matches the reverse complement of the UCSC reference allele. SingleClassLongerSpan - All observed alleles are single-base, but the annotation spans more than 1 base. (UCSC's re-alignment of flanking sequences to the genome may be informative.) SingleClassZeroSpan - All observed alleles are single-base, but the annotation spans 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) Another condition, which does not necessarily imply any problem, is noted: SingleClassTriAllelic, SingleClassQuadAllelic - Class is single and three or four different bases have been observed (usually there are only two). Miscellaneous Attributes (dbSNP): several properties extracted from dbSNP's SNP_bitfield table (see dbSNP_BitField_v5.pdf for details) Clinically Associated (human only) - SNP is in OMIM and/or at least one submitter is a Locus-Specific Database. This does not necessarily imply that the variant causes any disease, only that it has been observed in clinical studies. Appears in OMIM/OMIA - SNP is mentioned in Online Mendelian Inheritance in Man for human SNPs, or Online Mendelian Inheritance in Animals for non-human animal SNPs. Some of these SNPs are quite common, others are known to cause disease; see OMIM/OMIA for more information. Has Microattribution/Third-Party Annotation - At least one of the SNP's submitters studied this SNP in a biomedical setting, but is not a Locus-Specific Database or OMIM/OMIA. Submitted by Locus-Specific Database - At least one of the SNP's submitters is associated with a database of variants associated with a particular gene. These variants may or may not be known to be causative. MAF >= 5% in Some Population - Minor Allele Frequency is at least 5% in at least one population assayed. MAF >= 5% in All Populations - Minor Allele Frequency is at least 5% in all populations assayed. Genotype Conflict - Quality check: different genotypes have been submitted for the same individual. Ref SNP Cluster has Non-overlapping Alleles - Quality check: this reference SNP was clustered from submitted SNPs with non-overlapping sets of observed alleles. Some Assembly's Allele Does Not Match Observed - Quality check: at least one assembly mapped by dbSNP has an allele at the mapped position that is not present in this SNP's observed alleles. Several other properties do not have coloring options, but do have some filtering options: Average heterozygosity: Calculated by dbSNP as described in Computation of Average Heterozygosity and Standard Error for dbSNP RefSNP Clusters. Average heterozygosity should not exceed 0.5 for bi-allelic single-base substitutions. Weight: Alignment quality assigned by dbSNP Weight can be 0, 1, 2, 3 or 10. Weight = 1 are the highest quality alignments. Weight = 0 and weight = 10 are excluded from the data set. A filter on maximum weight value is supported, which defaults to 1 on all tracks except the Mult. SNPs track, which defaults to 3. Submitter handles: These are short, single-word identifiers of labs or consortia that submitted SNPs that were clustered into this reference SNP by dbSNP (e.g., 1000GENOMES, ENSEMBL, KWOK). Some SNPs have been observed by many different submitters, and some by only a single submitter (although that single submitter may have tested a large number of samples). AlleleFrequencies: Some submissions to dbSNP include allele frequencies and the study's sample size (i.e., the number of distinct chromosomes, which is two times the number of individuals assayed, a.k.a. 2N). dbSNP combines all available frequencies and counts from submitted SNPs that are clustered together into a reference SNP. You can configure this track such that the details page displays the function and coding differences relative to particular gene sets. Choose the gene sets from the list on the SNP configuration page displayed beneath this heading: On details page, show function and coding differences relative to. When one or more gene tracks are selected, the SNP details page lists all genes that the SNP hits (or is close to), with the same keywords used in the function category. The function usually agrees with NCBI's function, except when NCBI's functional annotation is relative to an XM_* predicted RefSeq (not included in the UCSC Genome Browser's RefSeq Genes track) and/or UCSC's functional annotation is relative to a transcript that is not in RefSeq. Insertions/Deletions dbSNP uses a class called 'in-del'. We compare the length of the reference allele to the length(s) of observed alleles; if the reference allele is shorter than all other observed alleles, we change 'in-del' to 'insertion'. Likewise, if the reference allele is longer than all other observed alleles, we change 'in-del' to 'deletion'. UCSC Re-alignment of flanking sequences dbSNP determines the genomic locations of SNPs by aligning their flanking sequences to the genome. UCSC displays SNPs in the locations determined by dbSNP, but does not have access to the alignments on which dbSNP based its mappings. Instead, UCSC re-aligns the flanking sequences to the neighboring genomic sequence for display on SNP details pages. While the recomputed alignments may differ from dbSNP's alignments, they often are informative when UCSC has annotated an unusual condition. Non-repetitive genomic sequence is shown in upper case like the flanking sequence, and a "|" indicates each match between genomic and flanking bases. Repetitive genomic sequence (annotated by RepeatMasker and/or the Tandem Repeats Finder with period Data Sources and Methods The data that comprise this track were extracted from database dump files and headers of fasta files downloaded from NCBI. The database dump files were downloaded from ftp://ftp.ncbi.nih.gov/snp/organisms/ organism_tax_id/database/ (for human, organism_tax_id = human_9606; for mouse, organism_tax_id = mouse_10090). The fasta files were downloaded from ftp://ftp.ncbi.nih.gov/snp/organisms/ organism_tax_id/rs_fasta/ Coordinates, orientation, location type and dbSNP reference allele data were obtained from b141_SNPContigLoc.bcp.gz and b141_ContigInfo.bcp.gz. b141_SNPMapInfo.bcp.gz provided the alignment weights. Functional classification was obtained from b141_SNPContigLocusId.bcp.gz. The internal database representation uses dbSNP's function terms, but for display in SNP details pages, these are translated into Sequence Ontology terms. Validation status and heterozygosity were obtained from SNP.bcp.gz. SNPAlleleFreq.bcp.gz and ../shared/Allele.bcp.gz provided allele frequencies. For the human assembly, allele frequencies were also taken from SNPAlleleFreq_TGP.bcp.gz . Submitter handles were extracted from Batch.bcp.gz, SubSNP.bcp.gz and SNPSubSNPLink.bcp.gz. SNP_bitfield.bcp.gz provided miscellaneous properties annotated by dbSNP, such as clinically-associated. See the document dbSNP_BitField_v5.pdf for details. The header lines in the rs_fasta files were used for molecule type, class and observed polymorphism. Data Access The raw data can be explored interactively with the Table Browser, Data Integrator, or Variant Annotation Integrator. For automated analysis, the genome annotation can be downloaded from the downloads server for hg38 and hg19 (snp141*.txt.gz) or the public MySQL server. Please refer to our mailing list archives for questions and example queries, or our Data Access FAQ for more information. Orthologous Alleles (human assemblies only) For the human assembly, we provide a related table that contains orthologous alleles in the chimpanzee, orangutan and rhesus macaque reference genome assemblies. We use our liftOver utility to identify the orthologous alleles. The candidate human SNPs are a filtered list that meet the criteria: class = 'single' mapped position in the human reference genome is one base long aligned to only one location in the human reference genome not aligned to a chrN_random chrom biallelic (not tri- or quad-allelic) In some cases the orthologous allele is unknown; these are set to 'N'. If a lift was not possible, we set the orthologous allele to '?' and the orthologous start and end position to 0 (zero). Masked FASTA Files (human assemblies only) FASTA files that have been modified to use IUPAC ambiguous nucleotide characters at each base covered by a single-base substitution are available for download: GRCh37/hg19, GRCh38/hg38. Note that only single-base substitutions (no insertions or deletions) were used to mask the sequence, and these were filtered to exclude problematic SNPs. References Sherry ST, Ward MH, Kholodov M, Baker J, Phan L, Smigielski EM, Sirotkin K. dbSNP: the NCBI database of genetic variation. Nucleic Acids Res. 2001 Jan 1;29(1):308-11. PMID: 11125122; PMC: PMC29783 
snp141Common Common SNPs(141) Simple Nucleotide Polymorphisms (dbSNP 141) Found in >= 1% of Samples Variation Description This track contains information about a subset of the single nucleotide polymorphisms and small insertions and deletions (indels) — collectively Simple Nucleotide Polymorphisms — from dbSNP build 141, available from ftp.ncbi.nih.gov/snp. Only SNPs that have a minor allele frequency of at least 1% and are mapped to a single location in the reference genome assembly are included in this subset. Frequency data are not available for all SNPs, so this subset is incomplete. The selection of SNPs with a minor allele frequency of 1% or greater is an attempt to identify variants that appear to be reasonably common in the general population. Taken as a set, common variants should be less likely to be associated with severe genetic diseases due to the effects of natural selection, following the view that deleterious variants are not likely to become common in the population. However, the significance of any particular variant should be interpreted only by a trained medical geneticist using all available information. The remainder of this page is identical on the following tracks: Common SNPs(141) - SNPs with >= 1% minor allele frequency (MAF), mapping only once to reference assembly. Flagged SNPs(141) - SNPs < 1% minor allele frequency (MAF) (or unknown), mapping only once to reference assembly, flagged in dbSnp as "clinically associated" -- not necessarily a risk allele! Mult. SNPs(141) - SNPs mapping in more than one place on reference assembly. All SNPs(141) - all SNPs from dbSNP mapping to reference assembly. Interpreting and Configuring the Graphical Display Variants are shown as single tick marks at most zoom levels. When viewing the track at or near base-level resolution, the displayed width of the SNP corresponds to the width of the variant in the reference sequence. Insertions are indicated by a single tick mark displayed between two nucleotides, single nucleotide polymorphisms are displayed as the width of a single base, and multiple nucleotide variants are represented by a block that spans two or more bases. On the track controls page, SNPs can be colored and/or filtered from the display according to several attributes: Class: Describes the observed alleles Single - single nucleotide variation: all observed alleles are single nucleotides (can have 2, 3 or 4 alleles) In-del - insertion/deletion Heterozygous - heterozygous (undetermined) variation: allele contains string '(heterozygous)' Microsatellite - the observed allele from dbSNP is a variation in counts of short tandem repeats Named - the observed allele from dbSNP is given as a text name instead of raw sequence, e.g., (Alu)/- No Variation - the submission reports an invariant region in the surveyed sequence Mixed - the cluster contains submissions from multiple classes Multiple Nucleotide Polymorphism (MNP) - the alleles are all of the same length, and length > 1 Insertion - the polymorphism is an insertion relative to the reference assembly Deletion - the polymorphism is a deletion relative to the reference assembly Unknown - no classification provided by data contributor Validation: Method used to validate the variant (each variant may be validated by more than one method) By Frequency - at least one submitted SNP in cluster has frequency data submitted By Cluster - cluster has at least 2 submissions, with at least one submission assayed with a non-computational method By Submitter - at least one submitter SNP in cluster was validated by independent assay By 2 Hit/2 Allele - all alleles have been observed in at least 2 chromosomes By HapMap (human only) - submitted by HapMap project By 1000Genomes (human only) - submitted by 1000Genomes project Unknown - no validation has been reported for this variant Function: dbSNP's predicted functional effect of variant on RefSeq transcripts, both curated (NM_* and NR_*) as in the RefSeq Genes track and predicted (XM_* and XR_*), not shown in UCSC Genome Browser. A variant may have more than one functional role if it overlaps multiple transcripts. These terms and definitions are from the Sequence Ontology (SO); click on a term to view it in the MISO Sequence Ontology Browser. Unknown - no functional classification provided (possibly intergenic) synonymous_variant - A sequence variant where there is no resulting change to the encoded amino acid (dbSNP term: coding-synon) intron_variant - A transcript variant occurring within an intron (dbSNP term: intron) downstream_gene_variant - A sequence variant located 3' of a gene (dbSNP term: near-gene-3) upstream_gene_variant - A sequence variant located 5' of a gene (dbSNP term: near-gene-5) nc_transcript_variant - A transcript variant of a non coding RNA gene (dbSNP term: ncRNA) stop_gained - A sequence variant whereby at least one base of a codon is changed, resulting in a premature stop codon, leading to a shortened transcript (dbSNP term: nonsense) missense_variant - A sequence variant, where the change may be longer than 3 bases, and at least one base of a codon is changed resulting in a codon that encodes for a different amino acid (dbSNP term: missense) stop_lost - A sequence variant where at least one base of the terminator codon (stop) is changed, resulting in an elongated transcript (dbSNP term: stop-loss) frameshift_variant - A sequence variant which causes a disruption of the translational reading frame, because the number of nucleotides inserted or deleted is not a multiple of three (dbSNP term: frameshift) inframe_indel - A coding sequence variant where the change does not alter the frame of the transcript (dbSNP term: cds-indel) 3_prime_UTR_variant - A UTR variant of the 3' UTR (dbSNP term: untranslated-3) 5_prime_UTR_variant - A UTR variant of the 5' UTR (dbSNP term: untranslated-5) splice_acceptor_variant - A splice variant that changes the 2 base region at the 3' end of an intron (dbSNP term: splice-3) splice_donor_variant - A splice variant that changes the 2 base region at the 5' end of an intron (dbSNP term: splice-5) In the Coloring Options section of the track controls page, function terms are grouped into several categories, shown here with default colors: Locus: downstream_gene_variant, upstream_gene_variant Coding - Synonymous: synonymous_variant Coding - Non-Synonymous: stop_gained, missense_variant, stop_lost, frameshift_variant, inframe_indel Untranslated: 5_prime_UTR_variant, 3_prime_UTR_variant Intron: intron_variant Splice Site: splice_acceptor_variant, splice_donor_variant Molecule Type: Sample used to find this variant Genomic - variant discovered using a genomic template cDNA - variant discovered using a cDNA template Unknown - sample type not known Unusual Conditions (UCSC): UCSC checks for several anomalies that may indicate a problem with the mapping, and reports them in the Annotations section of the SNP details page if found: AlleleFreqSumNot1 - Allele frequencies do not sum to 1.0 (+-0.01). This SNP's allele frequency data are probably incomplete. DuplicateObserved, MixedObserved - Multiple distinct insertion SNPs have been mapped to this location, with either the same inserted sequence (Duplicate) or different inserted sequence (Mixed). FlankMismatchGenomeEqual, FlankMismatchGenomeLonger, FlankMismatchGenomeShorter - NCBI's alignment of the flanking sequences had at least one mismatch or gap near the mapped SNP position. (UCSC's re-alignment of flanking sequences to the genome may be informative.) MultipleAlignments - This SNP's flanking sequences align to more than one location in the reference assembly. NamedDeletionZeroSpan - A deletion (from the genome) was observed but the annotation spans 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) NamedInsertionNonzeroSpan - An insertion (into the genome) was observed but the annotation spans more than 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) NonIntegerChromCount - At least one allele frequency corresponds to a non-integer (+-0.010000) count of chromosomes on which the allele was observed. The reported total sample count for this SNP is probably incorrect. ObservedContainsIupac - At least one observed allele from dbSNP contains an IUPAC ambiguous base (e.g., R, Y, N). ObservedMismatch - UCSC reference allele does not match any observed allele from dbSNP. This is tested only for SNPs whose class is single, in-del, insertion, deletion, mnp or mixed. ObservedTooLong - Observed allele not given (length too long). ObservedWrongFormat - Observed allele(s) from dbSNP have unexpected format for the given class. RefAlleleMismatch - The reference allele from dbSNP does not match the UCSC reference allele, i.e., the bases in the mapped position range. RefAlleleRevComp - The reference allele from dbSNP matches the reverse complement of the UCSC reference allele. SingleClassLongerSpan - All observed alleles are single-base, but the annotation spans more than 1 base. (UCSC's re-alignment of flanking sequences to the genome may be informative.) SingleClassZeroSpan - All observed alleles are single-base, but the annotation spans 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) Another condition, which does not necessarily imply any problem, is noted: SingleClassTriAllelic, SingleClassQuadAllelic - Class is single and three or four different bases have been observed (usually there are only two). Miscellaneous Attributes (dbSNP): several properties extracted from dbSNP's SNP_bitfield table (see dbSNP_BitField_v5.pdf for details) Clinically Associated (human only) - SNP is in OMIM and/or at least one submitter is a Locus-Specific Database. This does not necessarily imply that the variant causes any disease, only that it has been observed in clinical studies. Appears in OMIM/OMIA - SNP is mentioned in Online Mendelian Inheritance in Man for human SNPs, or Online Mendelian Inheritance in Animals for non-human animal SNPs. Some of these SNPs are quite common, others are known to cause disease; see OMIM/OMIA for more information. Has Microattribution/Third-Party Annotation - At least one of the SNP's submitters studied this SNP in a biomedical setting, but is not a Locus-Specific Database or OMIM/OMIA. Submitted by Locus-Specific Database - At least one of the SNP's submitters is associated with a database of variants associated with a particular gene. These variants may or may not be known to be causative. MAF >= 5% in Some Population - Minor Allele Frequency is at least 5% in at least one population assayed. MAF >= 5% in All Populations - Minor Allele Frequency is at least 5% in all populations assayed. Genotype Conflict - Quality check: different genotypes have been submitted for the same individual. Ref SNP Cluster has Non-overlapping Alleles - Quality check: this reference SNP was clustered from submitted SNPs with non-overlapping sets of observed alleles. Some Assembly's Allele Does Not Match Observed - Quality check: at least one assembly mapped by dbSNP has an allele at the mapped position that is not present in this SNP's observed alleles. Several other properties do not have coloring options, but do have some filtering options: Average heterozygosity: Calculated by dbSNP as described in Computation of Average Heterozygosity and Standard Error for dbSNP RefSNP Clusters. Average heterozygosity should not exceed 0.5 for bi-allelic single-base substitutions. Weight: Alignment quality assigned by dbSNP Weight can be 0, 1, 2, 3 or 10. Weight = 1 are the highest quality alignments. Weight = 0 and weight = 10 are excluded from the data set. A filter on maximum weight value is supported, which defaults to 1 on all tracks except the Mult. SNPs track, which defaults to 3. Submitter handles: These are short, single-word identifiers of labs or consortia that submitted SNPs that were clustered into this reference SNP by dbSNP (e.g., 1000GENOMES, ENSEMBL, KWOK). Some SNPs have been observed by many different submitters, and some by only a single submitter (although that single submitter may have tested a large number of samples). AlleleFrequencies: Some submissions to dbSNP include allele frequencies and the study's sample size (i.e., the number of distinct chromosomes, which is two times the number of individuals assayed, a.k.a. 2N). dbSNP combines all available frequencies and counts from submitted SNPs that are clustered together into a reference SNP. You can configure this track such that the details page displays the function and coding differences relative to particular gene sets. Choose the gene sets from the list on the SNP configuration page displayed beneath this heading: On details page, show function and coding differences relative to. When one or more gene tracks are selected, the SNP details page lists all genes that the SNP hits (or is close to), with the same keywords used in the function category. The function usually agrees with NCBI's function, except when NCBI's functional annotation is relative to an XM_* predicted RefSeq (not included in the UCSC Genome Browser's RefSeq Genes track) and/or UCSC's functional annotation is relative to a transcript that is not in RefSeq. Insertions/Deletions dbSNP uses a class called 'in-del'. We compare the length of the reference allele to the length(s) of observed alleles; if the reference allele is shorter than all other observed alleles, we change 'in-del' to 'insertion'. Likewise, if the reference allele is longer than all other observed alleles, we change 'in-del' to 'deletion'. UCSC Re-alignment of flanking sequences dbSNP determines the genomic locations of SNPs by aligning their flanking sequences to the genome. UCSC displays SNPs in the locations determined by dbSNP, but does not have access to the alignments on which dbSNP based its mappings. Instead, UCSC re-aligns the flanking sequences to the neighboring genomic sequence for display on SNP details pages. While the recomputed alignments may differ from dbSNP's alignments, they often are informative when UCSC has annotated an unusual condition. Non-repetitive genomic sequence is shown in upper case like the flanking sequence, and a "|" indicates each match between genomic and flanking bases. Repetitive genomic sequence (annotated by RepeatMasker and/or the Tandem Repeats Finder with period Data Sources and Methods The data that comprise this track were extracted from database dump files and headers of fasta files downloaded from NCBI. The database dump files were downloaded from ftp://ftp.ncbi.nih.gov/snp/organisms/ organism_tax_id/database/ (for human, organism_tax_id = human_9606; for mouse, organism_tax_id = mouse_10090). The fasta files were downloaded from ftp://ftp.ncbi.nih.gov/snp/organisms/ organism_tax_id/rs_fasta/ Coordinates, orientation, location type and dbSNP reference allele data were obtained from b141_SNPContigLoc.bcp.gz and b141_ContigInfo.bcp.gz. b141_SNPMapInfo.bcp.gz provided the alignment weights. Functional classification was obtained from b141_SNPContigLocusId.bcp.gz. The internal database representation uses dbSNP's function terms, but for display in SNP details pages, these are translated into Sequence Ontology terms. Validation status and heterozygosity were obtained from SNP.bcp.gz. SNPAlleleFreq.bcp.gz and ../shared/Allele.bcp.gz provided allele frequencies. For the human assembly, allele frequencies were also taken from SNPAlleleFreq_TGP.bcp.gz . Submitter handles were extracted from Batch.bcp.gz, SubSNP.bcp.gz and SNPSubSNPLink.bcp.gz. SNP_bitfield.bcp.gz provided miscellaneous properties annotated by dbSNP, such as clinically-associated. See the document dbSNP_BitField_v5.pdf for details. The header lines in the rs_fasta files were used for molecule type, class and observed polymorphism. Data Access The raw data can be explored interactively with the Table Browser, Data Integrator, or Variant Annotation Integrator. For automated analysis, the genome annotation can be downloaded from the downloads server for hg38 and hg19 (snp141*.txt.gz) or the public MySQL server. Please refer to our mailing list archives for questions and example queries, or our Data Access FAQ for more information. Orthologous Alleles (human assemblies only) For the human assembly, we provide a related table that contains orthologous alleles in the chimpanzee, orangutan and rhesus macaque reference genome assemblies. We use our liftOver utility to identify the orthologous alleles. The candidate human SNPs are a filtered list that meet the criteria: class = 'single' mapped position in the human reference genome is one base long aligned to only one location in the human reference genome not aligned to a chrN_random chrom biallelic (not tri- or quad-allelic) In some cases the orthologous allele is unknown; these are set to 'N'. If a lift was not possible, we set the orthologous allele to '?' and the orthologous start and end position to 0 (zero). Masked FASTA Files (human assemblies only) FASTA files that have been modified to use IUPAC ambiguous nucleotide characters at each base covered by a single-base substitution are available for download: GRCh37/hg19, GRCh38/hg38. Note that only single-base substitutions (no insertions or deletions) were used to mask the sequence, and these were filtered to exclude problematic SNPs. References Sherry ST, Ward MH, Kholodov M, Baker J, Phan L, Smigielski EM, Sirotkin K. dbSNP: the NCBI database of genetic variation. Nucleic Acids Res. 2001 Jan 1;29(1):308-11. PMID: 11125122; PMC: PMC29783 
snp141 All SNPs(141) Simple Nucleotide Polymorphisms (dbSNP 141) Variation Description This track contains information about single nucleotide polymorphisms and small insertions and deletions (indels) — collectively Simple Nucleotide Polymorphisms — from dbSNP build 141, available from ftp.ncbi.nih.gov/snp. Three tracks contain subsets of the items in this track: Common SNPs(141): SNPs that have a minor allele frequency of at least 1% and are mapped to a single location in the reference genome assembly. Frequency data are not available for all SNPs, so this subset is incomplete. Flagged SNPs(141): SNPs flagged as clinically associated by dbSNP, mapped to a single location in the reference genome assembly, and not known to have a minor allele frequency of at least 1%. Frequency data are not available for all SNPs, so this subset may include some SNPs whose true minor allele frequency is 1% or greater. Mult. SNPs(141): SNPs that have been mapped to multiple locations in the reference genome assembly. The default maximum weight for this track is 1, so unless the setting is changed in the track controls, SNPs that map to multiple genomic locations will be omitted from display. When a SNP's flanking sequences map to multiple locations in the reference genome, it calls into question whether there is true variation at those sites, or whether the sequences at those sites are merely highly similar but not identical. The remainder of this page is identical on the following tracks: Common SNPs(141) - SNPs with >= 1% minor allele frequency (MAF), mapping only once to reference assembly. Flagged SNPs(141) - SNPs < 1% minor allele frequency (MAF) (or unknown), mapping only once to reference assembly, flagged in dbSnp as "clinically associated" -- not necessarily a risk allele! Mult. SNPs(141) - SNPs mapping in more than one place on reference assembly. All SNPs(141) - all SNPs from dbSNP mapping to reference assembly. Interpreting and Configuring the Graphical Display Variants are shown as single tick marks at most zoom levels. When viewing the track at or near base-level resolution, the displayed width of the SNP corresponds to the width of the variant in the reference sequence. Insertions are indicated by a single tick mark displayed between two nucleotides, single nucleotide polymorphisms are displayed as the width of a single base, and multiple nucleotide variants are represented by a block that spans two or more bases. On the track controls page, SNPs can be colored and/or filtered from the display according to several attributes: Class: Describes the observed alleles Single - single nucleotide variation: all observed alleles are single nucleotides (can have 2, 3 or 4 alleles) In-del - insertion/deletion Heterozygous - heterozygous (undetermined) variation: allele contains string '(heterozygous)' Microsatellite - the observed allele from dbSNP is a variation in counts of short tandem repeats Named - the observed allele from dbSNP is given as a text name instead of raw sequence, e.g., (Alu)/- No Variation - the submission reports an invariant region in the surveyed sequence Mixed - the cluster contains submissions from multiple classes Multiple Nucleotide Polymorphism (MNP) - the alleles are all of the same length, and length > 1 Insertion - the polymorphism is an insertion relative to the reference assembly Deletion - the polymorphism is a deletion relative to the reference assembly Unknown - no classification provided by data contributor Validation: Method used to validate the variant (each variant may be validated by more than one method) By Frequency - at least one submitted SNP in cluster has frequency data submitted By Cluster - cluster has at least 2 submissions, with at least one submission assayed with a non-computational method By Submitter - at least one submitter SNP in cluster was validated by independent assay By 2 Hit/2 Allele - all alleles have been observed in at least 2 chromosomes By HapMap (human only) - submitted by HapMap project By 1000Genomes (human only) - submitted by 1000Genomes project Unknown - no validation has been reported for this variant Function: dbSNP's predicted functional effect of variant on RefSeq transcripts, both curated (NM_* and NR_*) as in the RefSeq Genes track and predicted (XM_* and XR_*), not shown in UCSC Genome Browser. A variant may have more than one functional role if it overlaps multiple transcripts. These terms and definitions are from the Sequence Ontology (SO); click on a term to view it in the MISO Sequence Ontology Browser. Unknown - no functional classification provided (possibly intergenic) synonymous_variant - A sequence variant where there is no resulting change to the encoded amino acid (dbSNP term: coding-synon) intron_variant - A transcript variant occurring within an intron (dbSNP term: intron) downstream_gene_variant - A sequence variant located 3' of a gene (dbSNP term: near-gene-3) upstream_gene_variant - A sequence variant located 5' of a gene (dbSNP term: near-gene-5) nc_transcript_variant - A transcript variant of a non coding RNA gene (dbSNP term: ncRNA) stop_gained - A sequence variant whereby at least one base of a codon is changed, resulting in a premature stop codon, leading to a shortened transcript (dbSNP term: nonsense) missense_variant - A sequence variant, where the change may be longer than 3 bases, and at least one base of a codon is changed resulting in a codon that encodes for a different amino acid (dbSNP term: missense) stop_lost - A sequence variant where at least one base of the terminator codon (stop) is changed, resulting in an elongated transcript (dbSNP term: stop-loss) frameshift_variant - A sequence variant which causes a disruption of the translational reading frame, because the number of nucleotides inserted or deleted is not a multiple of three (dbSNP term: frameshift) inframe_indel - A coding sequence variant where the change does not alter the frame of the transcript (dbSNP term: cds-indel) 3_prime_UTR_variant - A UTR variant of the 3' UTR (dbSNP term: untranslated-3) 5_prime_UTR_variant - A UTR variant of the 5' UTR (dbSNP term: untranslated-5) splice_acceptor_variant - A splice variant that changes the 2 base region at the 3' end of an intron (dbSNP term: splice-3) splice_donor_variant - A splice variant that changes the 2 base region at the 5' end of an intron (dbSNP term: splice-5) In the Coloring Options section of the track controls page, function terms are grouped into several categories, shown here with default colors: Locus: downstream_gene_variant, upstream_gene_variant Coding - Synonymous: synonymous_variant Coding - Non-Synonymous: stop_gained, missense_variant, stop_lost, frameshift_variant, inframe_indel Untranslated: 5_prime_UTR_variant, 3_prime_UTR_variant Intron: intron_variant Splice Site: splice_acceptor_variant, splice_donor_variant Molecule Type: Sample used to find this variant Genomic - variant discovered using a genomic template cDNA - variant discovered using a cDNA template Unknown - sample type not known Unusual Conditions (UCSC): UCSC checks for several anomalies that may indicate a problem with the mapping, and reports them in the Annotations section of the SNP details page if found: AlleleFreqSumNot1 - Allele frequencies do not sum to 1.0 (+-0.01). This SNP's allele frequency data are probably incomplete. DuplicateObserved, MixedObserved - Multiple distinct insertion SNPs have been mapped to this location, with either the same inserted sequence (Duplicate) or different inserted sequence (Mixed). FlankMismatchGenomeEqual, FlankMismatchGenomeLonger, FlankMismatchGenomeShorter - NCBI's alignment of the flanking sequences had at least one mismatch or gap near the mapped SNP position. (UCSC's re-alignment of flanking sequences to the genome may be informative.) MultipleAlignments - This SNP's flanking sequences align to more than one location in the reference assembly. NamedDeletionZeroSpan - A deletion (from the genome) was observed but the annotation spans 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) NamedInsertionNonzeroSpan - An insertion (into the genome) was observed but the annotation spans more than 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) NonIntegerChromCount - At least one allele frequency corresponds to a non-integer (+-0.010000) count of chromosomes on which the allele was observed. The reported total sample count for this SNP is probably incorrect. ObservedContainsIupac - At least one observed allele from dbSNP contains an IUPAC ambiguous base (e.g., R, Y, N). ObservedMismatch - UCSC reference allele does not match any observed allele from dbSNP. This is tested only for SNPs whose class is single, in-del, insertion, deletion, mnp or mixed. ObservedTooLong - Observed allele not given (length too long). ObservedWrongFormat - Observed allele(s) from dbSNP have unexpected format for the given class. RefAlleleMismatch - The reference allele from dbSNP does not match the UCSC reference allele, i.e., the bases in the mapped position range. RefAlleleRevComp - The reference allele from dbSNP matches the reverse complement of the UCSC reference allele. SingleClassLongerSpan - All observed alleles are single-base, but the annotation spans more than 1 base. (UCSC's re-alignment of flanking sequences to the genome may be informative.) SingleClassZeroSpan - All observed alleles are single-base, but the annotation spans 0 bases. (UCSC's re-alignment of flanking sequences to the genome may be informative.) Another condition, which does not necessarily imply any problem, is noted: SingleClassTriAllelic, SingleClassQuadAllelic - Class is single and three or four different bases have been observed (usually there are only two). Miscellaneous Attributes (dbSNP): several properties extracted from dbSNP's SNP_bitfield table (see dbSNP_BitField_v5.pdf for details) Clinically Associated (human only) - SNP is in OMIM and/or at least one submitter is a Locus-Specific Database. This does not necessarily imply that the variant causes any disease, only that it has been observed in clinical studies. Appears in OMIM/OMIA - SNP is mentioned in Online Mendelian Inheritance in Man for human SNPs, or Online Mendelian Inheritance in Animals for non-human animal SNPs. Some of these SNPs are quite common, others are known to cause disease; see OMIM/OMIA for more information. Has Microattribution/Third-Party Annotation - At least one of the SNP's submitters studied this SNP in a biomedical setting, but is not a Locus-Specific Database or OMIM/OMIA. Submitted by Locus-Specific Database - At least one of the SNP's submitters is associated with a database of variants associated with a particular gene. These variants may or may not be known to be causative. MAF >= 5% in Some Population - Minor Allele Frequency is at least 5% in at least one population assayed. MAF >= 5% in All Populations - Minor Allele Frequency is at least 5% in all populations assayed. Genotype Conflict - Quality check: different genotypes have been submitted for the same individual. Ref SNP Cluster has Non-overlapping Alleles - Quality check: this reference SNP was clustered from submitted SNPs with non-overlapping sets of observed alleles. Some Assembly's Allele Does Not Match Observed - Quality check: at least one assembly mapped by dbSNP has an allele at the mapped position that is not present in this SNP's observed alleles. Several other properties do not have coloring options, but do have some filtering options: Average heterozygosity: Calculated by dbSNP as described in Computation of Average Heterozygosity and Standard Error for dbSNP RefSNP Clusters. Average heterozygosity should not exceed 0.5 for bi-allelic single-base substitutions. Weight: Alignment quality assigned by dbSNP Weight can be 0, 1, 2, 3 or 10. Weight = 1 are the highest quality alignments. Weight = 0 and weight = 10 are excluded from the data set. A filter on maximum weight value is supported, which defaults to 1 on all tracks except the Mult. SNPs track, which defaults to 3. Submitter handles: These are short, single-word identifiers of labs or consortia that submitted SNPs that were clustered into this reference SNP by dbSNP (e.g., 1000GENOMES, ENSEMBL, KWOK). Some SNPs have been observed by many different submitters, and some by only a single submitter (although that single submitter may have tested a large number of samples). AlleleFrequencies: Some submissions to dbSNP include allele frequencies and the study's sample size (i.e., the number of distinct chromosomes, which is two times the number of individuals assayed, a.k.a. 2N). dbSNP combines all available frequencies and counts from submitted SNPs that are clustered together into a reference SNP. You can configure this track such that the details page displays the function and coding differences relative to particular gene sets. Choose the gene sets from the list on the SNP configuration page displayed beneath this heading: On details page, show function and coding differences relative to. When one or more gene tracks are selected, the SNP details page lists all genes that the SNP hits (or is close to), with the same keywords used in the function category. The function usually agrees with NCBI's function, except when NCBI's functional annotation is relative to an XM_* predicted RefSeq (not included in the UCSC Genome Browser's RefSeq Genes track) and/or UCSC's functional annotation is relative to a transcript that is not in RefSeq. Insertions/Deletions dbSNP uses a class called 'in-del'. We compare the length of the reference allele to the length(s) of observed alleles; if the reference allele is shorter than all other observed alleles, we change 'in-del' to 'insertion'. Likewise, if the reference allele is longer than all other observed alleles, we change 'in-del' to 'deletion'. UCSC Re-alignment of flanking sequences dbSNP determines the genomic locations of SNPs by aligning their flanking sequences to the genome. UCSC displays SNPs in the locations determined by dbSNP, but does not have access to the alignments on which dbSNP based its mappings. Instead, UCSC re-aligns the flanking sequences to the neighboring genomic sequence for display on SNP details pages. While the recomputed alignments may differ from dbSNP's alignments, they often are informative when UCSC has annotated an unusual condition. Non-repetitive genomic sequence is shown in upper case like the flanking sequence, and a "|" indicates each match between genomic and flanking bases. Repetitive genomic sequence (annotated by RepeatMasker and/or the Tandem Repeats Finder with period Data Sources and Methods The data that comprise this track were extracted from database dump files and headers of fasta files downloaded from NCBI. The database dump files were downloaded from ftp://ftp.ncbi.nih.gov/snp/organisms/ organism_tax_id/database/ (for human, organism_tax_id = human_9606; for mouse, organism_tax_id = mouse_10090). The fasta files were downloaded from ftp://ftp.ncbi.nih.gov/snp/organisms/ organism_tax_id/rs_fasta/ Coordinates, orientation, location type and dbSNP reference allele data were obtained from b141_SNPContigLoc.bcp.gz and b141_ContigInfo.bcp.gz. b141_SNPMapInfo.bcp.gz provided the alignment weights. Functional classification was obtained from b141_SNPContigLocusId.bcp.gz. The internal database representation uses dbSNP's function terms, but for display in SNP details pages, these are translated into Sequence Ontology terms. Validation status and heterozygosity were obtained from SNP.bcp.gz. SNPAlleleFreq.bcp.gz and ../shared/Allele.bcp.gz provided allele frequencies. For the human assembly, allele frequencies were also taken from SNPAlleleFreq_TGP.bcp.gz . Submitter handles were extracted from Batch.bcp.gz, SubSNP.bcp.gz and SNPSubSNPLink.bcp.gz. SNP_bitfield.bcp.gz provided miscellaneous properties annotated by dbSNP, such as clinically-associated. See the document dbSNP_BitField_v5.pdf for details. The header lines in the rs_fasta files were used for molecule type, class and observed polymorphism. Data Access The raw data can be explored interactively with the Table Browser, Data Integrator, or Variant Annotation Integrator. For automated analysis, the genome annotation can be downloaded from the downloads server for hg38 and hg19 (snp141*.txt.gz) or the public MySQL server. Please refer to our mailing list archives for questions and example queries, or our Data Access FAQ for more information. Orthologous Alleles (human assemblies only) For the human assembly, we provide a related table that contains orthologous alleles in the chimpanzee, orangutan and rhesus macaque reference genome assemblies. We use our liftOver utility to identify the orthologous alleles. The candidate human SNPs are a filtered list that meet the criteria: class = 'single' mapped position in the human reference genome is one base long aligned to only one location in the human reference genome not aligned to a chrN_random chrom biallelic (not tri- or quad-allelic) In some cases the orthologous allele is unknown; these are set to 'N'. If a lift was not possible, we set the orthologous allele to '?' and the orthologous start and end position to 0 (zero). Masked FASTA Files (human assemblies only) FASTA files that have been modified to use IUPAC ambiguous nucleotide characters at each base covered by a single-base substitution are available for download: GRCh37/hg19, GRCh38/hg38. Note that only single-base substitutions (no insertions or deletions) were used to mask the sequence, and these were filtered to exclude problematic SNPs. References Sherry ST, Ward MH, Kholodov M, Baker J, Phan L, Smigielski EM, Sirotkin K. dbSNP: the NCBI database of genetic variation. Nucleic Acids Res. 2001 Jan 1;29(1):308-11. PMID: 11125122; PMC: PMC29783 
cpgIslandExt CpG Islands CpG Islands (Islands < 300 Bases are Light Green) Regulation Description CpG islands are associated with genes, particularly housekeeping genes, in vertebrates. CpG islands are typically common near transcription start sites and may be associated with promoter regions. Normally a C (cytosine) base followed immediately by a G (guanine) base (a CpG) is rare in vertebrate DNA because the Cs in such an arrangement tend to be methylated. This methylation helps distinguish the newly synthesized DNA strand from the parent strand, which aids in the final stages of DNA proofreading after duplication. However, over evolutionary time, methylated Cs tend to turn into Ts because of spontaneous deamination. The result is that CpGs are relatively rare unless there is selective pressure to keep them or a region is not methylated for some other reason, perhaps having to do with the regulation of gene expression. CpG islands are regions where CpGs are present at significantly higher levels than is typical for the genome as a whole. The unmasked version of the track displays potential CpG islands that exist in repeat regions and would otherwise not be visible in the repeat masked version. By default, only the masked version of the track is displayed. To view the unmasked version, change the visibility settings in the track controls at the top of this page. Methods CpG islands were predicted by searching the sequence one base at a time, scoring each dinucleotide (+17 for CG and -1 for others) and identifying maximally scoring segments. Each segment was then evaluated for the following criteria: GC content of 50% or greater length greater than 200 bp ratio greater than 0.6 of observed number of CG dinucleotides to the expected number on the basis of the number of Gs and Cs in the segment The entire genome sequence, masking areas included, was used for the construction of the track Unmasked CpG. The track CpG Islands is constructed on the sequence after all masked sequence is removed. The CpG count is the number of CG dinucleotides in the island. The Percentage CpG is the ratio of CpG nucleotide bases (twice the CpG count) to the length. The ratio of observed to expected CpG is calculated according to the formula (cited in Gardiner-Garden et al. (1987)): Obs/Exp CpG = Number of CpG * N / (Number of C * Number of G) where N = length of sequence. The calculation of the track data is performed by the following command sequence: twoBitToFa assembly.2bit stdout | maskOutFa stdin hard stdout \ | cpg_lh /dev/stdin 2&gt; cpg_lh.err \ | awk '{&dollar;2 = &dollar;2 - 1; width = &dollar;3 - &dollar;2; printf("%s\t%d\t%s\t%s %s\t%s\t%s\t%0.0f\t%0.1f\t%s\t%s\n", &dollar;1, &dollar;2, &dollar;3, &dollar;5, &dollar;6, width, &dollar;6, width*&dollar;7*0.01, 100.0*2*&dollar;6/width, &dollar;7, &dollar;9);}' \ | sort -k1,1 -k2,2n &gt; cpgIsland.bed The unmasked track data is constructed from twoBitToFa -noMask output for the twoBitToFa command. Data access CpG islands and its associated tables can be explored interactively using the REST API, the Table Browser or the Data Integrator. All the tables can also be queried directly from our public MySQL servers, with more information available on our help page as well as on our blog. The source for the cpg_lh program can be obtained from src/utils/cpgIslandExt/. The cpg_lh program binary can be obtained from: http://hgdownload.soe.ucsc.edu/admin/exe/linux.x86_64/cpg_lh (choose "save file") Credits This track was generated using a modification of a program developed by G. Micklem and L. Hillier (unpublished). References Gardiner-Garden M, Frommer M. CpG islands in vertebrate genomes. J Mol Biol. 1987 Jul 20;196(2):261-82. PMID: 3656447 
cpgIslandSuper CpG Islands CpG Islands (Islands < 300 Bases are Light Green) Regulation Description CpG islands are associated with genes, particularly housekeeping genes, in vertebrates. CpG islands are typically common near transcription start sites and may be associated with promoter regions. Normally a C (cytosine) base followed immediately by a G (guanine) base (a CpG) is rare in vertebrate DNA because the Cs in such an arrangement tend to be methylated. This methylation helps distinguish the newly synthesized DNA strand from the parent strand, which aids in the final stages of DNA proofreading after duplication. However, over evolutionary time, methylated Cs tend to turn into Ts because of spontaneous deamination. The result is that CpGs are relatively rare unless there is selective pressure to keep them or a region is not methylated for some other reason, perhaps having to do with the regulation of gene expression. CpG islands are regions where CpGs are present at significantly higher levels than is typical for the genome as a whole. The unmasked version of the track displays potential CpG islands that exist in repeat regions and would otherwise not be visible in the repeat masked version. By default, only the masked version of the track is displayed. To view the unmasked version, change the visibility settings in the track controls at the top of this page. Methods CpG islands were predicted by searching the sequence one base at a time, scoring each dinucleotide (+17 for CG and -1 for others) and identifying maximally scoring segments. Each segment was then evaluated for the following criteria: GC content of 50% or greater length greater than 200 bp ratio greater than 0.6 of observed number of CG dinucleotides to the expected number on the basis of the number of Gs and Cs in the segment The entire genome sequence, masking areas included, was used for the construction of the track Unmasked CpG. The track CpG Islands is constructed on the sequence after all masked sequence is removed. The CpG count is the number of CG dinucleotides in the island. The Percentage CpG is the ratio of CpG nucleotide bases (twice the CpG count) to the length. The ratio of observed to expected CpG is calculated according to the formula (cited in Gardiner-Garden et al. (1987)): Obs/Exp CpG = Number of CpG * N / (Number of C * Number of G) where N = length of sequence. The calculation of the track data is performed by the following command sequence: twoBitToFa assembly.2bit stdout | maskOutFa stdin hard stdout \ | cpg_lh /dev/stdin 2&gt; cpg_lh.err \ | awk '{&dollar;2 = &dollar;2 - 1; width = &dollar;3 - &dollar;2; printf("%s\t%d\t%s\t%s %s\t%s\t%s\t%0.0f\t%0.1f\t%s\t%s\n", &dollar;1, &dollar;2, &dollar;3, &dollar;5, &dollar;6, width, &dollar;6, width*&dollar;7*0.01, 100.0*2*&dollar;6/width, &dollar;7, &dollar;9);}' \ | sort -k1,1 -k2,2n &gt; cpgIsland.bed The unmasked track data is constructed from twoBitToFa -noMask output for the twoBitToFa command. Data access CpG islands and its associated tables can be explored interactively using the REST API, the Table Browser or the Data Integrator. All the tables can also be queried directly from our public MySQL servers, with more information available on our help page as well as on our blog. The source for the cpg_lh program can be obtained from src/utils/cpgIslandExt/. The cpg_lh program binary can be obtained from: http://hgdownload.soe.ucsc.edu/admin/exe/linux.x86_64/cpg_lh (choose "save file") Credits This track was generated using a modification of a program developed by G. Micklem and L. Hillier (unpublished). References Gardiner-Garden M, Frommer M. CpG islands in vertebrate genomes. J Mol Biol. 1987 Jul 20;196(2):261-82. PMID: 3656447 
crossTissueMapsTissueCellType Cross Tissue Nuclei Cross tissue nuclei RNA by tissue and cell type Single Cell RNA-seq Description This track collection shows data from Single-nucleus cross-tissue molecular reference maps toward understanding disease gene function. The dataset covers ~200,000 single nuclei from a total of 16 human donors across 25 samples, using 4 different sample preparation protocols followed by droplet based single-cell RNA-seq. The samples were obtained from frozen tissue as part of the Genotype-Tissue Expression (GTEx) project. Samples were taken from the esophagus, skeletal muscle, heart, lung, prostate, breast, and skin. The dataset includes 43 broad cell classes, some specific to certain tissues and some shared across all tissue types. The read count is calculated by taking, for this cell type and gene location, the total number of transcript reads divided by the number of cells, and is therefore an average or mean value. This track collection contains three bar chart tracks of RNA expression. The first track, Cross Tissue Nuclei, allows cells to be grouped together and faceted on up to 4 categories: tissue, cell class, cell subclass, and cell type. The second track, Cross Tissue Details, allows cells to be grouped together and faceted on up to 7 categories: tissue, cell class, cell subclass, cell type, granular cell type, sex, and donor. The third track, GTEx Immune Atlas, allows cells to be grouped together and faceted on up to 5 categories: tissue, cell type, cell class, sex, and donor. Please see the GTEx portal for further interactive displays and additional data. Display Conventions and Configuration Tissue-cell type combinations in the Full and Combined tracks are colored by which cell type they belong to in the below table: Color Cell Type Endothelial Epithelial Glia Immune Neuron Stromal Other Tissue-cell type combinations in the Immune Atlas track are shaded according to the below table: Color Cell Type Inflammatory Macrophage Lung Macrophage Monocyte/Macrophage FCGR3A High Monocyte/Macrophage FCGR3A Low Macrophage HLAII High Macrophage LYVE1 High Proliferating Macrophage Dendritic Cell 1 Dendritic Cell 2 Mature Dendritic Cell Langerhans CD14+ Monocyte CD16+ Monocyte LAM-like Other Methods Using the previously collected tissue samples from the Genotype-Tissue Expression project, nuclei were isolated using four different protocols and sequenced using droplet based single cell RNA-seq. CellBender v2.1 and other standard quality control techniques were applied, resulting in 209,126 nuclei profiles across eight tissues, with a mean of 918 genes and 1519 transcripts per profile. Data from all samples was integrated with a conditional variation autoencoder in order to correct for multiple sources of variation like sex, and protocol while preserving tissue and cell type specific effects. For detailed methods, please refer to Eraslan et al, or the GTEx portal website. UCSC Methods The gene expression files were downloaded from the GTEx portal. The UCSC command line utilities matrixClusterColumns, matrixToBarChartBed, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions or our Data Access FAQ for more information. The expScores field for this track contains a comma-separated list of values for each cell type, and the expCount field is the size of the expScores array, which is the total number of cell types. The value in the expScores field corresponds to the read count for that cell type, and the order of the cell types is defined by the barChartBars line in the trackDb file for this track. Credits Thanks to the GTEx Consortium for creating and analyzing these data. References Eraslan G, Drokhlyansky E, Anand S, Fiskin E, Subramanian A, Slyper M, Wang J, Van Wittenberghe N, Rouhana JM, Waldman J et al. Single-nucleus cross-tissue molecular reference maps toward understanding disease gene function. Science. 2022 May 13;376(6594):eabl4290. PMID: 35549429; PMC: PMC9383269 
crossTissueMaps Cross Tissue Nuclei Single Nuclei sequenced across many tissues Single Cell RNA-seq Description This track collection shows data from Single-nucleus cross-tissue molecular reference maps toward understanding disease gene function. The dataset covers ~200,000 single nuclei from a total of 16 human donors across 25 samples, using 4 different sample preparation protocols followed by droplet based single-cell RNA-seq. The samples were obtained from frozen tissue as part of the Genotype-Tissue Expression (GTEx) project. Samples were taken from the esophagus, skeletal muscle, heart, lung, prostate, breast, and skin. The dataset includes 43 broad cell classes, some specific to certain tissues and some shared across all tissue types. The read count is calculated by taking, for this cell type and gene location, the total number of transcript reads divided by the number of cells, and is therefore an average or mean value. This track collection contains three bar chart tracks of RNA expression. The first track, Cross Tissue Nuclei, allows cells to be grouped together and faceted on up to 4 categories: tissue, cell class, cell subclass, and cell type. The second track, Cross Tissue Details, allows cells to be grouped together and faceted on up to 7 categories: tissue, cell class, cell subclass, cell type, granular cell type, sex, and donor. The third track, GTEx Immune Atlas, allows cells to be grouped together and faceted on up to 5 categories: tissue, cell type, cell class, sex, and donor. Please see the GTEx portal for further interactive displays and additional data. Display Conventions and Configuration Tissue-cell type combinations in the Full and Combined tracks are colored by which cell type they belong to in the below table: Color Cell Type Endothelial Epithelial Glia Immune Neuron Stromal Other Tissue-cell type combinations in the Immune Atlas track are shaded according to the below table: Color Cell Type Inflammatory Macrophage Lung Macrophage Monocyte/Macrophage FCGR3A High Monocyte/Macrophage FCGR3A Low Macrophage HLAII High Macrophage LYVE1 High Proliferating Macrophage Dendritic Cell 1 Dendritic Cell 2 Mature Dendritic Cell Langerhans CD14+ Monocyte CD16+ Monocyte LAM-like Other Methods Using the previously collected tissue samples from the Genotype-Tissue Expression project, nuclei were isolated using four different protocols and sequenced using droplet based single cell RNA-seq. CellBender v2.1 and other standard quality control techniques were applied, resulting in 209,126 nuclei profiles across eight tissues, with a mean of 918 genes and 1519 transcripts per profile. Data from all samples was integrated with a conditional variation autoencoder in order to correct for multiple sources of variation like sex, and protocol while preserving tissue and cell type specific effects. For detailed methods, please refer to Eraslan et al, or the GTEx portal website. UCSC Methods The gene expression files were downloaded from the GTEx portal. The UCSC command line utilities matrixClusterColumns, matrixToBarChartBed, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions or our Data Access FAQ for more information. The expScores field for this track contains a comma-separated list of values for each cell type, and the expCount field is the size of the expScores array, which is the total number of cell types. The value in the expScores field corresponds to the read count for that cell type, and the order of the cell types is defined by the barChartBars line in the trackDb file for this track. Credits Thanks to the GTEx Consortium for creating and analyzing these data. References Eraslan G, Drokhlyansky E, Anand S, Fiskin E, Subramanian A, Slyper M, Wang J, Van Wittenberghe N, Rouhana JM, Waldman J et al. Single-nucleus cross-tissue molecular reference maps toward understanding disease gene function. Science. 2022 May 13;376(6594):eabl4290. PMID: 35549429; PMC: PMC9383269 
decipher DECIPHER CNVs DECIPHER CNVs Phenotypes, Variants, and Literature Description NOTE: While the DECIPHER database is open to the public, users seeking information about a personal medical or genetic condition are urged to consult with a qualified physician for diagnosis and for answers to personal questions. Because the UCSC Genes mappings for CNVs are based on associations from RefSeq and UniProt, they are dependent on any interpretations from those sources. Furthermore, because many DECIPHER records refer to multiple gene names, or syndromes not tightly mapped to individual genes, the associations in this track should be treated with skepticism and any conclusions based on them should be carefully scrutinized using independent resources. Data Display Agreement Notice The CNV/SNV data are only available for display in the Browser, and not for bulk download. Access to bulk data may be obtained directly from DECIPHER (https://www.deciphergenomics.org/about/data-sharing) and is subject to a Data Access Agreement, in which the user certifies that no attempt to identify individual patients will be undertaken. The same restrictions apply to the public data displayed at UCSC in the UCSC Genome Browser; no one is authorized to attempt to identify patients by any means. These data are made available as soon as possible and may be a pre-publication release. For information on the proper use of DECIPHER data, please see https://www.deciphergenomics.org/about/data-sharing. The DECIPHER consortium provides these data in good faith as a research tool, but without verifying the accuracy, clinical validity, or utility of the data. The DECIPHER consortium makes no warranty, express or implied, nor assumes any legal liability or responsibility for any purpose for which the data are used. The DECIPHER database of submicroscopic chromosomal imbalance collects clinical information about chromosomal microdeletions/duplications/insertions, translocations and inversions, and displays this information on the human genome map. The CNVs and SNVs tracks show genomic regions of reported cases and their associated phenotype information. All data have passed the strict consent requirements of the DECIPHER project and are approved for unrestricted public release. Clicking the Patient View ID link brings up a more detailed informational page on the patient at the DECIPHER web site. The Population CNVs track shows common copy-number variants (CNVs) and their population frequencies, lifted over from the hg19 assembly. Display Conventions and Configuration The genomic locations of DECIPHER variants are labeled with the DECIPHER variant descriptions. Mouseover on items shows variant details, clinical interpretation, and associated conditions. Further information on each variant is displayed on the details page by a click onto any variant. For the CNVs track, the entries are colored by the type of variant: red for loss blue for gain grey for amplification A light-to-dark color gradient indicates the clinical significance of each variant, with the lightest shade being benign, to the darkest shade being pathogenic. Detailed information on the CNV color code is described here. Items can be filtered according to the size of the variant, variant type, and clinical significance using the track Configure options. For the SNVs track, the entries are colored according to the estimated clinical significance of the variant: black for likely or definitely pathogenic dark grey for uncertain or unknown light grey for likely or definitely benign For the Population CNVs track, genomic variants are visually differentiated to facilitate quick and clear identification. Variants are colored according to their clinical significance and type: Red - exclusively deletion site. (deletions) Blue - exclusively duplication site. (duplication) Grey - deletions and duplications site. (del/dup) The Population CNVs track's mouseover tooltip provides the following information about the data: Position: Specifies the chromosomal range of the CNV. Type of CNV: Indicates if the variation is a loss, gain, or deletions/duplications(del/dup). Frequency of CNV: Reflects how often the CNV occurs in the sampled population. Number of Observations: The count of times this CNV was observed in the dataset. Sample Size of Study: The total number of samples examined. Method Data provided by the DECIPHER project group are imported and processed to create a simple BED track to annotate the genomic regions associated with individual patients. Contact For more information on DECIPHER, please contact &#99;&#111;n&#116;&#97;c&#116;&#64;&#100;&#101;&#99;&#105;p&#104;&#101;&#114;&#103;&#101;&#110;&#111;&#109;&#105;c&#115;. &#111;&#114;g Data Access The DECIPHER data access and documentation can be found at DECIPHER Downloads. References Firth HV, Richards SM, Bevan AP, Clayton S, Corpas M, Rajan D, Van Vooren S, Moreau Y, Pettett RM, Carter NP. DECIPHER: Database of Chromosomal Imbalance and Phenotype in Humans Using Ensembl Resources. Am J Hum Genet. 2009 Apr;84(4):524-33. PMID: 19344873; PMC: PMC2667985 
decipherContainer DECIPHER DECIPHER Phenotypes, Variants, and Literature Description NOTE: While the DECIPHER database is open to the public, users seeking information about a personal medical or genetic condition are urged to consult with a qualified physician for diagnosis and for answers to personal questions. Because the UCSC Genes mappings for CNVs are based on associations from RefSeq and UniProt, they are dependent on any interpretations from those sources. Furthermore, because many DECIPHER records refer to multiple gene names, or syndromes not tightly mapped to individual genes, the associations in this track should be treated with skepticism and any conclusions based on them should be carefully scrutinized using independent resources. Data Display Agreement Notice The CNV/SNV data are only available for display in the Browser, and not for bulk download. Access to bulk data may be obtained directly from DECIPHER (https://www.deciphergenomics.org/about/data-sharing) and is subject to a Data Access Agreement, in which the user certifies that no attempt to identify individual patients will be undertaken. The same restrictions apply to the public data displayed at UCSC in the UCSC Genome Browser; no one is authorized to attempt to identify patients by any means. These data are made available as soon as possible and may be a pre-publication release. For information on the proper use of DECIPHER data, please see https://www.deciphergenomics.org/about/data-sharing. The DECIPHER consortium provides these data in good faith as a research tool, but without verifying the accuracy, clinical validity, or utility of the data. The DECIPHER consortium makes no warranty, express or implied, nor assumes any legal liability or responsibility for any purpose for which the data are used. The DECIPHER database of submicroscopic chromosomal imbalance collects clinical information about chromosomal microdeletions/duplications/insertions, translocations and inversions, and displays this information on the human genome map. The CNVs and SNVs tracks show genomic regions of reported cases and their associated phenotype information. All data have passed the strict consent requirements of the DECIPHER project and are approved for unrestricted public release. Clicking the Patient View ID link brings up a more detailed informational page on the patient at the DECIPHER web site. The Population CNVs track shows common copy-number variants (CNVs) and their population frequencies, lifted over from the hg19 assembly. Display Conventions and Configuration The genomic locations of DECIPHER variants are labeled with the DECIPHER variant descriptions. Mouseover on items shows variant details, clinical interpretation, and associated conditions. Further information on each variant is displayed on the details page by a click onto any variant. For the CNVs track, the entries are colored by the type of variant: red for loss blue for gain grey for amplification A light-to-dark color gradient indicates the clinical significance of each variant, with the lightest shade being benign, to the darkest shade being pathogenic. Detailed information on the CNV color code is described here. Items can be filtered according to the size of the variant, variant type, and clinical significance using the track Configure options. For the SNVs track, the entries are colored according to the estimated clinical significance of the variant: black for likely or definitely pathogenic dark grey for uncertain or unknown light grey for likely or definitely benign For the Population CNVs track, genomic variants are visually differentiated to facilitate quick and clear identification. Variants are colored according to their clinical significance and type: Red - exclusively deletion site. (deletions) Blue - exclusively duplication site. (duplication) Grey - deletions and duplications site. (del/dup) The Population CNVs track's mouseover tooltip provides the following information about the data: Position: Specifies the chromosomal range of the CNV. Type of CNV: Indicates if the variation is a loss, gain, or deletions/duplications(del/dup). Frequency of CNV: Reflects how often the CNV occurs in the sampled population. Number of Observations: The count of times this CNV was observed in the dataset. Sample Size of Study: The total number of samples examined. Method Data provided by the DECIPHER project group are imported and processed to create a simple BED track to annotate the genomic regions associated with individual patients. Contact For more information on DECIPHER, please contact &#99;&#111;n&#116;&#97;c&#116;&#64;&#100;&#101;&#99;&#105;p&#104;&#101;&#114;&#103;&#101;&#110;&#111;&#109;&#105;c&#115;. &#111;&#114;g Data Access The DECIPHER data access and documentation can be found at DECIPHER Downloads. References Firth HV, Richards SM, Bevan AP, Clayton S, Corpas M, Rajan D, Van Vooren S, Moreau Y, Pettett RM, Carter NP. DECIPHER: Database of Chromosomal Imbalance and Phenotype in Humans Using Ensembl Resources. Am J Hum Genet. 2009 Apr;84(4):524-33. PMID: 19344873; PMC: PMC2667985 
cCREregistry ENCODE4 cCREs ENCODE4 Registry of candidate Cis-Regulatory Elements (cCREs) Regulation Description This track displays the ENCODE Registry of candidate cis-Regulatory Elements (cCREs) in the human genome from ENCODE 4. A total of 2,348,854 elements identified and classified by the ENCODE Data Analysis Center according to biochemical signatures. Most cCREs are anchored on DNase hypersensitive sites further annotated with histone modifications (H3K4me3 and H3K27ac) or CTCF binding measured by ChIP-seq experiments. In this latest version of the Registry (V4), the representative DNase hypersensitive sites (rDHSs) were supplemented with 86,748 representative transcription factor ChIP-seq peaks (TF rPeaks)—peaks that represent binding sites for at least five TFs. The Registry of cCREs is one of the core components of the integrative level of the ENCODE Encyclopedia of DNA Elements. Additional exploration of the cCREs and underlying raw ENCODE signal data can be done with the Core Collection track. The data is also available on the SCREEN (Search Candidate cis-Regulatory Elements) web tool, designed specifically for the Registry, accessible by item mouseovers and linkouts from the track details page. Display Conventions and Configurations Each cCRE is displayed as a colored box by type, which reflects its putative functional assignment based on biochemical signatures and genomic context: Mousing over the data will display the accession ID, the assigned cCRE class type, and the Max-Z scores for the various underlying biosignals (DNase, H3K4me3, H3K27ac, CTCF). A track filter is also available to selectively show items based on their cCRE class type. Methods Candidate cis-regulatory elements (cCREs) were first anchored on nucleosome-sized DNase hypersensitive sites (rDHSs) identified from DNase-seq data. These rDHSs were then annotated using ChIP-seq data for histone modifications—H3K4me3 and H3K27ac, marking promoters and enhancers, respectively—and CTCF, marking insulators. To supplement rDHS-anchored cCRE definitions, transcription factor ChIP-seq peaks were incorporated, enabling identification of cCREs even in regions of low chromatin accessibility. Although not used for anchoring, ATAC-seq data were used to assess chromatin accessibility in biosamples lacking DNase-seq. Classification of cCRE's was performed based on the following criteria: Promoter-like signatures (promoter) must fall within 200 bp of a TSS and have high chromatin accessibility and H3K4me3 signals. TSS-proximal enhancer-like signatures (proximal enhancer) have high chromatin accessibility and H3K27ac signals and are within 2 kb of an annotated TSS. If they are within 200 bp of a TSS, they must also have low H3K4me3 signal. TSS-distal enhancer-like signatures (distal enhancer) have high chromatin accessibility and H3K27ac signals and are farther than 2 kb from an annotated TSS. Chromatin accessibility + H3K4me3 (CA-H3K4me3) have high chromatin accessibility and H3K4me3 signals but low H3K27ac signals and do not fall within 200 bp of a TSS. Chromatin accessibility + CTCF (CA-CTCF)have high chromatin accessibility and CTCF signals but low H3K4me3 and H3K27ac signals. Chromatin accessibility + transcription factor (CA-TF) have high chromatin accessibility, low H3K4me3, H3K27ac, and CTCF signals, and are bound by a transcription factor. Chromatin accessibility (CA)have high chromatin accessibility and low H3K4me3, H3K27ac, and CTCF signals. Transcription factor (TF) have low chromatin accessibility, low H3K4me3, H3K27ac, and CTCF signals and are bound by a transcription factor. Data Access The ENCODE accession numbers of the constituent datasets at the ENCODE Portal are available from the cCRE details page. The data in this track can be interactively explored with the Table Browser or the Data Integrator. The data can be accessed from scripts through our a API, the track name is "cCREregistry". For automated download and analysis, this annotation is stored in a bigBed file that can be downloaded from our download server. The file for this track is called cCREregistry.bb. Individual regions or the whole genome annotation can be obtained using our tool bigBedToBed which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tool can also be used to obtain only features within a given range, e.g. bigBedToBed http://hgdownload.soe.ucsc.edu/gbdb/hg38/encode4/ccre/cCREregistry.bb -chrom=chr21 -start=0 -end=100000000 stdout Credits Data were generated by the ENCODE Consortium. The data were further processed for visualization through a collaborative effort between the Weng lab and the Moore lab at UMass Chan Medical School (funded by NIH grant HG012343). Integration and visualization were developed by Drs. Mingshi Gao, Jill Moore, and Zhiping Weng at UMass Chan Medical School, who were part of the ENCODE Data Analysis Center. We thank the ENCODE production labs for generating the data. References ENCODE Project Consortium, Moore JE, Purcaro MJ, Pratt HE, Epstein CB, Shoresh N, Adrian J, Kawli T, Davis CA, Dobin A et al. Expanded encyclopaedias of DNA elements in the human and mouse genomes. Nature. 2020 Jul;583(7818):699-710. PMID: 32728249; PMC: PMC7410828 Moore JE, Pratt HE, Fan K, Phalke N, Fisher J, Elhajjajy SI, Andrews G, Gao M, Shedd N, Fu Y et al. An Expanded Registry of Candidate cis-Regulatory Elements for Studying Transcriptional Regulation. Nature. 2026 January 7. PMID: 39763870; PMC: PMC11703161 
cCREs ENCODE cCREs ENCODE Registry of cCREs (candidate Cis-Regulatory Elements) Regulation Description This track collection displays candidate Cis-Regulatory Elements (cCREs) generated by the ENCODE Consortium during Phase 4 (ENCODE4) and Phase 3 (ENCODE3), with the ENCODE3 track retained for archival purposes. The tracks include both integrated (biosample-agnostic) and biosample-specific annotations derived from core epigenomic assays. ENCODE4 cCREs: This track presents the ENCODE Registry of 2,348,854 cCREs identified and classified using data from all phases of the ENCODE Project (Phases 1–4). The registry integrates chromatin accessibility and ChIP-seq signals across thousands of biosamples. All cCREs are consolidated into a single, cell type-agnostic annotation track displayed here. ENCODE4 Core Collection: This track displays biosample-specific cCREs alongside genome-wide epigenomic signals for the ENCODE4 Core Collection, consisting of 170 biosamples comprehensively profiled using four core assays: DNase-seq, ChIP-seq for H3K4me3 and H3K27ac (histone modifications), and ChIP-seq for CTCF. These data support detailed analysis of regulatory activity in individual biosamples. ENCODE3 cCREs: This track provides the version of the cCRE Registry generated at the end of ENCODE3, using data available up to that phase. The methodology was refined and the dataset greatly expanded during ENCODE4. For instance, the Core Collection would have included only 25 biosamples under ENCODE3 criteria. While ENCODE3 tracks are preserved for reproducibility, ENCODE4 tracks are recommended for all current analyses, as they also incorporate ENCODE3 data. Display conventions, data access, and credits For information on track configuration, data description, data access, methods, and data provenance, see the individual track description pages via their links above References ENCODE Project Consortium, Moore JE, Purcaro MJ, Pratt HE, Epstein CB, Shoresh N, Adrian J, Kawli T, Davis CA, Dobin A et al. Expanded encyclopaedias of DNA elements in the human and mouse genomes. Nature. 2020 Jul;583(7818):699-710. PMID: 32728249; PMC: PMC7410828 Moore JE, Pratt HE, Fan K, Phalke N, Fisher J, Elhajjajy SI, Andrews G, Gao M, Shedd N, Fu Y et al. An Expanded Registry of Candidate cis-Regulatory Elements for Studying Transcriptional Regulation. Nature. 2026 January 7. PMID: 39763870; PMC: PMC11703161 
knownGene GENCODE V49 GENCODE V49 Genes and Gene Predictions Description The GENCODE Genes track (version 49, September 2025) shows high-quality manual annotations merged with evidence-based automated annotations across the entire human genome generated by the GENCODE project. By default, only the basic gene set is displayed, which is a subset of the comprehensive gene set. The basic set represents transcripts that GENCODE believes will be useful to the majority of users. The track includes protein-coding genes, non-coding RNA genes, and pseudo-genes, though pseudo-genes are not displayed by default. It contains annotations on the reference chromosomes as well as assembly patches and alternative loci (haplotypes). The v49 release was derived from the GTF file that contains annotations only on the main chromosomes. Statistics for this build and information on how they were generated can be found on the GENCODE site. For more information on the different gene tracks, see our Genes FAQ. Display Conventions and Configuration By default, this track displays only the basic GENCODE set, splice variants, and non-coding genes. It includes options to display the entire GENCODE set and pseudogenes. To customize these options, the respective boxes can be checked or unchecked at the top of this description page. This track also includes a variety of labels which identify the transcripts when visibility is set to &quot;full&quot; or &quot;pack&quot;. Gene symbols (e.g. NIPA1) are displayed by default, but additional options include GENCODE Transcript ID (ENST00000561183.5), UCSC Known Gene ID (uc001yve.4), UniProt Display ID (Q7RTP0). Additional information about gene and transcript names can be found in our FAQ. This track, in general, follows the display conventions for gene prediction tracks. The exons for putative non-coding genes and untranslated regions are represented by relatively thin blocks, while those for coding open reading frames are thicker. Coloring for the gene annotations is mostly based on the annotation type: MANE: MANE Select Plus Clinical transcripts. For non-MANE transcripts, the following conventions apply. coding: protein coding transcripts, including polymorphic pseudogenes non-coding: non-protein coding transcripts pseudogene: pseudogene transcript annotations problem: problem transcripts (Biotypes of retained_intron, TEC, or disrupted_domain) This track contains an optional codon coloring feature that allows users to quickly validate and compare gene predictions. There is also an option to display the data as a density graph, which can be helpful for visualizing the distribution of items over a region. Squishy-pack Display Within a gene using the pack display mode, transcripts below a specified rank will be condensed into a view similar to squish mode. The transcript ranking approach is preliminary and will change in future releases. The transcripts rankings are defined by the following criteria for protein-coding and non-coding genes: Protein_coding genes MANE or Ensembl canonical 1st: MANE Select / Ensembl canonical 2nd: MANE Plus Clinical Coding biotypes 1st: protein_coding and protein_coding_LoF 2nd: NMDs and NSDs 3rd: retained intron and protein_coding_CDS_not_defined Completeness 1st: full length 2nd: CDS start/end not found CARS score (only for coding transcripts) Transcript genomic span and length (only for non-coding transcripts) Non-coding genes Transcript biotype 1st: transcript biotype identical to gene biotype Ensembl canonical GENCODE basic Transcript genomic span Transcript length Methods The GENCODE v49 track was built from the GENCODE downloads file gencode.v49.chr_patch_hapl_scaff.annotation.gff3.gz. Data from other sources were correlated with the GENCODE data to build association tables. Related Data The GENCODE Genes transcripts are annotated in numerous tables, each of which is also available as a downloadable file. One can see a full list of the associated tables in the Table Browser by selecting GENCODE Genes from the track menu; this list is then available on the table menu. Data access GENCODE Genes and its associated tables can be explored interactively using the REST API, the Table Browser or the Data Integrator. The genePred format files for hg38 are available from our downloads directory or in our GTF download directory. All the tables can also be queried directly from our public MySQL servers, with more information available on our help page as well as on our blog. Credits The GENCODE Genes track was produced at UCSC from the GENCODE comprehensive gene set using a computational pipeline developed by Jim Kent and Brian Raney. This version of the track was generated by Jonathan Casper. References Mudge JM, Carbonell-Sala S, Diekhans M, Martinez JG, Hunt T, Jungreis I, Loveland JE, Arnan C, Barnes I, Bennett R et al. GENCODE 2025: reference gene annotation for human and mouse. Nucleic Acids Res. 2025 Jan 6;53(D1):D966-D975. PMID: 39565199; PMC: PMC11701607 A full list of GENCODE publications is available at The GENCODE Project web site. Data Release Policy GENCODE data are available for use without restrictions. 
gnomadVariantsV4.1 gnomAD v4.1 Genome Aggregation Database (gnomAD) Genome and Exome Variants v4.1 Variation Description GnomAD 4 used the whole-genome data from gnomAD 3 and added more exomes. The current v4.1 release includes a fix for the allele number issue. The v4.1 track shows variants from 807,162 individuals, including 730,947 exomes and 76,215 genomes. This includes the 76,156 genomes from the gnomAD v3.1.2 release as well as new exome data from 416,555 UK Biobank individuals. For more detailed information on gnomAD v4.1, see the related blog post. Display Conventions and Configuration Following the conventions on the gnomAD browser, items are shaded according to their Annotation type: pLoF Missense Synonymous Other Mouse hover on an item will display the following details about each variant: Position Total Allele Frequency (TotalAF) Genes Annotation FILTER tags from VCF (FILTER) Population with maximum AF (PopMaxAF) Homozygous Individuals Homozygous Individuals in XX samples (chrX and chrY only) Hemizygous Individuals (chrX and chrY only) Clicking on an item will display additional details on the variant, including a population frequency table showing allele count in each sub-population. Label Options To maintain consistency with the gnomAD website, variants are by default labeled according to their chromosomal start position followed by the reference and alternate alleles, for example &quot;chr1-1234-T-CAG&quot;. dbSNP rsID's are also available as an additional label, if the variant is present in dbSnp. Filtering Options Three filters are available for this track: FILTER: Used to exclude/include variants that failed Random Forest (RF), Inbreeding Coefficient (Inbreeding Coeff), or Allele Count (AC0) filters. The PASS option is used to include/exclude variants that pass all of the RF, InbreedingCoeff, and AC0 filters, as denoted in the original VCF. Annotation type: Used to exclude/include variants that are annotated as Probability Loss of Function (pLoF), Missense, Synonymous, or Other, as annotated by VEP. Variant Type: Used to exclude/include variants according to the type of variation, as annotated by VEP. There is one additional configurable filter on the minimum minor allele frequency. UCSC Methods The gnomAD v4.1 data is unfiltered. For the full steps used to create the gnomAD tracks at UCSC, please see the hg38 gnomad makedoc. Data Access The raw data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API, and the genome annotations are stored in files that can be downloaded from our download server, subject to the conditions set forth by the gnomAD consortium (see below). The underlying bigBed only contains enough information necessary to use the track in the browser. The extra data like VEP annotations and CADD scores are available in the same directory as the bigBed but in the files details.tab.gz and details.tab.gz.gzi. The details.tab.gz contains the gzip compressed extra data in JSON format, and the .gzi file is available to speed searching of this data. Each variant has an associated md5sum in the name field of the bigBed which can be used along with the _dataOffset and _dataLen fields to get the associated external data. For example: # find an item of interest, the last two fields are _dataOffset and _dataLen: bigBedToBed genomes.bb stdout | head -4 | tail -1 chr1 12416 12417 854246d79dc5d02dcdbd5f5438542b6e [..omitted..] 67293 902 # use _dataOffset and _dataLen (add one to _dataLen for the newline character): bgzip -b 67293 -s 903 gnomad.v4.1.genomes.details.tab.gz 854246d79dc5d02dcdbd5f5438542b6e {"DDX11L1": {"cons": ["non_coding_transcript_variant"... The data can also be found directly from the gnomAD downloads page. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credits Thanks to the Genome Aggregation Database Consortium for making these data available. The data are released under the Creative Commons Zero Public Domain Dedication as described here. Please note that some annotations within the provided files may have restrictions on usage. See here for more information. References Chen S, Francioli LC, Goodrich JK, Collins RL, Kanai M, Wang Q, Alf&#246;ldi J, Watts NA, Vittal C, Gauthier LD et al. A genomic mutational constraint map using variation in 76,156 human genomes. Nature. 2024 Jan;625(7993):92-100. PMID: 38057664 Karczewski KJ, Francioli LC, Tiao G, Cummings BB, Alföldi J, Wang Q, Collins RL, Laricchia KM, Ganna A, Birnbaum DP et al. The mutational constraint spectrum quantified from variation in 141,456 humans. Nature. 2020 May;581(7809):434-443. PMID: 32461654; PMC: PMC7334197 Lek M, Karczewski KJ, Minikel EV, Samocha KE, Banks E, Fennell T, O'Donnell-Luria AH, Ware JS, Hill AJ, Cummings BB et al. Analysis of protein-coding genetic variation in 60,706 humans. Nature. 2016 Aug 17;536(7616):285-91. PMID: 27535533; PMC: PMC5018207 
gnomadVariants gnomAD Genome Aggregation Database (gnomAD) Variation Description The Genome Aggregation Database (gnomAD) is a resource developed by an international coalition of investigators at the Broad Institute and collaborating institutions, with the goal of aggregating and harmonizing exome and whole-genome sequencing data from large-scale sequencing projects spanning disease-specific cohorts and population genetics studies. Individuals affected by severe pediatric diseases and first-degree relatives were excluded from the studies. However, some individuals with severe disease may still have remained in the datasets, although probably at an equivalent or lower frequency than observed in the general population. For each variant, gnomAD provides allele frequencies stratified by genetic ancestry group, alongside quality metrics such as depth of coverage and genotype quality scores. The database also supplies sequencing coverage, structural variants, CNVs, and short tandem repeats. Additionally, gnomAD provides non-coding constraint and gene-level constraint metrics &mdash; including pLI scores, observed/expected (oe) ratios, and LOEUF values &mdash; that quantify intolerance to loss-of-function variation and are widely used to prioritize candidate disease genes. The most current release on hg38 is v4.1, but the older v3 and v2 versions are also available. The available data tracks are: gnomAD v4.1 &mdash; Shows single nucleotide variants (SNVs) and small insertion/deletion variants of 807,162 individuals, including 730,947 exomes and 76,215 genomes. gnomAD v3.1.1 &mdash; Shows variants from 76,156 whole genomes (and no exomes), all mapped to GRCh38/hg38. Deprecated: gnomAD v3.1 &mdash; Same underlying data as v3.1.1 with older annotations. Do not use; will be removed soon. gnomAD v3 &mdash; Shows variants from 71,702 whole genomes from the v3.0 release. gnomAD v2 &mdash; Shows variants from 125,748 exomes and 15,708 whole genomes, lifted from GRCh37/hg19 to GRCh38/hg38. gnomAD Mut Constraint &mdash; Shows the reduced variation caused by purifying natural selection for 1kbp windows across the genome (based on v3.1.2). gnomAD Constraint Metrics &mdash; Contains per-gene and per-transcript metrics of pathogenicity (LOEUF, pLI, and Z-scores) for v2.1.1, v4, and v4.1. gnomAD v3 Genome Coverage &mdash; Shows various read depth metrics for genome samples from v3.0.1. gnomAD v4 Exome Coverage &mdash; Shows various read depth metrics for exome samples from v4.0. gnomAD Structural Variants &mdash; Shows structural variant calls (variants &gt;=50 nucleotides) from gnomAD v4.1. gnomAD Rare CNV Variants &mdash; Shows rare copy number variants (&lt;1% overall site frequency) from gnomAD v4.1. gnomAD STR &mdash; Shows short tandem repeat genotypes at disease-associated loci from gnomAD v3.1.3. For questions on the gnomAD data, also see the gnomAD FAQ. More details on the Variant type(s) can be found on the Sequence Ontology page. Data Access The raw data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API, and the genome annotations are stored in files that can be downloaded from our download server, subject to the conditions set forth by the gnomAD consortium (see below). The data can also be found directly from the gnomAD downloads page. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credits Thanks to the Genome Aggregation Database Consortium for making these data available. The data are released under the Creative Commons Zero Public Domain Dedication as described here. Please note that some annotations within the provided files may have restrictions on usage. See here for more information. References Karczewski KJ, Francioli LC, Tiao G, Cummings BB, Alföldi J, Wang Q, Collins RL, Laricchia KM, Ganna A, Birnbaum DP et al. The mutational constraint spectrum quantified from variation in 141,456 humans. Nature. 2020 May;581(7809):434-443. PMID: 32461654; PMC: PMC7334197 Lek M, Karczewski KJ, Minikel EV, Samocha KE, Banks E, Fennell T, O'Donnell-Luria AH, Ware JS, Hill AJ, Cummings BB et al. Analysis of protein-coding genetic variation in 60,706 humans. Nature. 2016 Aug 17;536(7616):285-91. PMID: 27535533; PMC: PMC5018207 Collins RL, Brand H, Karczewski KJ, Zhao X, Alf&#246;ldi J, Francioli LC, Khera AV, Lowther C, Gauthier LD, Wang H et al. A structural variation reference for medical and population genetics. Nature. 2020 May;581(7809):444-451. PMID: 32461652; PMC: PMC7334194 Chen S, Francioli LC, Goodrich JK, Collins RL, Kanai M, Wang Q, Alf&#246;ldi J, Watts NA, Vittal C, Gauthier LD et al. A genomic mutational constraint map using variation in 76,156 human genomes. Nature. 2024 Jan;625(7993):92-100. PMID: 38057664 
gnomadExomesVariantsV4_1 gnomAD v4.1 Exomes Genome Aggregation Database (gnomAD) Exomes Variants v4.1 Variation Description GnomAD 4 used the whole-genome data from gnomAD 3 and added more exomes. The current v4.1 release includes a fix for the allele number issue. The v4.1 track shows variants from 807,162 individuals, including 730,947 exomes and 76,215 genomes. This includes the 76,156 genomes from the gnomAD v3.1.2 release as well as new exome data from 416,555 UK Biobank individuals. For more detailed information on gnomAD v4.1, see the related blog post. Display Conventions and Configuration Following the conventions on the gnomAD browser, items are shaded according to their Annotation type: pLoF Missense Synonymous Other Mouse hover on an item will display the following details about each variant: Position Total Allele Frequency (TotalAF) Genes Annotation FILTER tags from VCF (FILTER) Population with maximum AF (PopMaxAF) Homozygous Individuals Homozygous Individuals in XX samples (chrX and chrY only) Hemizygous Individuals (chrX and chrY only) Clicking on an item will display additional details on the variant, including a population frequency table showing allele count in each sub-population. Label Options To maintain consistency with the gnomAD website, variants are by default labeled according to their chromosomal start position followed by the reference and alternate alleles, for example &quot;chr1-1234-T-CAG&quot;. dbSNP rsID's are also available as an additional label, if the variant is present in dbSnp. Filtering Options Three filters are available for this track: FILTER: Used to exclude/include variants that failed Random Forest (RF), Inbreeding Coefficient (Inbreeding Coeff), or Allele Count (AC0) filters. The PASS option is used to include/exclude variants that pass all of the RF, InbreedingCoeff, and AC0 filters, as denoted in the original VCF. Annotation type: Used to exclude/include variants that are annotated as Probability Loss of Function (pLoF), Missense, Synonymous, or Other, as annotated by VEP. Variant Type: Used to exclude/include variants according to the type of variation, as annotated by VEP. There is one additional configurable filter on the minimum minor allele frequency. UCSC Methods The gnomAD v4.1 data is unfiltered. For the full steps used to create the gnomAD tracks at UCSC, please see the hg38 gnomad makedoc. Data Access The raw data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API, and the genome annotations are stored in files that can be downloaded from our download server, subject to the conditions set forth by the gnomAD consortium (see below). The underlying bigBed only contains enough information necessary to use the track in the browser. The extra data like VEP annotations and CADD scores are available in the same directory as the bigBed but in the files details.tab.gz and details.tab.gz.gzi. The details.tab.gz contains the gzip compressed extra data in JSON format, and the .gzi file is available to speed searching of this data. Each variant has an associated md5sum in the name field of the bigBed which can be used along with the _dataOffset and _dataLen fields to get the associated external data. For example: # find an item of interest, the last two fields are _dataOffset and _dataLen: bigBedToBed genomes.bb stdout | head -4 | tail -1 chr1 12416 12417 854246d79dc5d02dcdbd5f5438542b6e [..omitted..] 67293 902 # use _dataOffset and _dataLen (add one to _dataLen for the newline character): bgzip -b 67293 -s 903 gnomad.v4.1.genomes.details.tab.gz 854246d79dc5d02dcdbd5f5438542b6e {"DDX11L1": {"cons": ["non_coding_transcript_variant"... The data can also be found directly from the gnomAD downloads page. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credits Thanks to the Genome Aggregation Database Consortium for making these data available. The data are released under the Creative Commons Zero Public Domain Dedication as described here. Please note that some annotations within the provided files may have restrictions on usage. See here for more information. References Chen S, Francioli LC, Goodrich JK, Collins RL, Kanai M, Wang Q, Alf&#246;ldi J, Watts NA, Vittal C, Gauthier LD et al. A genomic mutational constraint map using variation in 76,156 human genomes. Nature. 2024 Jan;625(7993):92-100. PMID: 38057664 Karczewski KJ, Francioli LC, Tiao G, Cummings BB, Alföldi J, Wang Q, Collins RL, Laricchia KM, Ganna A, Birnbaum DP et al. The mutational constraint spectrum quantified from variation in 141,456 humans. Nature. 2020 May;581(7809):434-443. PMID: 32461654; PMC: PMC7334197 Lek M, Karczewski KJ, Minikel EV, Samocha KE, Banks E, Fennell T, O'Donnell-Luria AH, Ware JS, Hill AJ, Cummings BB et al. Analysis of protein-coding genetic variation in 60,706 humans. Nature. 2016 Aug 17;536(7616):285-91. PMID: 27535533; PMC: PMC5018207 
gnomadGenomesVariantsV4_1 gnomAD v4.1 Genomes Genome Aggregation Database (gnomAD) Genome Variants v4.1 Variation Description GnomAD 4 used the whole-genome data from gnomAD 3 and added more exomes. The current v4.1 release includes a fix for the allele number issue. The v4.1 track shows variants from 807,162 individuals, including 730,947 exomes and 76,215 genomes. This includes the 76,156 genomes from the gnomAD v3.1.2 release as well as new exome data from 416,555 UK Biobank individuals. For more detailed information on gnomAD v4.1, see the related blog post. Display Conventions and Configuration Following the conventions on the gnomAD browser, items are shaded according to their Annotation type: pLoF Missense Synonymous Other Mouse hover on an item will display the following details about each variant: Position Total Allele Frequency (TotalAF) Genes Annotation FILTER tags from VCF (FILTER) Population with maximum AF (PopMaxAF) Homozygous Individuals Homozygous Individuals in XX samples (chrX and chrY only) Hemizygous Individuals (chrX and chrY only) Clicking on an item will display additional details on the variant, including a population frequency table showing allele count in each sub-population. Label Options To maintain consistency with the gnomAD website, variants are by default labeled according to their chromosomal start position followed by the reference and alternate alleles, for example &quot;chr1-1234-T-CAG&quot;. dbSNP rsID's are also available as an additional label, if the variant is present in dbSnp. Filtering Options Three filters are available for this track: FILTER: Used to exclude/include variants that failed Random Forest (RF), Inbreeding Coefficient (Inbreeding Coeff), or Allele Count (AC0) filters. The PASS option is used to include/exclude variants that pass all of the RF, InbreedingCoeff, and AC0 filters, as denoted in the original VCF. Annotation type: Used to exclude/include variants that are annotated as Probability Loss of Function (pLoF), Missense, Synonymous, or Other, as annotated by VEP. Variant Type: Used to exclude/include variants according to the type of variation, as annotated by VEP. There is one additional configurable filter on the minimum minor allele frequency. UCSC Methods The gnomAD v4.1 data is unfiltered. For the full steps used to create the gnomAD tracks at UCSC, please see the hg38 gnomad makedoc. Data Access The raw data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API, and the genome annotations are stored in files that can be downloaded from our download server, subject to the conditions set forth by the gnomAD consortium (see below). The underlying bigBed only contains enough information necessary to use the track in the browser. The extra data like VEP annotations and CADD scores are available in the same directory as the bigBed but in the files details.tab.gz and details.tab.gz.gzi. The details.tab.gz contains the gzip compressed extra data in JSON format, and the .gzi file is available to speed searching of this data. Each variant has an associated md5sum in the name field of the bigBed which can be used along with the _dataOffset and _dataLen fields to get the associated external data. For example: # find an item of interest, the last two fields are _dataOffset and _dataLen: bigBedToBed genomes.bb stdout | head -4 | tail -1 chr1 12416 12417 854246d79dc5d02dcdbd5f5438542b6e [..omitted..] 67293 902 # use _dataOffset and _dataLen (add one to _dataLen for the newline character): bgzip -b 67293 -s 903 gnomad.v4.1.genomes.details.tab.gz 854246d79dc5d02dcdbd5f5438542b6e {"DDX11L1": {"cons": ["non_coding_transcript_variant"... The data can also be found directly from the gnomAD downloads page. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credits Thanks to the Genome Aggregation Database Consortium for making these data available. The data are released under the Creative Commons Zero Public Domain Dedication as described here. Please note that some annotations within the provided files may have restrictions on usage. See here for more information. References Chen S, Francioli LC, Goodrich JK, Collins RL, Kanai M, Wang Q, Alf&#246;ldi J, Watts NA, Vittal C, Gauthier LD et al. A genomic mutational constraint map using variation in 76,156 human genomes. Nature. 2024 Jan;625(7993):92-100. PMID: 38057664 Karczewski KJ, Francioli LC, Tiao G, Cummings BB, Alföldi J, Wang Q, Collins RL, Laricchia KM, Ganna A, Birnbaum DP et al. The mutational constraint spectrum quantified from variation in 141,456 humans. Nature. 2020 May;581(7809):434-443. PMID: 32461654; PMC: PMC7334197 Lek M, Karczewski KJ, Minikel EV, Samocha KE, Banks E, Fennell T, O'Donnell-Luria AH, Ware JS, Hill AJ, Cummings BB et al. Analysis of protein-coding genetic variation in 60,706 humans. Nature. 2016 Aug 17;536(7616):285-91. PMID: 27535533; PMC: PMC5018207 
gtexGeneV8 GTEx Gene V8 Gene Expression in 54 tissues from GTEx RNA-seq of 17382 samples, 948 donors (V8, Aug 2019) Expression Description The NIH Genotype-Tissue Expression (GTEx) project was created to establish a sample and data resource for studies on the relationship between genetic variation and gene expression in multiple human tissues. This track shows median gene expression levels in 52 tissues and 2 cell lines, based on RNA-seq data from the GTEx final data release (V8, August 2019). This release is based on data from 17,382 tissue samples obtained from 948 adult post-mortem individuals. Display Conventions In Full and Pack display modes, expression for each gene is represented by a colored bargraph, where the height of each bar represents the median expression level across all samples for a tissue, and the bar color indicates the tissue. Tissue colors were assigned to conform to the GTEx Consortium publication conventions. &nbsp;&nbsp;&nbsp;&nbsp;&nbsp; The bargraph display has the same width and tissue order for all genes. Mouse hover over a bar will show the tissue and median expression level. The Squish display mode draws a rectangle for each gene, colored to indicate the tissue with highest expression level if it contributes more than 10% to the overall expression (and colored black if no tissue predominates). In Dense mode, the darkness of the grayscale rectangle displayed for the gene reflects the total median expression level across all tissues. The GTEx transcript model used to quantify expression level is displayed below the graph, colored to indicate the transcript class (coding, noncoding, pseudogene, problem), following GENCODE conventions. Click-through on a graph displays a boxplot of expression level quartiles with outliers, per tissue, along with a link to the corresponding gene page on the GTEx Portal. The track configuration page provides controls to limit the genes and tissues displayed, and to select raw or log transformed expression level display. Methods Tissue samples were obtained using the GTEx standard operating procedures for informed consent and tissue collection, in conjunction with the National Cancer Institute Biorepositories and Biospecimen. All tissue specimens were reviewed by pathologists to characterize and verify organ source. Images from stained tissue samples can be viewed via the NCI histopathology viewer. The Qiagen PAXgene non-formalin tissue preservation product was used to stabilize tissue specimens without cross-linking biomolecules. RNA-seq was performed by the GTEx Laboratory, Data Analysis and Coordinating Center (LDACC) at the Broad Institute. The Illumina TruSeq protocol was used to create an unstranded polyA+ library sequenced on the Illumina HiSeq 2000 and HiSeq 2500 platforms to produce 76-bp paired end reads with a coverage goal of 50M (median achieved was ~82M total reads). Sequence reads were aligned to the hg38/GRCh38 human genome using STAR v2.5.3a assisted by the GENCODE 26 transcriptome definition. The alignment pipeline is available here. Gene annotations were produced using a custom isoform collapsing procedure that excluded retained intron and read through transcripts, merged overlapping exon intervals and then excluded exon intervals overlapping between genes. Gene expression levels in TPM were called via the RNA-SeQC tool (v1.1.9), after filtering for unique mapping, proper pairing, and exon overlap. For further method details, see the GTEx Portal Documentation page. UCSC obtained the gene-level expression files, gene annotations and sample metadata from the GTEx Portal Download page. Median expression level in TPM was computed per gene/per tissue. Subject and Sample Characteristics The scientific goal of the GTEx project required that the donors and their biospecimen present with no evidence of disease. The tissue types collected were chosen based on their clinical significance, logistical feasibility and their relevance to the scientific goal of the project and the research community. Summary plots of GTEx sample characteristics are available at the GTEx Portal Tissue Summary page. Data Access The raw data for the GTEx Gene expression track can be accessed interactively through the Table Browser or Data Integrator. Metadata can be found in the connected tables below. gtexGeneModelV8 describes the gene names and coordinates in genePred format. hgFixed.gtexTissueV8 lists each of the 53 tissues in alphabetical order, corresponding to the comma separated expression values in gtexGeneV8. hgFixed.gtexSampleDataV8 has TPM expression scores for each individual gene-sample data point, connected to gtexSampleV8. hgFixed.gtexSampleV8 contains metadata about sample time, collection site, and tissue, connected to the donor field in the gtexDonorV8 table. hgFixed.gtexDonorV8 has anonymized information on the tissue donor. For automated analysis and downloads, the track data files can be downloaded from our downloads server or the JSON API. Individual regions or the whole genome annotation can be accessed as text using our utility bigBedToBed. Instructions for downloading the utility can be found here. That utility can also be used to obtain features within a given range, e.g. bigBedToBed http://hgdownload.soe.ucsc.edu/gbdb/hg38/gtex/gtexGeneV8.bb -chrom=chr21 -start=0 -end=100000000 stdout Data can also be obtained directly from GTEx at the following link: https://gtexportal.org/home/datasets Credits Statistical analysis and data interpretation was performed by The GTEx Consortium Analysis Working Group. Data was provided by the GTEx LDACC at The Broad Institute of MIT and Harvard. References GTEx Consortium. The GTEx Consortium atlas of genetic regulatory effects across human tissues. Science. 2020 Sep 11;369(6509):1318-1330. PMID: 32913098; PMC: PMC7737656 GTEx Consortium. The Genotype-Tissue Expression (GTEx) project. Nat Genet. 2013 Jun;45(6):580-5. PMID: 23715323; PMC: PMC4010069 Carithers LJ, Ardlie K, Barcus M, Branton PA, Britton A, Buia SA, Compton CC, DeLuca DS, Peter-Demchok J, Gelfand ET et al. A Novel Approach to High-Quality Postmortem Tissue Procurement: The GTEx Project. Biopreserv Biobank. 2015 Oct;13(5):311-9. PMID: 26484571; PMC: PMC4675181 Mel&#233; M, Ferreira PG, Reverter F, DeLuca DS, Monlong J, Sammeth M, Young TR, Goldmann JM, Pervouchine DD, Sullivan TJ et al. Human genomics. The human transcriptome across tissues and individuals. Science. 2015 May 8;348(6235):660-5. PMID: 25954002; PMC: PMC4547472 DeLuca DS, Levin JZ, Sivachenko A, Fennell T, Nazaire MD, Williams C, Reich M, Winckler W, Getz G. RNA-SeQC: RNA-seq metrics for quality control and process optimization. Bioinformatics. 2012 Jun 1;28(11):1530-2. PMID: 22539670; PMC: PMC3356847 
humanMethylationAtlasSummary Human Methylation Atlas Summary Human Methylation Atlas summary regions and enhancers Regulation Description The Human Methylation Atlas tracks display genome-wide DNA methylation profiles from deep whole-genome bisulfite sequencing (WGBS) of 39 primary human cell types sorted from 205 healthy tissue samples. This comprehensive resource enables fragment-level analysis across thousands of unique markers, providing a detailed reference for cell-type-specific methylation patterns. Human Methylation Atlas Summary consists of the following subtracks: All unmethylated regions track displays a comprehensive catalogue of unmethylated genomic regions identified independently for each of the 39 cell types in the atlas using a fragment-level analysis, retaining regions where at least 85% of sequenced DNA fragments covering four or more CpGs are unmethylated. Putative enhancers from unmethylated regions track displays a genome-wide catalogue of putative transcriptional enhancers derived from regions where at least 85% of sequenced DNA fragments are unmethylated, and that overlap H3K27ac but not H3K4me3 ChIP-seq peaks, distinguishing distal enhancer elements from active promoters. This track covers 32 of the 39 cell types, as H3K27ac ChIP-seq data were unavailable for Adipocytes, Bone Osteoblasts, Erythrocyte Progenitors, Fallopian Epithelium, Gallbladder, Ovary Epithelium, and Smooth Muscle. Top 250 unmethylated regions specific to each cell type track displays the top 250 genomic regions most specifically unmethylated in each of the 39 cell types, identified using a one-versus-all comparison approach. Some regions are shared across closely related cell types (for example, Neuron:Oligodend or Colon-Ep:Gastric-Ep:Small-Int-Ep), indicating they are unmethylated across those cell types but methylated in all others in the atlas. Unsupervised clustering of these methylomes recapitulates key elements of tissue ontogeny and developmental lineage relationships. Display Conventions and Configuration Track Colors Tracks are colored by tissue/cell type category as follows: ColorCell Type(s) &nbsp;Neurons &nbsp;Oligodendrocytes &nbsp;Thyroid Epithelium &nbsp;Prostate Epithelium &nbsp;Bladder Epithelium &nbsp;Heart Cardiomyocytes &nbsp;Smooth Muscle &nbsp;Heart Fibroblasts &nbsp;Skeletal Muscle &nbsp;Erythrocyte Progenitors &nbsp;Blood Granulocytes &nbsp;Blood Monocytes/Macrophages &nbsp;Blood T Cells &nbsp;Blood B Cells &nbsp;Blood NK Cells &nbsp;Pancreas Beta Cells &nbsp;Pancreas Alpha Cells &nbsp;Pancreas Delta Cells &nbsp;Pancreas Duct Cells &nbsp;Pancreas Acinar Cells &nbsp;Colon Epithelium &nbsp;Colon Fibroblasts &nbsp;Small Intestine Epithelium &nbsp;Gastric Epithelium &nbsp;Gallbladder &nbsp;Liver Hepatocytes &nbsp;Lung Bronchus Epithelium &nbsp;Lung Alveolar Epithelium &nbsp;Kidney Epithelium &nbsp;Endothelial &nbsp;Breast Basal Epithelium &nbsp;Breast Luminal Epithelium &nbsp;Fallopian Epithelium &nbsp;Ovary Epithelium &nbsp;Adipocytes &nbsp;Epidermal Keratinocytes &nbsp;Dermal Fibroblasts &nbsp;Bone Osteoblasts &nbsp;Head Neck Epithelium Items in these tracks can be filtered by: Cell/Tissue Type - The cell or tissue type associated with each region. Filter values include the 39 cell types for the All Unmethylated Regions track, 32 cell types for the Putative Enhancers track, and 39 cell types plus combined cell type groups for the Top 250 Unmethylated Regions track. The default is no filtering. Methods Sample Collection and Sequencing Primary human cells were isolated from freshly dissociated adult healthy tissues using fluorescence-activated cell sorting (FACS), yielding high-purity preparations across major cell lineages. A total of 205 samples representing 77 primary cell types were collected from 137 consenting donors and merged into 39 cell type groups based on methylation similarity. Average sample purity exceeded 90% as determined by flow cytometry, gene expression, and DNA methylation analysis. Some cell types showed lower purity, including colon fibroblasts (78%), smooth muscle cells (82%), endothelial cells (86%), and adipocytes (87%). Several cell types are absent from the atlas, typically due to limited availability of primary material. These include osteoblasts, cholangiocytes, cells of the adrenal gland, urethral epithelium, and haematopoietic stem cells. Subpopulations of interest, such as distinct neuronal or lymphocyte subtypes, were also not resolved separately. Whole-genome bisulfite sequencing was performed using 150 bp paired-end reads at an average sequencing depth of 30&times; (minimum 6.62&times;). Libraries were prepared using the Accel-NGS Methyl-Seq DNA library preparation kit and sequenced on the Illumina NovaSeq 6000 platform. Processing and Analysis Reads were mapped to the human genome (hg38) using bwa-meth, deduplicated with Sambamba, and processed into per-CpG methylation calls. The genome was segmented into 7.1 million non-overlapping methylation blocks using a multi-channel dynamic programming algorithm that identifies regions of homogeneous methylation across samples. Cell-type-specific differentially methylated regions were identified using a one-versus-all comparison approach. Regions uniquely unmethylated in specific cell types were found to be enriched for transcriptional enhancers and tissue-specific transcription factor binding motifs. Data processing was performed using wgbstools, an open-source computational suite for DNA methylation sequencing data representation, visualization, and analysis. Data Access The raw data for these tracks can be explored interactively using the Table Browser or the Data Integrator. For automated analysis, the data may also be queried from our REST API. The complete dataset, including all WGBS data files and processed methylation calls, is available from GEO accession GSE186458. For questions regarding the data, please contact Prof. Tommy Kaplan at the Hebrew University of Jerusalem. Credits Data generation and analysis were performed at the Hebrew University of Jerusalem by the Dor, Kaplan, and Glaser laboratories and collaborators. Sample collection involved collaboration with Hadassah Medical Center, Oregon Health &amp; Science University, Karolinska Institute, and University of Alberta. References Loyfer N, Magenheim J, Peretz A, Cann G, Bredno J, Klochendler A, Fox-Fisher I, Shabi-Porat S, Hecht M, Pelet T et al. A DNA methylation atlas of normal human cell types. Nature. 2023 Jan;613(7943):355-364. PMID: 36599988 Loyfer N, Rosenski J, Kaplan T. wgbstools: a computational suite for DNA methylation sequencing data analysis. Life Sci Alliance. 2026 Apr;9(4):e202503514. PMID: 41611450 
dnaMethylation DNA Methylation DNA Methylation Regulation Description This container comprises various DNA Methylation tracks from different sources. Click on the specific subtracks for detailed descriptions of the data. The two tracks available are: Human Methylation Atlas Summary (hg38/hg19) - Contains cell-type-specific marker regions identified from the atlas, including all unmethylated regions, putative enhancers derived from unmethylated regions, and the top 250 most specifically unmethylated regions per cell type. Human Methylation Atlas Signals (hg38/hg19) - Contains per-cell-type methylation signal tracks (bigWig format) showing methylation beta values (0-1 scale) across the genome, with merged tracks combining all replicates per cell type and replicate tracks for each individual sample. References Loyfer N, Magenheim J, Peretz A, Cann G, Bredno J, Klochendler A, Fox-Fisher I, Shabi-Porat S, Hecht M, Pelet T et al. A DNA methylation atlas of normal human cell types. Nature. 2023 Jan;613(7943):355-364. PMID: 36599988 Loyfer N, Rosenski J, Kaplan T. wgbstools: a computational suite for DNA methylation sequencing data analysis. Life Sci Alliance. 2026 Apr;9(4):e202503514. PMID: 41611450 
hmaSummaryU250 Top 250 UMRs/Cell Methylation Atlas: Top 250 unmethylated regions specific to each cell type Regulation 
hmaSummaryPutEnhancers Putative Enhancers Methylation Atlas: Putative enhancers from unmethylated regions Regulation 
hmaSummaryUnmethylated All Unmeth Regions Methylation Atlas: All unmethylated regions Regulation 
jarvis JARVIS JARVIS: score to prioritize non-coding regions for disease relevance Phenotypes, Variants, and Literature Description The "Constraint scores" container track includes several subtracks showing the results of constraint prediction algorithms. These try to find regions of negative selection, where variations likely have functional impact. The algorithms do not use multi-species alignments to derive evolutionary constraint, but use primarily human variation, usually from variants collected by gnomAD (see the gnomAD V2 or V3 tracks on hg19 and hg38) or TOPMED (contained in our dbSNP tracks and available as a filter). One of the subtracks is based on UK Biobank variants, which are not available publicly, so we have no track with the raw data. The number of human genomes that are used as the input for these scores are 76k, 53k and 110k for gnomAD, TOPMED and UK Biobank, respectively. Note that another important constraint score, gnomAD constraint, is not part of this container track but can be found in the hg38 gnomAD track. The algorithms included in this track are: JARVIS - "Junk" Annotation genome-wide Residual Variation Intolerance Score: JARVIS scores were created by first scanning the entire genome with a sliding-window approach (using a 1-nucleotide step), recording the number of all TOPMED variants and common variants, irrespective of their predicted effect, within each window, to eventually calculate a single-nucleotide resolution genome-wide residual variation intolerance score (gwRVIS). That score, gwRVIS was then combined with primary genomic sequence context, and additional genomic annotations with a multi-module deep learning framework to infer pathogenicity of noncoding regions that still remains naive to existing phylogenetic conservation metrics. The higher the score, the more deleterious the prediction. This score covers the entire genome, except the gaps. HMC - Homologous Missense Constraint: Homologous Missense Constraint (HMC) is a amino acid level measure of genetic intolerance of missense variants within human populations. For all assessable amino-acid positions in Pfam domains, the number of missense substitutions directly observed in gnomAD (Observed) was counted and compared to the expected value under a neutral evolution model (Expected). The upper limit of a 95% confidence interval for the Observed/Expected ratio is defined as the HMC score. Missense variants disrupting the amino-acid positions with HMC&lt;0.8 are predicted to be likely deleterious. This score only covers PFAM domains within coding regions. MetaDome - Tolerance Landscape Score (hg19 only): MetaDome Tolerance Landscape scores are computed as a missense over synonymous variant count ratio, which is calculated in a sliding window (with a size of 21 codons/residues) to provide a per-position indication of regional tolerance to missense variation. The variant database was gnomAD and the score corrected for codon composition. Scores &lt;0.7 are considered intolerant. This score covers only coding regions. MTR - Missense Tolerance Ratio (hg19 only): Missense Tolerance Ratio (MTR) scores aim to quantify the amount of purifying selection acting specifically on missense variants in a given window of protein-coding sequence. It is estimated across sliding windows of 31 codons (default) and uses observed standing variation data from the WES component of gnomAD version 2.0. Scores were computed using Ensembl v95 release. The number of gnomAD 2 exomes used here is higher than the number of gnomAD 3 samples (125 exoms versus 76k full genomes), and this score only covers coding regions so gnomAD 2 was more appropriate. LINSIGHT (hg19 only): LINSIGHT is a statistical model for estimating negative selection on noncoding sequences in the human genome. The LINSIGHT score measures the probability of negative selection on non-coding sites which can be used to prioritize SNVs associated with genetic diseases or quantify evolutionary constraint on regulatory sequences, e.g., enhancers or promoters. More specifically, if a non-coding site is under negative selection, it will be less likely to have a substitution or SNV in the human lineage. In addition, even if we see a SNV at the site, it will tend to segregate at low frequency because of selection. See (Huang et al, Nat Genet 2017). UK Biobank depletion rank score (hg38 only): Halldorsson et al. tabulated the number of UK Biobank variants in each 500bp window of the genome and compared this number to an expected number given the heptamer nucleotide composition of the window and the fraction of heptamers with a sequence variant across the genome and their mutational classes. A variant depletion score was computed for every overlapping set of 500-bp windows in the genome with a 50-bp step size. They then assigned a rank (depletion rank (DR)) from 0 (most depletion) to 100 (least depletion) for each 500-bp window. Since the windows are overlapping, we plot the value only in the central 50bp of the 500bp window, following advice from the author of the score, Hakon Jonsson, deCODE Genetics. He suggested that the value of the central window, rather than the worst possible score of all overlapping windows, is the most informative for a position. This score covers almost the entire genome, only very few regions were excluded, where the genome sequence had too many gap characters. Display Conventions and Configuration JARVIS JARVIS scores are shown as a signal ("wiggle") track, with one score per genome position. Mousing over the bars displays the exact values. The scores were downloaded and converted to a single bigWig file. Move the mouse over the bars to display the exact values. A horizontal line is shown at the 0.733 value which signifies the 90th percentile. See hg19 makeDoc and hg38 makeDoc. Interpretation: The authors offer a suggested guideline of > 0.9998 for identifying higher confidence calls and minimizing false positives. In addition to that strict threshold, the following two more relaxed cutoffs can be used to explore additional hits. Note that these thresholds are offered as guidelines and are not necessarily representative of pathogenicity. PercentileJARVIS score threshold 99th0.9998 95th0.9826 90th0.7338 HMC HMC scores are displayed as a signal ("wiggle") track, with one score per genome position. Mousing over the bars displays the exact values. The highly-constrained cutoff of 0.8 is indicated with a line. Interpretation: A protein residue with HMC score &lt;1 indicates that missense variants affecting the homologous residues are significantly under negative selection (P-value &lt; 0.05) and likely to be deleterious. A more stringent score threshold of HMC&lt;0.8 is recommended to prioritize predicted disease-associated variants. MetaDome MetaDome data can be found on two tracks, MetaDome and MetaDome All Data. The MetaDome track should be used by default for data exploration. In this track the raw data containing the MetaDome tolerance scores were converted into a signal ("wiggle") track. Since this data was computed on the proteome, there was a small amount of coordinate overlap, roughly 0.42%. In these regions the lowest possible score was chosen for display in the track to maintain sensitivity. For this reason, if a protein variant is being evaluated, the MetaDome All Data track can be used to validate the score. More information on this data can be found in the MetaDome FAQ. Interpretation: The authors suggest the following guidelines for evaluating intolerance. By default, the MetaDome track displays a horizontal line at 0.7 which signifies the first intolerant bin. For more information see the MetaDome publication. ClassificationMetaDome Tolerance Score Highly intolerant&le; 0.175 Intolerant&le; 0.525 Slightly intolerant&le; 0.7 MTR MTR data can be found on two tracks, MTR All data and MTR Scores. In the MTR Scores track the data has been converted into 4 separate signal tracks representing each base pair mutation, with the lowest possible score shown when multiple transcripts overlap at a position. Overlaps can happen since this score is derived from transcripts and multiple transcripts can overlap. A horizontal line is drawn on the 0.8 score line to roughly represent the 25th percentile, meaning the items below may be of particular interest. It is recommended that the data be explored using this version of the track, as it condenses the information substantially while retaining the magnitude of the data. Any specific point mutations of interest can then be researched in the MTR All data track. This track contains all of the information from MTRV2 including more than 3 possible scores per base when transcripts overlap. A mouse-over on this track shows the ref and alt allele, as well as the MTR score and the MTR score percentile. Filters are available for MTR score, False Discovery Rate (FDR), MTR percentile, and variant consequence. By default, only items in the bottom 25 percentile are shown. Items in the track are colored according to their MTR percentile: Green items MTR percentiles over 75 Black items MTR percentiles between 25 and 75 Red items MTR percentiles below 25 Blue items No MTR score Interpretation: Regions with low MTR scores were seen to be enriched with pathogenic variants. For example, ClinVar pathogenic variants were seen to have an average score of 0.77 whereas ClinVar benign variants had an average score of 0.92. Further validation using the FATHMM cancer-associated training dataset saw that scores less than 0.5 contained 8.6% of the pathogenic variants while only containing 0.9% of neutral variants. In summary, lower scores are more likely to represent pathogenic variants whereas higher scores could be pathogenic, but have a higher chance to be a false positive. For more information see the MTR-Viewer publication. Methods JARVIS Scores were downloaded and converted to a single bigWig file. See the hg19 makeDoc and the hg38 makeDoc for more info. HMC Scores were downloaded and converted to .bedGraph files with a custom Python script. The bedGraph files were then converted to bigWig files, as documented in our makeDoc hg19 build log. MetaDome The authors provided a bed file containing codon coordinates along with the scores. This file was parsed with a python script to create the two tracks. For the first track the scores were aggregated for each coordinate, then the lowest score chosen for any overlaps and the result written out to bedGraph format. The file was then converted to bigWig with the bedGraphToBigWig utility. For the second track the file was reorganized into a bed 4+3 and conveted to bigBed with the bedToBigBed utility. See the hg19 makeDoc for details including the build script. The raw MetaDome data can also be accessed via their Zenodo handle. MTR V2 file was downloaded and columns were reshuffled as well as itemRgb added for the MTR All data track. For the MTR Scores track the file was parsed with a python script to pull out the highest possible MTR score for each of the 3 possible mutations at each base pair and 4 tracks built out of these values representing each mutation. See the hg19 makeDoc entry on MTR for more info. Data Access The raw data can be explored interactively with the Table Browser, or the Data Integrator. For automated access, this track, like all others, is available via our API. However, for bulk processing, it is recommended to download the dataset. For automated download and analysis, the genome annotation is stored at UCSC in bigWig and bigBed files that can be downloaded from our download server. Individual regions or the whole genome annotation can be obtained using our tools bigWigToWig or bigBedToBed which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tools can also be used to obtain features confined to a given range, e.g., bigWigToBedGraph -chrom=chr1 -start=100000 -end=100500 http://hgdownload.soe.ucsc.edu/gbdb/hg38/hmc/hmc.bw stdout Please refer to our Data Access FAQ for more information. Credits Thanks to Jean-Madeleine Desainteagathe (APHP Paris, France) for suggesting the JARVIS, MTR, HMC tracks. Thanks to Xialei Zhang for providing the HMC data file and to Dimitrios Vitsios and Slave Petrovski for helping clean up the hg38 JARVIS files for providing guidance on interpretation. Additional thanks to Laurens van de Wiel for providing the MetaDome data as well as guidance on the track development and interpretation. References Vitsios D, Dhindsa RS, Middleton L, Gussow AB, Petrovski S. Prioritizing non-coding regions based on human genomic constraint and sequence context with deep learning. Nat Commun. 2021 Mar 8;12(1):1504. PMID: 33686085; PMC: PMC7940646 Xiaolei Zhang, Pantazis I. Theotokis, Nicholas Li, the SHaRe Investigators, Caroline F. Wright, Kaitlin E. Samocha, Nicola Whiffin, James S. Ware Genetic constraint at single amino acid resolution improves missense variant prioritisation and gene discovery. Medrxiv 2022.02.16.22271023 Wiel L, Baakman C, Gilissen D, Veltman JA, Vriend G, Gilissen C. MetaDome: Pathogenicity analysis of genetic variants through aggregation of homologous human protein domains. Hum Mutat. 2019 Aug;40(8):1030-1038. PMID: 31116477; PMC: PMC6772141 Silk M, Petrovski S, Ascher DB. MTR-Viewer: identifying regions within genes under purifying selection. Nucleic Acids Res. 2019 Jul 2;47(W1):W121-W126. PMID: 31170280; PMC: PMC6602522 Halldorsson BV, Eggertsson HP, Moore KHS, Hauswedell H, Eiriksson O, Ulfarsson MO, Palsson G, Hardarson MT, Oddsson A, Jensson BO et al. The sequences of 150,119 genomes in the UK Biobank. Nature. 2022 Jul;607(7920):732-740. PMID: 35859178; PMC: PMC9329122 Huang YF, Gulko B, Siepel A. Fast, scalable prediction of deleterious noncoding variants from functional and population genomic data. Nat Genet. 2017 Apr;49(4):618-624. PMID: 28288115; PMC: PMC5395419 
constraintSuper Constraint scores Human constraint scores Phenotypes, Variants, and Literature Description The "Constraint scores" container track includes several subtracks showing the results of constraint prediction algorithms. These try to find regions of negative selection, where variations likely have functional impact. The algorithms do not use multi-species alignments to derive evolutionary constraint, but use primarily human variation, usually from variants collected by gnomAD (see the gnomAD V2 or V3 tracks on hg19 and hg38) or TOPMED (contained in our dbSNP tracks and available as a filter). One of the subtracks is based on UK Biobank variants, which are not available publicly, so we have no track with the raw data. The number of human genomes that are used as the input for these scores are 76k, 53k and 110k for gnomAD, TOPMED and UK Biobank, respectively. Note that another important constraint score, gnomAD constraint, is not part of this container track but can be found in the hg38 gnomAD track. The algorithms included in this track are: JARVIS - "Junk" Annotation genome-wide Residual Variation Intolerance Score: JARVIS scores were created by first scanning the entire genome with a sliding-window approach (using a 1-nucleotide step), recording the number of all TOPMED variants and common variants, irrespective of their predicted effect, within each window, to eventually calculate a single-nucleotide resolution genome-wide residual variation intolerance score (gwRVIS). That score, gwRVIS was then combined with primary genomic sequence context, and additional genomic annotations with a multi-module deep learning framework to infer pathogenicity of noncoding regions that still remains naive to existing phylogenetic conservation metrics. The higher the score, the more deleterious the prediction. This score covers the entire genome, except the gaps. HMC - Homologous Missense Constraint: Homologous Missense Constraint (HMC) is a amino acid level measure of genetic intolerance of missense variants within human populations. For all assessable amino-acid positions in Pfam domains, the number of missense substitutions directly observed in gnomAD (Observed) was counted and compared to the expected value under a neutral evolution model (Expected). The upper limit of a 95% confidence interval for the Observed/Expected ratio is defined as the HMC score. Missense variants disrupting the amino-acid positions with HMC&lt;0.8 are predicted to be likely deleterious. This score only covers PFAM domains within coding regions. MetaDome - Tolerance Landscape Score (hg19 only): MetaDome Tolerance Landscape scores are computed as a missense over synonymous variant count ratio, which is calculated in a sliding window (with a size of 21 codons/residues) to provide a per-position indication of regional tolerance to missense variation. The variant database was gnomAD and the score corrected for codon composition. Scores &lt;0.7 are considered intolerant. This score covers only coding regions. MTR - Missense Tolerance Ratio (hg19 only): Missense Tolerance Ratio (MTR) scores aim to quantify the amount of purifying selection acting specifically on missense variants in a given window of protein-coding sequence. It is estimated across sliding windows of 31 codons (default) and uses observed standing variation data from the WES component of gnomAD version 2.0. Scores were computed using Ensembl v95 release. The number of gnomAD 2 exomes used here is higher than the number of gnomAD 3 samples (125 exoms versus 76k full genomes), and this score only covers coding regions so gnomAD 2 was more appropriate. LINSIGHT (hg19 only): LINSIGHT is a statistical model for estimating negative selection on noncoding sequences in the human genome. The LINSIGHT score measures the probability of negative selection on non-coding sites which can be used to prioritize SNVs associated with genetic diseases or quantify evolutionary constraint on regulatory sequences, e.g., enhancers or promoters. More specifically, if a non-coding site is under negative selection, it will be less likely to have a substitution or SNV in the human lineage. In addition, even if we see a SNV at the site, it will tend to segregate at low frequency because of selection. See (Huang et al, Nat Genet 2017). UK Biobank depletion rank score (hg38 only): Halldorsson et al. tabulated the number of UK Biobank variants in each 500bp window of the genome and compared this number to an expected number given the heptamer nucleotide composition of the window and the fraction of heptamers with a sequence variant across the genome and their mutational classes. A variant depletion score was computed for every overlapping set of 500-bp windows in the genome with a 50-bp step size. They then assigned a rank (depletion rank (DR)) from 0 (most depletion) to 100 (least depletion) for each 500-bp window. Since the windows are overlapping, we plot the value only in the central 50bp of the 500bp window, following advice from the author of the score, Hakon Jonsson, deCODE Genetics. He suggested that the value of the central window, rather than the worst possible score of all overlapping windows, is the most informative for a position. This score covers almost the entire genome, only very few regions were excluded, where the genome sequence had too many gap characters. Display Conventions and Configuration JARVIS JARVIS scores are shown as a signal ("wiggle") track, with one score per genome position. Mousing over the bars displays the exact values. The scores were downloaded and converted to a single bigWig file. Move the mouse over the bars to display the exact values. A horizontal line is shown at the 0.733 value which signifies the 90th percentile. See hg19 makeDoc and hg38 makeDoc. Interpretation: The authors offer a suggested guideline of > 0.9998 for identifying higher confidence calls and minimizing false positives. In addition to that strict threshold, the following two more relaxed cutoffs can be used to explore additional hits. Note that these thresholds are offered as guidelines and are not necessarily representative of pathogenicity. PercentileJARVIS score threshold 99th0.9998 95th0.9826 90th0.7338 HMC HMC scores are displayed as a signal ("wiggle") track, with one score per genome position. Mousing over the bars displays the exact values. The highly-constrained cutoff of 0.8 is indicated with a line. Interpretation: A protein residue with HMC score &lt;1 indicates that missense variants affecting the homologous residues are significantly under negative selection (P-value &lt; 0.05) and likely to be deleterious. A more stringent score threshold of HMC&lt;0.8 is recommended to prioritize predicted disease-associated variants. MetaDome MetaDome data can be found on two tracks, MetaDome and MetaDome All Data. The MetaDome track should be used by default for data exploration. In this track the raw data containing the MetaDome tolerance scores were converted into a signal ("wiggle") track. Since this data was computed on the proteome, there was a small amount of coordinate overlap, roughly 0.42%. In these regions the lowest possible score was chosen for display in the track to maintain sensitivity. For this reason, if a protein variant is being evaluated, the MetaDome All Data track can be used to validate the score. More information on this data can be found in the MetaDome FAQ. Interpretation: The authors suggest the following guidelines for evaluating intolerance. By default, the MetaDome track displays a horizontal line at 0.7 which signifies the first intolerant bin. For more information see the MetaDome publication. ClassificationMetaDome Tolerance Score Highly intolerant&le; 0.175 Intolerant&le; 0.525 Slightly intolerant&le; 0.7 MTR MTR data can be found on two tracks, MTR All data and MTR Scores. In the MTR Scores track the data has been converted into 4 separate signal tracks representing each base pair mutation, with the lowest possible score shown when multiple transcripts overlap at a position. Overlaps can happen since this score is derived from transcripts and multiple transcripts can overlap. A horizontal line is drawn on the 0.8 score line to roughly represent the 25th percentile, meaning the items below may be of particular interest. It is recommended that the data be explored using this version of the track, as it condenses the information substantially while retaining the magnitude of the data. Any specific point mutations of interest can then be researched in the MTR All data track. This track contains all of the information from MTRV2 including more than 3 possible scores per base when transcripts overlap. A mouse-over on this track shows the ref and alt allele, as well as the MTR score and the MTR score percentile. Filters are available for MTR score, False Discovery Rate (FDR), MTR percentile, and variant consequence. By default, only items in the bottom 25 percentile are shown. Items in the track are colored according to their MTR percentile: Green items MTR percentiles over 75 Black items MTR percentiles between 25 and 75 Red items MTR percentiles below 25 Blue items No MTR score Interpretation: Regions with low MTR scores were seen to be enriched with pathogenic variants. For example, ClinVar pathogenic variants were seen to have an average score of 0.77 whereas ClinVar benign variants had an average score of 0.92. Further validation using the FATHMM cancer-associated training dataset saw that scores less than 0.5 contained 8.6% of the pathogenic variants while only containing 0.9% of neutral variants. In summary, lower scores are more likely to represent pathogenic variants whereas higher scores could be pathogenic, but have a higher chance to be a false positive. For more information see the MTR-Viewer publication. Methods JARVIS Scores were downloaded and converted to a single bigWig file. See the hg19 makeDoc and the hg38 makeDoc for more info. HMC Scores were downloaded and converted to .bedGraph files with a custom Python script. The bedGraph files were then converted to bigWig files, as documented in our makeDoc hg19 build log. MetaDome The authors provided a bed file containing codon coordinates along with the scores. This file was parsed with a python script to create the two tracks. For the first track the scores were aggregated for each coordinate, then the lowest score chosen for any overlaps and the result written out to bedGraph format. The file was then converted to bigWig with the bedGraphToBigWig utility. For the second track the file was reorganized into a bed 4+3 and conveted to bigBed with the bedToBigBed utility. See the hg19 makeDoc for details including the build script. The raw MetaDome data can also be accessed via their Zenodo handle. MTR V2 file was downloaded and columns were reshuffled as well as itemRgb added for the MTR All data track. For the MTR Scores track the file was parsed with a python script to pull out the highest possible MTR score for each of the 3 possible mutations at each base pair and 4 tracks built out of these values representing each mutation. See the hg19 makeDoc entry on MTR for more info. Data Access The raw data can be explored interactively with the Table Browser, or the Data Integrator. For automated access, this track, like all others, is available via our API. However, for bulk processing, it is recommended to download the dataset. For automated download and analysis, the genome annotation is stored at UCSC in bigWig and bigBed files that can be downloaded from our download server. Individual regions or the whole genome annotation can be obtained using our tools bigWigToWig or bigBedToBed which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tools can also be used to obtain features confined to a given range, e.g., bigWigToBedGraph -chrom=chr1 -start=100000 -end=100500 http://hgdownload.soe.ucsc.edu/gbdb/hg38/hmc/hmc.bw stdout Please refer to our Data Access FAQ for more information. Credits Thanks to Jean-Madeleine Desainteagathe (APHP Paris, France) for suggesting the JARVIS, MTR, HMC tracks. Thanks to Xialei Zhang for providing the HMC data file and to Dimitrios Vitsios and Slave Petrovski for helping clean up the hg38 JARVIS files for providing guidance on interpretation. Additional thanks to Laurens van de Wiel for providing the MetaDome data as well as guidance on the track development and interpretation. References Vitsios D, Dhindsa RS, Middleton L, Gussow AB, Petrovski S. Prioritizing non-coding regions based on human genomic constraint and sequence context with deep learning. Nat Commun. 2021 Mar 8;12(1):1504. PMID: 33686085; PMC: PMC7940646 Xiaolei Zhang, Pantazis I. Theotokis, Nicholas Li, the SHaRe Investigators, Caroline F. Wright, Kaitlin E. Samocha, Nicola Whiffin, James S. Ware Genetic constraint at single amino acid resolution improves missense variant prioritisation and gene discovery. Medrxiv 2022.02.16.22271023 Wiel L, Baakman C, Gilissen D, Veltman JA, Vriend G, Gilissen C. MetaDome: Pathogenicity analysis of genetic variants through aggregation of homologous human protein domains. Hum Mutat. 2019 Aug;40(8):1030-1038. PMID: 31116477; PMC: PMC6772141 Silk M, Petrovski S, Ascher DB. MTR-Viewer: identifying regions within genes under purifying selection. Nucleic Acids Res. 2019 Jul 2;47(W1):W121-W126. PMID: 31170280; PMC: PMC6602522 Halldorsson BV, Eggertsson HP, Moore KHS, Hauswedell H, Eiriksson O, Ulfarsson MO, Palsson G, Hardarson MT, Oddsson A, Jensson BO et al. The sequences of 150,119 genomes in the UK Biobank. Nature. 2022 Jul;607(7920):732-740. PMID: 35859178; PMC: PMC9329122 Huang YF, Gulko B, Siepel A. Fast, scalable prediction of deleterious noncoding variants from functional and population genomic data. Nat Genet. 2017 Apr;49(4):618-624. PMID: 28288115; PMC: PMC5395419 
mavedb_align_composite MaveDB Alignments MaveDB Experiment Sequence Alignments Expression Description This track displays alignments of the tested gene sequences for experiments in MaveDB (see the accompanying heatmap track for more details). Please note that only a subset of MaveDB experiments could be displayed as heatmaps; the sequence alignments in this track only cover those experiments. Display Conventions There are two subtracks - one for alignments of DNA sequences and one for peptide sequences. For convenience, the subtracks are set by default to only appear when an alignment appears in the current view window. The DNA subtrack is also configured to highlight base differences from the reference genome. Due to the alignment method, this highlighting is currently unavailable for the peptide alignments. Methods Sequences from MaveDB experiments were aligned using BLAT. DNA sequences went through two processes. First they were aligned directly to the genome. Second they were aligned directly to GENCODE transcripts, and the resulting alignments were projected onto the genome using pslMap (the former method is more likely to capture intronic matches, while the latter does a better job of capturing the expected exon boundaries). The two alignment sets were then combined and filtered for overlap with the mapped loci of the corresponding heatmaps, and the best alignments were selected for presentation. Two DNA sequences (for 00000002-a-2 and 00000053-a-2) weren't sufficiently identical for this process to find a good alignment; in those cases, the sequences were instead aligned using BLAT's translated alignment flags. Peptide sequences went solely through the GENCODE-pslMap path. Data Access Direct access to the data files for these experiments can be obtained from MaveDB. References Rubin AF, Stone J, Bianchi AH, Capodanno BJ, Da EY, Dias M, Esposito D, Frazer J, Fu Y, Grindstaff SB et al. MaveDB 2024: a curated community database with over seven million variant effects from multiplexed functional assays. Genome Biol. 2025 Jan 21;26(1):13. PMID: 39838450; PMC: PMC11753097 
mavedb MaveDB Experiments Heatmaps and Alignment for MaveDB Expression Description This supertrack provides heatmaps of multiplexed assays of variant effects (MAVE) from MaveDB. Each heatmap presents the results of an experiment where many small substitutions were tested within a gene to examine their functional consequences. Accompanying tracks display alignments of each experiment sequence to the genome. Data Access Direct access to the data files for these experiments can be obtained from MaveDB. References Rubin AF, Stone J, Bianchi AH, Capodanno BJ, Da EY, Dias M, Esposito D, Frazer J, Fu Y, Grindstaff SB et al. MaveDB 2024: a curated community database with over seven million variant effects from multiplexed functional assays. Genome Biol. 2025 Jan 21;26(1):13. PMID: 39838450; PMC: PMC11753097 
mavedb_align_dna MaveDB DNA Align Reference-Aligned DNA Sequences from MaveDB Experiments Expression 
mavedb_align_aa MaveDB AA Align Reference-Aligned AA Sequences from MaveDB Experiments Expression 
mexbb Mexico Biobank, 6k Array Phased Variants: Mexico Biobank 6k Array Variation Description This tracks contains variants of individual genotypes, usually phased, from the projects Human Diversity Genome Project, Simons Genome Diversity Project, gnomad's HGDP+1000 Genomes callset, and the Mexico Biobank. The original release of 1000 Genomes has its own, separate track. Projects where the released variants are not phased can be found in the container track "Variant Frequencies". Available on hg19 and hg38: Mexico Biobank (MXB): This track displays phased alleles from the Mexico Biobank Project (MXB), based on array genotyping of 6,011 individuals sampled across all 32 states of Mexico during the 2000 National Health Survey (ENSA 2000) conducted by the National Institute of Public Health (INSP). Frequencies can be plotted onto a map on MexVar. The hg38 track was lifted from hg19. Simons Genome Diversity Project (SGDP): Funded by the Simons Foundation, the Simons Genome Diversity Project is a large-scale effort that sequenced high-coverage genomes from 300 individuals (279 in this track) representing 142 diverse and often indigenous populations worldwide. Its goal was to capture the full range of human genetic diversity to better understand population history, migration, and adaptation. It is sampling populations in a way that represents as much anthropological, linguistic and cultural diversity as possible, and thus includes many deeply divergent human populations that are not well represented in other datasets. SGDP emphasizes breadth of global representation and population history, whereas HGDP emphasizes continuity and comparability across major population groups. Not all iits data is public, so this track contains only 279 genomes. For details, see (Mallick et al, Nature 2016). The hg38 track was lifted from hg19. Available only on hg38: Human Genome Diversity Project (HGDP): 929 high-coverage genome sequences from 54 diverse human populations, 26 of which are physically phased using linked-read sequencing. The Human Genome Diversity Project (HGDP) was launched in the early 1990s to study the genetic variation and evolutionary history of modern humans across global populations. Its goal was to document the full spectrum of human genetic diversity, particularly in indigenous and geographically isolated groups, to better understand population structure, migration, adaptation, and disease susceptibility.The project collected samples from ~1,000 individuals representing over 50 populations worldwide, including groups from Africa, Europe, Asia, Oceania, and the Americas. These data have become a foundational reference for population genetics and human evolution studies. Data can be downloaded from the Sanger Website. For details, see (Bergstr&ouml;m et al, Science 2020). gnomAD HGDP and 1000 Genomes callset: A reprocessed version by the gnomAD project for the 1000 Genomes and Human Genome Diversity Project (HGDP) data, with 4094 genomes from 80 populations. We already have separate, older tracks for 1000 Genomes on the main hg38 browser and for HGDP, just above. This track combines both datasets, with harmonized data quality. For details, see (Koenig et al, 2024). Display Conventions Full haplotype display: In &quot;pack&quot; mode, this track sorts the haplotypes. This can be useful for determining the similarity between the samples and inferring inheritance at a particular locus. Each sample's phased and/or homozygous genotypes are split into haplotypes, clustered by similarity around a central variant (in pink), and sorted for display by their position in the clustering tree. Click a variant to center on it. The tree (as space allows) is drawn in the label area next to the track image. Leaf clusters, in which all haplotypes are identical (at least for the variants used in clustering), are colored purple. For a full description of how the display works, please see our Haplotype Display help page. Data Access MXB: Allele frequencies by geographical state and ancestry are available via the MexVar platform. Raw genotype data are available under controlled access at the EGA (Study: EGAS00001005797; Dataset: EGAD00010002361). For the VCFs, email andres.moreno@cinvestav.mx. Methods SGDP: The version used was https://sharehost.hms.harvard.edu/genetics/reich_lab/sgdp/vcf_variants/, merged with bcftools and lifted to hg38 with CrossMap. Credits MXB: We thank the Center for Research and Advanced Studies (Cinvestav) of Mexico for generating and providing the frequency data, the National Institute of Medical Sciences and Nutrition (INCMNSZ) for DNA extraction, and the Ministry of Health together with the National Institute of Public Health (INSP) for the design and implementation of the National Health Survey 2000 (ENSA 2000). We also thank the ENSA-Genomics Consortium for their contributions to sample collection and data processing that made possible the construction of the MXB genomic resource. SGDP: This project was funded by the Simons Foundation. Thanks to David Reich and Swapan Mallick for help with importing the data. References Barberena-Jonas C, Medina-Mu&ntilde;oz SG, Cedillo-Castel&aacute;n V, Sep&uacute;lveda-Morales T, Gonzaga-J&aacute;uregui C, ENSA Genomics Consortium, Garc&iacute;a-Garc&iacute;a L, Ioannidis AG, Moreno-Estrada A. Clinical genetic variation across Hispanic populations in the Mexican Biobank. Nat Med. 2026 Jan 21;. DOI: 10.1038/s41591-025-04100-z; PMID: 41566040 Sohail M, Moreno-Estrada A. The Mexican Biobank Project promotes genetic discovery, inclusive science and local capacity building. Dis Model Mech. 2024 Jan 1;17(1). PMID: 38299665; PMC: PMC10855211 Sohail M, Palma-Mart&iacute;nez MJ, Chong AY, Quinto-Cor&eacute;s CD, Barberena-Jonas C, Medina-Mu&ntilde;oz SG, Ragsdale A, Delgado-S&aacute;nchez G, Cruz-Hervert LP, Ferreyra-Reyes L et al. Mexican Biobank advances population and medical genomics of diverse ancestries. Nature. 2023 Oct;622(7984):775-783. PMID: 37821706; PMC: PMC10600006 Bergstr&ouml;m A, McCarthy SA, Hui R, Almarri MA, Ayub Q, Danecek P, Chen Y, Felkel S, Hallast P, Kamm J et al. Insights into human genetic variation and population history from 929 diverse genomes. Science. 2020 Mar 20;367(6484). PMID: 32193295; PMC: PMC7115999 Koenig Z, Yohannes MT, Nkambule LL, Zhao X, Goodrich JK, Kim HA, Wilson MW, Tiao G, Hao SP, Sahakian N et al. A harmonized public resource of deeply sequenced diverse human genomes. Genome Res. 2024 Jun 25;34(5):796-809. PMID: 38749656; PMC: PMC11216312 Mallick S, Li H, Lipson M, Mathieson I, Gymrek M, Racimo F, Zhao M, Chennagiri N, Nordenfelt S, Tandon A et al. The Simons Genome Diversity Project: 300 genomes from 142 diverse populations. Nature. 2016 Oct 13;538(7624):201-206. PMID: 27654912; PMC: PMC5161557 
phasedVars Phased Variants Phased Variants from various sequencing projects Variation Description This tracks contains variants of individual genotypes, usually phased, from the projects Human Diversity Genome Project, Simons Genome Diversity Project, gnomad's HGDP+1000 Genomes callset, and the Mexico Biobank. The original release of 1000 Genomes has its own, separate track. Projects where the released variants are not phased can be found in the container track "Variant Frequencies". Available on hg19 and hg38: Mexico Biobank (MXB): This track displays phased alleles from the Mexico Biobank Project (MXB), based on array genotyping of 6,011 individuals sampled across all 32 states of Mexico during the 2000 National Health Survey (ENSA 2000) conducted by the National Institute of Public Health (INSP). Frequencies can be plotted onto a map on MexVar. The hg38 track was lifted from hg19. Simons Genome Diversity Project (SGDP): Funded by the Simons Foundation, the Simons Genome Diversity Project is a large-scale effort that sequenced high-coverage genomes from 300 individuals (279 in this track) representing 142 diverse and often indigenous populations worldwide. Its goal was to capture the full range of human genetic diversity to better understand population history, migration, and adaptation. It is sampling populations in a way that represents as much anthropological, linguistic and cultural diversity as possible, and thus includes many deeply divergent human populations that are not well represented in other datasets. SGDP emphasizes breadth of global representation and population history, whereas HGDP emphasizes continuity and comparability across major population groups. Not all iits data is public, so this track contains only 279 genomes. For details, see (Mallick et al, Nature 2016). The hg38 track was lifted from hg19. Available only on hg38: Human Genome Diversity Project (HGDP): 929 high-coverage genome sequences from 54 diverse human populations, 26 of which are physically phased using linked-read sequencing. The Human Genome Diversity Project (HGDP) was launched in the early 1990s to study the genetic variation and evolutionary history of modern humans across global populations. Its goal was to document the full spectrum of human genetic diversity, particularly in indigenous and geographically isolated groups, to better understand population structure, migration, adaptation, and disease susceptibility.The project collected samples from ~1,000 individuals representing over 50 populations worldwide, including groups from Africa, Europe, Asia, Oceania, and the Americas. These data have become a foundational reference for population genetics and human evolution studies. Data can be downloaded from the Sanger Website. For details, see (Bergstr&ouml;m et al, Science 2020). gnomAD HGDP and 1000 Genomes callset: A reprocessed version by the gnomAD project for the 1000 Genomes and Human Genome Diversity Project (HGDP) data, with 4094 genomes from 80 populations. We already have separate, older tracks for 1000 Genomes on the main hg38 browser and for HGDP, just above. This track combines both datasets, with harmonized data quality. For details, see (Koenig et al, 2024). Display Conventions Full haplotype display: In &quot;pack&quot; mode, this track sorts the haplotypes. This can be useful for determining the similarity between the samples and inferring inheritance at a particular locus. Each sample's phased and/or homozygous genotypes are split into haplotypes, clustered by similarity around a central variant (in pink), and sorted for display by their position in the clustering tree. Click a variant to center on it. The tree (as space allows) is drawn in the label area next to the track image. Leaf clusters, in which all haplotypes are identical (at least for the variants used in clustering), are colored purple. For a full description of how the display works, please see our Haplotype Display help page. Data Access MXB: Allele frequencies by geographical state and ancestry are available via the MexVar platform. Raw genotype data are available under controlled access at the EGA (Study: EGAS00001005797; Dataset: EGAD00010002361). For the VCFs, email andres.moreno@cinvestav.mx. Methods SGDP: The version used was https://sharehost.hms.harvard.edu/genetics/reich_lab/sgdp/vcf_variants/, merged with bcftools and lifted to hg38 with CrossMap. Credits MXB: We thank the Center for Research and Advanced Studies (Cinvestav) of Mexico for generating and providing the frequency data, the National Institute of Medical Sciences and Nutrition (INCMNSZ) for DNA extraction, and the Ministry of Health together with the National Institute of Public Health (INSP) for the design and implementation of the National Health Survey 2000 (ENSA 2000). We also thank the ENSA-Genomics Consortium for their contributions to sample collection and data processing that made possible the construction of the MXB genomic resource. SGDP: This project was funded by the Simons Foundation. Thanks to David Reich and Swapan Mallick for help with importing the data. References Barberena-Jonas C, Medina-Mu&ntilde;oz SG, Cedillo-Castel&aacute;n V, Sep&uacute;lveda-Morales T, Gonzaga-J&aacute;uregui C, ENSA Genomics Consortium, Garc&iacute;a-Garc&iacute;a L, Ioannidis AG, Moreno-Estrada A. Clinical genetic variation across Hispanic populations in the Mexican Biobank. Nat Med. 2026 Jan 21;. DOI: 10.1038/s41591-025-04100-z; PMID: 41566040 Sohail M, Moreno-Estrada A. The Mexican Biobank Project promotes genetic discovery, inclusive science and local capacity building. Dis Model Mech. 2024 Jan 1;17(1). PMID: 38299665; PMC: PMC10855211 Sohail M, Palma-Mart&iacute;nez MJ, Chong AY, Quinto-Cor&eacute;s CD, Barberena-Jonas C, Medina-Mu&ntilde;oz SG, Ragsdale A, Delgado-S&aacute;nchez G, Cruz-Hervert LP, Ferreyra-Reyes L et al. Mexican Biobank advances population and medical genomics of diverse ancestries. Nature. 2023 Oct;622(7984):775-783. PMID: 37821706; PMC: PMC10600006 Bergstr&ouml;m A, McCarthy SA, Hui R, Almarri MA, Ayub Q, Danecek P, Chen Y, Felkel S, Hallast P, Kamm J et al. Insights into human genetic variation and population history from 929 diverse genomes. Science. 2020 Mar 20;367(6484). PMID: 32193295; PMC: PMC7115999 Koenig Z, Yohannes MT, Nkambule LL, Zhao X, Goodrich JK, Kim HA, Wilson MW, Tiao G, Hao SP, Sahakian N et al. A harmonized public resource of deeply sequenced diverse human genomes. Genome Res. 2024 Jun 25;34(5):796-809. PMID: 38749656; PMC: PMC11216312 Mallick S, Li H, Lipson M, Mathieson I, Gymrek M, Racimo F, Zhao M, Chennagiri N, Nordenfelt S, Tandon A et al. The Simons Genome Diversity Project: 300 genomes from 142 diverse populations. Nature. 2016 Oct 13;538(7624):201-206. PMID: 27654912; PMC: PMC5161557 
mprabase MPRA Base MPRAs: MPRA Base Enhancer Elements Regulation Description Massively Parallel Reporter Assays (MPRAs) and related methods such as STARR-seq enable quantitative testing of thousands of candidate regulatory DNA sequences in parallel by linking each sequence to a reporter gene and measuring transcriptional output using sequencing. The MPRA Base track shows 40,938 experimentally tested cis-regulatory elements curated from the MPRA Base database (Zhao et al., 2023), drawn from MPRA, STARR-seq, and related reporter assay experiments. The database integrates data from multiple studies, assay platforms (lentiMPRA, plasmidMPRA, STARR-seq, CRE-seq, and others), and cell types while preserving experiment-level resolution. Only elements derived from genomic fragments that can be mapped to the reference genome are included; synthetic or designed oligonucleotide libraries without genomic coordinates are excluded. The track is a curated union of study-specific libraries rather than a uniform genome-wide enhancer catalog: each contributing study targeted a distinct set of candidate regions, including HepG2 liver-enhancer panels, melanoma GWAS variants, human/mouse pluripotent TSSs, and ASD-associated promoter variants. Each item represents one experimental measurement, not a full enhancer; longer regulatory elements may be represented by multiple adjacent tiles. Item width corresponds to the assayed DNA fragment for tile-based studies (most items, 144&ndash;200 bp; some Klein et al., 2020 elements 354&ndash;678 bp) but collapses to a single base for variant-centered studies that mark the SNP location rather than the surrounding tested window (Choi et al., 2020). Note on cell lines: The cell line shown for each element is the reporter cell line in which the genomic fragment was assayed. Most rows test human DNA in human cells; the exception is Mattioli et al., 2020, where mESC rows assay the mouse orthologous sequence in mouse cells, with hg38 coordinates derived from the human ortholog by liftOver. The biological context of each cell line is summarized below: Cell lineBiological context HepG2Hepatocellular carcinoma; liver enhancer studies HUES64Human embryonic stem cells; pluripotent mESCMouse embryonic stem cells; pluripotent NPCH1-derived neural progenitor cells; developing brain HEK293FTEmbryonic kidney; high-transfection-efficiency reference UACC903Melanoma cell line Display Conventions Each item represents a genomic fragment tested within a specific experiment, defined as a unique combination of cell line, assay type, and publication (PMID). The same genomic region may appear multiple times if tested in different experiments. Items are colored by percentile rank of the mean raw activity score within each experiment: Blue &mdash; percentile &lt; 50 Orange &mdash; percentile 50&ndash;74 Red &mdash; percentile &ge; 75 The mouse-over shows the cell line, assay type, raw activity score, percentile rank, and citation for each element. The details page additionally shows the variant allele type for each row (reference or alternate for a row that is part of a variant comparison, NA for a standard enhancer element that is not a variant test) and the tested oligo sequence &mdash; the exact DNA fragment assayed in the MPRA experiment. Interpreting the raw score For most studies in this track, the raw score is the log2 ratio of reporter RNA to input DNA from the source experiment. A score of 0 means the fragment produced RNA in proportion to the input plasmid copies (no measurable activity above baseline), positive scores indicate the fragment drove the reporter above baseline (enhancer-like activity in the assay), and negative scores indicate sub-baseline output (treated as inactive, not as validated transcriptional repression). Linear fold change relative to baseline is approximately 2raw_score &mdash; for example, a raw score of 0.18 corresponds to roughly 1.13&times; baseline output, 1.0 to 2&times;, and 2.0 to 4&times;. Two studies use a different scale: Mattioli et al., 2020 and Koesterich et al., 2023 report the MPRAnalyze induced-transcription rate (&alpha;), which is a positive-only quantity not directly convertible to a fold change. As noted in the Methods section, scoring methodology and the threshold used to call an element "active" differ between studies, so the percentile rank reflects within-experiment ranking only and does not by itself indicate the absolute strength of an element. Methods Within each experiment, replicate measurements for the same genomic fragment were aggregated by computing the mean raw activity score, yielding 40,938 unique experiment-level genomic elements. Elements are ranked by mean raw activity score independently within each experiment, and a percentile rank (0&ndash;100) is computed per experiment to avoid cross-study distortions caused by differing assay dynamic ranges. Scoring methodology and the threshold used to call an element &quot;active&quot; differ between studies, so percentile-rank comparisons across experiments are approximate. Lower scores indicate that the fragment did not measurably activate transcription in the assay, rather than that it actively represses transcription. For any element of interest, users should consult the source publication for the original significance and effect-size calls. Original genomic coordinates from the source studies (mostly hg19, with some mm9 and mm10) were lifted to hg38 by the MPRA Base pipeline using the UCSC liftOver tool. Experiments The following table lists the experiments represented in this track. PMID Author Year Lab Cell type Assay Elements 27831498Inoue et al.2017Shendure LabHepG2lentiMPRA2,241 30045748Klein et al.2018Shendure LabHepG2STARR-seq6,728 32483191Choi et al.2020Brown LabHEK293FTlentiMPRA840 32483191Choi et al.2020Brown LabUACC903lentiMPRA840 32819422Mattioli et al.2020Mele LabHUES64plasmidMPRA6,954 32819422Mattioli et al.2020Mele LabmESCplasmidMPRA6,954 33046894Klein et al.2020Shendure LabHepG2lentiMPRA8,116 33046894Klein et al.2020Shendure LabHepG2plasmidMPRA2,228 33046894Klein et al.2020Shendure LabHepG2STARR-seq2,230 36834916Koesterich et al.2023Kreimer LabNPClentiMPRA3,807 Data Access The data can be explored interactively in table format with the Table Browser or the Data Integrator and exported from there to spreadsheet or tab-sep tables. From scripts, the data can be accessed through our API, track=mprabase. For automated download and analysis, the genome annotation is stored in a bigBed file that can be downloaded from our download server. The file for this track is called mprabase.bb. Individual regions or the whole genome annotation can be obtained using our tool bigBedToBed, which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tool can also be used to obtain features within a given range, e.g. bigBedToBed http://hgdownload.soe.ucsc.edu/gbdb/hg38/mpra/mprabase/mprabase.bb -chrom=chr21 -start=0 -end=100000000 stdout The original data can be downloaded from the MPRA Base web application. Credits Thanks to Varda Singhal, Jianyu Zhao, and the Ahituv Lab at the University of California San Francisco for creating and curating MPRA Base and for creating this track. References Choi J, Zhang T, Vu A, Ablain J, Makowski MM, Colli LM, Xu M, Hennessey RC, Yin J, Rothschild H et al. Massively parallel reporter assays of melanoma risk variants identify MX2 as a gene promoting melanoma. Nat Commun. 2020 Jun 1;11(1):2718. PMID: 32483191; PMC: PMC7264232 Inoue F, Kircher M, Martin B, Cooper GM, Witten DM, McManus MT, Ahituv N, Shendure J. A systematic comparison reveals substantial differences in chromosomal versus episomal encoding of enhancer activity. Genome Res. 2017 Jan;27(1):38-52. PMID: 27831498; PMC: PMC5204343 Klein JC, Keith A, Agarwal V, Durham T, Shendure J. Functional characterization of enhancer evolution in the primate lineage. Genome Biol. 2018 Jul 25;19(1):99. PMID: 30045748; PMC: PMC6060477 Klein JC, Agarwal V, Inoue F, Keith A, Martin B, Kircher M, Ahituv N, Shendure J. A systematic evaluation of the design and context dependencies of massively parallel reporter assays. Nat Methods. 2020 Nov;17(11):1083-1091. PMID: 33046894; PMC: PMC7727316 Koesterich J, An JY, Inoue F, Sohota A, Ahituv N, Sanders SJ, Kreimer A. Characterization of De Novo Promoter Variants in Autism Spectrum Disorder with Massively Parallel Reporter Assays. Int J Mol Sci. 2023 Feb 9;24(4). PMID: 36834916; PMC: PMC9959321 Mattioli K, Oliveros W, Gerhardinger C, Andergassen D, Maass PG, Rinn JL, Mel&#233; M. Cis and trans effects differentially contribute to the evolution of promoters and enhancers. Genome Biol. 2020 Aug 20;21(1):210. PMID: 32819422; PMC: PMC7439725 Zhao J, Baltoumas FA, Konnaris MA, Mouratidis I, Liu Z, Sims J, Agarwal V, Pavlopoulos GA, Georgakopoulos-Soares I, Ahituv N. MPRAbase: A Massively Parallel Reporter Assay Database. bioRxiv. 2023 Nov 22;. PMID: 38045264; PMC: PMC10690217 
mpra MPRAs Massively Parallel Reporter Assays Regulation Description Massively Parallel Reporter Assays (MPRAs) are high-throughput methods that measure the regulatory activity of thousands of candidate DNA sequences in parallel. Each fragment is cloned next to a reporter gene and tagged with a unique barcode; sequencing the resulting reporter RNA quantifies how strongly each fragment drives expression. Most assays place the candidate fragment upstream of the reporter to measure transcriptional activation; some place it in the 3' untranslated region instead, where the readout reflects post- transcriptional effects on mRNA stability, decay, or translation. When matched reference and mutated versions of a sequence are tested side-by-side, the effect of a genetic variant on regulatory activity can be measured directly. This track collection brings together results from two MPRA databases, one for the complete sequence fragments and one for the impact of variants in selected fragments: MPRA Base &mdash; 41,275 experimentally tested cis-regulatory elements curated from the MPRA Base database, which integrates MPRA, STARR-seq, and related reporter assay experiments across many cell types and conditions (Zhao et al., 2023). MPRAVarDB &mdash; 239,028 variants mapped to hg38 (of 242,818 total) from 18 MPRA studies, tested for effects on transcriptional or post-transcriptional regulatory activity across over 30 cell lines and 30 human diseases and traits (Jin et al., 2024). Note on cell lines: The cell line shown for each element or variant is the reporter cell line in which the sequence was assayed. Most rows test human DNA in human cells. Several studies used mouse cell lines (Neuro-2a, N2A, NIH/3T3, MIN6) as reporter systems for human regulatory sequences. One MPRA Base study (Mattioli et al., 2020) tested mouse orthologous sequences in mouse embryonic stem cells (mESC); those items retain hg38 coordinates, derived from the orthologous human position by liftOver. Data Access See the individual subtrack documentation pages linked above for detailed information on how to download and intersect the annotations. Credits Thanks to Weijia Jin and colleagues at the University of Florida for MPRAVarDB, and to Varda Singhal and the Ahituv Lab at the University of California San Francisco for MPRA Base. References Jin W, Xia Y, Nizomov J, Liu Y, Li Z, Lu Q, Chen L. MPRAVarDB: an online database and web server for exploring regulatory effects of genetic variants. Bioinformatics. 2024 Oct 1;40(10). PMID: 39325859; PMC: PMC11464417 Zhao J, Baltoumas FA, Konnaris MA, Mouratidis I, Liu Z, Sims J, Agarwal V, Pavlopoulos GA, Georgakopoulos-Soares I, Ahituv N. MPRAbase: A Massively Parallel Reporter Assay Database. bioRxiv. 2023 Nov 22;. PMID: 38045264; PMC: PMC10690217 
omimAvSnp OMIM Alleles OMIM Allelic Variant Phenotypes Phenotypes, Variants, and Literature Description NOTE: OMIM is intended for use primarily by physicians and other professionals concerned with genetic disorders, by genetics researchers, and by advanced students in science and medicine. While the OMIM database is open to the public, users seeking information about a personal medical or genetic condition are urged to consult with a qualified physician for diagnosis and for answers to personal questions. Further, please be sure to click through to omim.org for the very latest, as they are continually updating data. NOTE ABOUT DOWNLOADS: OMIM is the property of Johns Hopkins University and is not available for download or mirroring by any third party without their permission. Please see OMIM for downloads. OMIM is a compendium of human genes and genetic phenotypes. The full-text, referenced overviews in OMIM contain information on all known Mendelian disorders and over 12,000 genes. OMIM is authored and edited at the McKusick-Nathans Institute of Genetic Medicine, Johns Hopkins University School of Medicine, under the direction of Dr. Ada Hamosh. This database was initiated in the early 1960s by Dr. Victor A. McKusick as a catalog of Mendelian traits and disorders, entitled Mendelian Inheritance in Man (MIM). The OMIM data are separated into three separate tracks: OMIM Alellic Variant Phenotypes (OMIM Alleles) &nbsp;&nbsp;&nbsp;&nbsp;Variants in the OMIM database that have associated dbSNP identifiers. OMIM Gene Phenotypes (OMIM Genes) &nbsp;&nbsp;&nbsp;&nbsp;The genomic positions of gene entries in the OMIM database. The coloring indicates the associated OMIM phenotype map key. OMIM Cytogenetic Loci Phenotypes - Gene Unknown (OMIM Cyto Loci) &nbsp;&nbsp;&nbsp;&nbsp;Regions known to be associated with a phenotype, but for which no specific gene is known to be causative. This track also includes known multi-gene syndromes. This track shows the allelic variants in the Online Mendelian Inheritance in Man (OMIM) database that have associated dbSNP identifiers. Display Conventions and Configuration Genomic positions of OMIM allelic variants are marked by solid blocks, which appear as tick marks when zoomed out. The details page for each variant displays the allelic variant description, the amino acid replacement, and the associated dbSNP and/or ClinVar identifiers with links to the variant's details at those resources. The descriptions of OMIM entries are shown on the main browser display when Full display mode is chosen. In Pack mode, the descriptions are shown when mousing over each entry. Methods This track was constructed as follows: The OMIM allelic variant data file mimAV.txt was obtained from OMIM and loaded into the MySQL table omimAv. The genomic position for each allelic variant in omimAv with an associated dbSnp identifier was obtained from the snp151 table. The OMIM AV identifiers and their corresponding genomic positions from dbSNP were then loaded into the omimAvSnp table. Data Updates This track is automatically updated once a week from OMIM data. The most recent update time is shown at the top of the track documentation page. Data Access Because OMIM has only allowed Data queries within individual chromosomes, no download files are available from the Genome Browser. Full genome datasets can be downloaded directly from the OMIM Downloads page. All genome-wide downloads are freely available from OMIM after registration. If you need the OMIM data in exactly the format of the UCSC Genome Browser, for example if you are running a UCSC Genome Browser local installation (a partial &quot;mirror&quot;), please create a user account on omim.org and contact OMIM via https://omim.org/contact. Send them your OMIM account name and request access to the UCSC Genome Browser 'entitlement'. They will then grant you access to a MySQL/MariaDB data dump that contains all UCSC Genome Browser OMIM tables. UCSC offers queries within chromosomes from Table Browser that include a variety of filtering options and cross-referencing other datasets using our Data Integrator tool. UCSC also has an API that can be used to retrieve data in JSON format from a particular chromosome range. Please refer to our searchable mailing list archives for more questions and example queries, or our Data Access FAQ for more information. Credits Thanks to OMIM and NCBI for the use of their data. This track was constructed by Fan Hsu, Robert Kuhn, and Brooke Rhead of the UCSC Genome Bioinformatics Group. References Amberger J, Bocchini CA, Scott AF, Hamosh A. McKusick's Online Mendelian Inheritance in Man (OMIM). Nucleic Acids Res. 2009 Jan;37(Database issue):D793-6. PMID: 18842627; PMC: PMC2686440 Hamosh A, Scott AF, Amberger JS, Bocchini CA, McKusick VA. Online Mendelian Inheritance in Man (OMIM), a knowledgebase of human genes and genetic disorders. Nucleic Acids Res. 2005 Jan 1;33(Database issue):D514-7. PMID: 15608251; PMC: PMC539987 
omimContainer OMIM Online Mendelian Inheritance in Man Phenotypes, Variants, and Literature OMIM is a compendium of human genes and genetic phenotypes. The full-text, referenced overviews in OMIM contain information on all known Mendelian disorders and over 12,000 genes. OMIM is authored and edited at the McKusick-Nathans Institute of Genetic Medicine, Johns Hopkins University School of Medicine, under the direction of Dr. Ada Hamosh. This database was initiated in the early 1960s by Dr. Victor A. McKusick as a catalog of Mendelian traits and disorders, entitled Mendelian Inheritance in Man (MIM). The OMIM data are separated into three separate tracks: OMIM Alellic Variant Phenotypes (OMIM Alleles) - Variants in the OMIM database that have associated dbSNP identifiers. OMIM Gene Phenotypes (OMIM Genes) - The genomic positions of gene entries in the OMIM database. The coloring indicates the associated OMIM phenotype map key. OMIM Cytogenetic Loci Phenotypes: Gene Unknown (OMIM Cyto Loci) - Regions known to be associated with a phenotype, but for which no specific gene is known to be causative. This track also includes known multi-gene syndromes. Clicking into the individual tracks provides additional information including display conventions. 
problematic Problematic Regions Problematic/special genomic regions for sequencing or very variable regions Mapping and Sequencing Description This container track helps call out sections of the genome that often cause problems or confusion when working with the genome. The hg19 genome has a track with the same name, but with more subtracks, as the GeT-RM and Genome-in-a-Bottle artifact variants do not exist for hg38. Problematic Regions The Problematic Regions track contains the following subtracks: The UCSC Unusual Regions subtrack contains annotations collected at UCSC, put together from other tracks, our experiences and support email list requests over the years. For example, it contains the most well-known gene clusters (IGH, IGL, PAR1/2, TCRA, TCRB, etc) and annotations for the GRC fixed sequences, alternate haplotypes, unplaced contigs, pseudo-autosomal regions, and mitochondria. These loci can yield alignments with low-quality mapping scores and discordant read pairs, especially for short-read sequencing data. The data set was manually curated, based on the Genome Browser's assembly description, the FAQs about assembly, and the NCBI RefSeq &quot;other&quot; annotations track data. The ENCODE Blacklist subtrack contains a comprehensive set of regions which are troublesome for high-throughput Next-Generation Sequencing (NGS) aligners. These regions tend to have a very high ratio of multi-mapping to unique mapping reads and high variance in mappability due to repetitive elements such as satellite, centromeric and telomeric repeats. The GRC Exclusions subtrack contains a set of regions that have been flagged by the GRC to contain false duplications or contamination sequences. The GRC has now removed these sequences from the files that it uses to generate the reference assembly, however, removing the sequences from the GRCh38/hg38 assembly would trigger the next major release of the human assembly. In order to help users recognize these regions and avoid them in their analyses, the GRC have produced a masking file to be used as a companion to GRCh38, and the BED file is available from the GenBank FTP site. Highly Reproducible Regions (HighRepro) The Highly Reproducible Regions track highlights regions and variants from eight samples that can be used to assess variant detection pipelines. The &quot;Highly Reproducible Regions&quot; subtrack comprises the intersection of the reproducible regions across all eight samples, while the &quot;Variants&quot; subtracks contain the reproducible variants from each assayed sample. Both tracks contain data from the following samples: a Chinese Quartet, samples CQ-5, CQ-6, CQ-7, CQ-8 a HapMap Trio, samples NA10385, NA12248, NA12249 a Genome in a Bottle sample, NA12878s Please refer to the Pan et al reference for more information on how these regions were defined. GIAB Problematic Regions The Genome in a Bottle (GIAB) Problematic Regions tracks provide stratifications of the genome to evaluate variant calls in complex regions. It is designed for use with Global Alliance for Genomic Health (GA4GH) benchmarking tools like hap.py and includes regions with low complexity, segmental duplications, functional regions, and difficult-to-sequence areas. Developed in collaboration with GA4GH, the Genome in a Bottle (GIAB) consortium, and the Telomere-to-Telomere Consortium (T2T), the dataset aims to standardize the analysis of genetic variation by offering pre-defined BED files for stratifying true and false positives in genomic studies, facilitating accurate assessments in complex areas of the genome. The creation of the GIAB Problematic Regions tracks involves using a pipeline and configuration to generate stratification BED files that categorize genomic regions based on specific challenges, such as low complexity or difficult mapping, to facilitate accurate benchmarking of variant calls. For more information on the pipeline and configuration used, please visit the following webpage: https://ftp-trace.ncbi.nlm.nih.gov/ReferenceSamples/giab/release/genome-stratifications/v3.5/README.md. If you have questions or comments, please write to Justin Zook (jzook@nist.gov). Panmask Easy 151b Regions The Panmask Easy 151b Regions subtrack contains a set of sample-agnostic easy regions where short-read variant calling reaches high accuracy. Easy regions are derived for variant filtration agnostic to individual samples. They are genomic intervals where general variant callers achieve high accuracy without sophisticated filtering. A set of easy regions for ancient DNA variant filtering was generated by selecting 35-mers that could not be mapped elsewhere within one mismatch or gap. Read alignments from multiple samples were inspected to exclude regions with excessively high or low coverage or those enriched with low mapping quality alignments. The easy regions generated through this k-mer uniqueness procedure are referred to as pm151:lenient, where &quot;pm&quot; stands for panmask. In addition, low complexity regions identified by SDUST were removed. The pm151 regions are used to filter spurious variant calls in centromeres, long repeats, and other genomic regions where short-read mapping is often problematic. They cover 88.2% of hg38, 92.2% of coding regions, and 96.3% of ClinVar pathogenic variants. The track can be used to filter variant calls for clinical or research human samples. Like the HighRepro track in this container (see above), it shows regions that are easy to sequence, not those that are problematic. The data was derived from the HPRC assemblies, and this track presents the 151b-easy panmask set. Display Conventions and Configuration Each track contains a set of regions of varying length with no special configuration options. The UCSC Unusual Regions track has a mouse-over description, all other tracks have at most a name field, which can be shown in pack mode. The tracks are usually kept in dense mode. The Hide empty subtracks control hides subtracks with no data in the browser window. Changing the browser window by zooming or scrolling may result in the display of a different selection of tracks. Data access The raw data can be explored interactively with the Table Browser or the Data Integrator. For automated download and analysis, the genome annotation is stored in bigBed files that can be downloaded from our download server. Individual regions or the whole genome annotation can be obtained using our tool bigBedToBed which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tool can also be used to obtain only features within a given range, e.g. bigBedToBed http://hgdownload.soe.ucsc.edu/gbdb/hg38/problematic/comments.bb -chrom=chr21 -start=0 -end=100000000 stdout Methods Files were downloaded from the respective databases and converted to bigBed format. The procedure is documented in our hg38 makeDoc file. Credits Thanks to Anna Benet-Pag&egrave;s, Max Haeussler, Angie Hinrichs, Daniel Schmelter, and Jairo Navarro at the UCSC Genome Browser for planning, building, and testing these tracks. The underlying data comes from the ENCODE Blacklist and some parts were copied manually from the HGNC and NCBI RefSeq tracks. References Amemiya HM, Kundaje A, Boyle AP. The ENCODE Blacklist: Identification of Problematic Regions of the Genome. Sci Rep. 2019 Jun 27;9(1):9354. PMID: 31249361; PMC: PMC6597582 Dwarshuis N, Kalra D, McDaniel J, Sanio P, Alvarez Jerez P, Jadhav B, Huang WE, Mondal R, Busby B, Olson ND et al. The GIAB genomic stratifications resource for human reference genomes. Nat Commun. 2024 Oct 19;15(1):9029. PMID: 39424793; PMC: PMC11489684 Krusche P, Trigg L, Boutros PC, Mason CE, De La Vega FM, Moore BL, Gonzalez-Porta M, Eberle MA, Tezak Z, Lababidi S et al. Best practices for benchmarking germline small-variant calls in human genomes. Nat Biotechnol. 2019 May;37(5):555-560. PMID: 30858580; PMC: PMC6699627 Li H. Finding easy regions for short-read variant calling from pangenome data. ArXiv. 2025 Aug 8;. PMID: 40799803; PMC: PMC12340882 Pan B, Ren L, Onuchic V, Guan M, Kusko R, Bruinsma S, Trigg L, Scherer A, Ning B, Zhang C et al. Assessing reproducibility of inherited variants detected with short-read whole genome sequencing. Genome Biol. 2022 Jan 3;23(1):2. PMID: 34980216; PMC: PMC8722114 
problematicSuper Problematic Regions Problematic/special genomic regions for sequencing or very variable regions Mapping and Sequencing Description This container track helps call out sections of the genome that often cause problems or confusion when working with the genome. The hg19 genome has a track with the same name, but with more subtracks, as the GeT-RM and Genome-in-a-Bottle artifact variants do not exist for hg38. Problematic Regions The Problematic Regions track contains the following subtracks: The UCSC Unusual Regions subtrack contains annotations collected at UCSC, put together from other tracks, our experiences and support email list requests over the years. For example, it contains the most well-known gene clusters (IGH, IGL, PAR1/2, TCRA, TCRB, etc) and annotations for the GRC fixed sequences, alternate haplotypes, unplaced contigs, pseudo-autosomal regions, and mitochondria. These loci can yield alignments with low-quality mapping scores and discordant read pairs, especially for short-read sequencing data. The data set was manually curated, based on the Genome Browser's assembly description, the FAQs about assembly, and the NCBI RefSeq &quot;other&quot; annotations track data. The ENCODE Blacklist subtrack contains a comprehensive set of regions which are troublesome for high-throughput Next-Generation Sequencing (NGS) aligners. These regions tend to have a very high ratio of multi-mapping to unique mapping reads and high variance in mappability due to repetitive elements such as satellite, centromeric and telomeric repeats. The GRC Exclusions subtrack contains a set of regions that have been flagged by the GRC to contain false duplications or contamination sequences. The GRC has now removed these sequences from the files that it uses to generate the reference assembly, however, removing the sequences from the GRCh38/hg38 assembly would trigger the next major release of the human assembly. In order to help users recognize these regions and avoid them in their analyses, the GRC have produced a masking file to be used as a companion to GRCh38, and the BED file is available from the GenBank FTP site. Highly Reproducible Regions (HighRepro) The Highly Reproducible Regions track highlights regions and variants from eight samples that can be used to assess variant detection pipelines. The &quot;Highly Reproducible Regions&quot; subtrack comprises the intersection of the reproducible regions across all eight samples, while the &quot;Variants&quot; subtracks contain the reproducible variants from each assayed sample. Both tracks contain data from the following samples: a Chinese Quartet, samples CQ-5, CQ-6, CQ-7, CQ-8 a HapMap Trio, samples NA10385, NA12248, NA12249 a Genome in a Bottle sample, NA12878s Please refer to the Pan et al reference for more information on how these regions were defined. GIAB Problematic Regions The Genome in a Bottle (GIAB) Problematic Regions tracks provide stratifications of the genome to evaluate variant calls in complex regions. It is designed for use with Global Alliance for Genomic Health (GA4GH) benchmarking tools like hap.py and includes regions with low complexity, segmental duplications, functional regions, and difficult-to-sequence areas. Developed in collaboration with GA4GH, the Genome in a Bottle (GIAB) consortium, and the Telomere-to-Telomere Consortium (T2T), the dataset aims to standardize the analysis of genetic variation by offering pre-defined BED files for stratifying true and false positives in genomic studies, facilitating accurate assessments in complex areas of the genome. The creation of the GIAB Problematic Regions tracks involves using a pipeline and configuration to generate stratification BED files that categorize genomic regions based on specific challenges, such as low complexity or difficult mapping, to facilitate accurate benchmarking of variant calls. For more information on the pipeline and configuration used, please visit the following webpage: https://ftp-trace.ncbi.nlm.nih.gov/ReferenceSamples/giab/release/genome-stratifications/v3.5/README.md. If you have questions or comments, please write to Justin Zook (jzook@nist.gov). Panmask Easy 151b Regions The Panmask Easy 151b Regions subtrack contains a set of sample-agnostic easy regions where short-read variant calling reaches high accuracy. Easy regions are derived for variant filtration agnostic to individual samples. They are genomic intervals where general variant callers achieve high accuracy without sophisticated filtering. A set of easy regions for ancient DNA variant filtering was generated by selecting 35-mers that could not be mapped elsewhere within one mismatch or gap. Read alignments from multiple samples were inspected to exclude regions with excessively high or low coverage or those enriched with low mapping quality alignments. The easy regions generated through this k-mer uniqueness procedure are referred to as pm151:lenient, where &quot;pm&quot; stands for panmask. In addition, low complexity regions identified by SDUST were removed. The pm151 regions are used to filter spurious variant calls in centromeres, long repeats, and other genomic regions where short-read mapping is often problematic. They cover 88.2% of hg38, 92.2% of coding regions, and 96.3% of ClinVar pathogenic variants. The track can be used to filter variant calls for clinical or research human samples. Like the HighRepro track in this container (see above), it shows regions that are easy to sequence, not those that are problematic. The data was derived from the HPRC assemblies, and this track presents the 151b-easy panmask set. Display Conventions and Configuration Each track contains a set of regions of varying length with no special configuration options. The UCSC Unusual Regions track has a mouse-over description, all other tracks have at most a name field, which can be shown in pack mode. The tracks are usually kept in dense mode. The Hide empty subtracks control hides subtracks with no data in the browser window. Changing the browser window by zooming or scrolling may result in the display of a different selection of tracks. Data access The raw data can be explored interactively with the Table Browser or the Data Integrator. For automated download and analysis, the genome annotation is stored in bigBed files that can be downloaded from our download server. Individual regions or the whole genome annotation can be obtained using our tool bigBedToBed which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tool can also be used to obtain only features within a given range, e.g. bigBedToBed http://hgdownload.soe.ucsc.edu/gbdb/hg38/problematic/comments.bb -chrom=chr21 -start=0 -end=100000000 stdout Methods Files were downloaded from the respective databases and converted to bigBed format. The procedure is documented in our hg38 makeDoc file. Credits Thanks to Anna Benet-Pag&egrave;s, Max Haeussler, Angie Hinrichs, Daniel Schmelter, and Jairo Navarro at the UCSC Genome Browser for planning, building, and testing these tracks. The underlying data comes from the ENCODE Blacklist and some parts were copied manually from the HGNC and NCBI RefSeq tracks. References Amemiya HM, Kundaje A, Boyle AP. The ENCODE Blacklist: Identification of Problematic Regions of the Genome. Sci Rep. 2019 Jun 27;9(1):9354. PMID: 31249361; PMC: PMC6597582 Dwarshuis N, Kalra D, McDaniel J, Sanio P, Alvarez Jerez P, Jadhav B, Huang WE, Mondal R, Busby B, Olson ND et al. The GIAB genomic stratifications resource for human reference genomes. Nat Commun. 2024 Oct 19;15(1):9029. PMID: 39424793; PMC: PMC11489684 Krusche P, Trigg L, Boutros PC, Mason CE, De La Vega FM, Moore BL, Gonzalez-Porta M, Eberle MA, Tezak Z, Lababidi S et al. Best practices for benchmarking germline small-variant calls in human genomes. Nat Biotechnol. 2019 May;37(5):555-560. PMID: 30858580; PMC: PMC6699627 Li H. Finding easy regions for short-read variant calling from pangenome data. ArXiv. 2025 Aug 8;. PMID: 40799803; PMC: PMC12340882 Pan B, Ren L, Onuchic V, Guan M, Kusko R, Bruinsma S, Trigg L, Scherer A, Ning B, Zhang C et al. Assessing reproducibility of inherited variants detected with short-read whole genome sequencing. Genome Biol. 2022 Jan 3;23(1):2. PMID: 34980216; PMC: PMC8722114 
grcExclusions GRC Exclusions GRC Exclusion list: contaminations or false duplications Mapping and Sequencing 
encBlacklist ENCODE Blacklist V2 ENCODE Blacklist V2 Mapping and Sequencing 
comments UCSC Unusual Regions UCSC unusual regions on assembly structure (manually annotated) Mapping and Sequencing 
recombAvg Recomb. deCODE Avg Recombination rate: deCODE Genetics, average from paternal and maternal (mat for chrX) Mapping and Sequencing Description The recombination rate track represents calculated rates of recombination based on the genetic maps from deCODE (Halldorsson et al., 2019) and 1000 Genomes (2013 Phase 3 release, lifted from hg19). The deCODE map is more recent, has a higher resolution and was natively created on hg38 and therefore recommended. For the Recomb. deCODE average track, the recombination rates for chrX represent the female rate. This track also includes a subtrack with all the individual deCODE recombination events and another subtrack with several thousand de-novo mutations found in the deCODE sequencing data. These two tracks are hidden by default and have to be switched on explicitly on the configuration page. Display Conventions and Configuration This is a super track that contains different subtracks, three with the deCODE recombination rates (paternal, maternal and average) and one with the 1000 Genomes recombination rate (average). These tracks are in signal graph (wiggle) format. By default, to show most recombination hotspots, their maximum value is set to 100 cM, even though many regions have values higher than 100. The maximum value can be changed on the configuration pages of the tracks. There are two more tracks that show additional details provided by deCODE: one subtrack with the raw data of all cross-overs tagged with their proband ID and another one with around 8000 human de-novo mutation variants that are linked to cross-over changes. Methods The deCODE genetic map was created at deCODE Genetics. It is based on microarrays assaying 626,828 SNP markers that allowed to identify 1,476,140 crossovers in 56,321 paternal meioses and 3,055,395 crossovers in 70,086 maternal meioses. In total, the data is based on 4,531,535 crossovers in 126,427 meioses. By using WGS data with 9,305,070 SNPs, the boundaries for 761,981 crossovers were refined: 247,942 crossovers in 9423 paternal meioses and 514,039 crossovers in 11,750 maternal meioses. The average resolution of the genetic map is 682 base pairs (bp): 655 and 708 bp for the paternal and maternal maps, respectively. The 1000 Genomes genetic map is based on the IMPUTE genetic map based on 1000 Genomes Phase 3, on hg19 coordinates. It was converted to hg38 by Po-Ru Loh at the Broad Institute. After a run of liftOver, he post-processed the data to deal with situations in which consecutive map locations became much closer/farther after lifting. The heuristic used is sufficient for statistical phasing but may not be optimal for other analyses. For this reason, and because of its higher resolution, the DeCODE map is therefore recommended for hg38. As with all other tracks, the data conversion commands and pointers to the original data files are documented in the makeDoc file of this track. Data Access The raw data can be explored interactively with the Table Browser, or the Data Integrator. For automated access, this track, like all others, is available via our API. However, for bulk processing, it is recommended to download the dataset. For automated download and analysis, the genome annotation is stored at UCSC in bigWig and bigBed files that can be downloaded from our download server. Individual regions or the whole genome annotation can be obtained using our tools bigWigToWig or bigBedToBed which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tools can also be used to obtain features confined to a given range, e.g., bigWigToBedGraph -chrom=chr17 -start=45941345 -end=45942345 http://hgdownload.soe.ucsc.edu/gbdb/hg38/recombRate/recombAvg.bw stdout Please refer to our Data Access FAQ for more information. Credits This track was produced at UCSC using data that are freely available for the deCODE and 1000 Genomes genetic maps. Thanks to Po-Ru Loh at the Broad Institute for providing the code to lift the hg19 1000 Genomes map data to hg38. References 1000 Genomes Project Consortium., Abecasis GR, Altshuler D, Auton A, Brooks LD, Durbin RM, Gibbs RA, Hurles ME, McVean GA. A map of human genome variation from population-scale sequencing. Nature. 2010 Oct 28;467(7319):1061-73. PMID: 20981092; PMC: PMC3042601 Halldorsson BV, Palsson G, Stefansson OA, Jonsson H, Hardarson MT, Eggertsson HP, Gunnarsson B, Oddsson A, Halldorsson GH, Zink F et al. Characterizing mutagenic effects of recombination through a sequence-level genetic map. Science. 2019 Jan 25;363(6425). PMID: 30679340 
recombRate2 Recomb Rate Recombination rate: Genetic maps from deCODE and 1000 Genomes Mapping and Sequencing Description The recombination rate track represents calculated rates of recombination based on the genetic maps from deCODE (Halldorsson et al., 2019) and 1000 Genomes (2013 Phase 3 release, lifted from hg19). The deCODE map is more recent, has a higher resolution and was natively created on hg38 and therefore recommended. For the Recomb. deCODE average track, the recombination rates for chrX represent the female rate. This track also includes a subtrack with all the individual deCODE recombination events and another subtrack with several thousand de-novo mutations found in the deCODE sequencing data. These two tracks are hidden by default and have to be switched on explicitly on the configuration page. Display Conventions and Configuration This is a super track that contains different subtracks, three with the deCODE recombination rates (paternal, maternal and average) and one with the 1000 Genomes recombination rate (average). These tracks are in signal graph (wiggle) format. By default, to show most recombination hotspots, their maximum value is set to 100 cM, even though many regions have values higher than 100. The maximum value can be changed on the configuration pages of the tracks. There are two more tracks that show additional details provided by deCODE: one subtrack with the raw data of all cross-overs tagged with their proband ID and another one with around 8000 human de-novo mutation variants that are linked to cross-over changes. Methods The deCODE genetic map was created at deCODE Genetics. It is based on microarrays assaying 626,828 SNP markers that allowed to identify 1,476,140 crossovers in 56,321 paternal meioses and 3,055,395 crossovers in 70,086 maternal meioses. In total, the data is based on 4,531,535 crossovers in 126,427 meioses. By using WGS data with 9,305,070 SNPs, the boundaries for 761,981 crossovers were refined: 247,942 crossovers in 9423 paternal meioses and 514,039 crossovers in 11,750 maternal meioses. The average resolution of the genetic map is 682 base pairs (bp): 655 and 708 bp for the paternal and maternal maps, respectively. The 1000 Genomes genetic map is based on the IMPUTE genetic map based on 1000 Genomes Phase 3, on hg19 coordinates. It was converted to hg38 by Po-Ru Loh at the Broad Institute. After a run of liftOver, he post-processed the data to deal with situations in which consecutive map locations became much closer/farther after lifting. The heuristic used is sufficient for statistical phasing but may not be optimal for other analyses. For this reason, and because of its higher resolution, the DeCODE map is therefore recommended for hg38. As with all other tracks, the data conversion commands and pointers to the original data files are documented in the makeDoc file of this track. Data Access The raw data can be explored interactively with the Table Browser, or the Data Integrator. For automated access, this track, like all others, is available via our API. However, for bulk processing, it is recommended to download the dataset. For automated download and analysis, the genome annotation is stored at UCSC in bigWig and bigBed files that can be downloaded from our download server. Individual regions or the whole genome annotation can be obtained using our tools bigWigToWig or bigBedToBed which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tools can also be used to obtain features confined to a given range, e.g., bigWigToBedGraph -chrom=chr17 -start=45941345 -end=45942345 http://hgdownload.soe.ucsc.edu/gbdb/hg38/recombRate/recombAvg.bw stdout Please refer to our Data Access FAQ for more information. Credits This track was produced at UCSC using data that are freely available for the deCODE and 1000 Genomes genetic maps. Thanks to Po-Ru Loh at the Broad Institute for providing the code to lift the hg19 1000 Genomes map data to hg38. References 1000 Genomes Project Consortium., Abecasis GR, Altshuler D, Auton A, Brooks LD, Durbin RM, Gibbs RA, Hurles ME, McVean GA. A map of human genome variation from population-scale sequencing. Nature. 2010 Oct 28;467(7319):1061-73. PMID: 20981092; PMC: PMC3042601 Halldorsson BV, Palsson G, Stefansson OA, Jonsson H, Hardarson MT, Eggertsson HP, Gunnarsson B, Oddsson A, Halldorsson GH, Zink F et al. Characterizing mutagenic effects of recombination through a sequence-level genetic map. Science. 2019 Jan 25;363(6425). PMID: 30679340 
rmsk RepeatMasker Repeating Elements by RepeatMasker Repeats Description This track was created by using Arian Smit's RepeatMasker program, which screens DNA sequences for interspersed repeats and low complexity DNA sequences. The program outputs a detailed annotation of the repeats that are present in the query sequence (represented by this track), as well as a modified version of the query sequence in which all the annotated repeats have been masked (generally available on the Downloads page). RepeatMasker uses the Repbase Update library of repeats from the Genetic Information Research Institute (GIRI). Repbase Update is described in Jurka (2000) in the References section below. This track and the masking information in our hg38 genome download FASTA files was created in 2010 with the original RepBase library from 2010-03-02 and RepeatMasker 3.0.1. Since April 2019, RepBase is under a commercial license, we cannot distribute it or update the track using the RepBase library without a license. Therefore, and for compatibility with past results, given how central the masking is for many other annotations, we decided to not update the repeatmasking of hg38. However, you can show the small differences between the RepeatMasker 3/RepBase from 2010 and RepeatMasker 4/DFAM from 2020 using the track "RepeatMasker Viz" in the same track group. It contains two subtracks, one with the old and one with the new data. Also, these tracks have many more visualization options than the original RepeatMasker track. However, the last track update time of this track at UCSC is not 2010, because we had to add repeatmasking annotations to the rarely used _alt and _fix "patch" sequences of the hg38 genome. The repeatmasking annotations of the main chromosomes were unaffected and have not changed since 2010. For more information on genome patches, see our blog post. Display Conventions and Configuration In full display mode, this track displays up to ten different classes of repeats: Short interspersed nuclear elements (SINE), which include ALUs Long interspersed nuclear elements (LINE) Long terminal repeat elements (LTR), which include retroposons DNA repeat elements (DNA) Simple repeats (micro-satellites) Low complexity repeats Satellite repeats RNA repeats (including RNA, tRNA, rRNA, snRNA, scRNA, srpRNA) Other repeats, which includes class RC (Rolling Circle) Unknown The level of color shading in the graphical display reflects the amount of base mismatch, base deletion, and base insertion associated with a repeat element. The higher the combined number of these, the lighter the shading. A &quot;?&quot; at the end of the &quot;Family&quot; or &quot;Class&quot; (for example, DNA?) signifies that the curator was unsure of the classification. At some point in the future, either the &quot;?&quot; will be removed or the classification will be changed. Methods Data are generated using the RepeatMasker -s flag. Additional flags may be used for certain organisms. Repeats are soft-masked. Alignments may extend through repeats, but are not permitted to initiate in them. See the FAQ for more information. Credits Thanks to Arian Smit, Robert Hubley and GIRI for providing the tools and repeat libraries used to generate this track. References Smit AFA, Hubley R, Green P. RepeatMasker Open-3.0. https://www.repeatmasker.org/. 1996-2010. Repbase Update is described in: Jurka J. Repbase Update: a database and an electronic journal of repetitive elements. Trends Genet. 2000 Sep;16(9):418-420. PMID: 10973072 For a discussion of repeats in mammalian genomes, see: Smit AF. Interspersed repeats and other mementos of transposable elements in mammalian genomes. Curr Opin Genet Dev. 1999 Dec;9(6):657-63. PMID: 10607616 Smit AF. The origin of interspersed repeats in the human genome. Curr Opin Genet Dev. 1996 Dec;6(6):743-8. PMID: 8994846 
spliceAI SpliceAI Variants SpliceAI: Splice Variant Prediction Score Phenotypes, Variants, and Literature Important: The SpliceAI variant impact data on the UCSC Genome Browser is directly from Illumina (See Data Access below). However, since SpliceAI refers to the algorithm, and not the computed dataset, the data on the Broad server or other sources may have some differences between them. Description SpliceAI is an open-source deep learning algorithm that predicts splicing probability for nucleotides and as a result can score DNA variants for splicing impact. Such variants may activate nearby cryptic splice sites, leading to abnormal transcript isoforms. SpliceAI was developed at Illumina; a lookup tool is provided by the Broad institute. The spliceAI algorithm is run on the genome sequence itself and scores each nucleotide for the probability that it is a donor or acceptor site, on both the forward and the reverse strand. Then variants are added and the new sequence is scored again. The "wildtype" container track shows the scores for the genome sequence itself and the "variants" container track shows the impact of all possible variants close to known splice sites. The "wildtype" subtracks are useful when looking at new transcript models, to evaluate how likely exon boundaries are. The "variants" subtracks are used to evaluate the impact of variants onto splicing, typically in medical diagnostics. Why are some variants not scored by SpliceAI? SpliceAI only annotates variants close to splice sites of genes defined by the Gencode gene annotation track. Additionally, SpliceAI does not annotate variants if they are close to chromosome ends (5kb on either side), deletions of length greater than twice the input parameter -D, or inconsistent with the reference fasta file. What are the differeneces between masked and unmasked tracks? The unmasked tracks include splicing changes corresponding to strengthening annotated splice sites and weakening unannotated splice sites, which are typically much less pathogenic than weakening annotated splice sites and strengthening unannotated splice sites. The delta scores of such splicing changes are set to 0 in the masked files. We recommend using the unmasked tracks for alternative splicing analysis and masked tracks for variant interpretation. Display Conventions and Interpretation Variants are colored according to Walker et al. 2023 splicing imact: Predicted impact on splicing: Score &gt;&#61; 0.2 Not informative: Score &lt; 0.2 and &gt; 0.1 No impact on splicing: Score &lt;&#61; 0.1 Mouseover on items shows the variant, gene name, type of change (donor gain/loss, acceptor gain/loss), location of affected cryptic splice, and spliceAI score. Clicking on any item brings up a table with this information. The scores range from 0 to 1 and can be interpreted as the probability of the variant being splice-altering. In the paper, a detailed characterization is provided for 0.2 (high recall), 0.5 (recommended), and 0.8 (high precision) cutoffs. Methods The data were downloaded from Illumina. The spliceAI scores are represented in the VCF INFO field as SpliceAI=G|OR4F5|0.01|0.00|0.00|0.00|-32|49|-40|-31 Here, the pipe-separated fields contain ALT allele Gene name Acceptor gain score Acceptor loss score Donor gain score Donor loss score Relative location of affected cryptic acceptor Relative location of affected acceptor Relative location of affected cryptic donor Relative location of affected donor Since most of the values are 0 or almost 0, we selected only those variants with a score equal to or greater than 0.02. The complete processing of this track can be found in the makedoc. Data Access These data are not available for download from the Genome Browser. The raw data can be found directly on Illumina. See below for a copy of the license restrictions pertaining to these data. License FOR ACADEMIC AND NOT-FOR-PROFIT RESEARCH USE ONLY. The SpliceAI scores are made available by Illumina only for academic or not-for-profit research only. By accessing the SpliceAI data, you acknowledge and agree that you may only use this data for your own personal academic or not-for-profit research only, and not for any other purposes. You may not use this data for any for-profit, clinical, or other commercial purpose without obtaining a commercial license from Illumina, Inc. Credits Thanks to Illumina for making the data available. Thanks to Michael Hiller, Francois Lecoquierre and Jean-Madeleine de Sainte Agathe for making available and suggesting the SpliceAI wildtype tracks. References Jaganathan K, Kyriazopoulou Panagiotopoulou S, McRae JF, Darbandi SF, Knowles D, Li YI, Kosmicki JA, Arbelaez J, Cui W, Schwartz GB et al. Predicting Splicing from Primary Sequence with Deep Learning. Cell. 2019 Jan 24;176(3):535-548.e24. PMID: 30661751 Walker LC, Hoya M, Wiggins GAR, Lindy A, Vincent LM, Parsons MT, Canson DM, Bis-Brewer D, Cass A, Tchourbanov A et al. Using the ACMG/AMP framework to capture evidence related to predicted and observed impact on splicing: Recommendations from the ClinGen SVI Splicing Subgroup. Am J Hum Genet. 2023 Jul 6;110(7):1046-1067. PMID: 37352859; PMC: PMC10357475 
spliceImpactSuper Splicing Impact Splicing Impact Prediction Scores and Databases Phenotypes, Variants, and Literature Description The "Splicing Impact" container track contains tracks showing the predicted or validated effect of variants close to splice sites. AbSplice AbSplice is a method that predicts aberrant splicing across human tissues, as described in Wagner, &Ccedil;elik et al., 2023. This track displays precomputed AbSplice scores for all possible single-nucleotide variants genome-wide. The scores represent the probability that a given variant causes aberrant splicing in a given tissue. AbSplice scores can be computed from VCF files and are based on quantitative tissue-specific splice site annotations (SpliceMaps). While SpliceMaps can be generated for any tissue of interest from a cohort of RNA-seq samples, this track includes 49 tissues available from the Genotype-Tissue Expression (GTEx) dataset. SpliceAI Variants SpliceAI is an open-source deep learning splicing prediction algorithm that can predict splicing alterations caused by DNA variations. To score variants, the spliceAI algorithm is run on the genome sequence itself and scores each nucleotide for the probability that it is a donor or acceptor site, on both the forward and the reverse strand. Then variants are added to the sequence and the new sequence is scored. Variants may activate nearby cryptic splice sites, leading to abnormal transcript isoforms. SpliceAI was developed at Illumina; a lookup tool is provided by the Broad institute. SpliceAI Wildtype This SpliceAI &quot;Wildtype&quot; container track shows the scores for the genome sequence itself, without variants, from predicted splice donor (5&apos; intron boundaries) and splice acceptor (3&apos; intron boundaries) sites. Predictions are strand-specific, with separate subtracks for the plus and minus strands. These tracks are useful in combination with the variants track for evaluating new transcript models. They can be used to assess potential exon boundaries or possible splice acceptor sites. Why are some variants not scored by SpliceAI? SpliceAI only annotates variants within genes defined by the gene annotation file. Additionally, SpliceAI does not annotate variants if they are close to chromosome ends (5kb on either side), deletions of length greater than twice the input parameter -D, or inconsistent with the reference fasta file. What are the differences between masked and unmasked tracks? The unmasked tracks include splicing changes corresponding to strengthening annotated splice sites and weakening unannotated splice sites, which are typically much less pathogenic than weakening annotated splice sites and strengthening unannotated splice sites. The delta scores of such splicing changes are set to 0 in the masked files. We recommend using the unmasked tracks for alternative splicing analysis and masked tracks for variant interpretation. SpliceVarDB SpliceVarDB is an online database consolidating over 50,000 variants assayed for their effects on splicing in over 8,000 human genes. The authors evaluated over 500 published data sources and established a spliceogenicity scale to standardize, harmonize, and consolidate variant validation data generated by a range of experimental protocols. Genes and variant locations were obtained using GENCODE v44. Splice regions were calculated as specific distances from the closest canonical exon, including 5&apos; and 3&apos; untranslated regions (UTRs). The database is available at splicevardb.org. Display Conventions and Configuration AbSplice The AbSplice score is a probability estimate of how likely aberrant splicing of some sort takes place in a given tissue. The authors suggest three cutoffs which are represented by color in the track. High (red) - An AbSplice score over 0.2 indicates a high likelihood of aberrant splicing in at least one tissue. Medium (orange) - A score between 0.05 and 0.2 indicates a medium likelihood. Low (blue) - A score between 0.01 and 0.05 indicates a low likelihood. Scores below 0.01 are not displayed. Mouseover on items shows the gene name, maximum score, and tissues that had this score. Clicking on any item brings up a table with scores for all 49 GTEX tissues. SpliceAI Variants are colored according to Walker et al. 2023 splicing impact: Predicted impact on splicing: Score &gt;&#61; 0.2 Not informative: Score &lt; 0.2 and &gt; 0.1 No impact on splicing: Score &lt;&#61; 0.1 Mouseover on items shows the variant, gene name, type of change (donor gain/loss, acceptor gain/loss), location of affected cryptic splice, and spliceAI score. Clicking on any item brings up a table with this information. The scores range from 0 to 1 and can be interpreted as the probability of the variant being splice-altering. In the paper, a detailed characterization is provided for 0.2 (high recall), 0.5 (recommended), and 0.8 (high precision) cutoffs. SpliceAI Wildtype These tracks are in bigWig format. The signal height represents the SpliceAI probability score. This track may be configured in a variety of ways to highlight different aspects of the displayed information. Click the &quot;Graph configuration help&quot; link for an explanation of configuration options. SpliceVarDB According to the strength of their supporting evidence, variants were classified as &quot;splice-altering&quot; (~25%), &quot;not splice-altering&quot; (~25%), and &quot;low-frequency splice-altering&quot; (~50%), which correspond to weak or indeterminate evidence of spliceogenicity. 55% of the splice-altering variants in SpliceVarDB are outside the canonical splice sites (5.6% are deep intronic). The data is shown as lollipop plots that can be clicked, the details page then shows a link to SpliceVarDB with full details. The classification thresholds primarily follow those established by the original study. However, most studies only defined criteria for splice-altering variants and did not define criteria for variants that resulted in normal splicing. The authors implemented stringent thresholds to define the normal category and ensure a high-quality set of control variants. Variants that did not meet these criteria were classified as low-frequency splice-altering variants with a wide range of sub-optimal scores. Variants that fell between the normal and splice-altering classifications were placed into a low-frequency splice-altering category. In situations where a variant was validated multiple times, if at least one validation returned splice-altering and another returned normal, the &quot;conflicting&quot; category was applied. The lollipop plots are color-coded based on the score value, which corresponds to the following classifications: 3 - Splice-altering 2 - Low-frequency 1 - Normal 0 - Conflicting Methods AbSplice Data was converted from the files (AbSplice_DNA_ hg38 _snvs_high_scores.zip) provided by the authors at zenodo.org. Files in the score_cutoff=0.01 directory were concatenated. To convert the data to bigBed format, scores and their tissues were selected from the AbSplice_DNA fields and maximum scores, and then calculated using a custom Python script, which can be found in the makeDoc from our GitHub repository. SpliceAI The data were downloaded from Illumina. The spliceAI scores are represented in the VCF INFO field as SpliceAI=G|OR4F5|0.01|0.00|0.00|0.00|-32|49|-40|-31 Here, the pipe-separated fields contain ALT allele Gene name Acceptor gain score Acceptor loss score Donor gain score Donor loss score Relative location of affected cryptic acceptor Relative location of affected acceptor Relative location of affected cryptic donor Relative location of affected donor Since most of the values are 0 or almost 0, we selected only those variants with a score equal to or greater than 0.02. The complete processing of this track can be found in the makedoc. SpliceAI Wildtype Data was provided by the Michael Hiller lab. SpliceAI was run on the entire genome reference chromosomes. Since the algorithm does not know where transcripts start or end, the scores can differ from those on other websites, especially for splice sites before the last exon or around the first exon. SpliceVarDB The data was converted by Patricia Sullivan from SpliceVarDB to bigLolly format, and the UCSC Browser staff downloaded it for display. Data Access Precomputed AbSplice-DNA scores in all 49 GTEx tissues are available at Zenodo. License The SpliceAI data is not available for download from the Genome Browser. The raw data can be found directly on Illumina. FOR ACADEMIC AND NOT-FOR-PROFIT RESEARCH USE ONLY. The SpliceAI scores are made available by Illumina only for academic or not-for-profit research only. By accessing the SpliceAI data, you acknowledge and agree that you may only use this data for your own personal academic or not-for-profit research only, and not for any other purposes. You may not use this data for any for-profit, clinical, or other commercial purpose without obtaining a commercial license from Illumina, Inc. The raw data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. For automated download and analysis, the genome annotation is stored in a bigBed or a bigWig file that can be downloaded from our download server. Individual regions or the whole genome annotation can be obtained using our tools, e.g. bigBedToBed http://hgdownload.soe.ucsc.edu/gbdb/hg19/splicevardb/SVADB.bb -chrom=chr21 -start=0 -end=100000000 stdout bigWigToBedGraph -chrom=chr1 -start=100000 -end=100500 http://hgdownload.soe.ucsc.edu/gbdb/hg38/bbi/spliceAi/wildtype/spliceAiAcceptorMinus.bw stdout These tools can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. Credits Thanks to Illumina for making SpliceAI available, both the model and the precomputed data files. Thanks to Francois Lecoquierre from the University of Oxford, Jean-Madeleine de Sainte Agathe from Institut Pasteur Paris, and Michael Hiller from the Senckenberg Museum Frankfurt for suggesting and then creating the SpliceAI Wildtype annotations. Thanks to Nils Wagner for helpful comments and suggestions for the AbSplice track. Thanks to the SpliceVarDB team for converting the data into our data formats. References Jaganathan K, Kyriazopoulou Panagiotopoulou S, McRae JF, Darbandi SF, Knowles D, Li YI, Kosmicki JA, Arbelaez J, Cui W, Schwartz GB et al. Predicting Splicing from Primary Sequence with Deep Learning. Cell. 2019 Jan 24;176(3):535-548.e24. PMID: 30661751 Sullivan PJ, Quinn JMW, Wu W, Pinese M, Cowley MJ. SpliceVarDB: A comprehensive database of experimentally validated human splicing variants. Am J Hum Genet. 2024 Oct 3;111(10):2164-2175. PMID: 39226898; PMC: PMC11480807 Wagner N, &#199;elik MH, H&#246;lzlwimmer FR, Mertes C, Prokisch H, Y&#233;pez VA, Gagneur J. Aberrant splicing prediction across human tissues. Nat Genet. 2023 May;55(5):861-870. PMID: 37142848 Walker LC, Hoya M, Wiggins GAR, Lindy A, Vincent LM, Parsons MT, Canson DM, Bis-Brewer D, Cass A, Tchourbanov A et al. Using the ACMG/AMP framework to capture evidence related to predicted and observed impact on splicing: Recommendations from the ClinGen SVI Splicing Subgroup. Am J Hum Genet. 2023 Jul 6;110(7):1046-1067. PMID: 37352859; PMC: PMC10357475 
spliceAIindelsMasked SpliceAI indels (masked) SpliceAI Indels (masked) Phenotypes, Variants, and Literature Important: The SpliceAI variant impact data on the UCSC Genome Browser is directly from Illumina (See Data Access below). However, since SpliceAI refers to the algorithm, and not the computed dataset, the data on the Broad server or other sources may have some differences between them. Description SpliceAI is an open-source deep learning algorithm that predicts splicing probability for nucleotides and as a result can score DNA variants for splicing impact. Such variants may activate nearby cryptic splice sites, leading to abnormal transcript isoforms. SpliceAI was developed at Illumina; a lookup tool is provided by the Broad institute. The spliceAI algorithm is run on the genome sequence itself and scores each nucleotide for the probability that it is a donor or acceptor site, on both the forward and the reverse strand. Then variants are added and the new sequence is scored again. The "wildtype" container track shows the scores for the genome sequence itself and the "variants" container track shows the impact of all possible variants close to known splice sites. The "wildtype" subtracks are useful when looking at new transcript models, to evaluate how likely exon boundaries are. The "variants" subtracks are used to evaluate the impact of variants onto splicing, typically in medical diagnostics. Why are some variants not scored by SpliceAI? SpliceAI only annotates variants close to splice sites of genes defined by the Gencode gene annotation track. Additionally, SpliceAI does not annotate variants if they are close to chromosome ends (5kb on either side), deletions of length greater than twice the input parameter -D, or inconsistent with the reference fasta file. What are the differeneces between masked and unmasked tracks? The unmasked tracks include splicing changes corresponding to strengthening annotated splice sites and weakening unannotated splice sites, which are typically much less pathogenic than weakening annotated splice sites and strengthening unannotated splice sites. The delta scores of such splicing changes are set to 0 in the masked files. We recommend using the unmasked tracks for alternative splicing analysis and masked tracks for variant interpretation. Display Conventions and Interpretation Variants are colored according to Walker et al. 2023 splicing imact: Predicted impact on splicing: Score &gt;&#61; 0.2 Not informative: Score &lt; 0.2 and &gt; 0.1 No impact on splicing: Score &lt;&#61; 0.1 Mouseover on items shows the variant, gene name, type of change (donor gain/loss, acceptor gain/loss), location of affected cryptic splice, and spliceAI score. Clicking on any item brings up a table with this information. The scores range from 0 to 1 and can be interpreted as the probability of the variant being splice-altering. In the paper, a detailed characterization is provided for 0.2 (high recall), 0.5 (recommended), and 0.8 (high precision) cutoffs. Methods The data were downloaded from Illumina. The spliceAI scores are represented in the VCF INFO field as SpliceAI=G|OR4F5|0.01|0.00|0.00|0.00|-32|49|-40|-31 Here, the pipe-separated fields contain ALT allele Gene name Acceptor gain score Acceptor loss score Donor gain score Donor loss score Relative location of affected cryptic acceptor Relative location of affected acceptor Relative location of affected cryptic donor Relative location of affected donor Since most of the values are 0 or almost 0, we selected only those variants with a score equal to or greater than 0.02. The complete processing of this track can be found in the makedoc. Data Access These data are not available for download from the Genome Browser. The raw data can be found directly on Illumina. See below for a copy of the license restrictions pertaining to these data. License FOR ACADEMIC AND NOT-FOR-PROFIT RESEARCH USE ONLY. The SpliceAI scores are made available by Illumina only for academic or not-for-profit research only. By accessing the SpliceAI data, you acknowledge and agree that you may only use this data for your own personal academic or not-for-profit research only, and not for any other purposes. You may not use this data for any for-profit, clinical, or other commercial purpose without obtaining a commercial license from Illumina, Inc. Credits Thanks to Illumina for making the data available. Thanks to Michael Hiller, Francois Lecoquierre and Jean-Madeleine de Sainte Agathe for making available and suggesting the SpliceAI wildtype tracks. References Jaganathan K, Kyriazopoulou Panagiotopoulou S, McRae JF, Darbandi SF, Knowles D, Li YI, Kosmicki JA, Arbelaez J, Cui W, Schwartz GB et al. Predicting Splicing from Primary Sequence with Deep Learning. Cell. 2019 Jan 24;176(3):535-548.e24. PMID: 30661751 Walker LC, Hoya M, Wiggins GAR, Lindy A, Vincent LM, Parsons MT, Canson DM, Bis-Brewer D, Cass A, Tchourbanov A et al. Using the ACMG/AMP framework to capture evidence related to predicted and observed impact on splicing: Recommendations from the ClinGen SVI Splicing Subgroup. Am J Hum Genet. 2023 Jul 6;110(7):1046-1067. PMID: 37352859; PMC: PMC10357475 
spliceAIsnvsMasked SpliceAI SNVs (masked) SpliceAI SNVs (masked) Phenotypes, Variants, and Literature Important: The SpliceAI variant impact data on the UCSC Genome Browser is directly from Illumina (See Data Access below). However, since SpliceAI refers to the algorithm, and not the computed dataset, the data on the Broad server or other sources may have some differences between them. Description SpliceAI is an open-source deep learning algorithm that predicts splicing probability for nucleotides and as a result can score DNA variants for splicing impact. Such variants may activate nearby cryptic splice sites, leading to abnormal transcript isoforms. SpliceAI was developed at Illumina; a lookup tool is provided by the Broad institute. The spliceAI algorithm is run on the genome sequence itself and scores each nucleotide for the probability that it is a donor or acceptor site, on both the forward and the reverse strand. Then variants are added and the new sequence is scored again. The "wildtype" container track shows the scores for the genome sequence itself and the "variants" container track shows the impact of all possible variants close to known splice sites. The "wildtype" subtracks are useful when looking at new transcript models, to evaluate how likely exon boundaries are. The "variants" subtracks are used to evaluate the impact of variants onto splicing, typically in medical diagnostics. Why are some variants not scored by SpliceAI? SpliceAI only annotates variants close to splice sites of genes defined by the Gencode gene annotation track. Additionally, SpliceAI does not annotate variants if they are close to chromosome ends (5kb on either side), deletions of length greater than twice the input parameter -D, or inconsistent with the reference fasta file. What are the differeneces between masked and unmasked tracks? The unmasked tracks include splicing changes corresponding to strengthening annotated splice sites and weakening unannotated splice sites, which are typically much less pathogenic than weakening annotated splice sites and strengthening unannotated splice sites. The delta scores of such splicing changes are set to 0 in the masked files. We recommend using the unmasked tracks for alternative splicing analysis and masked tracks for variant interpretation. Display Conventions and Interpretation Variants are colored according to Walker et al. 2023 splicing imact: Predicted impact on splicing: Score &gt;&#61; 0.2 Not informative: Score &lt; 0.2 and &gt; 0.1 No impact on splicing: Score &lt;&#61; 0.1 Mouseover on items shows the variant, gene name, type of change (donor gain/loss, acceptor gain/loss), location of affected cryptic splice, and spliceAI score. Clicking on any item brings up a table with this information. The scores range from 0 to 1 and can be interpreted as the probability of the variant being splice-altering. In the paper, a detailed characterization is provided for 0.2 (high recall), 0.5 (recommended), and 0.8 (high precision) cutoffs. Methods The data were downloaded from Illumina. The spliceAI scores are represented in the VCF INFO field as SpliceAI=G|OR4F5|0.01|0.00|0.00|0.00|-32|49|-40|-31 Here, the pipe-separated fields contain ALT allele Gene name Acceptor gain score Acceptor loss score Donor gain score Donor loss score Relative location of affected cryptic acceptor Relative location of affected acceptor Relative location of affected cryptic donor Relative location of affected donor Since most of the values are 0 or almost 0, we selected only those variants with a score equal to or greater than 0.02. The complete processing of this track can be found in the makedoc. Data Access These data are not available for download from the Genome Browser. The raw data can be found directly on Illumina. See below for a copy of the license restrictions pertaining to these data. License FOR ACADEMIC AND NOT-FOR-PROFIT RESEARCH USE ONLY. The SpliceAI scores are made available by Illumina only for academic or not-for-profit research only. By accessing the SpliceAI data, you acknowledge and agree that you may only use this data for your own personal academic or not-for-profit research only, and not for any other purposes. You may not use this data for any for-profit, clinical, or other commercial purpose without obtaining a commercial license from Illumina, Inc. Credits Thanks to Illumina for making the data available. Thanks to Michael Hiller, Francois Lecoquierre and Jean-Madeleine de Sainte Agathe for making available and suggesting the SpliceAI wildtype tracks. References Jaganathan K, Kyriazopoulou Panagiotopoulou S, McRae JF, Darbandi SF, Knowles D, Li YI, Kosmicki JA, Arbelaez J, Cui W, Schwartz GB et al. Predicting Splicing from Primary Sequence with Deep Learning. Cell. 2019 Jan 24;176(3):535-548.e24. PMID: 30661751 Walker LC, Hoya M, Wiggins GAR, Lindy A, Vincent LM, Parsons MT, Canson DM, Bis-Brewer D, Cass A, Tchourbanov A et al. Using the ACMG/AMP framework to capture evidence related to predicted and observed impact on splicing: Recommendations from the ClinGen SVI Splicing Subgroup. Am J Hum Genet. 2023 Jul 6;110(7):1046-1067. PMID: 37352859; PMC: PMC10357475 
spliceAIindels SpliceAI indels SpliceAI Indels (unmasked) Phenotypes, Variants, and Literature Important: The SpliceAI variant impact data on the UCSC Genome Browser is directly from Illumina (See Data Access below). However, since SpliceAI refers to the algorithm, and not the computed dataset, the data on the Broad server or other sources may have some differences between them. Description SpliceAI is an open-source deep learning algorithm that predicts splicing probability for nucleotides and as a result can score DNA variants for splicing impact. Such variants may activate nearby cryptic splice sites, leading to abnormal transcript isoforms. SpliceAI was developed at Illumina; a lookup tool is provided by the Broad institute. The spliceAI algorithm is run on the genome sequence itself and scores each nucleotide for the probability that it is a donor or acceptor site, on both the forward and the reverse strand. Then variants are added and the new sequence is scored again. The "wildtype" container track shows the scores for the genome sequence itself and the "variants" container track shows the impact of all possible variants close to known splice sites. The "wildtype" subtracks are useful when looking at new transcript models, to evaluate how likely exon boundaries are. The "variants" subtracks are used to evaluate the impact of variants onto splicing, typically in medical diagnostics. Why are some variants not scored by SpliceAI? SpliceAI only annotates variants close to splice sites of genes defined by the Gencode gene annotation track. Additionally, SpliceAI does not annotate variants if they are close to chromosome ends (5kb on either side), deletions of length greater than twice the input parameter -D, or inconsistent with the reference fasta file. What are the differeneces between masked and unmasked tracks? The unmasked tracks include splicing changes corresponding to strengthening annotated splice sites and weakening unannotated splice sites, which are typically much less pathogenic than weakening annotated splice sites and strengthening unannotated splice sites. The delta scores of such splicing changes are set to 0 in the masked files. We recommend using the unmasked tracks for alternative splicing analysis and masked tracks for variant interpretation. Display Conventions and Interpretation Variants are colored according to Walker et al. 2023 splicing imact: Predicted impact on splicing: Score &gt;&#61; 0.2 Not informative: Score &lt; 0.2 and &gt; 0.1 No impact on splicing: Score &lt;&#61; 0.1 Mouseover on items shows the variant, gene name, type of change (donor gain/loss, acceptor gain/loss), location of affected cryptic splice, and spliceAI score. Clicking on any item brings up a table with this information. The scores range from 0 to 1 and can be interpreted as the probability of the variant being splice-altering. In the paper, a detailed characterization is provided for 0.2 (high recall), 0.5 (recommended), and 0.8 (high precision) cutoffs. Methods The data were downloaded from Illumina. The spliceAI scores are represented in the VCF INFO field as SpliceAI=G|OR4F5|0.01|0.00|0.00|0.00|-32|49|-40|-31 Here, the pipe-separated fields contain ALT allele Gene name Acceptor gain score Acceptor loss score Donor gain score Donor loss score Relative location of affected cryptic acceptor Relative location of affected acceptor Relative location of affected cryptic donor Relative location of affected donor Since most of the values are 0 or almost 0, we selected only those variants with a score equal to or greater than 0.02. The complete processing of this track can be found in the makedoc. Data Access These data are not available for download from the Genome Browser. The raw data can be found directly on Illumina. See below for a copy of the license restrictions pertaining to these data. License FOR ACADEMIC AND NOT-FOR-PROFIT RESEARCH USE ONLY. The SpliceAI scores are made available by Illumina only for academic or not-for-profit research only. By accessing the SpliceAI data, you acknowledge and agree that you may only use this data for your own personal academic or not-for-profit research only, and not for any other purposes. You may not use this data for any for-profit, clinical, or other commercial purpose without obtaining a commercial license from Illumina, Inc. Credits Thanks to Illumina for making the data available. Thanks to Michael Hiller, Francois Lecoquierre and Jean-Madeleine de Sainte Agathe for making available and suggesting the SpliceAI wildtype tracks. References Jaganathan K, Kyriazopoulou Panagiotopoulou S, McRae JF, Darbandi SF, Knowles D, Li YI, Kosmicki JA, Arbelaez J, Cui W, Schwartz GB et al. Predicting Splicing from Primary Sequence with Deep Learning. Cell. 2019 Jan 24;176(3):535-548.e24. PMID: 30661751 Walker LC, Hoya M, Wiggins GAR, Lindy A, Vincent LM, Parsons MT, Canson DM, Bis-Brewer D, Cass A, Tchourbanov A et al. Using the ACMG/AMP framework to capture evidence related to predicted and observed impact on splicing: Recommendations from the ClinGen SVI Splicing Subgroup. Am J Hum Genet. 2023 Jul 6;110(7):1046-1067. PMID: 37352859; PMC: PMC10357475 
spliceAIsnvs SpliceAI SNVs SpliceAI SNVs (unmasked) Phenotypes, Variants, and Literature Important: The SpliceAI variant impact data on the UCSC Genome Browser is directly from Illumina (See Data Access below). However, since SpliceAI refers to the algorithm, and not the computed dataset, the data on the Broad server or other sources may have some differences between them. Description SpliceAI is an open-source deep learning algorithm that predicts splicing probability for nucleotides and as a result can score DNA variants for splicing impact. Such variants may activate nearby cryptic splice sites, leading to abnormal transcript isoforms. SpliceAI was developed at Illumina; a lookup tool is provided by the Broad institute. The spliceAI algorithm is run on the genome sequence itself and scores each nucleotide for the probability that it is a donor or acceptor site, on both the forward and the reverse strand. Then variants are added and the new sequence is scored again. The "wildtype" container track shows the scores for the genome sequence itself and the "variants" container track shows the impact of all possible variants close to known splice sites. The "wildtype" subtracks are useful when looking at new transcript models, to evaluate how likely exon boundaries are. The "variants" subtracks are used to evaluate the impact of variants onto splicing, typically in medical diagnostics. Why are some variants not scored by SpliceAI? SpliceAI only annotates variants close to splice sites of genes defined by the Gencode gene annotation track. Additionally, SpliceAI does not annotate variants if they are close to chromosome ends (5kb on either side), deletions of length greater than twice the input parameter -D, or inconsistent with the reference fasta file. What are the differeneces between masked and unmasked tracks? The unmasked tracks include splicing changes corresponding to strengthening annotated splice sites and weakening unannotated splice sites, which are typically much less pathogenic than weakening annotated splice sites and strengthening unannotated splice sites. The delta scores of such splicing changes are set to 0 in the masked files. We recommend using the unmasked tracks for alternative splicing analysis and masked tracks for variant interpretation. Display Conventions and Interpretation Variants are colored according to Walker et al. 2023 splicing imact: Predicted impact on splicing: Score &gt;&#61; 0.2 Not informative: Score &lt; 0.2 and &gt; 0.1 No impact on splicing: Score &lt;&#61; 0.1 Mouseover on items shows the variant, gene name, type of change (donor gain/loss, acceptor gain/loss), location of affected cryptic splice, and spliceAI score. Clicking on any item brings up a table with this information. The scores range from 0 to 1 and can be interpreted as the probability of the variant being splice-altering. In the paper, a detailed characterization is provided for 0.2 (high recall), 0.5 (recommended), and 0.8 (high precision) cutoffs. Methods The data were downloaded from Illumina. The spliceAI scores are represented in the VCF INFO field as SpliceAI=G|OR4F5|0.01|0.00|0.00|0.00|-32|49|-40|-31 Here, the pipe-separated fields contain ALT allele Gene name Acceptor gain score Acceptor loss score Donor gain score Donor loss score Relative location of affected cryptic acceptor Relative location of affected acceptor Relative location of affected cryptic donor Relative location of affected donor Since most of the values are 0 or almost 0, we selected only those variants with a score equal to or greater than 0.02. The complete processing of this track can be found in the makedoc. Data Access These data are not available for download from the Genome Browser. The raw data can be found directly on Illumina. See below for a copy of the license restrictions pertaining to these data. License FOR ACADEMIC AND NOT-FOR-PROFIT RESEARCH USE ONLY. The SpliceAI scores are made available by Illumina only for academic or not-for-profit research only. By accessing the SpliceAI data, you acknowledge and agree that you may only use this data for your own personal academic or not-for-profit research only, and not for any other purposes. You may not use this data for any for-profit, clinical, or other commercial purpose without obtaining a commercial license from Illumina, Inc. Credits Thanks to Illumina for making the data available. Thanks to Michael Hiller, Francois Lecoquierre and Jean-Madeleine de Sainte Agathe for making available and suggesting the SpliceAI wildtype tracks. References Jaganathan K, Kyriazopoulou Panagiotopoulou S, McRae JF, Darbandi SF, Knowles D, Li YI, Kosmicki JA, Arbelaez J, Cui W, Schwartz GB et al. Predicting Splicing from Primary Sequence with Deep Learning. Cell. 2019 Jan 24;176(3):535-548.e24. PMID: 30661751 Walker LC, Hoya M, Wiggins GAR, Lindy A, Vincent LM, Parsons MT, Canson DM, Bis-Brewer D, Cass A, Tchourbanov A et al. Using the ACMG/AMP framework to capture evidence related to predicted and observed impact on splicing: Recommendations from the ClinGen SVI Splicing Subgroup. Am J Hum Genet. 2023 Jul 6;110(7):1046-1067. PMID: 37352859; PMC: PMC10357475 
TFrPeakClusters TF rPeak Clusters Transcription Factor Representative Peak (rPeak) Clusters (912 factors in 1152 biosamples) from ENCODE 4 Regulation Description This track displays regulatory regions in the human genome identified using ENCODE data, specifically spanning ENCODE phases 2 through 4. It highlights genomic regions bound by DNA-associated proteins involved in transcriptional regulation, such as RNA polymerase, transcription factors (TFs), and chromatin remodeling proteins. Sequence-specific TFs bind directly to short DNA motifs via their DNA-binding domains, while other DNA-associated proteins interact with DNA indirectly through protein-protein interactions with sequence-specific TFs. Chromatin immunoprecipitation followed by sequencing (ChIP-seq) is a high-throughput method for mapping genome-wide protein-DNA interactions. Regions of high ChIP signal, commonly referred to as ChIP-seq peaks, indicate protein binding sites. For each DNA -associated protein, all ENCODE ChIP-seq peaks across biosamples were integrated to generate a set of representative peaks (rPeaks). This track displays these rPeaks alongside detected DNA motif sites. Display Conventions and Configuration Each rPeak is represented as a gray box, with the shade of gray corresponding to the maximum ChIP-seq signal observed across contributing biosamples. The HGNC gene name of the associated protein is displayed to the left of the box. If the rPeak overlaps a cognate TF motif site in the collection built previously (PMID: 37104580 DOI: 10.1126/science.abn7930), the motif site is highlighted in green. Clicking on an rPeak provides detailed information about the biosamples where the rPeak was detected, including the count of biosamples with contributing ChIP-seq peaks and the total number of biosamples assayed for the protein. Links to relevant ENCODE ChIP-seq experiments and overlapping ENCODE candidate cis-regulatory elements (cCREs) are also provided. By default, rPeaks for all 912 DNA-associated proteins with ENCODE ChIP-seq data are displayed. Users can customize the display by selecting specific DNA-associated proteins in the track settings. Methods 2,509 ENCODE ChIP-seq experiments were integrated from 912 DNA-associated proteins across 1,152 unique biosamples to produce representative peaks (rPeaks) for each protein. The processing steps were as follows: ChIP-seq peaks for each protein were downloaded from the ENCODE Portal, generated using the ENCODE Transcription Factor ChIP-seq Processing Pipeline. Using bedtools merge, ChIP-seq peaks were clustered from the protein&rsquo;s experiments across all biosamples. In each cluster, the peak with the highest ChIP signal (normalized by sequencing depth) was selected as the rPeak. All ChIP-seq peaks overlapping this rPeak by at least one nucleotide were marked as represented and removed from subsequent clustering rounds. Steps 2-4 were repeated until a final list of non-overlapping rPeaks was generated, representing all ChIP-seq peaks for the protein. Data Access The raw data for the ENCODE TF rPeak track will soon be available. The raw data can be explored interactively with the Table Browser, for download, intersection or correlations with other tracks. To join this track with others based on the chromosome positions, use the Data Integrator. Regarding access to this data track in the Genome Browser, for automated download and analysis, the genome annotation is stored in a bigBed file that can be downloaded from our download server. The file for this track is called TFrPeakClusters.bb. Individual regions or the whole genome annotation can be obtained using our tool bigBedToBed which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tool can also be used to obtain only features within a given range, e.g. bigBedToBed http://hgdownload.soe.ucsc.edu/gbdb/hg38/bbi/ENCODE4/TFrPeakClusters.bb -chrom=chr21 -start=0 -end=100000000 stdout For automated access, this track like all others, is also available via our API. However, for bulk processing in pipelines, downloading the data and/or using bigBed files as described above is usually faster. Credits This track was made possible thanks to the efforts of the ENCODE Consortium, ENCODE ChIP-seq production laboratories, and the ENCODE Data Coordination Center for generating and processing the ChIP-seq datasets. The ENCODE accession numbers for the constituent datasets are accessible from the peak details page. Special thanks to Drs. Mingshi Gao, Greg Andrews, Jill Moore, and Zhiping Weng at UMass Chan Medical School, who were members of the ENCODE Data Analysis Center, for developing this track, including providing the rPeak and motif datasets and associated metadata and building the track. We also extend our gratitude to Max Haeussler and Jonathan Casper from the UCSC Genome Browser Project Team for their assistance in developing this track. For updates on the track, please contact the Weng lab. 
wgEncodeReg ENCODE Regulation Integrated Regulation from ENCODE Regulation Description These tracks contain information relevant to the regulation of transcription from the ENCODE Project. The TF rPeak Clusters track shows genomic regions bound by DNA-associated proteins involved in transcriptional regulation from ENCODE 4. The Transcription track shows transcription levels assayed by sequencing of polyadenylated RNA from a variety of cell types. The Layered H3K4Me1 and Layered H3K27Ac tracks show where modification of histone proteins is suggestive of enhancer and, to a lesser extent, other regulatory activity. These histone modifications, particularly H3K4Me1, are quite broad. The actual enhancers are typically just a small portion of the area marked by these histone modifications. The Layered H3K4Me3 track shows a histone mark associated with promoters. The DNase I Hypersensitivity tracks indicate where chromatin is hypersensitive to cutting by the DNase enzyme, which has been assayed in a large number of cell types. Regulatory regions, in general, tend to be DNase-sensitive, and promoters are particularly DNase-sensitive. The Txn Factor ChIP tracks show DNA regions where transcription factors, proteins responsible for modulating gene transcription, bind as assayed by chromatin immunoprecipitation with antibodies specific to the transcription factor followed by sequencing of the precipitated DNA (ChIP-seq). These tracks complement each other and together can shed much light on regulatory DNA. The histone marks are informative at a high level, but they have a resolution of just ~200 bases and do not provide much in the way of functional detail. The DNase hypersensitivity assay is higher in resolution at the DNA level and can be done on a large number of cell types since it's just a single assay. At the functional level, DNase hypersensitivity suggests that a region is very likely to be regulatory in nature, but provides little information beyond that. The transcription factor ChIP assay has a high resolution at the DNA level and, due to the very specific nature of the transcription factors, is often informative with respect to functional detail. However, since each transcription factor must be assayed separately, the information is only available for a limited number of transcription factors on a limited number of cell lines. Though each assay has its strengths and weaknesses, the fact that all of these assays are relatively independent of each other gives increased confidence when multiple tracks are suggesting a regulatory function for a region. For additional information, please click on the hyperlinks for the individual tracks above. Also note that additional histone marks and transcription information is available in other ENCODE tracks. This integrative supertrack just shows a selection of the most informative data of most general interest. Display Conventions By default, the transcription and histone mark displays use a transparent overlay method of displaying data from a number of cell lines in a single track. Each of the cell lines in this track is associated with a particular color, and these colors are relatively light and saturated so as to work best with the transparent overlay. The color of the transcription and histone mark tracks match their versions from their lifted source on the hg19 assembly. The DNase tracks, which were not lifted from hg19, are colored differently to reflect similarity of cell types. There are three DNase tracks starting with a transparent overlay DNase Signal Track to allow viewing signals from all 95 cell types in one track. The individual signals and the same coloring scheme can also be found in the DNase HS Track where processed peaks and hotspots are also called out as gray boxes with the darkness of each box reflecting the underlying signal value. Lastly, in the DNase Clusters track all observed hypersensitive regions in the different cell lines at the same location were clustered into a single box where a number to the left of the box indicates how many cell types showed a hypersensitivity region and the darkness of the grey box is proportional to the maximum value seen from one of the underlying cell lines. Clicking on these item takes you to a details page where additional information displays, such as the list of cell types that combined to form the cluster in the DNase Clusters track. Data Access The raw data for ENCODE 3 Regulation tracks can be accessed from Table Browser or combined with other data-sets through Data Integrator. For automated analysis and downloads, the track data files can be downloaded from our downloads server or queried using the JSON API or the Public SQL Individual regions or the whole genome annotation can be accessed as text using our utility bigBedToBed. Instructions for downloading the utility can be found here. That utility can also be used to obtain features within a given range, e.g. bigBedToBed http://hgdownload.soe.ucsc.edu/gbdb/hg38/wgEncodeRegDnase/wgEncodeRegDnaseUwA549Hotspot.broadPeak.bb -chrom=chr21 -start=0 -end=100000000 stdout For sorting transcription factor binding sites by cell type, we recommend you use the following download file for hg38. Credits Specific labs and contributors for these datasets are listed in the Credits section of the individual tracks in this super-track. The integrative view presented here was developed by Jim Kent at UCSC. Data Use Policy Users may freely download, analyze and publish results based on any ENCODE data without restrictions. Researchers using unpublished ENCODE data are encouraged to contact the data producers to discuss possible coordinated publications; however, this is optional. Users of ENCODE datasets are requested to cite the ENCODE Consortium and ENCODE production laboratory(s) that generated the datasets used, as described in Citing ENCODE. 
cons100way UCSC 100 Vertebrates UCSC 100 Vertebrates - 100 vertebrate genomes aligned with MultiZ by the UCSC Browser Group Comparative Genomics Downloads for data in this track are available: Multiz alignments (MAF format), and phylogenetic trees PhyloP conservation (WIG format) PhastCons conservation (WIG format) Description This track shows multiple alignments of 100 vertebrate species and measurements of evolutionary conservation using two methods (phastCons and phyloP) from the PHAST package, for all species. The multiple alignments were generated using multiz and other tools in the UCSC/Penn State Bioinformatics comparative genomics alignment pipeline. Conserved elements identified by phastCons are also displayed in this track. PHAST/Multiz are built from chains ("alignable") and nets ("syntenic"), see the documentation of the Chain/Net tracks for a description of the complete alignment process. PhastCons is a hidden Markov model-based method that estimates the probability that each nucleotide belongs to a conserved element, based on the multiple alignment. It considers not just each individual alignment column, but also its flanking columns. By contrast, phyloP separately measures conservation at individual columns, ignoring the effects of their neighbors. As a consequence, the phyloP plots have a less smooth appearance than the phastCons plots, with more "texture" at individual sites. The two methods have different strengths and weaknesses. PhastCons is sensitive to "runs" of conserved sites, and is therefore effective for picking out conserved elements. PhyloP, on the other hand, is more appropriate for evaluating signatures of selection at particular nucleotides or classes of nucleotides (e.g., third codon positions, or first positions of miRNA target sites). Another important difference is that phyloP can measure acceleration (faster evolution than expected under neutral drift) as well as conservation (slower than expected evolution). In the phyloP plots, sites predicted to be conserved are assigned positive scores (and shown in blue), while sites predicted to be fast-evolving are assigned negative scores (and shown in red). The absolute values of the scores represent -log p-values under a null hypothesis of neutral evolution. The phastCons scores, by contrast, represent probabilities of negative selection and range between 0 and 1. Both phastCons and phyloP treat alignment gaps and unaligned nucleotides as missing data, and both were run with the same parameters. See also: lastz parameters and other details and chain minimum score and gap parameters used in these alignments. UCSC has repeatmasked and aligned all genome assemblies, and provides all the sequences for download. For genome assemblies not available in the genome browser, there are alternative assembly hub genome browsers. Missing sequence in any assembly is highlighted in the track display by regions of yellow when zoomed out and by Ns when displayed at base level (see Gap Annotation, below). Primate subset OrganismSpeciesRelease dateUCSC versionAlignment type BaboonPapio hamadryasMar 2012Baylor Panu_2.0/papAnu2Reciprocal best net BushbabyOtolemur garnettiiMar 2011Broad/otoGar3Syntenic net ChimpPan troglodytesFeb 2011CSAC 2.1.4/panTro4Syntenic net Crab-eating macaqueMacaca fascicularisJun 2013Macaca_fascicularis_5.0/macFas5Syntenic net GibbonNomascus leucogenysOct 2012GGSC Nleu3.0/nomLeu3Syntenic net GorillaGorilla gorilla gorillaMay 2011gorGor3.1/gorGor3Reciprocal best net Green monkeyChlorocebus sabaeusMar 2014Chlorocebus_sabeus 1.1/chlSab2Syntenic net HumanHomo sapiensDec 2013GRCh38/hg38reference species MarmosetCallithrix jacchusMar 2009WUGSC 3.2/calJac3Syntenic net OrangutanPongo pygmaeus abeliiJuly 2007WUGSC 2.0.2/ponAbe2Reciprocal best net RhesusMacaca mulattaOct 2010BGI CR_1.0/rheMac3Syntenic net Squirrel monkeySaimiri boliviensisOct 2011Broad/saiBol1Syntenic net Euarchontoglires subset Brush-tailed ratOctodon degusApr 2012OctDeg1.0/octDeg1Syntenic net ChinchillaChinchilla lanigeraMay 2012 ChiLan1.0/chiLan1Syntenic net Chinese hamsterCricetulus griseusJul 2013C_griseus_v1.0/criGri1Syntenic net Chinese tree shrewTupaia chinensisJan 2013TupChi_1.0/tupChi1Syntenic net Golden hamsterMesocricetus auratusMar 2013MesAur1.0/mesAur1Syntenic net Guinea pigCavia porcellusFeb 2008Broad/cavPor3Syntenic net Lesser Egyptian jerboaJaculus jaculusMay 2012JacJac1.0/jacJac1Syntenic net MouseMus musculusDec 2011GRCm38/mm10Syntenic net Naked mole-ratHeterocephalus glaberJan 2012Broad HetGla_female_1.0/hetGla2Syntenic net PikaOchotona princepsMay 2012OchPri3.0/ochPri3Syntenic net Prairie voleMicrotus ochrogasterOct 2012MicOch1.0/micOch1Syntenic net RabbitOryctolagus cuniculusApr 2009Broad/oryCun2Syntenic net RatRattus norvegicusJul 2014RGSC 6.0/rn6Syntenic net SquirrelSpermophilus tridecemlineatusNov 2011Broad/speTri2Syntenic net Laurasiatheria subset AlpacaVicugna pacosMar 2013Vicugna_pacos-2.0.1/vicPac2Syntenic net Bactrian camelCamelus ferusDec 2011CB1/camFer1Syntenic net Big brown batEptesicus fuscusJul 2012EptFus1.0/eptFus1Syntenic net Black flying-foxPteropus alectoAug 2012ASM32557v1/pteAle1Syntenic net CatFelis catusNov 2014ICGSC Felis_catus 8.0/felCat8Syntenic net CowBos taurusJun 2014Bos_taurus_UMD_3.1.1/bosTau8Syntenic net David's myotis batMyotis davidiiAug 2012ASM32734v1/myoDav1Syntenic net DogCanis lupus familiarisSep 2011Broad CanFam3.1/canFam3Syntenic net DolphinTursiops truncatusOct 2011Baylor Ttru_1.4/turTru2Reciprocal best net Domestic goatCapra hircusMay 2012CHIR_1.0/capHir1Syntenic net Ferret Mustela putorius furoApr 2011MusPutFur1.0/musFur1Syntenic net HedgehogErinaceus europaeusMay 2012EriEur2.0/eriEur2Syntenic net HorseEquus caballusSep 2007Broad/equCab2Syntenic net Killer whaleOrcinus orcaJan 2013Oorc_1.1/orcOrc1Syntenic net MegabatPteropus vampyrusJul 2008Broad/pteVam1Reciprocal best net Little brown batMyotis lucifugusJul 2010Broad Institute Myoluc2.0/myoLuc2Syntenic net Pacific walrusOdobenus rosmarus divergensJan 2013Oros_1.0/odoRosDiv1Syntenic net PandaAiluropoda melanoleucaDec 2009BGI-Shenzhen 1.0/ailMel1Syntenic net PigSus scrofaAug 2011SGSC Sscrofa10.2/susScr3Syntenic net SheepOvis ariesAug 2012ISGC Oar_v3.1/oviAri3Syntenic net ShrewSorex araneusAug 2008Broad/sorAra2Syntenic net Star-nosed moleCondylura cristataMar 2012ConCri1.0/conCri1Syntenic net Tibetan antelopePantholops hodgsoniiMay 2013PHO1.0/panHod1Syntenic net Weddell sealLeptonychotes weddelliiMar 2013LepWed1.0/lepWed1Reciprocal best net White rhinocerosCeratotherium simumMay 2012CerSimSim1.0/cerSim1Syntenic net Afrotheria subset AardvarkOrycteropus afer aferMay 2012OryAfe1.0/oryAfe1Syntenic net Cape elephant shrewElephantulus edwardiiAug 2012EleEdw1.0/eleEdw1Syntenic net Cape golden moleChrysochloris asiaticaAug 2012ChrAsi1.0/chrAsi1Syntenic net ElephantLoxodonta africanaJul 2009Broad/loxAfr3Syntenic net ManateeTrichechus manatus latirostrisOct 2011Broad v1.0/triMan1Syntenic net TenrecEchinops telfairiNov 2012Broad/echTel2Syntenic net Mammal subset ArmadilloDasypus novemcinctusDec 2011Baylor/dasNov3Syntenic net OpossumMonodelphis domesticaOct 2006Broad/monDom5Net PlatypusOrnithorhynchus anatinusMar 2007WUGSC 5.0.1/ornAna1Reciprocal best net Tasmanian devilSarcophilus harrisiiFeb 2011WTSI Devil_ref v7.0/sarHar1Net WallabyMacropus eugeniiSep 2009TWGS Meug_1.1/macEug2Reciprocal best net Aves subset BudgerigarMelopsittacus undulatusSep 2011WUSTL v6.3/melUnd1Net ChickenGallus gallusNov 2011ICGSC Gallus_gallus-4.0/galGal4Net Collared flycatcherFicedula albicollisJun 2013FicAlb1.5/ficAlb2Net Mallard duckAnas platyrhynchosApr 2013BGI_duck_1.0/anaPla1Net Medium ground finchGeospiza fortisApr 2012GeoFor_1.0/geoFor1Net ParrotAmazona vittataJan 2013AV1/amaVit1Net Peregrine falconFalco peregrinusFeb 2013F_peregrinus_v1.0/falPer1Net Rock pigeonColumba liviaFeb 2013Cliv_1.0/colLiv1Net Saker falconFalco cherrugFeb 2013F_cherrug_v1.0/falChe1Net Scarlet macawAra macaoJun 2013SMACv1.1/araMac1Net Tibetan ground jayPseudopodoces humilisJan 2013PseHum1.0/pseHum1Net TurkeyMeleagris gallopavoDec 2009TGC Turkey_2.01/melGal1Net White-throated sparrowZonotrichia albicollisApr 2013ASM38545v1/zonAlb1Net Zebra finchTaeniopygia guttataFeb 2013WashU taeGut324/taeGut2Net Sarcopterygii subset American alligatorAlligator mississippiensisAug 2012allMis0.2/allMis1Net Chinese softshell turtlePelodiscus sinensisOct 2011PelSin_1.0/pelSin1Net CoelacanthLatimeria chalumnaeAug 2011Broad/latCha1Net Green seaturtleChelonia mydasMar 2013CheMyd_1.0/cheMyd1Net LizardAnolis carolinensisMay 2010Broad AnoCar2.0/anoCar2Net Painted turtleChrysemys picta belliiMar 2014v3.0.3/chrPic2Net Spiny softshell turtleApalone spiniferaMay 2013ASM38561v1/apaSpi1Net X. tropicalisXenopus tropicalisSep 2012JGI 7.0/xenTro7Net Fish subset Atlantic codGadus morhuaMay 2010Genofisk GadMor_May2010/gadMor1Net Burton's mouthbreederHaplochromis burtoniOct 2011AstBur1.0/hapBur1Net FuguTakifugu rubripesOct 2011FUGU5/fr3Net LampreyPetromyzon marinusSep 2010WUGSC 7.0/petMar2Net MedakaOryzias latipesOct 2005NIG/UT MEDAKA1/oryLat2Net Mexican tetra (cavefish)Astyanax mexicanusApr 2013Astyanax_mexicanus-1.0.2/astMex1Net Nile tilapiaOreochromis niloticusJan 2011Broad oreNil1.1/oreNil2Net Princess of BurundiNeolamprologus brichardiMay 2011NeoBri1.0/neoBri1Net Pundamilia nyerereiPundamilia nyerereiOct 2011PunNye1.0/punNye1Net Southern platyfishXiphophorus maculatusJan 2012Xiphophorus_maculatus-4.4.2/xipMac1Net Spotted garLepisosteus oculatusDec 2011LepOcu1/lepOcu1Net SticklebackGasterosteus aculeatusFeb 2006Broad/gasAcu1Net TetraodonTetraodon nigroviridisMar 2007Genoscope 8.0/tetNig2Net Yellowbelly pufferfishTakifugu flavidusMay 2013version 1 of Takifugu flavidus genome/takFla1Net Zebra mbunaMaylandia zebraMar 2012MetZeb1.1/mayZeb1Net ZebrafishDanio rerioSep 2014GRCz10/danRer10Net Table 1. Genome assemblies included in the 100-way Conservation track. Display Conventions and Configuration In full and pack display modes, conservation scores are displayed as a wiggle track (histogram) in which the height reflects the size of the score. The conservation wiggles can be configured in a variety of ways to highlight different aspects of the displayed information. Click the Graph configuration help link for an explanation of the configuration options. Pairwise alignments of each species to the human genome are displayed below the conservation histogram as a grayscale density plot (in pack mode) or as a wiggle (in full mode) that indicates alignment quality. In dense display mode, conservation is shown in grayscale using darker values to indicate higher levels of overall conservation as scored by phastCons. Checkboxes on the track configuration page allow selection of the species to include in the pairwise display. The names of selected species are colored according to their clade, alternating between blue and green. Note that excluding species from the pairwise display does not alter the conservation score display. To view detailed information about the alignments at a specific position, zoom the display in to 30,000 or fewer bases, then click on the alignment. Gap Annotation The Display chains between alignments configuration option enables display of gaps between alignment blocks in the pairwise alignments in a manner similar to the Chain track display. The following conventions are used: Single line: No bases in the aligned species. Possibly due to a lineage-specific insertion between the aligned blocks in the human genome or a lineage-specific deletion between the aligned blocks in the aligning species. Double line: Aligning species has one or more unalignable bases in the gap region. Possibly due to excessive evolutionary distance between species or independent indels in the region between the aligned blocks in both species. Pale yellow coloring: Aligning species has Ns in the gap region. Reflects uncertainty in the relationship between the DNA of both species, due to lack of sequence in relevant portions of the aligning species. Genomic Breaks Discontinuities in the genomic context (chromosome, scaffold or region) of the aligned DNA in the aligning species are shown as follows: Vertical blue bar: Represents a discontinuity that persists indefinitely on either side, e.g. a large region of DNA on either side of the bar comes from a different chromosome in the aligned species due to a large scale rearrangement. Green square brackets: Enclose shorter alignments consisting of DNA from one genomic context in the aligned species nested inside a larger chain of alignments from a different genomic context. The alignment within the brackets may represent a short misalignment, a lineage-specific insertion of a transposon in the human genome that aligns to a paralogous copy somewhere else in the aligned species, or other similar occurrence. Base Level When zoomed-in to the base-level display, the track shows the base composition of each alignment. The numbers and symbols on the Gaps line indicate the lengths of gaps in the human sequence at those alignment positions relative to the longest non-human sequence. If there is sufficient space in the display, the size of the gap is shown. If the space is insufficient and the gap size is a multiple of 3, a &quot;*&quot; is displayed; other gap sizes are indicated by &quot;+&quot;. Codon translation is available in base-level display mode if the displayed region is identified as a coding segment. To display this annotation, select the species for translation from the pull-down menu in the Codon Translation configuration section at the top of the page. Then, select one of the following modes: No codon translation: The gene annotation is not used; the bases are displayed without translation. Use default species reading frames for translation: The annotations from the genome displayed in the Default species to establish reading frame pull-down menu are used to translate all the aligned species present in the alignment. Use reading frames for species if available, otherwise no translation: Codon translation is performed only for those species where the region is annotated as protein coding. Use reading frames for species if available, otherwise use default species: Codon translation is done on those species that are annotated as being protein coding over the aligned region using species-specific annotation; the remaining species are translated using the default species annotation. Codon translation uses the following gene tracks as the basis for translation: Gene TrackSpecies UCSC GenesHuman, Mouse RefSeq GenesCow, Frog (X. tropicalis) Ensembl Genes v73Atlantic cod, Bushbaby, Cat, Chicken, Chimp, Coelacanth, Dog, Elephant, Ferret, Fugu, Gorilla, Horse, Lamprey, Little brown bat, Lizard, Mallard duck, Marmoset, Medaka, Megabat, Orangutan, Panda, Pig, Platypus, Rat, Soft-shell Turtle, Southern platyfish, Squirrel, Tasmanian devil, Tetraodon, Zebrafish no annotationAardvark, Alpaca, American alligator, Armadillo, Baboon, Bactrian camel, Big brown bat, Black flying-fox, Brush-tailed rat, Budgerigar, Burton's mouthbreeder, Cape elephant shrew, Cape golden mole, Chinchilla, Chinese hamster, Chinese tree shrew, Collared flycatcher, Crab-eating macaque, David's myotis (bat), Dolphin, Domestic goat, Gibbon, Golden hamster, Green monkey, Green seaturtle, Hedgehog, Killer whale, Lesser Egyptian jerboa, Manatee, Medium ground finch, Mexican tetra (cavefish), Naked mole-rat, Nile tilapia, Pacific walrus, Painted turtle, Parrot, Peregrine falcon, Pika, Prairie vole, Princess of Burundi, Pundamilia nyererei, Rhesus, Rock pigeon, Saker falcon, Scarlet Macaw, Sheep, Shrew, Spiny softshell turtle, Spotted gar, Squirrel monkey, Star-nosed mole, Tawny puffer fish, Tenrec, Tibetan antelope, Tibetan ground jay, Wallaby, Weddell seal, White rhinoceros, White-throated sparrow, Zebra Mbuna, Zebra finch Table 2. Gene tracks used for codon translation. Methods Pairwise alignments with the human genome were generated for each species using lastz from repeat-masked genomic sequence. Pairwise alignments were then linked into chains using a dynamic programming algorithm that finds maximally scoring chains of gapless subsections of the alignments organized in a kd-tree. The scoring matrix and parameters for pairwise alignment and chaining were tuned for each species based on phylogenetic distance from the reference. High-scoring chains were then placed along the genome, with gaps filled by lower-scoring chains, to produce an alignment net. For more information about the chaining and netting process and parameters for each species, see the description pages for the Chain and Net tracks. An additional filtering step was introduced in the generation of the 100-way conservation track to reduce the number of paralogs and pseudogenes from the high-quality assemblies and the suspect alignments from the low-quality assemblies: the pairwise alignments of high-quality mammalian sequences (placental and marsupial) were filtered based on synteny; those for 2X mammalian genomes were filtered to retain only alignments of best quality in both the target and query (&quot;reciprocal best&quot;). The resulting best-in-genome pairwise alignments were progressively aligned using multiz/autoMZ, following the tree topology diagrammed above, to produce multiple alignments. The multiple alignments were post-processed to add annotations indicating alignment gaps, genomic breaks, and base quality of the component sequences. The annotated multiple alignments, in MAF format, are available for bulk download. An alignment summary table containing an entry for each alignment block in each species was generated to improve track display performance at large scales. Framing tables were constructed to enable visualization of codons in the multiple alignment display. Phylogenetic Tree Model Both phastCons and phyloP are phylogenetic methods that rely on a tree model containing the tree topology, branch lengths representing evolutionary distance at neutrally evolving sites, the background distribution of nucleotides, and a substitution rate matrix. The all-species tree model for this track was generated using the phyloFit program from the PHAST package (REV model, EM algorithm, medium precision) using multiple alignments of 4-fold degenerate sites extracted from the 100-way alignment (msa_view). The 4d sites were derived from the RefSeq (Reviewed+Coding) gene set, filtered to select single-coverage long transcripts. This same tree model was used in the phyloP calculations; however, the background frequencies were modified to maintain reversibility. The resulting tree model: all species. PhastCons Conservation The phastCons program computes conservation scores based on a phylo-HMM, a type of probabilistic model that describes both the process of DNA substitution at each site in a genome and the way this process changes from one site to the next (Felsenstein and Churchill 1996, Yang 1995, Siepel and Haussler 2005). PhastCons uses a two-state phylo-HMM, with a state for conserved regions and a state for non-conserved regions. The value plotted at each site is the posterior probability that the corresponding alignment column was "generated" by the conserved state of the phylo-HMM. These scores reflect the phylogeny (including branch lengths) of the species in question, a continuous-time Markov model of the nucleotide substitution process, and a tendency for conservation levels to be autocorrelated along the genome (i.e., to be similar at adjacent sites). The general reversible (REV) substitution model was used. Unlike many conservation-scoring programs, phastCons does not rely on a sliding window of fixed size; therefore, short highly-conserved regions and long moderately conserved regions can both obtain high scores. More information about phastCons can be found in Siepel et al. 2005. The phastCons parameters used were: expected-length=45, target-coverage=0.3, rho=0.3. PhyloP Conservation The phyloP program supports several different methods for computing p-values of conservation or acceleration, for individual nucleotides or larger elements ( http://compgen.cshl.edu/phast/). Here it was used to produce separate scores at each base (--wig-scores option), considering all branches of the phylogeny rather than a particular subtree or lineage (i.e., the --subtree option was not used). The scores were computed by performing a likelihood ratio test at each alignment column (--method LRT), and scores for both conservation and acceleration were produced (--mode CONACC). Conserved Elements The conserved elements were predicted by running phastCons with the --viterbi option. The predicted elements are segments of the alignment that are likely to have been "generated" by the conserved state of the phylo-HMM. Each element is assigned a log-odds score equal to its log probability under the conserved model minus its log probability under the non-conserved model. The "score" field associated with this track contains transformed log-odds scores, taking values between 0 and 1000. (The scores are transformed using a monotonic function of the form a * log(x) + b.) The raw log odds scores are retained in the "name" field and can be seen on the details page or in the browser when the track's display mode is set to "pack" or "full". Credits This track was created using the following programs: Alignment tools: lastz (formerly blastz) and multiz by Minmei Hou, Scott Schwartz and Webb Miller of the Penn State Bioinformatics Group Chaining and Netting: axtChain, chainNet by Jim Kent at UCSC Conservation scoring: phastCons, phyloP, phyloFit, tree_doctor, msa_view and other programs in PHAST by Adam Siepel at Cold Spring Harbor Laboratory (original development done at the Haussler lab at UCSC). MAF Annotation tools: mafAddIRows by Brian Raney, UCSC; mafAddQRows by Richard Burhans, Penn State; genePredToMafFrames by Mark Diekhans, UCSC Tree image generator: phyloPng by Galt Barber, UCSC Conservation track display: Kate Rosenbloom, Hiram Clawson (wiggle display), and Brian Raney (gap annotation and codon framing) at UCSC The phylogenetic tree is based on Murphy et al. (2001) and general consensus in the vertebrate phylogeny community. Thanks to Giacomo Bernardi for help with the fish relationships. References Phylo-HMMs, phastCons, and phyloP: Felsenstein J, Churchill GA. A Hidden Markov Model approach to variation among sites in rate of evolution. Mol Biol Evol. 1996 Jan;13(1):93-104. PMID: 8583911 Pollard KS, Hubisz MJ, Rosenbloom KR, Siepel A. Detection of nonneutral substitution rates on mammalian phylogenies. Genome Res. 2010 Jan;20(1):110-21. PMID: 19858363; PMC: PMC2798823 Siepel A, Bejerano G, Pedersen JS, Hinrichs AS, Hou M, Rosenbloom K, Clawson H, Spieth J, Hillier LW, Richards S, et al. Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes. Genome Res. 2005 Aug;15(8):1034-50. PMID: 16024819; PMC: PMC1182216 Siepel A, Haussler D. Phylogenetic Hidden Markov Models. In: Nielsen R, editor. Statistical Methods in Molecular Evolution. New York: Springer; 2005. pp. 325-351. DOI: 10.1007/0-387-27733-1_12 Yang Z. A space-time process model for the evolution of DNA sequences. Genetics. 1995 Feb;139(2):993-1005. PMID: 7713447; PMC: PMC1206396 Chain/Net: Kent WJ, Baertsch R, Hinrichs A, Miller W, Haussler D. Evolution's cauldron: duplication, deletion, and rearrangement in the mouse and human genomes. Proc Natl Acad Sci U S A. 2003 Sep 30;100(20):11484-9. PMID: 14500911; PMC: PMC208784 Multiz: Blanchette M, Kent WJ, Riemer C, Elnitski L, Smit AF, Roskin KM, Baertsch R, Rosenbloom K, Clawson H, Green ED, et al. Aligning multiple genomic sequences with the threaded blockset aligner. Genome Res. 2004 Apr;14(4):708-15. PMID: 15060014; PMC: PMC383317 Lastz (formerly Blastz): Chiaromonte F, Yap VB, Miller W. Scoring pairwise genomic sequence alignments. Pac Symp Biocomput. 2002:115-26. PMID: 11928468 Harris RS. Improved pairwise alignment of genomic DNA. Ph.D. Thesis. Pennsylvania State University, USA. 2007. Schwartz S, Kent WJ, Smit A, Zhang Z, Baertsch R, Hardison RC, Haussler D, Miller W. Human-mouse alignments with BLASTZ. Genome Res. 2003 Jan;13(1):103-7. PMID: 12529312; PMC: PMC430961 Phylogenetic Tree: Murphy WJ, Eizirik E, O'Brien SJ, Madsen O, Scally M, Douady CJ, Teeling E, Ryder OA, Stanhope MJ, de Jong WW, Springer MS. Resolution of the early placental mammal radiation using Bayesian phylogenetics. Science. 2001 Dec 14;294(5550):2348-51. PMID: 11743200 
cons100wayViewalign Multiz Alignments UCSC 100 Vertebrates - 100 vertebrate genomes aligned with MultiZ by the UCSC Browser Group Comparative Genomics 
multiz100way Multiz Align Multiz Alignments of 100 Vertebrates Comparative Genomics 
cons100wayViewphastcons Element Conservation (phastCons) UCSC 100 Vertebrates - 100 vertebrate genomes aligned with MultiZ by the UCSC Browser Group Comparative Genomics 
phastCons100way Cons 100 Verts 100 vertebrates conservation by PhastCons Comparative Genomics 
cons100wayViewelements Conserved Elements UCSC 100 Vertebrates - 100 vertebrate genomes aligned with MultiZ by the UCSC Browser Group Comparative Genomics 
phastConsElements100way 100 Vert. El 100 vertebrates Conserved Elements Comparative Genomics 
cons100wayViewphyloP Basewise Conservation (phyloP) UCSC 100 Vertebrates - 100 vertebrate genomes aligned with MultiZ by the UCSC Browser Group Comparative Genomics 
phyloP100way Cons 100 Verts 100 vertebrates Basewise Conservation by PhyloP Comparative Genomics 
lincRNAsAllCellTypeTopView lincRNA RNA-Seq lincRNA RNA-Seq reads expression abundances Genes and Gene Predictions Description This track displays the Human Body Map lincRNAs (large intergenic non coding RNAs) and TUCPs (transcripts of uncertain coding potential), as well as their expression levels across 22 human tissues and cell lines. The Human Body Map catalog was generated by integrating previously existing annotation sources with transcripts that were de-novo assembled from RNA-Seq data. These transcripts were collected from ~4 billion RNA-Seq reads across 24 tissues and cell types. Expression abundance was estimated by Cufflinks (Trapnell et al., 2010) based on RNA-Seq. Expression abundances were estimated on the gene locus level, rather than for each transcript separately and are given as raw FPKM. The prefixes tcons_ and tcons_l2_ are used to describe lincRNAs and TUCP transcripts, respectively. Specific details about the catalog generation and data sets used for this study can be found in Cabili et al (2011). Extended characterization of each transcript in the human body map catalog can be found at the Human lincRNA Catalog website. Expression abundance scores range from 0 to 1000, and are displayed from light blue to dark blue respectively: 01000 Credits The body map RNA-Seq data was kindly provided by the Gene Expression Applications research group at Illumina. References Cabili MN, Trapnell C, Goff L, Koziol M, Tazon-Vega B, Regev A, Rinn JL. Integrative annotation of human large intergenic noncoding RNAs reveals global properties and specific subclasses. Genes Dev. 2011 Sep 15;25(18):1915-27. PMID: 21890647; PMC: PMC3185964 Trapnell C, Williams BA, Pertea G, Mortazavi A, Kwan G, van Baren MJ, Salzberg SL, Wold BJ, Pachter L. Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation. Nat Biotechnol. 2010 May;28(5):511-5. PMID: 20436464; PMC: PMC3146043 
nonCodingRNAs Non-coding RNA RNA sequences that do not code for a protein Genes and Gene Predictions Description This is a super track for non-coding RNA data, subtracks represent some form of non-coding RNA data. Credits The body map RNA-Seq data was kindly provided by the Gene Expression Applications research group at Illumina. Genome coordinates for the sno/miRNA track were obtained from the miRBase sequences FTP site and from snoRNABase coordinates download page. References When making use of these data, please cite the folowing articles in addition to the primary sources of the miRNA sequences: Griffiths-Jones S, Saini HK, van Dongen S, Enright AJ. miRBase: tools for microRNA genomics. Nucleic Acids Res. 2008 Jan 1;36(Database issue):D154-8. Griffiths-Jones S, Grocock RJ, van Dongen S, Bateman A, Enright AJ. miRBase: microRNA sequences, targets and gene nomenclature. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D140-4. Griffiths-Jones S. The microRNA Registry. Nucleic Acids Res. 2004 Jan 1;32(Database issue):D109-11. Weber MJ. New human and mouse microRNA genes found by homology search. You may also want to cite The Wellcome Trust Sanger Institute miRBase and The Laboratoire de Biologie Moleculaire Eucaryote snoRNABase. The following publication provides guidelines on miRNA annotation: Ambros V. et al., A uniform system for microRNA annotation. RNA. 2003;9(3):277-9. Cabili MN, Trapnell C, Goff L, Koziol M, Tazon-Vega B, Regev A, Rinn JL. Integrative annotation of human large intergenic noncoding RNAs reveals global properties and specific subclasses. Genes Dev. 2011 Sep 15;25(18):1915-27. PMID: 21890647; PMC: PMC3185964 Trapnell C, Williams BA, Pertea G, Mortazavi A, Kwan G, van Baren MJ, Salzberg SL, Wold BJ, Pachter L. Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation. Nat Biotechnol. 2010 May;28(5):511-5. PMID: 20436464; PMC: PMC3146043 
lincRNAsAllCellType lincRNAsCellType lincRNA RNA-Seq reads expression abundances Genes and Gene Predictions 
lincRNAsCTWhiteBloodCell WhiteBloodCell lincRNAs from whitebloodcell Genes and Gene Predictions 
lincRNAsCTThyroid Thyroid lincRNAs from thyroid Genes and Gene Predictions 
lincRNAsCTTestes_R Testes_R lincRNAs from testes_r Genes and Gene Predictions 
lincRNAsCTTestes Testes lincRNAs from testes Genes and Gene Predictions 
lincRNAsCTSkeletalMuscle SkeletalMuscle lincRNAs from skeletalmuscle Genes and Gene Predictions 
lincRNAsCTProstate Prostate lincRNAs from prostate Genes and Gene Predictions 
lincRNAsCTPlacenta_R Placenta_R lincRNAs from placenta_r Genes and Gene Predictions 
lincRNAsCTOvary Ovary lincRNAs from ovary Genes and Gene Predictions 
lincRNAsCTLymphNode LymphNode lincRNAs from lymphnode Genes and Gene Predictions 
lincRNAsCTLung Lung lincRNAs from lung Genes and Gene Predictions 
lincRNAsCTLiver Liver lincRNAs from liver Genes and Gene Predictions 
lincRNAsCTKidney Kidney lincRNAs from kidney Genes and Gene Predictions 
lincRNAsCThLF_r2 hLF_r2 lincRNAs from hlf_r2 Genes and Gene Predictions 
lincRNAsCThLF_r1 hLF_r1 lincRNAs from hlf_r1 Genes and Gene Predictions 
lincRNAsCTHeart Heart lincRNAs from heart Genes and Gene Predictions 
lincRNAsCTForeskin_R Foreskin_R lincRNAs from foreskin_r Genes and Gene Predictions 
lincRNAsCTColon Colon lincRNAs from colon Genes and Gene Predictions 
lincRNAsCTBreast Breast lincRNAs from breast Genes and Gene Predictions 
lincRNAsCTBrain_R Brain_R lincRNAs from brain_r Genes and Gene Predictions 
lincRNAsCTBrain Brain lincRNAs from brain Genes and Gene Predictions 
lincRNAsCTAdrenal Adrenal lincRNAs from adrenal Genes and Gene Predictions 
lincRNAsCTAdipose Adipose lincRNAs from adipose Genes and Gene Predictions 
wgEncodeRegTxn Transcription Transcription Levels Assayed by RNA-seq on 9 Cell Lines from ENCODE Regulation Description This track shows transcription levels for several cell types as assayed by high-throughput sequencing of polyadenylated RNA (RNA-seq). Additional views of this dataset and additional documentation on the methods used for this track are available at the ENCODE Caltech RNA-seq page. The data shown here are derived from the Raw Signal view from the paired 75-mer 200 bp insert size reads. The two replicates of the signal were pooled and normalized so that the total genome-wide signal sums to 10 billion. Display Conventions and Configuration By default, this track uses a transparent overlay method of displaying data from a number of cell lines in the same vertical space. Each of the cell lines in this track is associated with a particular color, and these colors are relatively light and saturated so as to work best with the transparent overlay. The color of these tracks match their versions from their lifted source on the hg19 assembly. The colors are consistent with the other hg19 lifted tracks located in the ENCODE Regulation supertrack, with the exception being the DNase tracks, as they were not lifted from hg19 and are colored to reflect similarity of cell types. Credits This track shows data from the Wold Lab at Caltech, as part of the ENCODE Consortium. Release Notes This is release 2 (July 2012) of this track which includes two new subtracks for HeLa-S3 and HepG2. Data Release Policy Primary ENCODE data produced during the 2007-2012 production phase were subject to a restriction period. However, the data here are past those restrictions and are freely available. The full data release policy for ENCODE is available here. 
wgEncodeRegTxnCaltechRnaSeqNhlfR2x75Il200SigPooled NHLF Transcription of NHLF cells from ENCODE Regulation 
wgEncodeRegTxnCaltechRnaSeqNhekR2x75Il200SigPooled NHEK Transcription of NHEK cells from ENCODE Regulation 
wgEncodeRegTxnCaltechRnaSeqK562R2x75Il200SigPooled K562 Transcription of K562 cells from ENCODE Regulation 
wgEncodeRegTxnCaltechRnaSeqHuvecR2x75Il200SigPooled HUVEC Transcription of HUVEC cells from ENCODE Regulation 
wgEncodeRegTxnCaltechRnaSeqHsmmR2x75Il200SigPooled HSMM Transcription of HSMM cells from ENCODE Regulation 
wgEncodeRegTxnCaltechRnaSeqHepg2R2x75Il200SigPooled HepG2 Transcription of HepG2 cells from ENCODE Regulation 
wgEncodeRegTxnCaltechRnaSeqHelas3R2x75Il200SigPooled HeLa-S3 Transcription of HeLa-S3 cells from ENCODE Regulation 
wgEncodeRegTxnCaltechRnaSeqH1hescR2x75Il200SigPooled H1-hESC Transcription of H1-hESC cells from ENCODE Regulation 
wgEncodeRegTxnCaltechRnaSeqGm12878R2x75Il200SigPooled GM12878 Transcription of GM12878 cells from ENCODE Regulation 
wgEncodeRegMarkH3k4me1 Layered H3K4Me1 H3K4Me1 Mark (Often Found Near Regulatory Elements) on 7 cell lines from ENCODE Regulation Description Chemical modifications (e.g., methylation and acetylation) to the histone proteins present in chromatin influence gene expression by changing how accessible the chromatin is to transcription. A specific modification of a specific histone protein is called a histone mark. This track shows the levels of enrichment of the H3K4Me1 histone mark across the genome as determined by a ChIP-seq assay. The H3K4me1 histone mark is the mono-methylation of lysine 4 of the H3 histone protein, and it is associated with enhancers and with DNA regions downstream of transcription starts. Additional histone marks and other chromatin associated ChIP-seq data is available at the Broad Histone page. Display Conventions and Configuration By default, this track uses a transparent overlay method of displaying data from a number of cell lines in the same vertical space. Each of the cell lines in this track is associated with a particular color, and these colors are relatively light and saturated so as to work best with the transparent overlay. The color of these tracks match their versions from their lifted source on the hg19 assembly. The colors are consistent with the other hg19 lifted tracks located in the ENCODE Regulation supertrack, with the exception being the DNase tracks, as they were not lifted from hg19 and are colored to reflect similarity of cell types. Credits This track shows data from the Bernstein Lab at the Broad Institute, as part of the ENCODE Consortium. Data Release Policy Primary ENCODE data produced during the 2007-2012 production phase were subject to a restriction period. However, the data here are past those restrictions and are freely available. The full data release policy for ENCODE is available here. 
wgEncodeRegMarkH3k4me1Nhlf NHLF H3K4Me1 Mark (Often Found Near Regulatory Elements) on NHLF Cells from ENCODE Regulation 
wgEncodeRegMarkH3k4me1Nhek NHEK H3K4Me1 Mark (Often Found Near Regulatory Elements) on NHEK Cells from ENCODE Regulation 
wgEncodeRegMarkH3k4me1K562 K562 H3K4Me1 Mark (Often Found Near Regulatory Elements) on K562 Cells from ENCODE Regulation 
wgEncodeRegMarkH3k4me1Huvec HUVEC H3K4Me1 Mark (Often Found Near Regulatory Elements) on HUVEC Cells from ENCODE Regulation 
wgEncodeRegMarkH3k4me1Hsmm HSMM H3K4Me1 Mark (Often Found Near Regulatory Elements) on HSMM Cells from ENCODE Regulation 
wgEncodeRegMarkH3k4me1H1hesc H1-hESC H3K4Me1 Mark (Often Found Near Regulatory Elements) on H1-hESC Cells from ENCODE Regulation 
wgEncodeBroadHistoneGm12878H3k4me1StdSig GM12878 H3K4Me1 Mark (Often Found Near Regulatory Elements) on GM12878 Cells from ENCODE Regulation 
robustPeaks TSS peaks FANTOM5: DPI peak, robust set Regulation Description The FANTOM5 track shows mapped transcription start sites (TSS) and their usage in primary cells, cell lines, and tissues to produce a comprehensive overview of gene expression across the human body by using single molecule sequencing. Display Conventions and Configuration Items in this track are colored according to their strand orientation. Blue indicates alignment to the negative strand, and red indicates alignment to the positive strand. Methods Protocol Individual biological states are profiled by HeliScopeCAGE, which is a variation of the CAGE (Cap Analysis Gene Expression) protocol based on a single molecule sequencer. The standard protocol requiring 5 &micro;g of total RNA as a starting material is referred to as hCAGE, and an optimized version for a lower quantity (~ 100 ng) is referred to as LQhCAGE (Kanamori-Katyama et al. 2011). hCAGE LQhCAGE Samples Transcription start sites (TSSs) were mapped and their usage in human and mouse primary cells, cell lines, and tissues was to produce a comprehensive overview of mammalian gene expression across the human body. 5&prime;-end of the mapped CAGE reads are counted at a single base pair resolution (CTSS, CAGE tag starting sites) on the genomic coordinates, which represent TSS activities in the sample. Individual samples shown in "TSS activity" tracks are grouped as below. Primary cell Tissue Cell Line Time course Fractionation TSS peaks TSS (CAGE) peaks across the panel of the biological states (samples) are identified by DPI (decomposition based peak identification, Forrest et al. 2014), where each of the peaks consists of neighboring and related TSSs. The peaks are used as anchors to define promoters and units of promoter-level expression analysis. Two subsets of the peaks are defined based on evidence of read counts, depending on scopes of subsequent analyses, and the first subset (referred as a robust set of the peaks, thresholded for expression analysis is shown as TSS peaks. They are named "p#@GENE_SYMBOL" if associated with 5'-end of known genes, or "p@CHROM:START..END,STRAND" otherwise. The summary tracks consist of the TSS (CAGE) peaks and summary profiles of TSS activities (total and maximum values). The summary track consists of the following tracks. TSS (CAGE) peaks the robust peaks TSS summary profiles Total counts and TPM (tags per million) in all the samples Maximum counts and TPM among the samples TSS activity 5&prime;-end of the mapped CAGE reads are counted at a single base pair resolution (CTSS, CAGE tag starting sites) on the genomic coordinates, which represent TSS activities in the sample. The read counts tracks indicate raw counts of CAGE reads, and the TPM tracks indicate normalized counts as TPM (tags per million). Categories of individual samples - Cell Line hCAGE - Cell Line LQhCAGE - fractionation hCAGE - Primary cell hCAGE - Primary cell LQhCAGE - Time course hCAGE - Tissue hCAGE Data Access FANTOM5 data can be explored interactively with the Table Browser and cross-referenced with the Data Integrator. For programmatic access, the track can be accessed using the Genome Browser&apos;s REST API. ReMap annotations can be downloaded from the Genome Browser's download server as a bigBed file. This compressed binary format can be remotely queried through command line utilities. Please note that some of the download files can be quite large. The FANTOM5 reprocessed data can be found and downloaded on the FANTOM website. Credits Thanks to the FANTOM5 consortium, the Large Scale Data Managing Unit and Preventive Medicine and Applied Genomics Unit, the Center for Integrative Medical Sciences (IMS), and RIKEN for providing this data and its analysis. References FANTOM Consortium and the RIKEN PMI and CLST (DGT), Forrest AR, Kawaji H, Rehli M, Baillie JK, de Hoon MJ, Haberle V, Lassmann T, Kulakovskiy IV, Lizio M et al. A promoter-level mammalian expression atlas. Nature. 2014 Mar 27;507(7493):462-70. PMID: 24670764; PMC: PMC4529748 Kanamori-Katayama M, Itoh M, Kawaji H, Lassmann T, Katayama S, Kojima M, Bertin N, Kaiho A, Ninomiya N, Daub CO et al. Unamplified cap analysis of gene expression on a single-molecule sequencer. Genome Res. 2011 Jul;21(7):1150-9. PMID: 21596820; PMC: PMC3129257 Lizio M, Harshbarger J, Shimoji H, Severin J, Kasukawa T, Sahin S, Abugessaisa I, Fukuda S, Hori F, Ishikawa-Kato S et al. Gateways to the FANTOM5 promoter level mammalian expression atlas. Genome Biol. 2015 Jan 5;16(1):22. PMID: 25723102; PMC: PMC4310165 
fantom5 FANTOM5 FANTOM5: Mapped transcription start sites (TSS) and their usage Regulation Description The FANTOM5 track shows mapped transcription start sites (TSS) and their usage in primary cells, cell lines, and tissues to produce a comprehensive overview of gene expression across the human body by using single molecule sequencing. Display Conventions and Configuration Items in this track are colored according to their strand orientation. Blue indicates alignment to the negative strand, and red indicates alignment to the positive strand. Methods Protocol Individual biological states are profiled by HeliScopeCAGE, which is a variation of the CAGE (Cap Analysis Gene Expression) protocol based on a single molecule sequencer. The standard protocol requiring 5 &micro;g of total RNA as a starting material is referred to as hCAGE, and an optimized version for a lower quantity (~ 100 ng) is referred to as LQhCAGE (Kanamori-Katyama et al. 2011). hCAGE LQhCAGE Samples Transcription start sites (TSSs) were mapped and their usage in human and mouse primary cells, cell lines, and tissues was to produce a comprehensive overview of mammalian gene expression across the human body. 5&prime;-end of the mapped CAGE reads are counted at a single base pair resolution (CTSS, CAGE tag starting sites) on the genomic coordinates, which represent TSS activities in the sample. Individual samples shown in "TSS activity" tracks are grouped as below. Primary cell Tissue Cell Line Time course Fractionation TSS peaks TSS (CAGE) peaks across the panel of the biological states (samples) are identified by DPI (decomposition based peak identification, Forrest et al. 2014), where each of the peaks consists of neighboring and related TSSs. The peaks are used as anchors to define promoters and units of promoter-level expression analysis. Two subsets of the peaks are defined based on evidence of read counts, depending on scopes of subsequent analyses, and the first subset (referred as a robust set of the peaks, thresholded for expression analysis is shown as TSS peaks. They are named "p#@GENE_SYMBOL" if associated with 5'-end of known genes, or "p@CHROM:START..END,STRAND" otherwise. The summary tracks consist of the TSS (CAGE) peaks and summary profiles of TSS activities (total and maximum values). The summary track consists of the following tracks. TSS (CAGE) peaks the robust peaks TSS summary profiles Total counts and TPM (tags per million) in all the samples Maximum counts and TPM among the samples TSS activity 5&prime;-end of the mapped CAGE reads are counted at a single base pair resolution (CTSS, CAGE tag starting sites) on the genomic coordinates, which represent TSS activities in the sample. The read counts tracks indicate raw counts of CAGE reads, and the TPM tracks indicate normalized counts as TPM (tags per million). Categories of individual samples - Cell Line hCAGE - Cell Line LQhCAGE - fractionation hCAGE - Primary cell hCAGE - Primary cell LQhCAGE - Time course hCAGE - Tissue hCAGE Data Access FANTOM5 data can be explored interactively with the Table Browser and cross-referenced with the Data Integrator. For programmatic access, the track can be accessed using the Genome Browser&apos;s REST API. ReMap annotations can be downloaded from the Genome Browser's download server as a bigBed file. This compressed binary format can be remotely queried through command line utilities. Please note that some of the download files can be quite large. The FANTOM5 reprocessed data can be found and downloaded on the FANTOM website. Credits Thanks to the FANTOM5 consortium, the Large Scale Data Managing Unit and Preventive Medicine and Applied Genomics Unit, the Center for Integrative Medical Sciences (IMS), and RIKEN for providing this data and its analysis. References FANTOM Consortium and the RIKEN PMI and CLST (DGT), Forrest AR, Kawaji H, Rehli M, Baillie JK, de Hoon MJ, Haberle V, Lassmann T, Kulakovskiy IV, Lizio M et al. A promoter-level mammalian expression atlas. Nature. 2014 Mar 27;507(7493):462-70. PMID: 24670764; PMC: PMC4529748 Kanamori-Katayama M, Itoh M, Kawaji H, Lassmann T, Katayama S, Kojima M, Bertin N, Kaiho A, Ninomiya N, Daub CO et al. Unamplified cap analysis of gene expression on a single-molecule sequencer. Genome Res. 2011 Jul;21(7):1150-9. PMID: 21596820; PMC: PMC3129257 Lizio M, Harshbarger J, Shimoji H, Severin J, Kasukawa T, Sahin S, Abugessaisa I, Fukuda S, Hori F, Ishikawa-Kato S et al. Gateways to the FANTOM5 promoter level mammalian expression atlas. Genome Biol. 2015 Jan 5;16(1):22. PMID: 25723102; PMC: PMC4310165 
wgEncodeRegMarkH3k4me3 Layered H3K4Me3 H3K4Me3 Mark (Often Found Near Promoters) on 7 cell lines from ENCODE Regulation Description Chemical modifications (e.g., methylation and acetylation) to the histone proteins present in chromatin influence gene expression by changing how accessible the chromatin is to transcription. A specific modification of a specific histone protein is called a histone mark. This track shows the levels of enrichment of the H3K4Me3 histone mark across the genome as determined by a ChIP-seq assay. The H3K4Me3 histone mark is the tri-methylation of lysine 4 of the H3 histone protein, and it is associated with promoters that are active or poised to be activated. Additional histone marks and other chromatin associated ChIP-seq data is available at the Broad Histone page. Display Conventions and Configuration By default, this track uses a transparent overlay method of displaying data from a number of cell lines in the same vertical space. Each of the cell lines in this track is associated with a particular color, and these colors are relatively light and saturated so as to work best with the transparent overlay. The color of these tracks match their versions from their lifted source on the hg19 assembly. The colors are consistent with the other hg19 lifted tracks located in the ENCODE Regulation supertrack, with the exception being the DNase tracks, as they were not lifted from hg19 and are colored to reflect similarity of cell types. Credits This track shows data from the Bernstein Lab at the Broad Institute, as part of the ENCODE Consortium. Data Release Policy Primary ENCODE data produced during the 2007-2012 production phase were subject to a restriction period. However, the data here are past those restrictions and are freely available. The full data release policy for ENCODE is available here. 
wgEncodeRegMarkH3k4me3Nhlf NHLF H3K4Me3 Mark (Often Found Near Promoters) on NHLF Cells from ENCODE Regulation 
wgEncodeRegMarkH3k4me3Nhek NHEK H3K4Me3 Mark (Often Found Near Promoters) on NHEK Cells from ENCODE Regulation 
wgEncodeRegMarkH3k4me3K562 K562 H3K4Me3 Mark (Often Found Near Promoters) on K562 Cells from ENCODE Regulation 
wgEncodeRegMarkH3k4me3Huvec HUVEC H3K4Me3 Mark (Often Found Near Promoters) on HUVEC Cells from ENCODE Regulation 
wgEncodeRegMarkH3k4me3Hsmm HSMM H3K4Me3 Mark (Often Found Near Promoters) on HSMM Cells from ENCODE Regulation 
wgEncodeRegMarkH3k4me3H1hesc H1-hESC H3K4Me3 Mark (Often Found Near Promoters) on H1-hESC Cells from ENCODE Regulation 
wgEncodeBroadHistoneGm12878H3k4me3StdSig GM12878 H3K4Me3 Mark (Often Found Near Regulatory Elements) on GM12878 Cells from ENCODE Regulation 
Total_counts_multiwig Total counts of CAGE reads FANTOM5: Total counts of CAGE reads Regulation Description The FANTOM5 track shows mapped transcription start sites (TSS) and their usage in primary cells, cell lines, and tissues to produce a comprehensive overview of gene expression across the human body by using single molecule sequencing. Display Conventions and Configuration Items in this track are colored according to their strand orientation. Blue indicates alignment to the negative strand, and red indicates alignment to the positive strand. Methods Protocol Individual biological states are profiled by HeliScopeCAGE, which is a variation of the CAGE (Cap Analysis Gene Expression) protocol based on a single molecule sequencer. The standard protocol requiring 5 &micro;g of total RNA as a starting material is referred to as hCAGE, and an optimized version for a lower quantity (~ 100 ng) is referred to as LQhCAGE (Kanamori-Katyama et al. 2011). hCAGE LQhCAGE Samples Transcription start sites (TSSs) were mapped and their usage in human and mouse primary cells, cell lines, and tissues was to produce a comprehensive overview of mammalian gene expression across the human body. 5&prime;-end of the mapped CAGE reads are counted at a single base pair resolution (CTSS, CAGE tag starting sites) on the genomic coordinates, which represent TSS activities in the sample. Individual samples shown in "TSS activity" tracks are grouped as below. Primary cell Tissue Cell Line Time course Fractionation TSS peaks TSS (CAGE) peaks across the panel of the biological states (samples) are identified by DPI (decomposition based peak identification, Forrest et al. 2014), where each of the peaks consists of neighboring and related TSSs. The peaks are used as anchors to define promoters and units of promoter-level expression analysis. Two subsets of the peaks are defined based on evidence of read counts, depending on scopes of subsequent analyses, and the first subset (referred as a robust set of the peaks, thresholded for expression analysis is shown as TSS peaks. They are named "p#@GENE_SYMBOL" if associated with 5'-end of known genes, or "p@CHROM:START..END,STRAND" otherwise. The summary tracks consist of the TSS (CAGE) peaks and summary profiles of TSS activities (total and maximum values). The summary track consists of the following tracks. TSS (CAGE) peaks the robust peaks TSS summary profiles Total counts and TPM (tags per million) in all the samples Maximum counts and TPM among the samples TSS activity 5&prime;-end of the mapped CAGE reads are counted at a single base pair resolution (CTSS, CAGE tag starting sites) on the genomic coordinates, which represent TSS activities in the sample. The read counts tracks indicate raw counts of CAGE reads, and the TPM tracks indicate normalized counts as TPM (tags per million). Categories of individual samples - Cell Line hCAGE - Cell Line LQhCAGE - fractionation hCAGE - Primary cell hCAGE - Primary cell LQhCAGE - Time course hCAGE - Tissue hCAGE Data Access FANTOM5 data can be explored interactively with the Table Browser and cross-referenced with the Data Integrator. For programmatic access, the track can be accessed using the Genome Browser&apos;s REST API. ReMap annotations can be downloaded from the Genome Browser's download server as a bigBed file. This compressed binary format can be remotely queried through command line utilities. Please note that some of the download files can be quite large. The FANTOM5 reprocessed data can be found and downloaded on the FANTOM website. Credits Thanks to the FANTOM5 consortium, the Large Scale Data Managing Unit and Preventive Medicine and Applied Genomics Unit, the Center for Integrative Medical Sciences (IMS), and RIKEN for providing this data and its analysis. References FANTOM Consortium and the RIKEN PMI and CLST (DGT), Forrest AR, Kawaji H, Rehli M, Baillie JK, de Hoon MJ, Haberle V, Lassmann T, Kulakovskiy IV, Lizio M et al. A promoter-level mammalian expression atlas. Nature. 2014 Mar 27;507(7493):462-70. PMID: 24670764; PMC: PMC4529748 Kanamori-Katayama M, Itoh M, Kawaji H, Lassmann T, Katayama S, Kojima M, Bertin N, Kaiho A, Ninomiya N, Daub CO et al. Unamplified cap analysis of gene expression on a single-molecule sequencer. Genome Res. 2011 Jul;21(7):1150-9. PMID: 21596820; PMC: PMC3129257 Lizio M, Harshbarger J, Shimoji H, Severin J, Kasukawa T, Sahin S, Abugessaisa I, Fukuda S, Hori F, Ishikawa-Kato S et al. Gateways to the FANTOM5 promoter level mammalian expression atlas. Genome Biol. 2015 Jan 5;16(1):22. PMID: 25723102; PMC: PMC4310165 
TotalCounts_Rev Total counts of CAGE reads (rev) Total counts of CAGE reads reverse Regulation 
TotalCounts_Fwd Total counts of CAGE reads (fwd) Total counts of CAGE reads forward Regulation 
wgEncodeRegMarkH3k27ac Layered H3K27Ac H3K27Ac Mark (Often Found Near Regulatory Elements) on 7 cell lines from ENCODE Regulation Description Chemical modifications (e.g., methylation and acetylation) to the histone proteins present in chromatin influence gene expression by changing how accessible the chromatin is to transcription. A specific modification of a specific histone protein is called a histone mark. This track shows the levels of enrichment of the H3K27Ac histone mark across the genome as determined by a ChIP-seq assay. The H3K27Ac histone mark is the acetylation of lysine 27 of the H3 histone protein, and it is thought to enhance transcription possibly by blocking the spread of the repressive histone mark H3K27Me3. Additional histone marks and other chromatin associated ChIP-seq data is available at the Broad Histone page. Display Conventions and Configuration By default, this track uses a transparent overlay method of displaying data from a number of cell lines in the same vertical space. Each of the cell lines in this track is associated with a particular color, and these colors are relatively light and saturated so as to work best with the transparent overlay. The color of these tracks match their versions from their lifted source on the hg19 assembly. The colors are consistent with the other hg19 lifted tracks located in the ENCODE Regulation supertrack, with the exception being the DNase tracks, as they were not lifted from hg19 and are colored to reflect similarity of cell types. Credits This track shows data from the Bernstein Lab at the Broad Institute, as part of the ENCODE Consortium. Data Release Policy Primary ENCODE data produced during the 2007-2012 production phase were subject to a restriction period. However, the data here are past those restrictions and are freely available. The full data release policy for ENCODE is available here. 
wgEncodeRegMarkH3k27acNhlf NHLF H3K27Ac Mark (Often Found Near Regulatory Elements) on NHLF Cells from ENCODE Regulation 
wgEncodeRegMarkH3k27acNhek NHEK H3K27Ac Mark (Often Found Near Regulatory Elements) on NHEK Cells from ENCODE Regulation 
wgEncodeRegMarkH3k27acK562 K562 H3K27Ac Mark (Often Found Near Regulatory Elements) on K562 Cells from ENCODE Regulation 
wgEncodeRegMarkH3k27acHuvec HUVEC H3K27Ac Mark (Often Found Near Regulatory Elements) on HUVEC Cells from ENCODE Regulation 
wgEncodeRegMarkH3k27acHsmm HSMM H3K27Ac Mark (Often Found Near Regulatory Elements) on HSMM Cells from ENCODE Regulation 
wgEncodeRegMarkH3k27acH1hesc H1-hESC H3K27Ac Mark (Often Found Near Regulatory Elements) on H1-hESC Cells from ENCODE Regulation 
wgEncodeRegMarkH3k27acGm12878 GM12878 H3K27Ac Mark (Often Found Near Regulatory Elements) on GM12878 Cells from ENCODE Regulation 
Max_counts_multiwig Max counts of CAGE reads FANTOM5: Max counts of CAGE reads Regulation Description The FANTOM5 track shows mapped transcription start sites (TSS) and their usage in primary cells, cell lines, and tissues to produce a comprehensive overview of gene expression across the human body by using single molecule sequencing. Display Conventions and Configuration Items in this track are colored according to their strand orientation. Blue indicates alignment to the negative strand, and red indicates alignment to the positive strand. Methods Protocol Individual biological states are profiled by HeliScopeCAGE, which is a variation of the CAGE (Cap Analysis Gene Expression) protocol based on a single molecule sequencer. The standard protocol requiring 5 &micro;g of total RNA as a starting material is referred to as hCAGE, and an optimized version for a lower quantity (~ 100 ng) is referred to as LQhCAGE (Kanamori-Katyama et al. 2011). hCAGE LQhCAGE Samples Transcription start sites (TSSs) were mapped and their usage in human and mouse primary cells, cell lines, and tissues was to produce a comprehensive overview of mammalian gene expression across the human body. 5&prime;-end of the mapped CAGE reads are counted at a single base pair resolution (CTSS, CAGE tag starting sites) on the genomic coordinates, which represent TSS activities in the sample. Individual samples shown in "TSS activity" tracks are grouped as below. Primary cell Tissue Cell Line Time course Fractionation TSS peaks TSS (CAGE) peaks across the panel of the biological states (samples) are identified by DPI (decomposition based peak identification, Forrest et al. 2014), where each of the peaks consists of neighboring and related TSSs. The peaks are used as anchors to define promoters and units of promoter-level expression analysis. Two subsets of the peaks are defined based on evidence of read counts, depending on scopes of subsequent analyses, and the first subset (referred as a robust set of the peaks, thresholded for expression analysis is shown as TSS peaks. They are named "p#@GENE_SYMBOL" if associated with 5'-end of known genes, or "p@CHROM:START..END,STRAND" otherwise. The summary tracks consist of the TSS (CAGE) peaks and summary profiles of TSS activities (total and maximum values). The summary track consists of the following tracks. TSS (CAGE) peaks the robust peaks TSS summary profiles Total counts and TPM (tags per million) in all the samples Maximum counts and TPM among the samples TSS activity 5&prime;-end of the mapped CAGE reads are counted at a single base pair resolution (CTSS, CAGE tag starting sites) on the genomic coordinates, which represent TSS activities in the sample. The read counts tracks indicate raw counts of CAGE reads, and the TPM tracks indicate normalized counts as TPM (tags per million). Categories of individual samples - Cell Line hCAGE - Cell Line LQhCAGE - fractionation hCAGE - Primary cell hCAGE - Primary cell LQhCAGE - Time course hCAGE - Tissue hCAGE Data Access FANTOM5 data can be explored interactively with the Table Browser and cross-referenced with the Data Integrator. For programmatic access, the track can be accessed using the Genome Browser&apos;s REST API. ReMap annotations can be downloaded from the Genome Browser's download server as a bigBed file. This compressed binary format can be remotely queried through command line utilities. Please note that some of the download files can be quite large. The FANTOM5 reprocessed data can be found and downloaded on the FANTOM website. Credits Thanks to the FANTOM5 consortium, the Large Scale Data Managing Unit and Preventive Medicine and Applied Genomics Unit, the Center for Integrative Medical Sciences (IMS), and RIKEN for providing this data and its analysis. References FANTOM Consortium and the RIKEN PMI and CLST (DGT), Forrest AR, Kawaji H, Rehli M, Baillie JK, de Hoon MJ, Haberle V, Lassmann T, Kulakovskiy IV, Lizio M et al. A promoter-level mammalian expression atlas. Nature. 2014 Mar 27;507(7493):462-70. PMID: 24670764; PMC: PMC4529748 Kanamori-Katayama M, Itoh M, Kawaji H, Lassmann T, Katayama S, Kojima M, Bertin N, Kaiho A, Ninomiya N, Daub CO et al. Unamplified cap analysis of gene expression on a single-molecule sequencer. Genome Res. 2011 Jul;21(7):1150-9. PMID: 21596820; PMC: PMC3129257 Lizio M, Harshbarger J, Shimoji H, Severin J, Kasukawa T, Sahin S, Abugessaisa I, Fukuda S, Hori F, Ishikawa-Kato S et al. Gateways to the FANTOM5 promoter level mammalian expression atlas. Genome Biol. 2015 Jan 5;16(1):22. PMID: 25723102; PMC: PMC4310165 
MaxCounts_Rev Max counts of CAGE reads (rev) Max counts of CAGE reads reverse Regulation 
MaxCounts_Fwd Max counts of CAGE reads (fwd) Max counts of CAGE reads forward Regulation 
nmdEscMane NMD Escape MANE NMD escape predictions: MANE Select Plus Clinical transcripts Genes and Gene Predictions Description The NMD escape ruleset tracks show predicted regions where a premature termination codon (PTC) or frameshift variant is likely to cause the transcript to escape nonsense-mediated decay (NMD), leading to the production of an aberrant truncated protein rather than degradation of the mRNA. The following rules were applied to transcript annotations to define predicted NMD escape regions (Nagy et al, Trends Biochem Sci 1998 and Lindeboom et al, Nat Genet 2016): 50 bp rule: Coding positions within 50 bp (mRNA distance) upstream of the transcript's last splice junction, plus any coding sequence downstream of that junction. A PTC in this window has no downstream exon-exon junction (or is too close to the last one) for NMD to be triggered. The last junction is determined from all exons of the transcript, including 3'UTR introns, since those introns deposit EJCs that can trigger NMD. For transcripts with no 3'UTR intron (the common case), this reduces to the entire last coding exon plus the last 50 bp of the penultimate coding exon. For transcripts with a 3'UTR intron (~4.5% of MANE transcripts), the last junction sits downstream of the stop codon; the escape region is only the stretch of CDS within 50 bp (mRNA distance) of that junction, so if the junction is more than 50 bp past the stop codon no CDS position escapes via this rule. No downstream EJC rule: Transcripts with a single coding exon and no 3'UTR intron. No exon-exon junction exists downstream of the stop codon, so no EJC is deposited that could trigger NMD at a PTC. This covers truly intronless transcripts as well as transcripts whose only introns are in the 5&#8242;UTR (where EJCs are cleared by the scanning 40S ribosomal subunit or sit upstream of the stop and are never encountered by the terminating ribosome). Transcripts with a single coding exon but a 3'UTR intron are excluded, because that intron deposits an EJC downstream of the stop codon that can trigger NMD. Start-proximal region: The first 100 bp of coding nucleotides. PTCs in this region do not lead to NMD, a phenomenon known as start-proximal NMD insensitivity. One proposed mechanism, supported by experimental evidence, is re-initiation of translation at a downstream AUG codon. Long exon rule: Coding exons longer than 400 bp (excluding the last coding exon, which is already covered by the 50 bp rule). Lindeboom et al. 2016 showed a marked drop in NMD efficiency (61% vs. 98%) for PTCs in exons longer than 400 nt, likely because the large distance between the stalled ribosome and the downstream EJC reduces UPF1-EJC contact. Non-coding transcripts (where CDS start equals CDS end) are excluded. Overlapping regions from multiple transcripts with identical coordinates and the same rule are collapsed into a single item, with the contributing transcript IDs stored as a comma-separated list. Three versions of this track are available, based on different transcript annotation sets: NMD escape MANE: Derived from the MANE Select plus MANE Plus Clinical transcript set, a jointly curated NCBI/EBI annotation that defines a single high-confidence transcript per protein-coding gene (Select), supplemented by additional transcripts of clinical importance (Plus Clinical). NMD escape Gencode: Derived from GENCODE V49 transcript annotations. NMD escape NCBI RefSeq: Derived from NCBI RefSeq Curated transcript annotations (NM_ and NR_ accessions; predicted XM_/XR_ models are excluded). Background NMD escape regions were predicted based on the Exon Junction Complex (EJC)-dependent model of NMD. During normal translation, EJCs are deposited at exon-exon junctions after splicing. As the ribosome translates the mRNA, it displaces each EJC it encounters. When a PTC causes the ribosome to stall prematurely, any remaining downstream EJCs recruit surveillance factors (notably UPF1) that trigger mRNA degradation via NMD. However, PTCs located in the last coding exon or within approximately 50 bp upstream of the last exon-exon junction are too close to the final EJC (or have no downstream EJC at all) for NMD to be triggered&mdash;the transcript escapes degradation. Conversely, PTCs located more than 50&ndash;55 bp upstream of the last exon-exon junction are predicted to elicit NMD. Additional escape mechanisms, supported by Lindeboom et al. 2016 and other studies, are captured by three further rules: Transcripts with no EJC downstream of the stop codon (single coding exon and no 3'UTR intron) cannot trigger NMD, so any PTC in the coding sequence escapes. 5&#8242;UTR introns are tolerated because their EJCs are upstream of the stop. Start-proximal PTCs (within the first 100 bp of coding sequence) escape NMD, likely through translation re-initiation at a downstream AUG codon. PTCs in long coding exons (&gt;400 bp) show reduced NMD efficiency (61% vs. 98% for shorter exons in Lindeboom et al. 2016), likely because the large distance between the stalled ribosome and the downstream EJC reduces UPF1-EJC contact. Display Conventions and Configuration Regions from overlapping transcripts with the same coordinates are collapsed into a single item. The gene symbol is shown as the item name. Mouseover displays the NMD escape rule and the number of transcripts. The details page lists all contributing transcript IDs. Items are colored by the NMD escape rule that applies: Red &ndash; Rule 1: CDS within 50 bp (mRNA distance) upstream of the last splice junction (or downstream of it). A PTC here is too close to the last exon junction complex (EJC) for NMD to be triggered. Orange &ndash; Rule 2: Single coding exon and no 3'UTR intron. No EJC is deposited downstream of the stop codon, so all PTCs in the coding sequence escape NMD. Dark red &ndash; Rule 3: First 100 bp of coding nucleotides. PTCs in this start-proximal region are insensitive to NMD, possibly due to translation re-initiation at a downstream AUG codon. Gold &ndash; Rule 4: Coding exons longer than 400 bp (excluding the last coding exon). NMD efficiency is reduced in these long exons because the PTC is far from the downstream exon-exon junction. Data Access The data underlying this track can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credits Thanks to Guido Neidhardt for suggesting this track at HUGO VEPTC 2025 and Andreas Lahner for feedback. Thanks to the Decipher Genome Browser team for introducing the idea of a track. References Kurosaki T, Popp MW, Maquat LE. Quality and quantity control of gene expression by nonsense-mediated mRNA decay. Nat Rev Mol Cell Biol. 2019 Jul;20(7):406-420. PMID: 30992545; PMC: PMC6855384 Lindeboom RGH, Supek F, Lehner B. The rules and impact of nonsense-mediated mRNA decay in human cancers. Nat Genet. 2016 Oct;48(10):1112-8. PMID: 27618451; PMC: PMC5045715 Nagy E, Maquat LE. A rule for termination-codon position within intron-containing genes: when nonsense affects RNA abundance. Trends Biochem Sci. 1998 Jun;23(6):198-9. PMID: 9644970 
nmd NMD Escape NMD Escape: Predicted regions where premature termination codons escape NMD Genes and Gene Predictions Description NMD is a cellular quality control mechanism that detects and degrades mRNAs containing premature termination codons (PTCs), preventing the accumulation of truncated, potentially harmful proteins. However, not all PTCs trigger NMD. PTCs in certain regions of a transcript are predicted to escape NMD, meaning the truncated mRNA may be translated into a protein with unpredictable functional consequences. The NMD Escape container includes several tracks that display putative regions where PTC variants are assumed to escape the NMD mechanism. These are typically located close to the first or last splice junction, within unusually long coding exons, or in transcripts without any junction. Subtracks NMD escape regions Rule-based predictions of NMD escape regions, computed from transcript annotations. Three transcript sets are provided: NMD escape MANE: NMD escape regions derived from the MANE Select plus MANE Plus Clinical transcript set, a jointly curated NCBI/EBI annotation that defines a single high-confidence transcript per protein-coding gene (Select), supplemented by additional transcripts of clinical importance (Plus Clinical). NMD escape Gencode: NMD escape regions derived from GENCODE V49 transcripts. NMD escape NCBI RefSeq: NMD escape regions derived from NCBI RefSeq Curated transcripts (NM_ and NR_ accessions only). Click either of the links to the track details here or above to show the four rules that were used (50 bp, intronless, 100 bp, long exon &gt;400 nt). NMDetective scores Machine-learning predictions of NMD efficiency from Lindeboom et al. 2016 (A and B models) and from Veiner et al. (NMDetective-AI, pre-print 2026). Positive scores indicate predicted NMD triggering; negative scores indicate predicted escape. NMDetective-A: Random forest model for all possible PTCs from nonsense variants. NMDetective-B: Decision tree model for all possible PTCs from nonsense variants. NMDetective-A PTC: Random forest model for the first out-of-frame PTC from frameshifting indels. NMDetective-B PTC: Decision tree model for the first out-of-frame PTC from frameshifting indels. NMDetective-AI and NMDetective-AI variants: Deep-learning model on MANE Select transcripts (GENCODE V46). Signal track shows the position-averaged prediction; variants track shows one item per stop-gain mutation per codon. Background The ACMG guidelines say under PVS1: (ii) One must also be cautious when interpreting truncating variants downstream of the most 3&#8242; truncating variant established as pathogenic in the literature. This is especially true if the predicted stop codon occurs in the last exon or in the last 50 base pairs of the penultimate exon, such that nonsense-mediated decay would not be predicted, and there is a higher likelihood of an expressed protein. Data Access The data underlying these tracks can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credits Thanks to Guido Neidhardt for suggesting this track at HUGO VEPTC 2025 and Andreas Lahner for feedback. Thanks to the Decipher Genome Browser team for introducing the idea of a track. Thanks to Rik Lindeboom for providing custom tracks. References Kurosaki T, Popp MW, Maquat LE. Quality and quantity control of gene expression by nonsense-mediated mRNA decay. Nat Rev Mol Cell Biol. 2019 Jul;20(7):406-420. PMID: 30992545; PMC: PMC6855384 Lindeboom RGH, Supek F, Lehner B. The rules and impact of nonsense-mediated mRNA decay in human cancers. Nat Genet. 2016 Oct;48(10):1112-8. PMID: 27618451; PMC: PMC5045715 Lindeboom RGH, Vermeulen M, Lehner B, Supek F. The impact of nonsense-mediated mRNA decay on genetic disease, gene editing and cancer immunotherapy. Nat Genet. 2019 Nov;51(11):1645-1651. PMID: 31659324; PMC: PMC6858879 Nagy E, Maquat LE. A rule for termination-codon position within intron-containing genes: when nonsense affects RNA abundance. Trends Biochem Sci. 1998 Jun;23(6):198-9. PMID: 9644970 
coreCcres ENCODE4 Core Collection ENCODE4 Core Collection of 170 biosamples with sample-specific cCRE annotations & epigenomic signals Regulation Description This track displays biosample-specific candidate cis-regulatory elements (cCREs) alongside genome-wide epigenomic signals for the ENCODE Core Collection of 170 ENCODE biosamples that have been fully profiled using four core assays: DNase-seq, ChIP-seq for the histone modifications H3K4me3 and H3K27ac, and ChIP-seq for CTCF binding. DNase-seq identifies regions of open chromatin commonly associated with enhancers, promoters, and insulators. ChIP-seq for H3K4me3 and H3K27ac marks active and poised promoters and enhancers. CTCF ChIP-seq identifies chromatin loop anchors and insulator elements. Each subtrack corresponds to an individual experiment in a specific biosample. These data form the basis for generating biosample-specific annotations of cCREs, which compose the fifth subtrack for the biosample. Additional epigenomic datasets are available at the ENCODE portal, and further exploration of cCREs and their supporting data is available through the SCREEN web tool, accessible via the track details page. Display Conventions and Configurations Each biosample contains five subtracks (DNase, CTCF, H3K27ac, and H3K4me3 signals and biosample-specific cCREs). Click a specific biosample type and organ/tissue combination to view available datasets. Epigenomic subtracks can be further filtered by the signal type. Below is a graphic summarizing biosampling available: Each signal track is colored based on the type of signal. The cCREs subtrack displays each active cCRE in the corresponding biosample as a colored box by type Promoter in red Proximal enhancer in orange Distal enhancer in yellow CA-H3K4me3 in pink CA-CTCF in blue CA-TF in dark purple CA in green TF in light purple cCREs with low DNase Z-scores in individual biosamples were deemed to be inactive and displayed as a gray box. The following graphic summarizes the cCRE classification criteria: For items in the cCREs track, mousing over shows the element ID, along with a linkout to the corresponding element on SCREEN, and the cCRE class. Methods The DNase-seq data were processed using the ENCODE DNase-seq pipeline, the H3K4me3 and H3K27ac ChIP-seq data were processed using the ENCODE histone ChIP-seq pipeline, and the CTCF ChIP-seq data were processed using the ENCODE transcription factor ChIP-seq pipeline. In addition to the cell type-agnostic classification (described in the cCRE Registry track in this collection), we evaluated the biochemical activity of each cCRE in individual biosamples using the corresponding biosample-specific DNase, H3K4me3, H3K27ac, and CTCF data. This allowed us to annotate active cCREs in individual biosamples, included as the cCRE subtrack for each biosample. cCREs with low DNase Z-scores in individual biosamples were deemed to be inactive and labeled with "Low Chromatin Accessibility." Data Access All data is available from the ENCODE data portal. The data on the UCSC Genome Browser can be explored interactively with the Table Browser or the Data Integrator. For automated download and analysis, the genome annotation is stored at UCSC in bigWig and bigBed files that can be downloaded from our download server. The cCREs tracks in this data are found as bigBed files, and the biosignal tracks as bigWig files. See the Data format link besides the specific data track for a URL to the file on our download server. Individual regions or the whole genome annotation can be obtained using our tools bigWigToWig or bigBedToBed which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tools can also be used to obtain features confined to a given range, e.g., bigWigToBedGraph -chrom=chr1 -start=100000 -end=100500 https://hgdownload.soe.ucsc.edu/gbdb/hg38/encode4/ccre/coreCollection/ENCFF811RQX.bw stdout or bigBedToBed -chrom=chr1 -start=100000 -end=100500 https://hgdownload.soe.ucsc.edu/gbdb/hg38/encode4/ccre/coreCollection/ENCFF013UBZ_ENCFF901QWB_ENCFF972ZHA_ENCFF500RDL.bb stdout Credits Data were generated by the ENCODE Consortium. We thank the production labs for generating the DNase-seq and ChIP-seq data: Bing Ren (UCSD), Bradley Bernstein (Broad), Gregory Crawford (Duke), John Stamatoyannopoulos (UW), Michael Snyder (Stanford), Peggy Farnham (USC), and Richard Myers (HAIB). The DNase-seq and ChIP-seq data were further processed for visualization through a collaborative effort between the Weng lab and the Moore lab at UMass Chan Medical School (funded by NIH grant HG012343). Integration and visualization were developed by Drs. Mingshi Gao, Jill Moore, and Zhiping Weng at UMass Chan Medical School, who were part of the ENCODE Data Analysis Center. We thank the ENCODE production labs for generating the data. References ENCODE Project Consortium, Moore JE, Purcaro MJ, Pratt HE, Epstein CB, Shoresh N, Adrian J, Kawli T, Davis CA, Dobin A et al. Expanded encyclopaedias of DNA elements in the human and mouse genomes. Nature. 2020 Jul;583(7818):699-710. PMID: 32728249; PMC: PMC7410828 Moore JE, Pratt HE, Fan K, Phalke N, Fisher J, Elhajjajy SI, Andrews G, Gao M, Shedd N, Fu Y et al. An Expanded Registry of Candidate cis-Regulatory Elements for Studying Transcriptional Regulation. Nature. 2026 January 7. PMID: 39763870; PMC: PMC11703161 
H3K4me3_view H3K4me3 ENCODE4 Core Collection of 170 biosamples with sample-specific cCRE annotations & epigenomic signals Regulation 
ENCFF379GSJ ENCFF379GSJ Vagina, female adult (53 years): (3) H3K4me3, ENCFF379GSJ Regulation 
ENCFF904YBG ENCFF904YBG Vagina, female adult (51 years): (3) H3K4me3, ENCFF904YBG Regulation 
ENCFF370WIV ENCFF370WIV Uterus, female adult (53 years): (3) H3K4me3, ENCFF370WIV Regulation 
ENCFF432PYK ENCFF432PYK HeLa-S3: (3) H3K4me3, ENCFF432PYK Regulation 
ENCFF501SGE ENCFF501SGE Thyroid gland, male adult (37 years): (3) H3K4me3, ENCFF501SGE Regulation 
ENCFF145RER ENCFF145RER Thyroid gland, female adult (53 years): (3) H3K4me3, ENCFF145RER Regulation 
ENCFF229BVH ENCFF229BVH Thyroid gland, male adult (54 years): (3) H3K4me3, ENCFF229BVH Regulation 
ENCFF321LZL ENCFF321LZL Thyroid gland, female adult (51 years): (3) H3K4me3, ENCFF321LZL Regulation 
ENCFF229BGF ENCFF229BGF Testis, male adult (37 years): (3) H3K4me3, ENCFF229BGF Regulation 
ENCFF665CXY ENCFF665CXY Testis, male adult (54 years): (3) H3K4me3, ENCFF665CXY Regulation 
ENCFF751MDE ENCFF751MDE Stomach, male adult (37 years): (3) H3K4me3, ENCFF751MDE Regulation 
ENCFF641DNV ENCFF641DNV Stomach, female adult (53 years): (3) H3K4me3, ENCFF641DNV Regulation 
ENCFF391KDD ENCFF391KDD Stomach, male adult (54 years): (3) H3K4me3, ENCFF391KDD Regulation 
ENCFF283ZMI ENCFF283ZMI Stomach, female adult (51 years): (3) H3K4me3, ENCFF283ZMI Regulation 
ENCFF842QQE ENCFF842QQE Spleen, female adult (59 years): (3) H3K4me3, ENCFF842QQE Regulation 
ENCFF387XJD ENCFF387XJD Spleen, female adult (53 years): (3) H3K4me3, ENCFF387XJD Regulation 
ENCFF077FBW ENCFF077FBW Spleen, female adult (41 years): (3) H3K4me3, ENCFF077FBW Regulation 
ENCFF551GZK ENCFF551GZK Spleen, female adult (61 years): (3) H3K4me3, ENCFF551GZK Regulation 
ENCFF996ZNX ENCFF996ZNX Peyers patch, male adult (37 years): (3) H3K4me3, ENCFF996ZNX Regulation 
ENCFF675KIN ENCFF675KIN Peyers patch, female adult (53 years): (3) H3K4me3, ENCFF675KIN Regulation 
ENCFF305GQX ENCFF305GQX Peyers patch, male adult (54 years): (3) H3K4me3, ENCFF305GQX Regulation 
ENCFF474VCQ ENCFF474VCQ Peyers patch, female adult (51 years): (3) H3K4me3, ENCFF474VCQ Regulation 
ENCFF719EBT ENCFF719EBT Keratinocyte, female: (3) H3K4me3, ENCFF719EBT Regulation 
ENCFF494ASH ENCFF494ASH GM23338: (3) H3K4me3, ENCFF494ASH Regulation 
ENCFF446OPT ENCFF446OPT GM23338: (3) H3K4me3, ENCFF446OPT Regulation 
ENCFF761PKU ENCFF761PKU Prostate gland, male adult (37 years): (3) H3K4me3, ENCFF761PKU Regulation 
ENCFF319OET ENCFF319OET PC-3: (3) H3K4me3, ENCFF319OET Regulation 
ENCFF995LLA ENCFF995LLA HFFc6: (3) H3K4me3, ENCFF995LLA Regulation 
ENCFF083ENU ENCFF083ENU Pancreas, female adult (59 years): (3) H3K4me3, ENCFF083ENU Regulation 
ENCFF285STS ENCFF285STS Body of pancreas, male adult (37 years): (3) H3K4me3, ENCFF285STS Regulation 
ENCFF236JWD ENCFF236JWD Pancreas, female adult (41 years): (3) H3K4me3, ENCFF236JWD Regulation 
ENCFF849YNY ENCFF849YNY Pancreas, female child (16 years): (3) H3K4me3, ENCFF849YNY Regulation 
ENCFF138VRG ENCFF138VRG Body of pancreas, male adult (54 years): (3) H3K4me3, ENCFF138VRG Regulation 
ENCFF127LVQ ENCFF127LVQ Body of pancreas, female adult (51 years): (3) H3K4me3, ENCFF127LVQ Regulation 
ENCFF682UWZ ENCFF682UWZ Pancreas, female adult (61 years): (3) H3K4me3, ENCFF682UWZ Regulation 
ENCFF530MCT ENCFF530MCT Type B pancreatic cell, female embryo (5 days): (3) H3K4me3, ENCFF530MCT Regulation 
ENCFF165GJZ ENCFF165GJZ Progenitor cell of endocrine pancreas, female embryo (5 days): (3) H3K4me3, ENCFF165GJZ Regulation 
ENCFF756NMQ ENCFF756NMQ Panc1: (3) H3K4me3, ENCFF756NMQ Regulation 
ENCFF201UPO ENCFF201UPO Tibial nerve, male adult (37 years): (3) H3K4me3, ENCFF201UPO Regulation 
ENCFF779PMH ENCFF779PMH Tibial nerve, male adult (54 years): (3) H3K4me3, ENCFF779PMH Regulation 
ENCFF958TLM ENCFF958TLM Tibial nerve, female adult (51 years): (3) H3K4me3, ENCFF958TLM Regulation 
ENCFF431FFY ENCFF431FFY Gastrocnemius medialis, male adult (37 years): (3) H3K4me3, ENCFF431FFY Regulation 
ENCFF344ITP ENCFF344ITP Esophagus muscularis mucosa, male adult (37 years): (3) H3K4me3, ENCFF344ITP Regulation 
ENCFF880UEZ ENCFF880UEZ Gastrocnemius medialis, female adult (53 years): (3) H3K4me3, ENCFF880UEZ Regulation 
ENCFF772JUK ENCFF772JUK Gastrocnemius medialis, male adult (54 years): (3) H3K4me3, ENCFF772JUK Regulation 
ENCFF707BCP ENCFF707BCP Gastrocnemius medialis, female adult (51 years): (3) H3K4me3, ENCFF707BCP Regulation 
ENCFF207MNM ENCFF207MNM Cardiac muscle cell, embryo: (3) H3K4me3, ENCFF207MNM Regulation 
ENCFF958CFK ENCFF958CFK A673: (3) H3K4me3, ENCFF958CFK Regulation 
ENCFF902HIA ENCFF902HIA Lower lobe of left lung, female adult (59 years): (3) H3K4me3, ENCFF902HIA Regulation 
ENCFF996QZC ENCFF996QZC Upper lobe of left lung, male adult (37 years): (3) H3K4me3, ENCFF996QZC Regulation 
ENCFF372LSW ENCFF372LSW Upper lobe of left lung, female adult (53 years): (3) H3K4me3, ENCFF372LSW Regulation 
ENCFF642TNR ENCFF642TNR Left lung, female child (16 years): (3) H3K4me3, ENCFF642TNR Regulation 
ENCFF032IZZ ENCFF032IZZ Lower lobe of left lung, male adult (60 years): (3) H3K4me3, ENCFF032IZZ Regulation 
ENCFF117DUU ENCFF117DUU Upper lobe of left lung, male adult (54 years): (3) H3K4me3, ENCFF117DUU Regulation 
ENCFF973MQG ENCFF973MQG Left lung, male adult (40 years): (3) H3K4me3, ENCFF973MQG Regulation 
ENCFF282VQS ENCFF282VQS Upper lobe of left lung, female adult (51 years): (3) H3K4me3, ENCFF282VQS Regulation 
ENCFF465MDM ENCFF465MDM PC-9: (3) H3K4me3, ENCFF465MDM Regulation 
ENCFF573ZFG ENCFF573ZFG AG04450: (3) H3K4me3, ENCFF573ZFG Regulation 
ENCFF376ZIM ENCFF376ZIM IMR-90: (3) H3K4me3, ENCFF376ZIM Regulation 
ENCFF917LFF ENCFF917LFF Right lobe of liver, female adult (53 years): (3) H3K4me3, ENCFF917LFF Regulation 
ENCFF137IUT ENCFF137IUT Hepatocyte, female embryo (5 days): (3) H3K4me3, ENCFF137IUT Regulation 
ENCFF732PJK ENCFF732PJK HepG2: (3) H3K4me3, ENCFF732PJK Regulation 
ENCFF252OBP ENCFF252OBP Transverse colon, male adult (37 years): (3) H3K4me3, ENCFF252OBP Regulation 
ENCFF339CRV ENCFF339CRV Transverse colon, female adult (53 years): (3) H3K4me3, ENCFF339CRV Regulation 
ENCFF237VMY ENCFF237VMY Sigmoid colon, female adult (53 years): (3) H3K4me3, ENCFF237VMY Regulation 
ENCFF173NSX ENCFF173NSX Colonic mucosa, female adult (41 years): (3) H3K4me3, ENCFF173NSX Regulation 
ENCFF886LUE ENCFF886LUE Sigmoid colon, male adult (54 years): (3) H3K4me3, ENCFF886LUE Regulation 
ENCFF568IBR ENCFF568IBR Transverse colon, male adult (54 years): (3) H3K4me3, ENCFF568IBR Regulation 
ENCFF487CTD ENCFF487CTD Transverse colon, female adult (51 years): (3) H3K4me3, ENCFF487CTD Regulation 
ENCFF221TSA ENCFF221TSA Caco-2: (3) H3K4me3, ENCFF221TSA Regulation 
ENCFF964OOU ENCFF964OOU HCT116: (3) H3K4me3, ENCFF964OOU Regulation 
ENCFF454ERF ENCFF454ERF Heart right ventricle, male adult (43 years): (3) H3K4me3, ENCFF454ERF Regulation 
ENCFF155GED ENCFF155GED Heart left ventricle, male adult (43 years): (3) H3K4me3, ENCFF155GED Regulation 
ENCFF663EZB ENCFF663EZB Heart right ventricle, male adult (66 years): (3) H3K4me3, ENCFF663EZB Regulation 
ENCFF869EMQ ENCFF869EMQ Heart left ventricle, female adult (56 years): (3) H3K4me3, ENCFF869EMQ Regulation 
ENCFF446ELY ENCFF446ELY Heart right ventricle, female adult (56 years): (3) H3K4me3, ENCFF446ELY Regulation 
ENCFF614FJF ENCFF614FJF Heart left ventricle, female adult (59 years): (3) H3K4me3, ENCFF614FJF Regulation 
ENCFF330KOM ENCFF330KOM Heart right ventricle, male adult (61 years): (3) H3K4me3, ENCFF330KOM Regulation 
ENCFF651XRK ENCFF651XRK Heart left ventricle, female adult (53 years): (3) H3K4me3, ENCFF651XRK Regulation 
ENCFF646DAW ENCFF646DAW Right atrium auricular region, female adult (53 years): (3) H3K4me3, ENCFF646DAW Regulation 
ENCFF237QAL ENCFF237QAL Left ventricle myocardium inferior, male adult (60 years): (3) H3K4me3, ENCFF237QAL Regulation 
ENCFF538YZL ENCFF538YZL Heart right ventricle, male adult (69 years): (3) H3K4me3, ENCFF538YZL Regulation 
ENCFF654FHZ ENCFF654FHZ Heart right ventricle, female adult (46 years): (3) H3K4me3, ENCFF654FHZ Regulation 
ENCFF152PBB ENCFF152PBB Heart left ventricle, female adult (46 years): (3) H3K4me3, ENCFF152PBB Regulation 
ENCFF119FKH ENCFF119FKH Heart right ventricle, male adult (40 years): (3) H3K4me3, ENCFF119FKH Regulation 
ENCFF163VOI ENCFF163VOI Right atrium auricular region, female adult (51 years): (3) H3K4me3, ENCFF163VOI Regulation 
ENCFF712FDJ ENCFF712FDJ Mesothelial cell of epicardium, female embryo (5 days): (3) H3K4me3, ENCFF712FDJ Regulation 
ENCFF879CSG ENCFF879CSG WERI-Rb-1: (3) H3K4me3, ENCFF879CSG Regulation 
ENCFF764HZI ENCFF764HZI Esophagus squamous epithelium, male adult (37 years): (3) H3K4me3, ENCFF764HZI Regulation 
ENCFF543KTX ENCFF543KTX Endothelial cell, male adult (53 years): (3) H3K4me3, ENCFF543KTX Regulation 
ENCFF300WXD ENCFF300WXD Endodermal cell, female embryo (5 days): (3) H3K4me3, ENCFF300WXD Regulation 
ENCFF179HBV ENCFF179HBV H9: (3) H3K4me3, ENCFF179HBV Regulation 
ENCFF760NUN ENCFF760NUN H1: (3) H3K4me3, ENCFF760NUN Regulation 
ENCFF466YVQ ENCFF466YVQ Chondrocyte, female embryo (5 days): (3) H3K4me3, ENCFF466YVQ Regulation 
ENCFF278ZAD ENCFF278ZAD Breast epithelium, female adult (51 years): (3) H3K4me3, ENCFF278ZAD Regulation 
ENCFF935BFQ ENCFF935BFQ MCF-7: (3) H3K4me3, ENCFF935BFQ Regulation 
ENCFF580GFO ENCFF580GFO Middle frontal area 46, male adult (84 years): (3) H3K4me3, ENCFF580GFO Regulation 
ENCFF220GPW ENCFF220GPW Middle frontal area 46 (Alzheimers disease), female adult (86 years) with Alzheimers disease: (3) H3K4me3, ENCFF220GPW Regulation 
ENCFF507KAZ ENCFF507KAZ Middle frontal area 46 (mild cognitive impairment), female adult (90 or above years) with mild cognitive impairment: (3) H3K4me3, ENCFF507KAZ Regulation 
ENCFF586MLV ENCFF586MLV Middle frontal area 46 (Alzheimers disease), female adult (74 years) with Alzheimers disease: (3) H3K4me3, ENCFF586MLV Regulation 
ENCFF666VNK ENCFF666VNK Middle frontal area 46 (mild cognitive impairment), male adult (90 or above years) with mild cognitive impairment: (3) H3K4me3, ENCFF666VNK Regulation 
ENCFF100JXF ENCFF100JXF Middle frontal area 46 (Alzheimers disease), female adult (89 years) with Alzheimers disease: (3) H3K4me3, ENCFF100JXF Regulation 
ENCFF220KZL ENCFF220KZL Middle frontal area 46 (Alzheimers disease), female adult (90 or above years) with Alzheimers disease: (3) H3K4me3, ENCFF220KZL Regulation 
ENCFF066MLC ENCFF066MLC Middle frontal area 46 (cognitive impairment), female adult (86 years) with Cognitive impairment: (3) H3K4me3, ENCFF066MLC Regulation 
ENCFF393NEJ ENCFF393NEJ Middle frontal area 46 (mild cognitive impairment), female adult (83 years) with mild cognitive impairment: (3) H3K4me3, ENCFF393NEJ Regulation 
ENCFF914PSJ ENCFF914PSJ Middle frontal area 46 (Alzheimers disease), female adult (89 years) with Alzheimers disease: (3) H3K4me3, ENCFF914PSJ Regulation 
ENCFF878BKX ENCFF878BKX Middle frontal area 46 (mild cognitive impairment), female adult (90 or above years) with mild cognitive impairment: (3) H3K4me3, ENCFF878BKX Regulation 
ENCFF730XOV ENCFF730XOV Middle frontal area 46, male adult (83 years): (3) H3K4me3, ENCFF730XOV Regulation 
ENCFF617PMJ ENCFF617PMJ Middle frontal area 46, female adult (89 years): (3) H3K4me3, ENCFF617PMJ Regulation 
ENCFF345SEW ENCFF345SEW Middle frontal area 46 (mild cognitive impairment), male adult (89 years) with mild cognitive impairment: (3) H3K4me3, ENCFF345SEW Regulation 
ENCFF867WWB ENCFF867WWB Middle frontal area 46 (mild cognitive impairment), female adult (90 or above years) with mild cognitive impairment: (3) H3K4me3, ENCFF867WWB Regulation 
ENCFF198NDW ENCFF198NDW Middle frontal area 46, female adult (88 years): (3) H3K4me3, ENCFF198NDW Regulation 
ENCFF557GVR ENCFF557GVR Middle frontal area 46, male adult (86 years): (3) H3K4me3, ENCFF557GVR Regulation 
ENCFF922WUL ENCFF922WUL Middle frontal area 46 (mild cognitive impairment), female adult (90 or above years) with mild cognitive impairment: (3) H3K4me3, ENCFF922WUL Regulation 
ENCFF562LUZ ENCFF562LUZ Middle frontal area 46, female adult (87 years): (3) H3K4me3, ENCFF562LUZ Regulation 
ENCFF543PRC ENCFF543PRC Middle frontal area 46 (Alzheimers disease), female adult (90 or above years) with Alzheimers disease: (3) H3K4me3, ENCFF543PRC Regulation 
ENCFF889GHD ENCFF889GHD Middle frontal area 46 (mild cognitive impairment), female adult (90 or above years) with mild cognitive impairment: (3) H3K4me3, ENCFF889GHD Regulation 
ENCFF713LKP ENCFF713LKP Middle frontal area 46, male adult (78 years): (3) H3K4me3, ENCFF713LKP Regulation 
ENCFF711EZK ENCFF711EZK Middle frontal area 46, female adult (79 years): (3) H3K4me3, ENCFF711EZK Regulation 
ENCFF352MMI ENCFF352MMI Middle frontal area 46, male adult (83 years): (3) H3K4me3, ENCFF352MMI Regulation 
ENCFF752DGV ENCFF752DGV Middle frontal area 46, male adult (71 years): (3) H3K4me3, ENCFF752DGV Regulation 
ENCFF499ALA ENCFF499ALA Middle frontal area 46 (mild cognitive impairment), female adult (90 or above years) with mild cognitive impairment: (3) H3K4me3, ENCFF499ALA Regulation 
ENCFF062WLH ENCFF062WLH Middle frontal area 46, female adult (84 years): (3) H3K4me3, ENCFF062WLH Regulation 
ENCFF261GPQ ENCFF261GPQ Middle frontal area 46, female adult (83 years): (3) H3K4me3, ENCFF261GPQ Regulation 
ENCFF005KPT ENCFF005KPT Middle frontal area 46 (cognitive impairment), female adult (90 or above years) with Cognitive impairment: (3) H3K4me3, ENCFF005KPT Regulation 
ENCFF981HHV ENCFF981HHV Middle frontal area 46, female adult (87 years): (3) H3K4me3, ENCFF981HHV Regulation 
ENCFF546VCE ENCFF546VCE Middle frontal area 46, male adult (82 years): (3) H3K4me3, ENCFF546VCE Regulation 
ENCFF478CLR ENCFF478CLR Middle frontal area 46 (cognitive impairment), female adult (90 or above years) with Cognitive impairment: (3) H3K4me3, ENCFF478CLR Regulation 
ENCFF127DBK ENCFF127DBK Middle frontal area 46 (mild cognitive impairment), female adult (87 years) with mild cognitive impairment: (3) H3K4me3, ENCFF127DBK Regulation 
ENCFF616FVZ ENCFF616FVZ Middle frontal area 46, female adult (82 years): (3) H3K4me3, ENCFF616FVZ Regulation 
ENCFF834IHE ENCFF834IHE Middle frontal area 46, female adult (90 or above years): (3) H3K4me3, ENCFF834IHE Regulation 
ENCFF298AQY ENCFF298AQY Middle frontal area 46, female adult (78 years): (3) H3K4me3, ENCFF298AQY Regulation 
ENCFF871ZNR ENCFF871ZNR Middle frontal area 46, female adult (90 or above years): (3) H3K4me3, ENCFF871ZNR Regulation 
ENCFF732JQY ENCFF732JQY Middle frontal area 46, male adult (87 years): (3) H3K4me3, ENCFF732JQY Regulation 
ENCFF319HQY ENCFF319HQY Middle frontal area 46 (Alzheimers disease), female adult (90 or above years) with Alzheimers disease: (3) H3K4me3, ENCFF319HQY Regulation 
ENCFF971OSG ENCFF971OSG Middle frontal area 46 (mild cognitive impairment), female adult (90 or above years) with mild cognitive impairment: (3) H3K4me3, ENCFF971OSG Regulation 
ENCFF018QTQ ENCFF018QTQ Middle frontal area 46 (mild cognitive impairment), female adult (88 years) with mild cognitive impairment: (3) H3K4me3, ENCFF018QTQ Regulation 
ENCFF353SJI ENCFF353SJI Middle frontal area 46, female adult (90 or above years): (3) H3K4me3, ENCFF353SJI Regulation 
ENCFF889QTE ENCFF889QTE Middle frontal area 46 (Alzheimers disease), female adult (81 years) with Alzheimers disease: (3) H3K4me3, ENCFF889QTE Regulation 
ENCFF862YHY ENCFF862YHY Middle frontal area 46 (Alzheimers disease), female adult (85 years) with Alzheimers disease: (3) H3K4me3, ENCFF862YHY Regulation 
ENCFF419XND ENCFF419XND Middle frontal area 46 (cognitive impairment), female adult (81 years) with Cognitive impairment: (3) H3K4me3, ENCFF419XND Regulation 
ENCFF563YFA ENCFF563YFA Middle frontal area 46 (Alzheimers disease), female adult (88 years) with Alzheimers disease: (3) H3K4me3, ENCFF563YFA Regulation 
ENCFF436OWL ENCFF436OWL Middle frontal area 46 (mild cognitive impairment), female adult (90 or above years) with mild cognitive impairment: (3) H3K4me3, ENCFF436OWL Regulation 
ENCFF679AWS ENCFF679AWS Middle frontal area 46, female adult (90 or above years): (3) H3K4me3, ENCFF679AWS Regulation 
ENCFF577BWJ ENCFF577BWJ Astrocyte: (3) H3K4me3, ENCFF577BWJ Regulation 
ENCFF768NPJ ENCFF768NPJ Bipolar neuron (treated), male adult (53 years) treated with 0.5 μg/mL doxycycline hyclate for 4 days: (3) H3K4me3, ENCFF768NPJ Regulation 
ENCFF346LEZ ENCFF346LEZ Glutamatergic neuron, male adult (53 years) male adult (53 years) nuclear fraction: (3) H3K4me3, ENCFF346LEZ Regulation 
ENCFF153BJG ENCFF153BJG Astrocyte, male adult (53 years): (3) H3K4me3, ENCFF153BJG Regulation 
ENCFF835JIA ENCFF835JIA Neural progenitor cell, female embryo (5 days): (3) H3K4me3, ENCFF835JIA Regulation 
ENCFF651WOM ENCFF651WOM SK-N-SH: (3) H3K4me3, ENCFF651WOM Regulation 
ENCFF684UUJ ENCFF684UUJ NCI-H929: (3) H3K4me3, ENCFF684UUJ Regulation 
ENCFF582GHH ENCFF582GHH Osteocyte, female embryo (5 days): (3) H3K4me3, ENCFF582GHH Regulation 
ENCFF901QWB ENCFF901QWB Tibial artery, male adult (37 years): (3) H3K4me3, ENCFF901QWB Regulation 
ENCFF696UEY ENCFF696UEY Thoracic aorta, male adult (37 years): (3) H3K4me3, ENCFF696UEY Regulation 
ENCFF811RQX ENCFF811RQX Coronary artery, female adult (53 years): (3) H3K4me3, ENCFF811RQX Regulation 
ENCFF132YWJ ENCFF132YWJ Ascending aorta, female adult (53 years): (3) H3K4me3, ENCFF132YWJ Regulation 
ENCFF935CPK ENCFF935CPK Ascending aorta, female adult (51 years): (3) H3K4me3, ENCFF935CPK Regulation 
ENCFF559ALK ENCFF559ALK Brain microvascular endothelial cell: (3) H3K4me3, ENCFF559ALK Regulation 
ENCFF587XGD ENCFF587XGD CD14-positive monocyte, female: (3) H3K4me3, ENCFF587XGD Regulation 
ENCFF970LMB ENCFF970LMB MM.1S: (3) H3K4me3, ENCFF970LMB Regulation 
ENCFF630BQS ENCFF630BQS OCI-LY7: (3) H3K4me3, ENCFF630BQS Regulation 
ENCFF308GJB ENCFF308GJB DND-41: (3) H3K4me3, ENCFF308GJB Regulation 
ENCFF695YII ENCFF695YII HL-60: (3) H3K4me3, ENCFF695YII Regulation 
ENCFF280PUF ENCFF280PUF GM12878: (3) H3K4me3, ENCFF280PUF Regulation 
ENCFF806YEZ ENCFF806YEZ K562: (3) H3K4me3, ENCFF806YEZ Regulation 
ENCFF053KMZ ENCFF053KMZ Adrenal gland, male adult (37 years): (3) H3K4me3, ENCFF053KMZ Regulation 
ENCFF827GEQ ENCFF827GEQ Adrenal gland, female adult (53 years): (3) H3K4me3, ENCFF827GEQ Regulation 
ENCFF700TZZ ENCFF700TZZ Adrenal gland, female adult (41 years): (3) H3K4me3, ENCFF700TZZ Regulation 
ENCFF263CSV ENCFF263CSV Adrenal gland, male adult (54 years): (3) H3K4me3, ENCFF263CSV Regulation 
ENCFF672KET ENCFF672KET Adrenal gland, female adult (51 years): (3) H3K4me3, ENCFF672KET Regulation 
H3K27ac_view H3K27ac ENCODE4 Core Collection of 170 biosamples with sample-specific cCRE annotations & epigenomic signals Regulation 
ENCFF738HRV ENCFF738HRV Vagina, female adult (53 years): (4) H3K27ac, ENCFF738HRV Regulation 
ENCFF092VQF ENCFF092VQF Vagina, female adult (51 years): (4) H3K27ac, ENCFF092VQF Regulation 
ENCFF154QOP ENCFF154QOP Uterus, female adult (53 years): (4) H3K27ac, ENCFF154QOP Regulation 
ENCFF658XKZ ENCFF658XKZ HeLa-S3: (4) H3K27ac, ENCFF658XKZ Regulation 
ENCFF546UQS ENCFF546UQS Thyroid gland, male adult (37 years): (4) H3K27ac, ENCFF546UQS Regulation 
ENCFF050PLB ENCFF050PLB Thyroid gland, female adult (53 years): (4) H3K27ac, ENCFF050PLB Regulation 
ENCFF573DJV ENCFF573DJV Thyroid gland, male adult (54 years): (4) H3K27ac, ENCFF573DJV Regulation 
ENCFF774RLX ENCFF774RLX Thyroid gland, female adult (51 years): (4) H3K27ac, ENCFF774RLX Regulation 
ENCFF487SXN ENCFF487SXN Testis, male adult (37 years): (4) H3K27ac, ENCFF487SXN Regulation 
ENCFF246QNM ENCFF246QNM Testis, male adult (54 years): (4) H3K27ac, ENCFF246QNM Regulation 
ENCFF975CDE ENCFF975CDE Stomach, male adult (37 years): (4) H3K27ac, ENCFF975CDE Regulation 
ENCFF225PPI ENCFF225PPI Stomach, female adult (53 years): (4) H3K27ac, ENCFF225PPI Regulation 
ENCFF493RLF ENCFF493RLF Stomach, male adult (54 years): (4) H3K27ac, ENCFF493RLF Regulation 
ENCFF732NXU ENCFF732NXU Stomach, female adult (51 years): (4) H3K27ac, ENCFF732NXU Regulation 
ENCFF428HQD ENCFF428HQD Spleen, female adult (59 years): (4) H3K27ac, ENCFF428HQD Regulation 
ENCFF987FRB ENCFF987FRB Spleen, female adult (53 years): (4) H3K27ac, ENCFF987FRB Regulation 
ENCFF634AAL ENCFF634AAL Spleen, female adult (41 years): (4) H3K27ac, ENCFF634AAL Regulation 
ENCFF438NSZ ENCFF438NSZ Spleen, female adult (61 years): (4) H3K27ac, ENCFF438NSZ Regulation 
ENCFF249ILQ ENCFF249ILQ Peyers patch, male adult (37 years): (4) H3K27ac, ENCFF249ILQ Regulation 
ENCFF302XLU ENCFF302XLU Peyers patch, female adult (53 years): (4) H3K27ac, ENCFF302XLU Regulation 
ENCFF485RWJ ENCFF485RWJ Peyers patch, male adult (54 years): (4) H3K27ac, ENCFF485RWJ Regulation 
ENCFF525KQP ENCFF525KQP Peyers patch, female adult (51 years): (4) H3K27ac, ENCFF525KQP Regulation 
ENCFF443TJZ ENCFF443TJZ Keratinocyte, female: (4) H3K27ac, ENCFF443TJZ Regulation 
ENCFF641QBD ENCFF641QBD GM23338: (4) H3K27ac, ENCFF641QBD Regulation 
ENCFF114QME ENCFF114QME GM23338: (4) H3K27ac, ENCFF114QME Regulation 
ENCFF112GCV ENCFF112GCV Prostate gland, male adult (37 years): (4) H3K27ac, ENCFF112GCV Regulation 
ENCFF537PUA ENCFF537PUA PC-3: (4) H3K27ac, ENCFF537PUA Regulation 
ENCFF426TLD ENCFF426TLD HFFc6: (4) H3K27ac, ENCFF426TLD Regulation 
ENCFF306RJQ ENCFF306RJQ Pancreas, female adult (59 years): (4) H3K27ac, ENCFF306RJQ Regulation 
ENCFF989SFZ ENCFF989SFZ Body of pancreas, male adult (37 years): (4) H3K27ac, ENCFF989SFZ Regulation 
ENCFF859IVY ENCFF859IVY Pancreas, female adult (41 years): (4) H3K27ac, ENCFF859IVY Regulation 
ENCFF827CBM ENCFF827CBM Pancreas, female child (16 years): (4) H3K27ac, ENCFF827CBM Regulation 
ENCFF940UMR ENCFF940UMR Body of pancreas, male adult (54 years): (4) H3K27ac, ENCFF940UMR Regulation 
ENCFF853NJX ENCFF853NJX Body of pancreas, female adult (51 years): (4) H3K27ac, ENCFF853NJX Regulation 
ENCFF948MEI ENCFF948MEI Pancreas, female adult (61 years): (4) H3K27ac, ENCFF948MEI Regulation 
ENCFF370QKJ ENCFF370QKJ Type B pancreatic cell, female embryo (5 days): (4) H3K27ac, ENCFF370QKJ Regulation 
ENCFF201DRD ENCFF201DRD Progenitor cell of endocrine pancreas, female embryo (5 days): (4) H3K27ac, ENCFF201DRD Regulation 
ENCFF493AZX ENCFF493AZX Panc1: (4) H3K27ac, ENCFF493AZX Regulation 
ENCFF038BIZ ENCFF038BIZ Tibial nerve, male adult (37 years): (4) H3K27ac, ENCFF038BIZ Regulation 
ENCFF758AQR ENCFF758AQR Tibial nerve, male adult (54 years): (4) H3K27ac, ENCFF758AQR Regulation 
ENCFF549DZD ENCFF549DZD Tibial nerve, female adult (51 years): (4) H3K27ac, ENCFF549DZD Regulation 
ENCFF793HOY ENCFF793HOY Gastrocnemius medialis, male adult (37 years): (4) H3K27ac, ENCFF793HOY Regulation 
ENCFF322ZPK ENCFF322ZPK Esophagus muscularis mucosa, male adult (37 years): (4) H3K27ac, ENCFF322ZPK Regulation 
ENCFF825YXF ENCFF825YXF Gastrocnemius medialis, female adult (53 years): (4) H3K27ac, ENCFF825YXF Regulation 
ENCFF149TEN ENCFF149TEN Gastrocnemius medialis, male adult (54 years): (4) H3K27ac, ENCFF149TEN Regulation 
ENCFF638ZRF ENCFF638ZRF Gastrocnemius medialis, female adult (51 years): (4) H3K27ac, ENCFF638ZRF Regulation 
ENCFF485DKZ ENCFF485DKZ Cardiac muscle cell, embryo: (4) H3K27ac, ENCFF485DKZ Regulation 
ENCFF213BSP ENCFF213BSP A673: (4) H3K27ac, ENCFF213BSP Regulation 
ENCFF375YPQ ENCFF375YPQ Lower lobe of left lung, female adult (59 years): (4) H3K27ac, ENCFF375YPQ Regulation 
ENCFF607SXR ENCFF607SXR Upper lobe of left lung, male adult (37 years): (4) H3K27ac, ENCFF607SXR Regulation 
ENCFF174WAB ENCFF174WAB Upper lobe of left lung, female adult (53 years): (4) H3K27ac, ENCFF174WAB Regulation 
ENCFF397ZHX ENCFF397ZHX Left lung, female child (16 years): (4) H3K27ac, ENCFF397ZHX Regulation 
ENCFF504NPN ENCFF504NPN Lower lobe of left lung, male adult (60 years): (4) H3K27ac, ENCFF504NPN Regulation 
ENCFF752LEN ENCFF752LEN Upper lobe of left lung, male adult (54 years): (4) H3K27ac, ENCFF752LEN Regulation 
ENCFF441OEQ ENCFF441OEQ Left lung, male adult (40 years): (4) H3K27ac, ENCFF441OEQ Regulation 
ENCFF054VRQ ENCFF054VRQ Upper lobe of left lung, female adult (51 years): (4) H3K27ac, ENCFF054VRQ Regulation 
ENCFF907RYE ENCFF907RYE PC-9: (4) H3K27ac, ENCFF907RYE Regulation 
ENCFF389RGR ENCFF389RGR AG04450: (4) H3K27ac, ENCFF389RGR Regulation 
ENCFF699OAR ENCFF699OAR IMR-90: (4) H3K27ac, ENCFF699OAR Regulation 
ENCFF764VSN ENCFF764VSN Right lobe of liver, female adult (53 years): (4) H3K27ac, ENCFF764VSN Regulation 
ENCFF347LDC ENCFF347LDC Hepatocyte, female embryo (5 days): (4) H3K27ac, ENCFF347LDC Regulation 
ENCFF795ONN ENCFF795ONN HepG2: (4) H3K27ac, ENCFF795ONN Regulation 
ENCFF532ZGB ENCFF532ZGB Transverse colon, male adult (37 years): (4) H3K27ac, ENCFF532ZGB Regulation 
ENCFF318ECM ENCFF318ECM Transverse colon, female adult (53 years): (4) H3K27ac, ENCFF318ECM Regulation 
ENCFF111DLN ENCFF111DLN Sigmoid colon, female adult (53 years): (4) H3K27ac, ENCFF111DLN Regulation 
ENCFF004SRJ ENCFF004SRJ Colonic mucosa, female adult (41 years): (4) H3K27ac, ENCFF004SRJ Regulation 
ENCFF427MZX ENCFF427MZX Transverse colon, male adult (54 years): (4) H3K27ac, ENCFF427MZX Regulation 
ENCFF322NLT ENCFF322NLT Sigmoid colon, male adult (54 years): (4) H3K27ac, ENCFF322NLT Regulation 
ENCFF741NZM ENCFF741NZM Transverse colon, female adult (51 years): (4) H3K27ac, ENCFF741NZM Regulation 
ENCFF619JXN ENCFF619JXN Caco-2: (4) H3K27ac, ENCFF619JXN Regulation 
ENCFF787LMI ENCFF787LMI HCT116: (4) H3K27ac, ENCFF787LMI Regulation 
ENCFF982IVZ ENCFF982IVZ Heart right ventricle, male adult (43 years): (4) H3K27ac, ENCFF982IVZ Regulation 
ENCFF617TKL ENCFF617TKL Heart left ventricle, male adult (43 years): (4) H3K27ac, ENCFF617TKL Regulation 
ENCFF400FAA ENCFF400FAA Heart right ventricle, male adult (66 years): (4) H3K27ac, ENCFF400FAA Regulation 
ENCFF707MHB ENCFF707MHB Heart left ventricle, female adult (56 years): (4) H3K27ac, ENCFF707MHB Regulation 
ENCFF509VVM ENCFF509VVM Heart right ventricle, female adult (56 years): (4) H3K27ac, ENCFF509VVM Regulation 
ENCFF135RBK ENCFF135RBK Heart left ventricle, female adult (59 years): (4) H3K27ac, ENCFF135RBK Regulation 
ENCFF345XIS ENCFF345XIS Heart right ventricle, male adult (61 years): (4) H3K27ac, ENCFF345XIS Regulation 
ENCFF337EUB ENCFF337EUB Right atrium auricular region, female adult (53 years): (4) H3K27ac, ENCFF337EUB Regulation 
ENCFF320IPT ENCFF320IPT Heart left ventricle, female adult (53 years): (4) H3K27ac, ENCFF320IPT Regulation 
ENCFF960KLD ENCFF960KLD Left ventricle myocardium inferior, male adult (60 years): (4) H3K27ac, ENCFF960KLD Regulation 
ENCFF346GTT ENCFF346GTT Heart right ventricle, male adult (69 years): (4) H3K27ac, ENCFF346GTT Regulation 
ENCFF406YGS ENCFF406YGS Heart right ventricle, female adult (46 years): (4) H3K27ac, ENCFF406YGS Regulation 
ENCFF352YYH ENCFF352YYH Heart left ventricle, female adult (46 years): (4) H3K27ac, ENCFF352YYH Regulation 
ENCFF378PDO ENCFF378PDO Heart right ventricle, male adult (40 years): (4) H3K27ac, ENCFF378PDO Regulation 
ENCFF791CAJ ENCFF791CAJ Right atrium auricular region, female adult (51 years): (4) H3K27ac, ENCFF791CAJ Regulation 
ENCFF109WCV ENCFF109WCV Mesothelial cell of epicardium, female embryo (5 days): (4) H3K27ac, ENCFF109WCV Regulation 
ENCFF949IKU ENCFF949IKU WERI-Rb-1: (4) H3K27ac, ENCFF949IKU Regulation 
ENCFF037TME ENCFF037TME Esophagus squamous epithelium, male adult (37 years): (4) H3K27ac, ENCFF037TME Regulation 
ENCFF708DDX ENCFF708DDX Endothelial cell, male adult (53 years): (4) H3K27ac, ENCFF708DDX Regulation 
ENCFF504UNY ENCFF504UNY Endodermal cell, female embryo (5 days): (4) H3K27ac, ENCFF504UNY Regulation 
ENCFF988WEQ ENCFF988WEQ H9: (4) H3K27ac, ENCFF988WEQ Regulation 
ENCFF919FBG ENCFF919FBG H1: (4) H3K27ac, ENCFF919FBG Regulation 
ENCFF317LGP ENCFF317LGP Chondrocyte, female embryo (5 days): (4) H3K27ac, ENCFF317LGP Regulation 
ENCFF085IYD ENCFF085IYD Breast epithelium, female adult (51 years): (4) H3K27ac, ENCFF085IYD Regulation 
ENCFF063VLJ ENCFF063VLJ MCF-7: (4) H3K27ac, ENCFF063VLJ Regulation 
ENCFF646KVN ENCFF646KVN Middle frontal area 46, male adult (84 years): (4) H3K27ac, ENCFF646KVN Regulation 
ENCFF685BLE ENCFF685BLE Middle frontal area 46 (Alzheimers disease), female adult (86 years) with Alzheimers disease: (4) H3K27ac, ENCFF685BLE Regulation 
ENCFF383TGX ENCFF383TGX Middle frontal area 46 (mild cognitive impairment), female adult (90 or above years) with mild cognitive impairment: (4) H3K27ac, ENCFF383TGX Regulation 
ENCFF472UDH ENCFF472UDH Middle frontal area 46 (Alzheimers disease), female adult (74 years) with Alzheimers disease: (4) H3K27ac, ENCFF472UDH Regulation 
ENCFF419XHK ENCFF419XHK Middle frontal area 46 (mild cognitive impairment), male adult (90 or above years) with mild cognitive impairment: (4) H3K27ac, ENCFF419XHK Regulation 
ENCFF380WZB ENCFF380WZB Middle frontal area 46 (Alzheimers disease), female adult (89 years) with Alzheimers disease: (4) H3K27ac, ENCFF380WZB Regulation 
ENCFF969AJT ENCFF969AJT Middle frontal area 46 (Alzheimers disease), female adult (90 or above years) with Alzheimers disease: (4) H3K27ac, ENCFF969AJT Regulation 
ENCFF146LLE ENCFF146LLE Middle frontal area 46 (cognitive impairment), female adult (86 years) with Cognitive impairment: (4) H3K27ac, ENCFF146LLE Regulation 
ENCFF820MMW ENCFF820MMW Middle frontal area 46 (mild cognitive impairment), female adult (83 years) with mild cognitive impairment: (4) H3K27ac, ENCFF820MMW Regulation 
ENCFF679HCC ENCFF679HCC Middle frontal area 46 (Alzheimers disease), female adult (89 years) with Alzheimers disease: (4) H3K27ac, ENCFF679HCC Regulation 
ENCFF280YLT ENCFF280YLT Middle frontal area 46 (mild cognitive impairment), female adult (90 or above years) with mild cognitive impairment: (4) H3K27ac, ENCFF280YLT Regulation 
ENCFF156YTC ENCFF156YTC Middle frontal area 46, male adult (83 years): (4) H3K27ac, ENCFF156YTC Regulation 
ENCFF986LOD ENCFF986LOD Middle frontal area 46, female adult (89 years): (4) H3K27ac, ENCFF986LOD Regulation 
ENCFF137KZR ENCFF137KZR Middle frontal area 46 (mild cognitive impairment), male adult (89 years) with mild cognitive impairment: (4) H3K27ac, ENCFF137KZR Regulation 
ENCFF701XQB ENCFF701XQB Middle frontal area 46 (mild cognitive impairment), female adult (90 or above years) with mild cognitive impairment: (4) H3K27ac, ENCFF701XQB Regulation 
ENCFF371ZKC ENCFF371ZKC Middle frontal area 46, female adult (88 years): (4) H3K27ac, ENCFF371ZKC Regulation 
ENCFF943HGP ENCFF943HGP Middle frontal area 46, male adult (86 years): (4) H3K27ac, ENCFF943HGP Regulation 
ENCFF686LXM ENCFF686LXM Middle frontal area 46 (mild cognitive impairment), female adult (90 or above years) with mild cognitive impairment: (4) H3K27ac, ENCFF686LXM Regulation 
ENCFF489BZS ENCFF489BZS Middle frontal area 46, female adult (87 years): (4) H3K27ac, ENCFF489BZS Regulation 
ENCFF111ACH ENCFF111ACH Middle frontal area 46 (Alzheimers disease), female adult (90 or above years) with Alzheimers disease: (4) H3K27ac, ENCFF111ACH Regulation 
ENCFF646GXZ ENCFF646GXZ Middle frontal area 46 (mild cognitive impairment), female adult (90 or above years) with mild cognitive impairment: (4) H3K27ac, ENCFF646GXZ Regulation 
ENCFF973ZFT ENCFF973ZFT Middle frontal area 46, male adult (78 years): (4) H3K27ac, ENCFF973ZFT Regulation 
ENCFF909JLH ENCFF909JLH Middle frontal area 46, female adult (79 years): (4) H3K27ac, ENCFF909JLH Regulation 
ENCFF942YRH ENCFF942YRH Middle frontal area 46, male adult (83 years): (4) H3K27ac, ENCFF942YRH Regulation 
ENCFF242WZH ENCFF242WZH Middle frontal area 46, male adult (71 years): (4) H3K27ac, ENCFF242WZH Regulation 
ENCFF750UAD ENCFF750UAD Middle frontal area 46 (mild cognitive impairment), female adult (90 or above years) with mild cognitive impairment: (4) H3K27ac, ENCFF750UAD Regulation 
ENCFF156GJU ENCFF156GJU Middle frontal area 46, female adult (84 years): (4) H3K27ac, ENCFF156GJU Regulation 
ENCFF398ITJ ENCFF398ITJ Middle frontal area 46, female adult (83 years): (4) H3K27ac, ENCFF398ITJ Regulation 
ENCFF046NYM ENCFF046NYM Middle frontal area 46 (cognitive impairment), female adult (90 or above years) with Cognitive impairment: (4) H3K27ac, ENCFF046NYM Regulation 
ENCFF224JSW ENCFF224JSW Middle frontal area 46, female adult (87 years): (4) H3K27ac, ENCFF224JSW Regulation 
ENCFF272DJL ENCFF272DJL Middle frontal area 46, male adult (82 years): (4) H3K27ac, ENCFF272DJL Regulation 
ENCFF028IBW ENCFF028IBW Middle frontal area 46 (cognitive impairment), female adult (90 or above years) with Cognitive impairment: (4) H3K27ac, ENCFF028IBW Regulation 
ENCFF794RDI ENCFF794RDI Middle frontal area 46 (mild cognitive impairment), female adult (87 years) with mild cognitive impairment: (4) H3K27ac, ENCFF794RDI Regulation 
ENCFF962GLK ENCFF962GLK Middle frontal area 46, female adult (82 years): (4) H3K27ac, ENCFF962GLK Regulation 
ENCFF519CLG ENCFF519CLG Middle frontal area 46, female adult (90 or above years): (4) H3K27ac, ENCFF519CLG Regulation 
ENCFF014NIB ENCFF014NIB Middle frontal area 46, female adult (78 years): (4) H3K27ac, ENCFF014NIB Regulation 
ENCFF694XDN ENCFF694XDN Middle frontal area 46, female adult (90 or above years): (4) H3K27ac, ENCFF694XDN Regulation 
ENCFF658QWN ENCFF658QWN Middle frontal area 46, male adult (87 years): (4) H3K27ac, ENCFF658QWN Regulation 
ENCFF435BRK ENCFF435BRK Middle frontal area 46 (Alzheimers disease), female adult (90 or above years) with Alzheimers disease: (4) H3K27ac, ENCFF435BRK Regulation 
ENCFF238JTO ENCFF238JTO Middle frontal area 46 (mild cognitive impairment), female adult (90 or above years) with mild cognitive impairment: (4) H3K27ac, ENCFF238JTO Regulation 
ENCFF461GFM ENCFF461GFM Middle frontal area 46 (mild cognitive impairment), female adult (88 years) with mild cognitive impairment: (4) H3K27ac, ENCFF461GFM Regulation 
ENCFF649LLS ENCFF649LLS Middle frontal area 46, female adult (90 or above years): (4) H3K27ac, ENCFF649LLS Regulation 
ENCFF480FCW ENCFF480FCW Middle frontal area 46 (Alzheimers disease), female adult (81 years) with Alzheimers disease: (4) H3K27ac, ENCFF480FCW Regulation 
ENCFF194KAZ ENCFF194KAZ Middle frontal area 46 (Alzheimers disease), female adult (85 years) with Alzheimers disease: (4) H3K27ac, ENCFF194KAZ Regulation 
ENCFF224LYA ENCFF224LYA Middle frontal area 46 (cognitive impairment), female adult (81 years) with Cognitive impairment: (4) H3K27ac, ENCFF224LYA Regulation 
ENCFF336MIJ ENCFF336MIJ Middle frontal area 46 (Alzheimers disease), female adult (88 years) with Alzheimers disease: (4) H3K27ac, ENCFF336MIJ Regulation 
ENCFF484YUA ENCFF484YUA Middle frontal area 46 (mild cognitive impairment), female adult (90 or above years) with mild cognitive impairment: (4) H3K27ac, ENCFF484YUA Regulation 
ENCFF703DMY ENCFF703DMY Middle frontal area 46, female adult (90 or above years): (4) H3K27ac, ENCFF703DMY Regulation 
ENCFF643ZMC ENCFF643ZMC Astrocyte: (4) H3K27ac, ENCFF643ZMC Regulation 
ENCFF751GCN ENCFF751GCN Astrocyte, male adult (53 years): (4) H3K27ac, ENCFF751GCN Regulation 
ENCFF435NQW ENCFF435NQW Bipolar neuron (treated), male adult (53 years) treated with 0.5 μg/mL doxycycline hyclate for 4 days: (4) H3K27ac, ENCFF435NQW Regulation 
ENCFF118OBT ENCFF118OBT Glutamatergic neuron, male adult (53 years) male adult (53 years) nuclear fraction: (4) H3K27ac, ENCFF118OBT Regulation 
ENCFF618RAO ENCFF618RAO Neural progenitor cell, female embryo (5 days): (4) H3K27ac, ENCFF618RAO Regulation 
ENCFF262UEH ENCFF262UEH SK-N-SH: (4) H3K27ac, ENCFF262UEH Regulation 
ENCFF900UMO ENCFF900UMO NCI-H929: (4) H3K27ac, ENCFF900UMO Regulation 
ENCFF441MGU ENCFF441MGU Osteocyte, female embryo (5 days): (4) H3K27ac, ENCFF441MGU Regulation 
ENCFF972ZHA ENCFF972ZHA Tibial artery, male adult (37 years): (4) H3K27ac, ENCFF972ZHA Regulation 
ENCFF762YWL ENCFF762YWL Thoracic aorta, male adult (37 years): (4) H3K27ac, ENCFF762YWL Regulation 
ENCFF130NUG ENCFF130NUG Coronary artery, female adult (53 years): (4) H3K27ac, ENCFF130NUG Regulation 
ENCFF118EKX ENCFF118EKX Ascending aorta, female adult (53 years): (4) H3K27ac, ENCFF118EKX Regulation 
ENCFF557HHH ENCFF557HHH Ascending aorta, female adult (51 years): (4) H3K27ac, ENCFF557HHH Regulation 
ENCFF575FKS ENCFF575FKS Brain microvascular endothelial cell: (4) H3K27ac, ENCFF575FKS Regulation 
ENCFF184NWF ENCFF184NWF CD14-positive monocyte, female: (4) H3K27ac, ENCFF184NWF Regulation 
ENCFF481LLD ENCFF481LLD MM.1S: (4) H3K27ac, ENCFF481LLD Regulation 
ENCFF611XLA ENCFF611XLA OCI-LY7: (4) H3K27ac, ENCFF611XLA Regulation 
ENCFF341LLL ENCFF341LLL DND-41: (4) H3K27ac, ENCFF341LLL Regulation 
ENCFF383GZA ENCFF383GZA HL-60: (4) H3K27ac, ENCFF383GZA Regulation 
ENCFF469WVA ENCFF469WVA GM12878: (4) H3K27ac, ENCFF469WVA Regulation 
ENCFF849TDM ENCFF849TDM K562: (4) H3K27ac, ENCFF849TDM Regulation 
ENCFF860MMV ENCFF860MMV Adrenal gland, male adult (37 years): (4) H3K27ac, ENCFF860MMV Regulation 
ENCFF235TYQ ENCFF235TYQ Adrenal gland, female adult (53 years): (4) H3K27ac, ENCFF235TYQ Regulation 
ENCFF988QAR ENCFF988QAR Adrenal gland, female adult (41 years): (4) H3K27ac, ENCFF988QAR Regulation 
ENCFF144JOJ ENCFF144JOJ Adrenal gland, male adult (54 years): (4) H3K27ac, ENCFF144JOJ Regulation 
ENCFF355RRY ENCFF355RRY Adrenal gland, female adult (51 years): (4) H3K27ac, ENCFF355RRY Regulation 
DNase_view DNase ENCODE4 Core Collection of 170 biosamples with sample-specific cCRE annotations & epigenomic signals Regulation 
ENCFF547JQK ENCFF547JQK Vagina, female adult (53 years): (2) DNase, ENCFF547JQK Regulation 
ENCFF525EPU ENCFF525EPU Vagina, female adult (51 years): (2) DNase, ENCFF525EPU Regulation 
ENCFF609VNS ENCFF609VNS Uterus, female adult (53 years): (2) DNase, ENCFF609VNS Regulation 
ENCFF757GHL ENCFF757GHL HeLa-S3: (2) DNase, ENCFF757GHL Regulation 
ENCFF211HIT ENCFF211HIT Thyroid gland, male adult (37 years): (2) DNase, ENCFF211HIT Regulation 
ENCFF047YGB ENCFF047YGB Thyroid gland, female adult (53 years): (2) DNase, ENCFF047YGB Regulation 
ENCFF017LRG ENCFF017LRG Thyroid gland, male adult (54 years): (2) DNase, ENCFF017LRG Regulation 
ENCFF379EHP ENCFF379EHP Thyroid gland, female adult (51 years): (2) DNase, ENCFF379EHP Regulation 
ENCFF589CRI ENCFF589CRI Testis, male adult (37 years): (2) DNase, ENCFF589CRI Regulation 
ENCFF428COP ENCFF428COP Testis, male adult (54 years): (2) DNase, ENCFF428COP Regulation 
ENCFF017QTW ENCFF017QTW Stomach, male adult (37 years): (2) DNase, ENCFF017QTW Regulation 
ENCFF493HHP ENCFF493HHP Stomach, female adult (53 years): (2) DNase, ENCFF493HHP Regulation 
ENCFF164EEU ENCFF164EEU Stomach, male adult (54 years): (2) DNase, ENCFF164EEU Regulation 
ENCFF384IMH ENCFF384IMH Stomach, female adult (51 years): (2) DNase, ENCFF384IMH Regulation 
ENCFF867EIA ENCFF867EIA Spleen, female adult (59 years): (2) DNase, ENCFF867EIA Regulation 
ENCFF162OQB ENCFF162OQB Spleen, female adult (53 years): (2) DNase, ENCFF162OQB Regulation 
ENCFF722LEE ENCFF722LEE Spleen, female adult (41 years): (2) DNase, ENCFF722LEE Regulation 
ENCFF221CLN ENCFF221CLN Spleen, female adult (61 years): (2) DNase, ENCFF221CLN Regulation 
ENCFF926IJX ENCFF926IJX Peyers patch, male adult (37 years): (2) DNase, ENCFF926IJX Regulation 
ENCFF812JCQ ENCFF812JCQ Peyers patch, female adult (53 years): (2) DNase, ENCFF812JCQ Regulation 
ENCFF717OQE ENCFF717OQE Peyers patch, male adult (54 years): (2) DNase, ENCFF717OQE Regulation 
ENCFF241BCT ENCFF241BCT Peyers patch, female adult (51 years): (2) DNase, ENCFF241BCT Regulation 
ENCFF494IGD ENCFF494IGD Keratinocyte, female: (2) DNase, ENCFF494IGD Regulation 
ENCFF766CUM ENCFF766CUM GM23338: (2) DNase, ENCFF766CUM Regulation 
ENCFF241UWA ENCFF241UWA GM23338: (2) DNase, ENCFF241UWA Regulation 
ENCFF865IXT ENCFF865IXT Prostate gland, male adult (37 years): (2) DNase, ENCFF865IXT Regulation 
ENCFF599UKS ENCFF599UKS PC-3: (2) DNase, ENCFF599UKS Regulation 
ENCFF623ZIV ENCFF623ZIV HFFc6: (2) DNase, ENCFF623ZIV Regulation 
ENCFF876OBV ENCFF876OBV Pancreas, female adult (59 years): (2) DNase, ENCFF876OBV Regulation 
ENCFF087WEP ENCFF087WEP Body of pancreas, male adult (37 years): (2) DNase, ENCFF087WEP Regulation 
ENCFF330ZGD ENCFF330ZGD Pancreas, female adult (41 years): (2) DNase, ENCFF330ZGD Regulation 
ENCFF349ZMO ENCFF349ZMO Pancreas, female child (16 years): (2) DNase, ENCFF349ZMO Regulation 
ENCFF649PLC ENCFF649PLC Body of pancreas, male adult (54 years): (2) DNase, ENCFF649PLC Regulation 
ENCFF225DKL ENCFF225DKL Body of pancreas, female adult (51 years): (2) DNase, ENCFF225DKL Regulation 
ENCFF213UEB ENCFF213UEB Pancreas, female adult (61 years): (2) DNase, ENCFF213UEB Regulation 
ENCFF865UWE ENCFF865UWE Progenitor cell of endocrine pancreas, female embryo (5 days): (2) DNase, ENCFF865UWE Regulation 
ENCFF647HDA ENCFF647HDA Type B pancreatic cell, female embryo (5 days): (2) DNase, ENCFF647HDA Regulation 
ENCFF857RXA ENCFF857RXA Panc1: (2) DNase, ENCFF857RXA Regulation 
ENCFF644VHX ENCFF644VHX Tibial nerve, male adult (37 years): (2) DNase, ENCFF644VHX Regulation 
ENCFF798CZY ENCFF798CZY Tibial nerve, male adult (54 years): (2) DNase, ENCFF798CZY Regulation 
ENCFF639UGW ENCFF639UGW Tibial nerve, female adult (51 years): (2) DNase, ENCFF639UGW Regulation 
ENCFF886QYD ENCFF886QYD Esophagus muscularis mucosa, male adult (37 years): (2) DNase, ENCFF886QYD Regulation 
ENCFF066BOK ENCFF066BOK Gastrocnemius medialis, male adult (37 years): (2) DNase, ENCFF066BOK Regulation 
ENCFF712ATQ ENCFF712ATQ Gastrocnemius medialis, female adult (53 years): (2) DNase, ENCFF712ATQ Regulation 
ENCFF898XFY ENCFF898XFY Gastrocnemius medialis, male adult (54 years): (2) DNase, ENCFF898XFY Regulation 
ENCFF103WUK ENCFF103WUK Gastrocnemius medialis, female adult (51 years): (2) DNase, ENCFF103WUK Regulation 
ENCFF648XPS ENCFF648XPS Cardiac muscle cell, embryo: (2) DNase, ENCFF648XPS Regulation 
ENCFF816IIS ENCFF816IIS A673: (2) DNase, ENCFF816IIS Regulation 
ENCFF615BRP ENCFF615BRP Lower lobe of left lung, female adult (59 years): (2) DNase, ENCFF615BRP Regulation 
ENCFF674RXU ENCFF674RXU Upper lobe of left lung, male adult (37 years): (2) DNase, ENCFF674RXU Regulation 
ENCFF960WAV ENCFF960WAV Upper lobe of left lung, female adult (53 years): (2) DNase, ENCFF960WAV Regulation 
ENCFF935VSX ENCFF935VSX Left lung, female child (16 years): (2) DNase, ENCFF935VSX Regulation 
ENCFF421SBY ENCFF421SBY Lower lobe of left lung, male adult (60 years): (2) DNase, ENCFF421SBY Regulation 
ENCFF505TAB ENCFF505TAB Upper lobe of left lung, male adult (54 years): (2) DNase, ENCFF505TAB Regulation 
ENCFF990HTO ENCFF990HTO Left lung, male adult (40 years): (2) DNase, ENCFF990HTO Regulation 
ENCFF279ZNA ENCFF279ZNA Upper lobe of left lung, female adult (51 years): (2) DNase, ENCFF279ZNA Regulation 
ENCFF623TJB ENCFF623TJB PC-9: (2) DNase, ENCFF623TJB Regulation 
ENCFF153DHV ENCFF153DHV AG04450: (2) DNase, ENCFF153DHV Regulation 
ENCFF971HXR ENCFF971HXR IMR-90: (2) DNase, ENCFF971HXR Regulation 
ENCFF020EPF ENCFF020EPF Right lobe of liver, female adult (53 years): (2) DNase, ENCFF020EPF Regulation 
ENCFF902EEH ENCFF902EEH Hepatocyte, female embryo (5 days): (2) DNase, ENCFF902EEH Regulation 
ENCFF546MZK ENCFF546MZK HepG2: (2) DNase, ENCFF546MZK Regulation 
ENCFF753MXL ENCFF753MXL Transverse colon, male adult (37 years): (2) DNase, ENCFF753MXL Regulation 
ENCFF299OOV ENCFF299OOV Sigmoid colon, female adult (53 years): (2) DNase, ENCFF299OOV Regulation 
ENCFF291LZE ENCFF291LZE Transverse colon, female adult (53 years): (2) DNase, ENCFF291LZE Regulation 
ENCFF841ILF ENCFF841ILF Colonic mucosa, female adult (41 years): (2) DNase, ENCFF841ILF Regulation 
ENCFF405NTZ ENCFF405NTZ Transverse colon, male adult (54 years): (2) DNase, ENCFF405NTZ Regulation 
ENCFF028FLY ENCFF028FLY Sigmoid colon, male adult (54 years): (2) DNase, ENCFF028FLY Regulation 
ENCFF138FMV ENCFF138FMV Transverse colon, female adult (51 years): (2) DNase, ENCFF138FMV Regulation 
ENCFF978IHV ENCFF978IHV Caco-2: (2) DNase, ENCFF978IHV Regulation 
ENCFF431JDU ENCFF431JDU HCT116: (2) DNase, ENCFF431JDU Regulation 
ENCFF847FPR ENCFF847FPR Heart right ventricle, male adult (43 years): (2) DNase, ENCFF847FPR Regulation 
ENCFF380ELC ENCFF380ELC Heart left ventricle, male adult (43 years): (2) DNase, ENCFF380ELC Regulation 
ENCFF700MXZ ENCFF700MXZ Heart right ventricle, male adult (66 years): (2) DNase, ENCFF700MXZ Regulation 
ENCFF122VLP ENCFF122VLP Heart left ventricle, female adult (56 years): (2) DNase, ENCFF122VLP Regulation 
ENCFF118JST ENCFF118JST Heart right ventricle, female adult (56 years): (2) DNase, ENCFF118JST Regulation 
ENCFF414ADM ENCFF414ADM Heart left ventricle, female adult (59 years): (2) DNase, ENCFF414ADM Regulation 
ENCFF688CZD ENCFF688CZD Heart right ventricle, male adult (61 years): (2) DNase, ENCFF688CZD Regulation 
ENCFF832GZH ENCFF832GZH Right atrium auricular region, female adult (53 years): (2) DNase, ENCFF832GZH Regulation 
ENCFF417JSF ENCFF417JSF Heart left ventricle, female adult (53 years): (2) DNase, ENCFF417JSF Regulation 
ENCFF644JWK ENCFF644JWK Left ventricle myocardium inferior, male adult (60 years): (2) DNase, ENCFF644JWK Regulation 
ENCFF315VTA ENCFF315VTA Heart right ventricle, male adult (69 years): (2) DNase, ENCFF315VTA Regulation 
ENCFF867HAD ENCFF867HAD Heart left ventricle, female adult (46 years): (2) DNase, ENCFF867HAD Regulation 
ENCFF270GCR ENCFF270GCR Heart right ventricle, female adult (46 years): (2) DNase, ENCFF270GCR Regulation 
ENCFF407UXA ENCFF407UXA Heart right ventricle, male adult (40 years): (2) DNase, ENCFF407UXA Regulation 
ENCFF679FKQ ENCFF679FKQ Right atrium auricular region, female adult (51 years): (2) DNase, ENCFF679FKQ Regulation 
ENCFF447YDA ENCFF447YDA Mesothelial cell of epicardium, female embryo (5 days): (2) DNase, ENCFF447YDA Regulation 
ENCFF291DQP ENCFF291DQP WERI-Rb-1: (2) DNase, ENCFF291DQP Regulation 
ENCFF841VBI ENCFF841VBI Esophagus squamous epithelium, male adult (37 years): (2) DNase, ENCFF841VBI Regulation 
ENCFF706PFS ENCFF706PFS Endothelial cell, male adult (53 years): (2) DNase, ENCFF706PFS Regulation 
ENCFF909KVS ENCFF909KVS Endodermal cell, female embryo (5 days): (2) DNase, ENCFF909KVS Regulation 
ENCFF903ZCB ENCFF903ZCB H9: (2) DNase, ENCFF903ZCB Regulation 
ENCFF573NKX ENCFF573NKX H1: (2) DNase, ENCFF573NKX Regulation 
ENCFF807AUZ ENCFF807AUZ Chondrocyte, female embryo (5 days): (2) DNase, ENCFF807AUZ Regulation 
ENCFF549MXK ENCFF549MXK Breast epithelium, female adult (51 years): (2) DNase, ENCFF549MXK Regulation 
ENCFF270ENA ENCFF270ENA MCF-7: (2) DNase, ENCFF270ENA Regulation 
ENCFF477CEG ENCFF477CEG Middle frontal area 46, male adult (84 years): (2) DNase, ENCFF477CEG Regulation 
ENCFF793FUR ENCFF793FUR Middle frontal area 46 (Alzheimers disease), female adult (86 years) with Alzheimers disease: (2) DNase, ENCFF793FUR Regulation 
ENCFF068GXP ENCFF068GXP Middle frontal area 46 (mild cognitive impairment), female adult (90 or above years) with mild cognitive impairment: (2) DNase, ENCFF068GXP Regulation 
ENCFF492WAE ENCFF492WAE Middle frontal area 46 (Alzheimers disease), female adult (74 years) with Alzheimers disease: (2) DNase, ENCFF492WAE Regulation 
ENCFF397SMJ ENCFF397SMJ Middle frontal area 46 (mild cognitive impairment), male adult (90 or above years) with mild cognitive impairment: (2) DNase, ENCFF397SMJ Regulation 
ENCFF554VOU ENCFF554VOU Middle frontal area 46 (Alzheimers disease), female adult (89 years) with Alzheimers disease: (2) DNase, ENCFF554VOU Regulation 
ENCFF675NNX ENCFF675NNX Middle frontal area 46 (Alzheimers disease), female adult (90 or above years) with Alzheimers disease: (2) DNase, ENCFF675NNX Regulation 
ENCFF412TKS ENCFF412TKS Middle frontal area 46 (cognitive impairment), female adult (86 years) with Cognitive impairment: (2) DNase, ENCFF412TKS Regulation 
ENCFF813QPY ENCFF813QPY Middle frontal area 46 (mild cognitive impairment), female adult (83 years) with mild cognitive impairment: (2) DNase, ENCFF813QPY Regulation 
ENCFF318DDE ENCFF318DDE Middle frontal area 46 (Alzheimers disease), female adult (89 years) with Alzheimers disease: (2) DNase, ENCFF318DDE Regulation 
ENCFF359QRX ENCFF359QRX Middle frontal area 46 (mild cognitive impairment), female adult (90 or above years) with mild cognitive impairment: (2) DNase, ENCFF359QRX Regulation 
ENCFF163NDW ENCFF163NDW Middle frontal area 46, male adult (83 years): (2) DNase, ENCFF163NDW Regulation 
ENCFF286BFK ENCFF286BFK Middle frontal area 46, female adult (89 years): (2) DNase, ENCFF286BFK Regulation 
ENCFF986YEI ENCFF986YEI Middle frontal area 46 (mild cognitive impairment), male adult (89 years) with mild cognitive impairment: (2) DNase, ENCFF986YEI Regulation 
ENCFF456EHL ENCFF456EHL Middle frontal area 46 (mild cognitive impairment), female adult (90 or above years) with mild cognitive impairment: (2) DNase, ENCFF456EHL Regulation 
ENCFF052CPA ENCFF052CPA Middle frontal area 46, female adult (88 years): (2) DNase, ENCFF052CPA Regulation 
ENCFF769AFQ ENCFF769AFQ Middle frontal area 46, male adult (86 years): (2) DNase, ENCFF769AFQ Regulation 
ENCFF592RWK ENCFF592RWK Middle frontal area 46 (mild cognitive impairment), female adult (90 or above years) with mild cognitive impairment: (2) DNase, ENCFF592RWK Regulation 
ENCFF874WYJ ENCFF874WYJ Middle frontal area 46, female adult (87 years): (2) DNase, ENCFF874WYJ Regulation 
ENCFF686DIT ENCFF686DIT Middle frontal area 46 (Alzheimers disease), female adult (90 or above years) with Alzheimers disease: (2) DNase, ENCFF686DIT Regulation 
ENCFF084QJF ENCFF084QJF Middle frontal area 46 (mild cognitive impairment), female adult (90 or above years) with mild cognitive impairment: (2) DNase, ENCFF084QJF Regulation 
ENCFF284PMB ENCFF284PMB Middle frontal area 46, male adult (78 years): (2) DNase, ENCFF284PMB Regulation 
ENCFF179VUT ENCFF179VUT Middle frontal area 46, female adult (79 years): (2) DNase, ENCFF179VUT Regulation 
ENCFF036SMP ENCFF036SMP Middle frontal area 46, male adult (83 years): (2) DNase, ENCFF036SMP Regulation 
ENCFF980SJY ENCFF980SJY Middle frontal area 46, male adult (71 years): (2) DNase, ENCFF980SJY Regulation 
ENCFF632MSC ENCFF632MSC Middle frontal area 46 (mild cognitive impairment), female adult (90 or above years) with mild cognitive impairment: (2) DNase, ENCFF632MSC Regulation 
ENCFF018BZK ENCFF018BZK Middle frontal area 46, female adult (84 years): (2) DNase, ENCFF018BZK Regulation 
ENCFF813UXN ENCFF813UXN Middle frontal area 46, female adult (83 years): (2) DNase, ENCFF813UXN Regulation 
ENCFF463EIN ENCFF463EIN Middle frontal area 46 (cognitive impairment), female adult (90 or above years) with Cognitive impairment: (2) DNase, ENCFF463EIN Regulation 
ENCFF497CVA ENCFF497CVA Middle frontal area 46, female adult (87 years): (2) DNase, ENCFF497CVA Regulation 
ENCFF571QPS ENCFF571QPS Middle frontal area 46, male adult (82 years): (2) DNase, ENCFF571QPS Regulation 
ENCFF305XCA ENCFF305XCA Middle frontal area 46 (cognitive impairment), female adult (90 or above years) with Cognitive impairment: (2) DNase, ENCFF305XCA Regulation 
ENCFF732ABI ENCFF732ABI Middle frontal area 46 (mild cognitive impairment), female adult (87 years) with mild cognitive impairment: (2) DNase, ENCFF732ABI Regulation 
ENCFF427FGG ENCFF427FGG Middle frontal area 46, female adult (82 years): (2) DNase, ENCFF427FGG Regulation 
ENCFF258AWM ENCFF258AWM Middle frontal area 46, female adult (90 or above years): (2) DNase, ENCFF258AWM Regulation 
ENCFF604AYM ENCFF604AYM Middle frontal area 46, female adult (78 years): (2) DNase, ENCFF604AYM Regulation 
ENCFF715WQG ENCFF715WQG Middle frontal area 46, female adult (90 or above years): (2) DNase, ENCFF715WQG Regulation 
ENCFF636BNY ENCFF636BNY Middle frontal area 46, male adult (87 years): (2) DNase, ENCFF636BNY Regulation 
ENCFF767BTZ ENCFF767BTZ Middle frontal area 46 (Alzheimers disease), female adult (90 or above years) with Alzheimers disease: (2) DNase, ENCFF767BTZ Regulation 
ENCFF278VYR ENCFF278VYR Middle frontal area 46 (mild cognitive impairment), female adult (90 or above years) with mild cognitive impairment: (2) DNase, ENCFF278VYR Regulation 
ENCFF686OEZ ENCFF686OEZ Middle frontal area 46 (mild cognitive impairment), female adult (88 years) with mild cognitive impairment: (2) DNase, ENCFF686OEZ Regulation 
ENCFF753DPM ENCFF753DPM Middle frontal area 46, female adult (90 or above years): (2) DNase, ENCFF753DPM Regulation 
ENCFF541ZVM ENCFF541ZVM Middle frontal area 46 (Alzheimers disease), female adult (81 years) with Alzheimers disease: (2) DNase, ENCFF541ZVM Regulation 
ENCFF521HEY ENCFF521HEY Middle frontal area 46 (Alzheimers disease), female adult (85 years) with Alzheimers disease: (2) DNase, ENCFF521HEY Regulation 
ENCFF987RXP ENCFF987RXP Middle frontal area 46 (cognitive impairment), female adult (81 years) with Cognitive impairment: (2) DNase, ENCFF987RXP Regulation 
ENCFF013AMD ENCFF013AMD Middle frontal area 46 (Alzheimers disease), female adult (88 years) with Alzheimers disease: (2) DNase, ENCFF013AMD Regulation 
ENCFF799QGM ENCFF799QGM Middle frontal area 46 (mild cognitive impairment), female adult (90 or above years) with mild cognitive impairment: (2) DNase, ENCFF799QGM Regulation 
ENCFF796XMI ENCFF796XMI Middle frontal area 46, female adult (90 or above years): (2) DNase, ENCFF796XMI Regulation 
ENCFF963PFR ENCFF963PFR Astrocyte: (2) DNase, ENCFF963PFR Regulation 
ENCFF926MIK ENCFF926MIK Astrocyte, male adult (53 years): (2) DNase, ENCFF926MIK Regulation 
ENCFF386FNE ENCFF386FNE Bipolar neuron (treated), male adult (53 years) treated with 0.5 μg/mL doxycycline hyclate for 4 days: (2) DNase, ENCFF386FNE Regulation 
ENCFF269VAY ENCFF269VAY Glutamatergic neuron, male adult (53 years) male adult (53 years) nuclear fraction: (2) DNase, ENCFF269VAY Regulation 
ENCFF286QGB ENCFF286QGB Neural progenitor cell, female embryo (5 days): (2) DNase, ENCFF286QGB Regulation 
ENCFF280RMA ENCFF280RMA SK-N-SH: (2) DNase, ENCFF280RMA Regulation 
ENCFF146ZBO ENCFF146ZBO NCI-H929: (2) DNase, ENCFF146ZBO Regulation 
ENCFF226FAT ENCFF226FAT Osteocyte, female embryo (5 days): (2) DNase, ENCFF226FAT Regulation 
ENCFF156LUX ENCFF156LUX Thoracic aorta, male adult (37 years): (2) DNase, ENCFF156LUX Regulation 
ENCFF013UBZ ENCFF013UBZ Tibial artery, male adult (37 years): (2) DNase, ENCFF013UBZ Regulation 
ENCFF383WYK ENCFF383WYK Coronary artery, female adult (53 years): (2) DNase, ENCFF383WYK Regulation 
ENCFF022SDS ENCFF022SDS Ascending aorta, female adult (53 years): (2) DNase, ENCFF022SDS Regulation 
ENCFF707HLC ENCFF707HLC Ascending aorta, female adult (51 years): (2) DNase, ENCFF707HLC Regulation 
ENCFF472WAW ENCFF472WAW Brain microvascular endothelial cell: (2) DNase, ENCFF472WAW Regulation 
ENCFF389PZY ENCFF389PZY CD14-positive monocyte, female: (2) DNase, ENCFF389PZY Regulation 
ENCFF735XLO ENCFF735XLO MM.1S: (2) DNase, ENCFF735XLO Regulation 
ENCFF136RNO ENCFF136RNO OCI-LY7: (2) DNase, ENCFF136RNO Regulation 
ENCFF969JHD ENCFF969JHD DND-41: (2) DNase, ENCFF969JHD Regulation 
ENCFF339ZGM ENCFF339ZGM HL-60: (2) DNase, ENCFF339ZGM Regulation 
ENCFF428XFI ENCFF428XFI GM12878: (2) DNase, ENCFF428XFI Regulation 
ENCFF414OGC ENCFF414OGC K562: (2) DNase, ENCFF414OGC Regulation 
ENCFF801REE ENCFF801REE Adrenal gland, male adult (37 years): (2) DNase, ENCFF801REE Regulation 
ENCFF518SGA ENCFF518SGA Adrenal gland, female adult (53 years): (2) DNase, ENCFF518SGA Regulation 
ENCFF237KCK ENCFF237KCK Adrenal gland, female adult (41 years): (2) DNase, ENCFF237KCK Regulation 
ENCFF316SZE ENCFF316SZE Adrenal gland, male adult (54 years): (2) DNase, ENCFF316SZE Regulation 
ENCFF693WYZ ENCFF693WYZ Adrenal gland, female adult (51 years): (2) DNase, ENCFF693WYZ Regulation 
CTCF_view CTCF ENCODE4 Core Collection of 170 biosamples with sample-specific cCRE annotations & epigenomic signals Regulation 
ENCFF704JSE ENCFF704JSE Vagina, female adult (53 years): (5) CTCF, ENCFF704JSE Regulation 
ENCFF258LTU ENCFF258LTU Vagina, female adult (51 years): (5) CTCF, ENCFF258LTU Regulation 
ENCFF700PHX ENCFF700PHX Uterus, female adult (53 years): (5) CTCF, ENCFF700PHX Regulation 
ENCFF179RSE ENCFF179RSE HeLa-S3: (5) CTCF, ENCFF179RSE Regulation 
ENCFF874CKO ENCFF874CKO Thyroid gland, male adult (37 years): (5) CTCF, ENCFF874CKO Regulation 
ENCFF603TNI ENCFF603TNI Thyroid gland, female adult (53 years): (5) CTCF, ENCFF603TNI Regulation 
ENCFF510THG ENCFF510THG Thyroid gland, male adult (54 years): (5) CTCF, ENCFF510THG Regulation 
ENCFF397CJU ENCFF397CJU Thyroid gland, female adult (51 years): (5) CTCF, ENCFF397CJU Regulation 
ENCFF453LVK ENCFF453LVK Testis, male adult (37 years): (5) CTCF, ENCFF453LVK Regulation 
ENCFF245HIM ENCFF245HIM Testis, male adult (54 years): (5) CTCF, ENCFF245HIM Regulation 
ENCFF324HRF ENCFF324HRF Stomach, male adult (37 years): (5) CTCF, ENCFF324HRF Regulation 
ENCFF807KJZ ENCFF807KJZ Stomach, female adult (53 years): (5) CTCF, ENCFF807KJZ Regulation 
ENCFF034PJC ENCFF034PJC Stomach, male adult (54 years): (5) CTCF, ENCFF034PJC Regulation 
ENCFF919OEF ENCFF919OEF Stomach, female adult (51 years): (5) CTCF, ENCFF919OEF Regulation 
ENCFF161AWO ENCFF161AWO Spleen, female adult (59 years): (5) CTCF, ENCFF161AWO Regulation 
ENCFF722HFK ENCFF722HFK Spleen, female adult (53 years): (5) CTCF, ENCFF722HFK Regulation 
ENCFF215HQE ENCFF215HQE Spleen, female adult (41 years): (5) CTCF, ENCFF215HQE Regulation 
ENCFF806GMH ENCFF806GMH Spleen, female adult (61 years): (5) CTCF, ENCFF806GMH Regulation 
ENCFF758HAD ENCFF758HAD Peyers patch, male adult (37 years): (5) CTCF, ENCFF758HAD Regulation 
ENCFF945PHV ENCFF945PHV Peyers patch, female adult (53 years): (5) CTCF, ENCFF945PHV Regulation 
ENCFF694HBV ENCFF694HBV Peyers patch, male adult (54 years): (5) CTCF, ENCFF694HBV Regulation 
ENCFF715AGA ENCFF715AGA Peyers patch, female adult (51 years): (5) CTCF, ENCFF715AGA Regulation 
ENCFF638DZB ENCFF638DZB Keratinocyte, female: (5) CTCF, ENCFF638DZB Regulation 
ENCFF553NAP ENCFF553NAP GM23338: (5) CTCF, ENCFF553NAP Regulation 
ENCFF369MIX ENCFF369MIX GM23338: (5) CTCF, ENCFF369MIX Regulation 
ENCFF310UCW ENCFF310UCW Prostate gland, male adult (37 years): (5) CTCF, ENCFF310UCW Regulation 
ENCFF756ESH ENCFF756ESH PC-3: (5) CTCF, ENCFF756ESH Regulation 
ENCFF406SZM ENCFF406SZM HFFc6: (5) CTCF, ENCFF406SZM Regulation 
ENCFF297EQI ENCFF297EQI Pancreas, female adult (59 years): (5) CTCF, ENCFF297EQI Regulation 
ENCFF885ZLN ENCFF885ZLN Body of pancreas, male adult (37 years): (5) CTCF, ENCFF885ZLN Regulation 
ENCFF890FKH ENCFF890FKH Pancreas, female adult (41 years): (5) CTCF, ENCFF890FKH Regulation 
ENCFF521NYK ENCFF521NYK Pancreas, female child (16 years): (5) CTCF, ENCFF521NYK Regulation 
ENCFF078UTK ENCFF078UTK Body of pancreas, male adult (54 years): (5) CTCF, ENCFF078UTK Regulation 
ENCFF893BCC ENCFF893BCC Body of pancreas, female adult (51 years): (5) CTCF, ENCFF893BCC Regulation 
ENCFF232BMJ ENCFF232BMJ Pancreas, female adult (61 years): (5) CTCF, ENCFF232BMJ Regulation 
ENCFF973VNM ENCFF973VNM Type B pancreatic cell, female embryo (5 days): (5) CTCF, ENCFF973VNM Regulation 
ENCFF559SRW ENCFF559SRW Progenitor cell of endocrine pancreas, female embryo (5 days): (5) CTCF, ENCFF559SRW Regulation 
ENCFF004ITE ENCFF004ITE Panc1: (5) CTCF, ENCFF004ITE Regulation 
ENCFF670BZH ENCFF670BZH Tibial nerve, male adult (37 years): (5) CTCF, ENCFF670BZH Regulation 
ENCFF543LIT ENCFF543LIT Tibial nerve, male adult (54 years): (5) CTCF, ENCFF543LIT Regulation 
ENCFF670COF ENCFF670COF Tibial nerve, female adult (51 years): (5) CTCF, ENCFF670COF Regulation 
ENCFF526HRV ENCFF526HRV Esophagus muscularis mucosa, male adult (37 years): (5) CTCF, ENCFF526HRV Regulation 
ENCFF070MOG ENCFF070MOG Gastrocnemius medialis, male adult (37 years): (5) CTCF, ENCFF070MOG Regulation 
ENCFF055HAN ENCFF055HAN Gastrocnemius medialis, female adult (53 years): (5) CTCF, ENCFF055HAN Regulation 
ENCFF782JRA ENCFF782JRA Gastrocnemius medialis, male adult (54 years): (5) CTCF, ENCFF782JRA Regulation 
ENCFF643VTS ENCFF643VTS Gastrocnemius medialis, female adult (51 years): (5) CTCF, ENCFF643VTS Regulation 
ENCFF466BIT ENCFF466BIT Cardiac muscle cell, embryo: (5) CTCF, ENCFF466BIT Regulation 
ENCFF070LLG ENCFF070LLG A673: (5) CTCF, ENCFF070LLG Regulation 
ENCFF033FEG ENCFF033FEG Lower lobe of left lung, female adult (59 years): (5) CTCF, ENCFF033FEG Regulation 
ENCFF862ZOO ENCFF862ZOO Upper lobe of left lung, male adult (37 years): (5) CTCF, ENCFF862ZOO Regulation 
ENCFF543MYI ENCFF543MYI Upper lobe of left lung, female adult (53 years): (5) CTCF, ENCFF543MYI Regulation 
ENCFF975RFH ENCFF975RFH Left lung, female child (16 years): (5) CTCF, ENCFF975RFH Regulation 
ENCFF812ODW ENCFF812ODW Lower lobe of left lung, male adult (60 years): (5) CTCF, ENCFF812ODW Regulation 
ENCFF750ENA ENCFF750ENA Upper lobe of left lung, male adult (54 years): (5) CTCF, ENCFF750ENA Regulation 
ENCFF002ZEZ ENCFF002ZEZ Left lung, male adult (40 years): (5) CTCF, ENCFF002ZEZ Regulation 
ENCFF468WUY ENCFF468WUY Upper lobe of left lung, female adult (51 years): (5) CTCF, ENCFF468WUY Regulation 
ENCFF936QRH ENCFF936QRH PC-9: (5) CTCF, ENCFF936QRH Regulation 
ENCFF766VDL ENCFF766VDL AG04450: (5) CTCF, ENCFF766VDL Regulation 
ENCFF105FHL ENCFF105FHL IMR-90: (5) CTCF, ENCFF105FHL Regulation 
ENCFF005YBS ENCFF005YBS Right lobe of liver, female adult (53 years): (5) CTCF, ENCFF005YBS Regulation 
ENCFF491FMJ ENCFF491FMJ Hepatocyte, female embryo (5 days): (5) CTCF, ENCFF491FMJ Regulation 
ENCFF357NFO ENCFF357NFO HepG2: (5) CTCF, ENCFF357NFO Regulation 
ENCFF646EZE ENCFF646EZE Transverse colon, male adult (37 years): (5) CTCF, ENCFF646EZE Regulation 
ENCFF493XMW ENCFF493XMW Transverse colon, female adult (53 years): (5) CTCF, ENCFF493XMW Regulation 
ENCFF154FOF ENCFF154FOF Sigmoid colon, female adult (53 years): (5) CTCF, ENCFF154FOF Regulation 
ENCFF546ZNQ ENCFF546ZNQ Colonic mucosa, female adult (41 years): (5) CTCF, ENCFF546ZNQ Regulation 
ENCFF634JUC ENCFF634JUC Sigmoid colon, male adult (54 years): (5) CTCF, ENCFF634JUC Regulation 
ENCFF435CDF ENCFF435CDF Transverse colon, male adult (54 years): (5) CTCF, ENCFF435CDF Regulation 
ENCFF626YRZ ENCFF626YRZ Transverse colon, female adult (51 years): (5) CTCF, ENCFF626YRZ Regulation 
ENCFF227NGR ENCFF227NGR Caco-2: (5) CTCF, ENCFF227NGR Regulation 
ENCFF388PVO ENCFF388PVO HCT116: (5) CTCF, ENCFF388PVO Regulation 
ENCFF915AST ENCFF915AST Heart left ventricle, male adult (43 years): (5) CTCF, ENCFF915AST Regulation 
ENCFF505OIJ ENCFF505OIJ Heart right ventricle, male adult (43 years): (5) CTCF, ENCFF505OIJ Regulation 
ENCFF430LIA ENCFF430LIA Heart right ventricle, male adult (66 years): (5) CTCF, ENCFF430LIA Regulation 
ENCFF412TOH ENCFF412TOH Heart left ventricle, female adult (56 years): (5) CTCF, ENCFF412TOH Regulation 
ENCFF257ODJ ENCFF257ODJ Heart right ventricle, female adult (56 years): (5) CTCF, ENCFF257ODJ Regulation 
ENCFF541CSJ ENCFF541CSJ Heart left ventricle, female adult (59 years): (5) CTCF, ENCFF541CSJ Regulation 
ENCFF011PEP ENCFF011PEP Heart right ventricle, male adult (61 years): (5) CTCF, ENCFF011PEP Regulation 
ENCFF886TBW ENCFF886TBW Right atrium auricular region, female adult (53 years): (5) CTCF, ENCFF886TBW Regulation 
ENCFF440RUS ENCFF440RUS Heart left ventricle, female adult (53 years): (5) CTCF, ENCFF440RUS Regulation 
ENCFF829QZW ENCFF829QZW Left ventricle myocardium inferior, male adult (60 years): (5) CTCF, ENCFF829QZW Regulation 
ENCFF359FNN ENCFF359FNN Heart right ventricle, male adult (69 years): (5) CTCF, ENCFF359FNN Regulation 
ENCFF803TUM ENCFF803TUM Heart right ventricle, female adult (46 years): (5) CTCF, ENCFF803TUM Regulation 
ENCFF252IVK ENCFF252IVK Heart left ventricle, female adult (46 years): (5) CTCF, ENCFF252IVK Regulation 
ENCFF170TDI ENCFF170TDI Heart right ventricle, male adult (40 years): (5) CTCF, ENCFF170TDI Regulation 
ENCFF872ERK ENCFF872ERK Right atrium auricular region, female adult (51 years): (5) CTCF, ENCFF872ERK Regulation 
ENCFF962LOU ENCFF962LOU Mesothelial cell of epicardium, female embryo (5 days): (5) CTCF, ENCFF962LOU Regulation 
ENCFF181ESK ENCFF181ESK WERI-Rb-1: (5) CTCF, ENCFF181ESK Regulation 
ENCFF536DEU ENCFF536DEU Esophagus squamous epithelium, male adult (37 years): (5) CTCF, ENCFF536DEU Regulation 
ENCFF084YDG ENCFF084YDG Endothelial cell, male adult (53 years): (5) CTCF, ENCFF084YDG Regulation 
ENCFF976GAM ENCFF976GAM Endodermal cell, female embryo (5 days): (5) CTCF, ENCFF976GAM Regulation 
ENCFF963CHU ENCFF963CHU H9: (5) CTCF, ENCFF963CHU Regulation 
ENCFF332TNJ ENCFF332TNJ H1: (5) CTCF, ENCFF332TNJ Regulation 
ENCFF044ORH ENCFF044ORH Chondrocyte, female embryo (5 days): (5) CTCF, ENCFF044ORH Regulation 
ENCFF271PWB ENCFF271PWB Breast epithelium, female adult (51 years): (5) CTCF, ENCFF271PWB Regulation 
ENCFF662LGI ENCFF662LGI MCF-7: (5) CTCF, ENCFF662LGI Regulation 
ENCFF496PUD ENCFF496PUD Middle frontal area 46, male adult (84 years): (5) CTCF, ENCFF496PUD Regulation 
ENCFF754BJX ENCFF754BJX Middle frontal area 46 (Alzheimers disease), female adult (86 years) with Alzheimers disease: (5) CTCF, ENCFF754BJX Regulation 
ENCFF409LLA ENCFF409LLA Middle frontal area 46 (mild cognitive impairment), female adult (90 or above years) with mild cognitive impairment: (5) CTCF, ENCFF409LLA Regulation 
ENCFF326PAG ENCFF326PAG Middle frontal area 46 (Alzheimers disease), female adult (74 years) with Alzheimers disease: (5) CTCF, ENCFF326PAG Regulation 
ENCFF457ZFQ ENCFF457ZFQ Middle frontal area 46 (mild cognitive impairment), male adult (90 or above years) with mild cognitive impairment: (5) CTCF, ENCFF457ZFQ Regulation 
ENCFF812RLY ENCFF812RLY Middle frontal area 46 (Alzheimers disease), female adult (89 years) with Alzheimers disease: (5) CTCF, ENCFF812RLY Regulation 
ENCFF345GCX ENCFF345GCX Middle frontal area 46 (Alzheimers disease), female adult (90 or above years) with Alzheimers disease: (5) CTCF, ENCFF345GCX Regulation 
ENCFF884XLS ENCFF884XLS Middle frontal area 46 (cognitive impairment), female adult (86 years) with Cognitive impairment: (5) CTCF, ENCFF884XLS Regulation 
ENCFF884MZR ENCFF884MZR Middle frontal area 46 (mild cognitive impairment), female adult (83 years) with mild cognitive impairment: (5) CTCF, ENCFF884MZR Regulation 
ENCFF695EYC ENCFF695EYC Middle frontal area 46 (Alzheimers disease), female adult (89 years) with Alzheimers disease: (5) CTCF, ENCFF695EYC Regulation 
ENCFF433RNM ENCFF433RNM Middle frontal area 46 (mild cognitive impairment), female adult (90 or above years) with mild cognitive impairment: (5) CTCF, ENCFF433RNM Regulation 
ENCFF280OBE ENCFF280OBE Middle frontal area 46, male adult (83 years): (5) CTCF, ENCFF280OBE Regulation 
ENCFF450HJC ENCFF450HJC Middle frontal area 46, female adult (89 years): (5) CTCF, ENCFF450HJC Regulation 
ENCFF341CQE ENCFF341CQE Middle frontal area 46 (mild cognitive impairment), male adult (89 years) with mild cognitive impairment: (5) CTCF, ENCFF341CQE Regulation 
ENCFF968SXQ ENCFF968SXQ Middle frontal area 46 (mild cognitive impairment), female adult (90 or above years) with mild cognitive impairment: (5) CTCF, ENCFF968SXQ Regulation 
ENCFF294XWZ ENCFF294XWZ Middle frontal area 46, female adult (88 years): (5) CTCF, ENCFF294XWZ Regulation 
ENCFF393UAO ENCFF393UAO Middle frontal area 46, male adult (86 years): (5) CTCF, ENCFF393UAO Regulation 
ENCFF111MOL ENCFF111MOL Middle frontal area 46 (mild cognitive impairment), female adult (90 or above years) with mild cognitive impairment: (5) CTCF, ENCFF111MOL Regulation 
ENCFF729DUW ENCFF729DUW Middle frontal area 46, female adult (87 years): (5) CTCF, ENCFF729DUW Regulation 
ENCFF800TZW ENCFF800TZW Middle frontal area 46 (Alzheimers disease), female adult (90 or above years) with Alzheimers disease: (5) CTCF, ENCFF800TZW Regulation 
ENCFF374AEG ENCFF374AEG Middle frontal area 46 (mild cognitive impairment), female adult (90 or above years) with mild cognitive impairment: (5) CTCF, ENCFF374AEG Regulation 
ENCFF693AEK ENCFF693AEK Middle frontal area 46, male adult (78 years): (5) CTCF, ENCFF693AEK Regulation 
ENCFF924IJQ ENCFF924IJQ Middle frontal area 46, female adult (79 years): (5) CTCF, ENCFF924IJQ Regulation 
ENCFF394BNS ENCFF394BNS Middle frontal area 46, male adult (83 years): (5) CTCF, ENCFF394BNS Regulation 
ENCFF816YAI ENCFF816YAI Middle frontal area 46, male adult (71 years): (5) CTCF, ENCFF816YAI Regulation 
ENCFF548SBE ENCFF548SBE Middle frontal area 46 (mild cognitive impairment), female adult (90 or above years) with mild cognitive impairment: (5) CTCF, ENCFF548SBE Regulation 
ENCFF741DPN ENCFF741DPN Middle frontal area 46, female adult (84 years): (5) CTCF, ENCFF741DPN Regulation 
ENCFF992YXC ENCFF992YXC Middle frontal area 46, female adult (83 years): (5) CTCF, ENCFF992YXC Regulation 
ENCFF250VKH ENCFF250VKH Middle frontal area 46 (cognitive impairment), female adult (90 or above years) with Cognitive impairment: (5) CTCF, ENCFF250VKH Regulation 
ENCFF653MQB ENCFF653MQB Middle frontal area 46, female adult (87 years): (5) CTCF, ENCFF653MQB Regulation 
ENCFF423POG ENCFF423POG Middle frontal area 46, male adult (82 years): (5) CTCF, ENCFF423POG Regulation 
ENCFF258OMT ENCFF258OMT Middle frontal area 46 (cognitive impairment), female adult (90 or above years) with Cognitive impairment: (5) CTCF, ENCFF258OMT Regulation 
ENCFF888DOQ ENCFF888DOQ Middle frontal area 46 (mild cognitive impairment), female adult (87 years) with mild cognitive impairment: (5) CTCF, ENCFF888DOQ Regulation 
ENCFF417AGZ ENCFF417AGZ Middle frontal area 46, female adult (82 years): (5) CTCF, ENCFF417AGZ Regulation 
ENCFF488PRF ENCFF488PRF Middle frontal area 46, female adult (90 or above years): (5) CTCF, ENCFF488PRF Regulation 
ENCFF203LSD ENCFF203LSD Middle frontal area 46, female adult (78 years): (5) CTCF, ENCFF203LSD Regulation 
ENCFF161XMB ENCFF161XMB Middle frontal area 46, female adult (90 or above years): (5) CTCF, ENCFF161XMB Regulation 
ENCFF961RFY ENCFF961RFY Middle frontal area 46, male adult (87 years): (5) CTCF, ENCFF961RFY Regulation 
ENCFF891CZD ENCFF891CZD Middle frontal area 46 (Alzheimers disease), female adult (90 or above years) with Alzheimers disease: (5) CTCF, ENCFF891CZD Regulation 
ENCFF264VOP ENCFF264VOP Middle frontal area 46 (mild cognitive impairment), female adult (90 or above years) with mild cognitive impairment: (5) CTCF, ENCFF264VOP Regulation 
ENCFF072ETP ENCFF072ETP Middle frontal area 46 (mild cognitive impairment), female adult (88 years) with mild cognitive impairment: (5) CTCF, ENCFF072ETP Regulation 
ENCFF554FTX ENCFF554FTX Middle frontal area 46, female adult (90 or above years): (5) CTCF, ENCFF554FTX Regulation 
ENCFF796CNP ENCFF796CNP Middle frontal area 46 (Alzheimers disease), female adult (81 years) with Alzheimers disease: (5) CTCF, ENCFF796CNP Regulation 
ENCFF263VJQ ENCFF263VJQ Middle frontal area 46 (Alzheimers disease), female adult (85 years) with Alzheimers disease: (5) CTCF, ENCFF263VJQ Regulation 
ENCFF081IRZ ENCFF081IRZ Middle frontal area 46 (cognitive impairment), female adult (81 years) with Cognitive impairment: (5) CTCF, ENCFF081IRZ Regulation 
ENCFF302UYV ENCFF302UYV Middle frontal area 46 (Alzheimers disease), female adult (88 years) with Alzheimers disease: (5) CTCF, ENCFF302UYV Regulation 
ENCFF685MPU ENCFF685MPU Middle frontal area 46 (mild cognitive impairment), female adult (90 or above years) with mild cognitive impairment: (5) CTCF, ENCFF685MPU Regulation 
ENCFF782LSR ENCFF782LSR Middle frontal area 46, female adult (90 or above years): (5) CTCF, ENCFF782LSR Regulation 
ENCFF714NPP ENCFF714NPP Astrocyte: (5) CTCF, ENCFF714NPP Regulation 
ENCFF569HGW ENCFF569HGW Astrocyte, male adult (53 years): (5) CTCF, ENCFF569HGW Regulation 
ENCFF541XGP ENCFF541XGP Bipolar neuron (treated), male adult (53 years) treated with 0.5 μg/mL doxycycline hyclate for 4 days: (5) CTCF, ENCFF541XGP Regulation 
ENCFF536VOI ENCFF536VOI Glutamatergic neuron, male adult (53 years) male adult (53 years) nuclear fraction: (5) CTCF, ENCFF536VOI Regulation 
ENCFF700SCP ENCFF700SCP Neural progenitor cell, female embryo (5 days): (5) CTCF, ENCFF700SCP Regulation 
ENCFF850MLW ENCFF850MLW SK-N-SH: (5) CTCF, ENCFF850MLW Regulation 
ENCFF327WOL ENCFF327WOL NCI-H929: (5) CTCF, ENCFF327WOL Regulation 
ENCFF897TLT ENCFF897TLT Osteocyte, female embryo (5 days): (5) CTCF, ENCFF897TLT Regulation 
ENCFF500RDL ENCFF500RDL Tibial artery, male adult (37 years): (5) CTCF, ENCFF500RDL Regulation 
ENCFF429ZQN ENCFF429ZQN Thoracic aorta, male adult (37 years): (5) CTCF, ENCFF429ZQN Regulation 
ENCFF857NIC ENCFF857NIC Ascending aorta, female adult (53 years): (5) CTCF, ENCFF857NIC Regulation 
ENCFF341RAH ENCFF341RAH Coronary artery, female adult (53 years): (5) CTCF, ENCFF341RAH Regulation 
ENCFF880CZK ENCFF880CZK Ascending aorta, female adult (51 years): (5) CTCF, ENCFF880CZK Regulation 
ENCFF176ELT ENCFF176ELT Brain microvascular endothelial cell: (5) CTCF, ENCFF176ELT Regulation 
ENCFF496PSJ ENCFF496PSJ CD14-positive monocyte, female: (5) CTCF, ENCFF496PSJ Regulation 
ENCFF838OJW ENCFF838OJW MM.1S: (5) CTCF, ENCFF838OJW Regulation 
ENCFF975BGM ENCFF975BGM OCI-LY7: (5) CTCF, ENCFF975BGM Regulation 
ENCFF398MEO ENCFF398MEO DND-41: (5) CTCF, ENCFF398MEO Regulation 
ENCFF244CXJ ENCFF244CXJ HL-60: (5) CTCF, ENCFF244CXJ Regulation 
ENCFF644EEX ENCFF644EEX GM12878: (5) CTCF, ENCFF644EEX Regulation 
ENCFF736UDR ENCFF736UDR K562: (5) CTCF, ENCFF736UDR Regulation 
ENCFF804PBU ENCFF804PBU Adrenal gland, male adult (37 years): (5) CTCF, ENCFF804PBU Regulation 
ENCFF419QIY ENCFF419QIY Adrenal gland, female adult (53 years): (5) CTCF, ENCFF419QIY Regulation 
ENCFF796PZW ENCFF796PZW Adrenal gland, female adult (41 years): (5) CTCF, ENCFF796PZW Regulation 
ENCFF035TJC ENCFF035TJC Adrenal gland, male adult (54 years): (5) CTCF, ENCFF035TJC Regulation 
ENCFF673UYG ENCFF673UYG Adrenal gland, female adult (51 years): (5) CTCF, ENCFF673UYG Regulation 
cCREs_view cCREs ENCODE4 Core Collection of 170 biosamples with sample-specific cCRE annotations & epigenomic signals Regulation 
ENCFF547JQK_ENCFF379GSJ_ENCFF738HRV_ENCFF704JSE ENCFF547JQK_ENCFF379GSJ_ENCFF738HRV_ENCFF704JSE Vagina, female adult (53 years): (1) cCREs Regulation 
ENCFF525EPU_ENCFF904YBG_ENCFF092VQF_ENCFF258LTU ENCFF525EPU_ENCFF904YBG_ENCFF092VQF_ENCFF258LTU Vagina, female adult (51 years): (1) cCREs Regulation 
ENCFF609VNS_ENCFF370WIV_ENCFF154QOP_ENCFF700PHX ENCFF609VNS_ENCFF370WIV_ENCFF154QOP_ENCFF700PHX Uterus, female adult (53 years): (1) cCREs Regulation 
ENCFF757GHL_ENCFF432PYK_ENCFF658XKZ_ENCFF179RSE ENCFF757GHL_ENCFF432PYK_ENCFF658XKZ_ENCFF179RSE HeLa-S3: (1) cCREs Regulation 
ENCFF211HIT_ENCFF501SGE_ENCFF546UQS_ENCFF874CKO ENCFF211HIT_ENCFF501SGE_ENCFF546UQS_ENCFF874CKO Thyroid gland, male adult (37 years): (1) cCREs Regulation 
ENCFF047YGB_ENCFF145RER_ENCFF050PLB_ENCFF603TNI ENCFF047YGB_ENCFF145RER_ENCFF050PLB_ENCFF603TNI Thyroid gland, female adult (53 years): (1) cCREs Regulation 
ENCFF017LRG_ENCFF229BVH_ENCFF573DJV_ENCFF510THG ENCFF017LRG_ENCFF229BVH_ENCFF573DJV_ENCFF510THG Thyroid gland, male adult (54 years): (1) cCREs Regulation 
ENCFF379EHP_ENCFF321LZL_ENCFF774RLX_ENCFF397CJU ENCFF379EHP_ENCFF321LZL_ENCFF774RLX_ENCFF397CJU Thyroid gland, female adult (51 years): (1) cCREs Regulation 
ENCFF589CRI_ENCFF229BGF_ENCFF487SXN_ENCFF453LVK ENCFF589CRI_ENCFF229BGF_ENCFF487SXN_ENCFF453LVK Testis, male adult (37 years): (1) cCREs Regulation 
ENCFF428COP_ENCFF665CXY_ENCFF246QNM_ENCFF245HIM ENCFF428COP_ENCFF665CXY_ENCFF246QNM_ENCFF245HIM Testis, male adult (54 years): (1) cCREs Regulation 
ENCFF017QTW_ENCFF751MDE_ENCFF975CDE_ENCFF324HRF ENCFF017QTW_ENCFF751MDE_ENCFF975CDE_ENCFF324HRF Stomach, male adult (37 years): (1) cCREs Regulation 
ENCFF493HHP_ENCFF641DNV_ENCFF225PPI_ENCFF807KJZ ENCFF493HHP_ENCFF641DNV_ENCFF225PPI_ENCFF807KJZ Stomach, female adult (53 years): (1) cCREs Regulation 
ENCFF164EEU_ENCFF391KDD_ENCFF493RLF_ENCFF034PJC ENCFF164EEU_ENCFF391KDD_ENCFF493RLF_ENCFF034PJC Stomach, male adult (54 years): (1) cCREs Regulation 
ENCFF384IMH_ENCFF283ZMI_ENCFF732NXU_ENCFF919OEF ENCFF384IMH_ENCFF283ZMI_ENCFF732NXU_ENCFF919OEF Stomach, female adult (51 years): (1) cCREs Regulation 
ENCFF867EIA_ENCFF842QQE_ENCFF428HQD_ENCFF161AWO ENCFF867EIA_ENCFF842QQE_ENCFF428HQD_ENCFF161AWO Spleen, female adult (59 years): (1) cCREs Regulation 
ENCFF162OQB_ENCFF387XJD_ENCFF987FRB_ENCFF722HFK ENCFF162OQB_ENCFF387XJD_ENCFF987FRB_ENCFF722HFK Spleen, female adult (53 years): (1) cCREs Regulation 
ENCFF722LEE_ENCFF077FBW_ENCFF634AAL_ENCFF215HQE ENCFF722LEE_ENCFF077FBW_ENCFF634AAL_ENCFF215HQE Spleen, female adult (41 years): (1) cCREs Regulation 
ENCFF221CLN_ENCFF551GZK_ENCFF438NSZ_ENCFF806GMH ENCFF221CLN_ENCFF551GZK_ENCFF438NSZ_ENCFF806GMH Spleen, female adult (61 years): (1) cCREs Regulation 
ENCFF926IJX_ENCFF996ZNX_ENCFF249ILQ_ENCFF758HAD ENCFF926IJX_ENCFF996ZNX_ENCFF249ILQ_ENCFF758HAD Peyers patch, male adult (37 years): (1) cCREs Regulation 
ENCFF812JCQ_ENCFF675KIN_ENCFF302XLU_ENCFF945PHV ENCFF812JCQ_ENCFF675KIN_ENCFF302XLU_ENCFF945PHV Peyers patch, female adult (53 years): (1) cCREs Regulation 
ENCFF717OQE_ENCFF305GQX_ENCFF485RWJ_ENCFF694HBV ENCFF717OQE_ENCFF305GQX_ENCFF485RWJ_ENCFF694HBV Peyers patch, male adult (54 years): (1) cCREs Regulation 
ENCFF241BCT_ENCFF474VCQ_ENCFF525KQP_ENCFF715AGA ENCFF241BCT_ENCFF474VCQ_ENCFF525KQP_ENCFF715AGA Peyers patch, female adult (51 years): (1) cCREs Regulation 
ENCFF494IGD_ENCFF719EBT_ENCFF443TJZ_ENCFF638DZB ENCFF494IGD_ENCFF719EBT_ENCFF443TJZ_ENCFF638DZB Keratinocyte, female: (1) cCREs Regulation 
ENCFF766CUM_ENCFF446OPT_ENCFF641QBD_ENCFF369MIX ENCFF766CUM_ENCFF446OPT_ENCFF641QBD_ENCFF369MIX GM23338: (1) cCREs Regulation 
ENCFF241UWA_ENCFF494ASH_ENCFF114QME_ENCFF553NAP ENCFF241UWA_ENCFF494ASH_ENCFF114QME_ENCFF553NAP GM23338: (1) cCREs Regulation 
ENCFF865IXT_ENCFF761PKU_ENCFF112GCV_ENCFF310UCW ENCFF865IXT_ENCFF761PKU_ENCFF112GCV_ENCFF310UCW Prostate gland, male adult (37 years): (1) cCREs Regulation 
ENCFF599UKS_ENCFF319OET_ENCFF537PUA_ENCFF756ESH ENCFF599UKS_ENCFF319OET_ENCFF537PUA_ENCFF756ESH PC-3: (1) cCREs Regulation 
ENCFF623ZIV_ENCFF995LLA_ENCFF426TLD_ENCFF406SZM ENCFF623ZIV_ENCFF995LLA_ENCFF426TLD_ENCFF406SZM HFFc6: (1) cCREs Regulation 
ENCFF876OBV_ENCFF083ENU_ENCFF306RJQ_ENCFF297EQI ENCFF876OBV_ENCFF083ENU_ENCFF306RJQ_ENCFF297EQI Pancreas, female adult (59 years): (1) cCREs Regulation 
ENCFF087WEP_ENCFF285STS_ENCFF989SFZ_ENCFF885ZLN ENCFF087WEP_ENCFF285STS_ENCFF989SFZ_ENCFF885ZLN Body of pancreas, male adult (37 years): (1) cCREs Regulation 
ENCFF330ZGD_ENCFF236JWD_ENCFF859IVY_ENCFF890FKH ENCFF330ZGD_ENCFF236JWD_ENCFF859IVY_ENCFF890FKH Pancreas, female adult (41 years): (1) cCREs Regulation 
ENCFF349ZMO_ENCFF849YNY_ENCFF827CBM_ENCFF521NYK ENCFF349ZMO_ENCFF849YNY_ENCFF827CBM_ENCFF521NYK Pancreas, female child (16 years): (1) cCREs Regulation 
ENCFF649PLC_ENCFF138VRG_ENCFF940UMR_ENCFF078UTK ENCFF649PLC_ENCFF138VRG_ENCFF940UMR_ENCFF078UTK Body of pancreas, male adult (54 years): (1) cCREs Regulation 
ENCFF225DKL_ENCFF127LVQ_ENCFF853NJX_ENCFF893BCC ENCFF225DKL_ENCFF127LVQ_ENCFF853NJX_ENCFF893BCC Body of pancreas, female adult (51 years): (1) cCREs Regulation 
ENCFF213UEB_ENCFF682UWZ_ENCFF948MEI_ENCFF232BMJ ENCFF213UEB_ENCFF682UWZ_ENCFF948MEI_ENCFF232BMJ Pancreas, female adult (61 years): (1) cCREs Regulation 
ENCFF865UWE_ENCFF165GJZ_ENCFF201DRD_ENCFF559SRW ENCFF865UWE_ENCFF165GJZ_ENCFF201DRD_ENCFF559SRW Progenitor cell of endocrine pancreas, female embryo (5 days): (1) cCREs Regulation 
ENCFF647HDA_ENCFF530MCT_ENCFF370QKJ_ENCFF973VNM ENCFF647HDA_ENCFF530MCT_ENCFF370QKJ_ENCFF973VNM Type B pancreatic cell, female embryo (5 days): (1) cCREs Regulation 
ENCFF857RXA_ENCFF756NMQ_ENCFF493AZX_ENCFF004ITE ENCFF857RXA_ENCFF756NMQ_ENCFF493AZX_ENCFF004ITE Panc1: (1) cCREs Regulation 
ENCFF644VHX_ENCFF201UPO_ENCFF038BIZ_ENCFF670BZH ENCFF644VHX_ENCFF201UPO_ENCFF038BIZ_ENCFF670BZH Tibial nerve, male adult (37 years): (1) cCREs Regulation 
ENCFF798CZY_ENCFF779PMH_ENCFF758AQR_ENCFF543LIT ENCFF798CZY_ENCFF779PMH_ENCFF758AQR_ENCFF543LIT Tibial nerve, male adult (54 years): (1) cCREs Regulation 
ENCFF639UGW_ENCFF958TLM_ENCFF549DZD_ENCFF670COF ENCFF639UGW_ENCFF958TLM_ENCFF549DZD_ENCFF670COF Tibial nerve, female adult (51 years): (1) cCREs Regulation 
ENCFF886QYD_ENCFF344ITP_ENCFF322ZPK_ENCFF526HRV ENCFF886QYD_ENCFF344ITP_ENCFF322ZPK_ENCFF526HRV Esophagus muscularis mucosa, male adult (37 years): (1) cCREs Regulation 
ENCFF066BOK_ENCFF431FFY_ENCFF793HOY_ENCFF070MOG ENCFF066BOK_ENCFF431FFY_ENCFF793HOY_ENCFF070MOG Gastrocnemius medialis, male adult (37 years): (1) cCREs Regulation 
ENCFF712ATQ_ENCFF880UEZ_ENCFF825YXF_ENCFF055HAN ENCFF712ATQ_ENCFF880UEZ_ENCFF825YXF_ENCFF055HAN Gastrocnemius medialis, female adult (53 years): (1) cCREs Regulation 
ENCFF898XFY_ENCFF772JUK_ENCFF149TEN_ENCFF782JRA ENCFF898XFY_ENCFF772JUK_ENCFF149TEN_ENCFF782JRA Gastrocnemius medialis, male adult (54 years): (1) cCREs Regulation 
ENCFF103WUK_ENCFF707BCP_ENCFF638ZRF_ENCFF643VTS ENCFF103WUK_ENCFF707BCP_ENCFF638ZRF_ENCFF643VTS Gastrocnemius medialis, female adult (51 years): (1) cCREs Regulation 
ENCFF648XPS_ENCFF207MNM_ENCFF485DKZ_ENCFF466BIT ENCFF648XPS_ENCFF207MNM_ENCFF485DKZ_ENCFF466BIT Cardiac muscle cell, embryo: (1) cCREs Regulation 
ENCFF816IIS_ENCFF958CFK_ENCFF213BSP_ENCFF070LLG ENCFF816IIS_ENCFF958CFK_ENCFF213BSP_ENCFF070LLG A673: (1) cCREs Regulation 
ENCFF615BRP_ENCFF902HIA_ENCFF375YPQ_ENCFF033FEG ENCFF615BRP_ENCFF902HIA_ENCFF375YPQ_ENCFF033FEG Lower lobe of left lung, female adult (59 years): (1) cCREs Regulation 
ENCFF674RXU_ENCFF996QZC_ENCFF607SXR_ENCFF862ZOO ENCFF674RXU_ENCFF996QZC_ENCFF607SXR_ENCFF862ZOO Upper lobe of left lung, male adult (37 years): (1) cCREs Regulation 
ENCFF960WAV_ENCFF372LSW_ENCFF174WAB_ENCFF543MYI ENCFF960WAV_ENCFF372LSW_ENCFF174WAB_ENCFF543MYI Upper lobe of left lung, female adult (53 years): (1) cCREs Regulation 
ENCFF935VSX_ENCFF642TNR_ENCFF397ZHX_ENCFF975RFH ENCFF935VSX_ENCFF642TNR_ENCFF397ZHX_ENCFF975RFH Left lung, female child (16 years): (1) cCREs Regulation 
ENCFF421SBY_ENCFF032IZZ_ENCFF504NPN_ENCFF812ODW ENCFF421SBY_ENCFF032IZZ_ENCFF504NPN_ENCFF812ODW Lower lobe of left lung, male adult (60 years): (1) cCREs Regulation 
ENCFF505TAB_ENCFF117DUU_ENCFF752LEN_ENCFF750ENA ENCFF505TAB_ENCFF117DUU_ENCFF752LEN_ENCFF750ENA Upper lobe of left lung, male adult (54 years): (1) cCREs Regulation 
ENCFF990HTO_ENCFF973MQG_ENCFF441OEQ_ENCFF002ZEZ ENCFF990HTO_ENCFF973MQG_ENCFF441OEQ_ENCFF002ZEZ Left lung, male adult (40 years): (1) cCREs Regulation 
ENCFF279ZNA_ENCFF282VQS_ENCFF054VRQ_ENCFF468WUY ENCFF279ZNA_ENCFF282VQS_ENCFF054VRQ_ENCFF468WUY Upper lobe of left lung, female adult (51 years): (1) cCREs Regulation 
ENCFF623TJB_ENCFF465MDM_ENCFF907RYE_ENCFF936QRH ENCFF623TJB_ENCFF465MDM_ENCFF907RYE_ENCFF936QRH PC-9: (1) cCREs Regulation 
ENCFF153DHV_ENCFF573ZFG_ENCFF389RGR_ENCFF766VDL ENCFF153DHV_ENCFF573ZFG_ENCFF389RGR_ENCFF766VDL AG04450: (1) cCREs Regulation 
ENCFF971HXR_ENCFF376ZIM_ENCFF699OAR_ENCFF105FHL ENCFF971HXR_ENCFF376ZIM_ENCFF699OAR_ENCFF105FHL IMR-90: (1) cCREs Regulation 
ENCFF020EPF_ENCFF917LFF_ENCFF764VSN_ENCFF005YBS ENCFF020EPF_ENCFF917LFF_ENCFF764VSN_ENCFF005YBS Right lobe of liver, female adult (53 years): (1) cCREs Regulation 
ENCFF902EEH_ENCFF137IUT_ENCFF347LDC_ENCFF491FMJ ENCFF902EEH_ENCFF137IUT_ENCFF347LDC_ENCFF491FMJ Hepatocyte, female embryo (5 days): (1) cCREs Regulation 
ENCFF546MZK_ENCFF732PJK_ENCFF795ONN_ENCFF357NFO ENCFF546MZK_ENCFF732PJK_ENCFF795ONN_ENCFF357NFO HepG2: (1) cCREs Regulation 
ENCFF753MXL_ENCFF252OBP_ENCFF532ZGB_ENCFF646EZE ENCFF753MXL_ENCFF252OBP_ENCFF532ZGB_ENCFF646EZE Transverse colon, male adult (37 years): (1) cCREs Regulation 
ENCFF299OOV_ENCFF237VMY_ENCFF111DLN_ENCFF154FOF ENCFF299OOV_ENCFF237VMY_ENCFF111DLN_ENCFF154FOF Sigmoid colon, female adult (53 years): (1) cCREs Regulation 
ENCFF291LZE_ENCFF339CRV_ENCFF318ECM_ENCFF493XMW ENCFF291LZE_ENCFF339CRV_ENCFF318ECM_ENCFF493XMW Transverse colon, female adult (53 years): (1) cCREs Regulation 
ENCFF841ILF_ENCFF173NSX_ENCFF004SRJ_ENCFF546ZNQ ENCFF841ILF_ENCFF173NSX_ENCFF004SRJ_ENCFF546ZNQ Colonic mucosa, female adult (41 years): (1) cCREs Regulation 
ENCFF405NTZ_ENCFF568IBR_ENCFF427MZX_ENCFF435CDF ENCFF405NTZ_ENCFF568IBR_ENCFF427MZX_ENCFF435CDF Transverse colon, male adult (54 years): (1) cCREs Regulation 
ENCFF028FLY_ENCFF886LUE_ENCFF322NLT_ENCFF634JUC ENCFF028FLY_ENCFF886LUE_ENCFF322NLT_ENCFF634JUC Sigmoid colon, male adult (54 years): (1) cCREs Regulation 
ENCFF138FMV_ENCFF487CTD_ENCFF741NZM_ENCFF626YRZ ENCFF138FMV_ENCFF487CTD_ENCFF741NZM_ENCFF626YRZ Transverse colon, female adult (51 years): (1) cCREs Regulation 
ENCFF978IHV_ENCFF221TSA_ENCFF619JXN_ENCFF227NGR ENCFF978IHV_ENCFF221TSA_ENCFF619JXN_ENCFF227NGR Caco-2: (1) cCREs Regulation 
ENCFF431JDU_ENCFF964OOU_ENCFF787LMI_ENCFF388PVO ENCFF431JDU_ENCFF964OOU_ENCFF787LMI_ENCFF388PVO HCT116: (1) cCREs Regulation 
ENCFF847FPR_ENCFF454ERF_ENCFF982IVZ_ENCFF505OIJ ENCFF847FPR_ENCFF454ERF_ENCFF982IVZ_ENCFF505OIJ Heart right ventricle, male adult (43 years): (1) cCREs Regulation 
ENCFF380ELC_ENCFF155GED_ENCFF617TKL_ENCFF915AST ENCFF380ELC_ENCFF155GED_ENCFF617TKL_ENCFF915AST Heart left ventricle, male adult (43 years): (1) cCREs Regulation 
ENCFF700MXZ_ENCFF663EZB_ENCFF400FAA_ENCFF430LIA ENCFF700MXZ_ENCFF663EZB_ENCFF400FAA_ENCFF430LIA Heart right ventricle, male adult (66 years): (1) cCREs Regulation 
ENCFF122VLP_ENCFF869EMQ_ENCFF707MHB_ENCFF412TOH ENCFF122VLP_ENCFF869EMQ_ENCFF707MHB_ENCFF412TOH Heart left ventricle, female adult (56 years): (1) cCREs Regulation 
ENCFF118JST_ENCFF446ELY_ENCFF509VVM_ENCFF257ODJ ENCFF118JST_ENCFF446ELY_ENCFF509VVM_ENCFF257ODJ Heart right ventricle, female adult (56 years): (1) cCREs Regulation 
ENCFF414ADM_ENCFF614FJF_ENCFF135RBK_ENCFF541CSJ ENCFF414ADM_ENCFF614FJF_ENCFF135RBK_ENCFF541CSJ Heart left ventricle, female adult (59 years): (1) cCREs Regulation 
ENCFF688CZD_ENCFF330KOM_ENCFF345XIS_ENCFF011PEP ENCFF688CZD_ENCFF330KOM_ENCFF345XIS_ENCFF011PEP Heart right ventricle, male adult (61 years): (1) cCREs Regulation 
ENCFF832GZH_ENCFF646DAW_ENCFF337EUB_ENCFF886TBW ENCFF832GZH_ENCFF646DAW_ENCFF337EUB_ENCFF886TBW Right atrium auricular region, female adult (53 years): (1) cCREs Regulation 
ENCFF417JSF_ENCFF651XRK_ENCFF320IPT_ENCFF440RUS ENCFF417JSF_ENCFF651XRK_ENCFF320IPT_ENCFF440RUS Heart left ventricle, female adult (53 years): (1) cCREs Regulation 
ENCFF644JWK_ENCFF237QAL_ENCFF960KLD_ENCFF829QZW ENCFF644JWK_ENCFF237QAL_ENCFF960KLD_ENCFF829QZW Left ventricle myocardium inferior, male adult (60 years): (1) cCREs Regulation 
ENCFF315VTA_ENCFF538YZL_ENCFF346GTT_ENCFF359FNN ENCFF315VTA_ENCFF538YZL_ENCFF346GTT_ENCFF359FNN Heart right ventricle, male adult (69 years): (1) cCREs Regulation 
ENCFF867HAD_ENCFF152PBB_ENCFF352YYH_ENCFF252IVK ENCFF867HAD_ENCFF152PBB_ENCFF352YYH_ENCFF252IVK Heart left ventricle, female adult (46 years): (1) cCREs Regulation 
ENCFF270GCR_ENCFF654FHZ_ENCFF406YGS_ENCFF803TUM ENCFF270GCR_ENCFF654FHZ_ENCFF406YGS_ENCFF803TUM Heart right ventricle, female adult (46 years): (1) cCREs Regulation 
ENCFF407UXA_ENCFF119FKH_ENCFF378PDO_ENCFF170TDI ENCFF407UXA_ENCFF119FKH_ENCFF378PDO_ENCFF170TDI Heart right ventricle, male adult (40 years): (1) cCREs Regulation 
ENCFF679FKQ_ENCFF163VOI_ENCFF791CAJ_ENCFF872ERK ENCFF679FKQ_ENCFF163VOI_ENCFF791CAJ_ENCFF872ERK Right atrium auricular region, female adult (51 years): (1) cCREs Regulation 
ENCFF447YDA_ENCFF712FDJ_ENCFF109WCV_ENCFF962LOU ENCFF447YDA_ENCFF712FDJ_ENCFF109WCV_ENCFF962LOU Mesothelial cell of epicardium, female embryo (5 days): (1) cCREs Regulation 
ENCFF291DQP_ENCFF879CSG_ENCFF949IKU_ENCFF181ESK ENCFF291DQP_ENCFF879CSG_ENCFF949IKU_ENCFF181ESK WERI-Rb-1: (1) cCREs Regulation 
ENCFF841VBI_ENCFF764HZI_ENCFF037TME_ENCFF536DEU ENCFF841VBI_ENCFF764HZI_ENCFF037TME_ENCFF536DEU Esophagus squamous epithelium, male adult (37 years): (1) cCREs Regulation 
ENCFF706PFS_ENCFF543KTX_ENCFF708DDX_ENCFF084YDG ENCFF706PFS_ENCFF543KTX_ENCFF708DDX_ENCFF084YDG Endothelial cell, male adult (53 years): (1) cCREs Regulation 
ENCFF909KVS_ENCFF300WXD_ENCFF504UNY_ENCFF976GAM ENCFF909KVS_ENCFF300WXD_ENCFF504UNY_ENCFF976GAM Endodermal cell, female embryo (5 days): (1) cCREs Regulation 
ENCFF903ZCB_ENCFF179HBV_ENCFF988WEQ_ENCFF963CHU ENCFF903ZCB_ENCFF179HBV_ENCFF988WEQ_ENCFF963CHU H9: (1) cCREs Regulation 
ENCFF573NKX_ENCFF760NUN_ENCFF919FBG_ENCFF332TNJ ENCFF573NKX_ENCFF760NUN_ENCFF919FBG_ENCFF332TNJ H1: (1) cCREs Regulation 
ENCFF807AUZ_ENCFF466YVQ_ENCFF317LGP_ENCFF044ORH ENCFF807AUZ_ENCFF466YVQ_ENCFF317LGP_ENCFF044ORH Chondrocyte, female embryo (5 days): (1) cCREs Regulation 
ENCFF549MXK_ENCFF278ZAD_ENCFF085IYD_ENCFF271PWB ENCFF549MXK_ENCFF278ZAD_ENCFF085IYD_ENCFF271PWB Breast epithelium, female adult (51 years): (1) cCREs Regulation 
ENCFF270ENA_ENCFF935BFQ_ENCFF063VLJ_ENCFF662LGI ENCFF270ENA_ENCFF935BFQ_ENCFF063VLJ_ENCFF662LGI MCF-7: (1) cCREs Regulation 
ENCFF477CEG_ENCFF580GFO_ENCFF646KVN_ENCFF496PUD ENCFF477CEG_ENCFF580GFO_ENCFF646KVN_ENCFF496PUD Middle frontal area 46, male adult (84 years): (1) cCREs Regulation 
ENCFF793FUR_ENCFF220GPW_ENCFF685BLE_ENCFF754BJX ENCFF793FUR_ENCFF220GPW_ENCFF685BLE_ENCFF754BJX Middle frontal area 46 (Alzheimers disease), female adult (86 years) with Alzheimers disease: (1) cCREs Regulation 
ENCFF068GXP_ENCFF507KAZ_ENCFF383TGX_ENCFF409LLA ENCFF068GXP_ENCFF507KAZ_ENCFF383TGX_ENCFF409LLA Middle frontal area 46 (mild cognitive impairment), female adult (90 or above years) with mild cognitive impairment: (1) cCREs Regulation 
ENCFF492WAE_ENCFF586MLV_ENCFF472UDH_ENCFF326PAG ENCFF492WAE_ENCFF586MLV_ENCFF472UDH_ENCFF326PAG Middle frontal area 46 (Alzheimers disease), female adult (74 years) with Alzheimers disease: (1) cCREs Regulation 
ENCFF397SMJ_ENCFF666VNK_ENCFF419XHK_ENCFF457ZFQ ENCFF397SMJ_ENCFF666VNK_ENCFF419XHK_ENCFF457ZFQ Middle frontal area 46 (mild cognitive impairment), male adult (90 or above years) with mild cognitive impairment: (1) cCREs Regulation 
ENCFF554VOU_ENCFF100JXF_ENCFF380WZB_ENCFF812RLY ENCFF554VOU_ENCFF100JXF_ENCFF380WZB_ENCFF812RLY Middle frontal area 46 (Alzheimers disease), female adult (89 years) with Alzheimers disease: (1) cCREs Regulation 
ENCFF675NNX_ENCFF220KZL_ENCFF969AJT_ENCFF345GCX ENCFF675NNX_ENCFF220KZL_ENCFF969AJT_ENCFF345GCX Middle frontal area 46 (Alzheimers disease), female adult (90 or above years) with Alzheimers disease: (1) cCREs Regulation 
ENCFF412TKS_ENCFF066MLC_ENCFF146LLE_ENCFF884XLS ENCFF412TKS_ENCFF066MLC_ENCFF146LLE_ENCFF884XLS Middle frontal area 46 (cognitive impairment), female adult (86 years) with Cognitive impairment: (1) cCREs Regulation 
ENCFF813QPY_ENCFF393NEJ_ENCFF820MMW_ENCFF884MZR ENCFF813QPY_ENCFF393NEJ_ENCFF820MMW_ENCFF884MZR Middle frontal area 46 (mild cognitive impairment), female adult (83 years) with mild cognitive impairment: (1) cCREs Regulation 
ENCFF318DDE_ENCFF914PSJ_ENCFF679HCC_ENCFF695EYC ENCFF318DDE_ENCFF914PSJ_ENCFF679HCC_ENCFF695EYC Middle frontal area 46 (Alzheimers disease), female adult (89 years) with Alzheimers disease: (1) cCREs Regulation 
ENCFF359QRX_ENCFF878BKX_ENCFF280YLT_ENCFF433RNM ENCFF359QRX_ENCFF878BKX_ENCFF280YLT_ENCFF433RNM Middle frontal area 46 (mild cognitive impairment), female adult (90 or above years) with mild cognitive impairment: (1) cCREs Regulation 
ENCFF163NDW_ENCFF730XOV_ENCFF156YTC_ENCFF280OBE ENCFF163NDW_ENCFF730XOV_ENCFF156YTC_ENCFF280OBE Middle frontal area 46, male adult (83 years): (1) cCREs Regulation 
ENCFF286BFK_ENCFF617PMJ_ENCFF986LOD_ENCFF450HJC ENCFF286BFK_ENCFF617PMJ_ENCFF986LOD_ENCFF450HJC Middle frontal area 46, female adult (89 years): (1) cCREs Regulation 
ENCFF986YEI_ENCFF345SEW_ENCFF137KZR_ENCFF341CQE ENCFF986YEI_ENCFF345SEW_ENCFF137KZR_ENCFF341CQE Middle frontal area 46 (mild cognitive impairment), male adult (89 years) with mild cognitive impairment: (1) cCREs Regulation 
ENCFF456EHL_ENCFF867WWB_ENCFF701XQB_ENCFF968SXQ ENCFF456EHL_ENCFF867WWB_ENCFF701XQB_ENCFF968SXQ Middle frontal area 46 (mild cognitive impairment), female adult (90 or above years) with mild cognitive impairment: (1) cCREs Regulation 
ENCFF052CPA_ENCFF198NDW_ENCFF371ZKC_ENCFF294XWZ ENCFF052CPA_ENCFF198NDW_ENCFF371ZKC_ENCFF294XWZ Middle frontal area 46, female adult (88 years): (1) cCREs Regulation 
ENCFF769AFQ_ENCFF557GVR_ENCFF943HGP_ENCFF393UAO ENCFF769AFQ_ENCFF557GVR_ENCFF943HGP_ENCFF393UAO Middle frontal area 46, male adult (86 years): (1) cCREs Regulation 
ENCFF592RWK_ENCFF922WUL_ENCFF686LXM_ENCFF111MOL ENCFF592RWK_ENCFF922WUL_ENCFF686LXM_ENCFF111MOL Middle frontal area 46 (mild cognitive impairment), female adult (90 or above years) with mild cognitive impairment: (1) cCREs Regulation 
ENCFF874WYJ_ENCFF562LUZ_ENCFF489BZS_ENCFF729DUW ENCFF874WYJ_ENCFF562LUZ_ENCFF489BZS_ENCFF729DUW Middle frontal area 46, female adult (87 years): (1) cCREs Regulation 
ENCFF686DIT_ENCFF543PRC_ENCFF111ACH_ENCFF800TZW ENCFF686DIT_ENCFF543PRC_ENCFF111ACH_ENCFF800TZW Middle frontal area 46 (Alzheimers disease), female adult (90 or above years) with Alzheimers disease: (1) cCREs Regulation 
ENCFF084QJF_ENCFF889GHD_ENCFF646GXZ_ENCFF374AEG ENCFF084QJF_ENCFF889GHD_ENCFF646GXZ_ENCFF374AEG Middle frontal area 46 (mild cognitive impairment), female adult (90 or above years) with mild cognitive impairment: (1) cCREs Regulation 
ENCFF284PMB_ENCFF713LKP_ENCFF973ZFT_ENCFF693AEK ENCFF284PMB_ENCFF713LKP_ENCFF973ZFT_ENCFF693AEK Middle frontal area 46, male adult (78 years): (1) cCREs Regulation 
ENCFF179VUT_ENCFF711EZK_ENCFF909JLH_ENCFF924IJQ ENCFF179VUT_ENCFF711EZK_ENCFF909JLH_ENCFF924IJQ Middle frontal area 46, female adult (79 years): (1) cCREs Regulation 
ENCFF036SMP_ENCFF352MMI_ENCFF942YRH_ENCFF394BNS ENCFF036SMP_ENCFF352MMI_ENCFF942YRH_ENCFF394BNS Middle frontal area 46, male adult (83 years): (1) cCREs Regulation 
ENCFF980SJY_ENCFF752DGV_ENCFF242WZH_ENCFF816YAI ENCFF980SJY_ENCFF752DGV_ENCFF242WZH_ENCFF816YAI Middle frontal area 46, male adult (71 years): (1) cCREs Regulation 
ENCFF632MSC_ENCFF499ALA_ENCFF750UAD_ENCFF548SBE ENCFF632MSC_ENCFF499ALA_ENCFF750UAD_ENCFF548SBE Middle frontal area 46 (mild cognitive impairment), female adult (90 or above years) with mild cognitive impairment: (1) cCREs Regulation 
ENCFF018BZK_ENCFF062WLH_ENCFF156GJU_ENCFF741DPN ENCFF018BZK_ENCFF062WLH_ENCFF156GJU_ENCFF741DPN Middle frontal area 46, female adult (84 years): (1) cCREs Regulation 
ENCFF813UXN_ENCFF261GPQ_ENCFF398ITJ_ENCFF992YXC ENCFF813UXN_ENCFF261GPQ_ENCFF398ITJ_ENCFF992YXC Middle frontal area 46, female adult (83 years): (1) cCREs Regulation 
ENCFF463EIN_ENCFF005KPT_ENCFF046NYM_ENCFF250VKH ENCFF463EIN_ENCFF005KPT_ENCFF046NYM_ENCFF250VKH Middle frontal area 46 (cognitive impairment), female adult (90 or above years) with Cognitive impairment: (1) cCREs Regulation 
ENCFF497CVA_ENCFF981HHV_ENCFF224JSW_ENCFF653MQB ENCFF497CVA_ENCFF981HHV_ENCFF224JSW_ENCFF653MQB Middle frontal area 46, female adult (87 years): (1) cCREs Regulation 
ENCFF571QPS_ENCFF546VCE_ENCFF272DJL_ENCFF423POG ENCFF571QPS_ENCFF546VCE_ENCFF272DJL_ENCFF423POG Middle frontal area 46, male adult (82 years): (1) cCREs Regulation 
ENCFF305XCA_ENCFF478CLR_ENCFF028IBW_ENCFF258OMT ENCFF305XCA_ENCFF478CLR_ENCFF028IBW_ENCFF258OMT Middle frontal area 46 (cognitive impairment), female adult (90 or above years) with Cognitive impairment: (1) cCREs Regulation 
ENCFF732ABI_ENCFF127DBK_ENCFF794RDI_ENCFF888DOQ ENCFF732ABI_ENCFF127DBK_ENCFF794RDI_ENCFF888DOQ Middle frontal area 46 (mild cognitive impairment), female adult (87 years) with mild cognitive impairment: (1) cCREs Regulation 
ENCFF427FGG_ENCFF616FVZ_ENCFF962GLK_ENCFF417AGZ ENCFF427FGG_ENCFF616FVZ_ENCFF962GLK_ENCFF417AGZ Middle frontal area 46, female adult (82 years): (1) cCREs Regulation 
ENCFF258AWM_ENCFF834IHE_ENCFF519CLG_ENCFF488PRF ENCFF258AWM_ENCFF834IHE_ENCFF519CLG_ENCFF488PRF Middle frontal area 46, female adult (90 or above years): (1) cCREs Regulation 
ENCFF604AYM_ENCFF298AQY_ENCFF014NIB_ENCFF203LSD ENCFF604AYM_ENCFF298AQY_ENCFF014NIB_ENCFF203LSD Middle frontal area 46, female adult (78 years): (1) cCREs Regulation 
ENCFF715WQG_ENCFF871ZNR_ENCFF694XDN_ENCFF161XMB ENCFF715WQG_ENCFF871ZNR_ENCFF694XDN_ENCFF161XMB Middle frontal area 46, female adult (90 or above years): (1) cCREs Regulation 
ENCFF636BNY_ENCFF732JQY_ENCFF658QWN_ENCFF961RFY ENCFF636BNY_ENCFF732JQY_ENCFF658QWN_ENCFF961RFY Middle frontal area 46, male adult (87 years): (1) cCREs Regulation 
ENCFF767BTZ_ENCFF319HQY_ENCFF435BRK_ENCFF891CZD ENCFF767BTZ_ENCFF319HQY_ENCFF435BRK_ENCFF891CZD Middle frontal area 46 (Alzheimers disease), female adult (90 or above years) with Alzheimers disease: (1) cCREs Regulation 
ENCFF278VYR_ENCFF971OSG_ENCFF238JTO_ENCFF264VOP ENCFF278VYR_ENCFF971OSG_ENCFF238JTO_ENCFF264VOP Middle frontal area 46 (mild cognitive impairment), female adult (90 or above years) with mild cognitive impairment: (1) cCREs Regulation 
ENCFF686OEZ_ENCFF018QTQ_ENCFF461GFM_ENCFF072ETP ENCFF686OEZ_ENCFF018QTQ_ENCFF461GFM_ENCFF072ETP Middle frontal area 46 (mild cognitive impairment), female adult (88 years) with mild cognitive impairment: (1) cCREs Regulation 
ENCFF753DPM_ENCFF353SJI_ENCFF649LLS_ENCFF554FTX ENCFF753DPM_ENCFF353SJI_ENCFF649LLS_ENCFF554FTX Middle frontal area 46, female adult (90 or above years): (1) cCREs Regulation 
ENCFF541ZVM_ENCFF889QTE_ENCFF480FCW_ENCFF796CNP ENCFF541ZVM_ENCFF889QTE_ENCFF480FCW_ENCFF796CNP Middle frontal area 46 (Alzheimers disease), female adult (81 years) with Alzheimers disease: (1) cCREs Regulation 
ENCFF521HEY_ENCFF862YHY_ENCFF194KAZ_ENCFF263VJQ ENCFF521HEY_ENCFF862YHY_ENCFF194KAZ_ENCFF263VJQ Middle frontal area 46 (Alzheimers disease), female adult (85 years) with Alzheimers disease: (1) cCREs Regulation 
ENCFF987RXP_ENCFF419XND_ENCFF224LYA_ENCFF081IRZ ENCFF987RXP_ENCFF419XND_ENCFF224LYA_ENCFF081IRZ Middle frontal area 46 (cognitive impairment), female adult (81 years) with Cognitive impairment: (1) cCREs Regulation 
ENCFF013AMD_ENCFF563YFA_ENCFF336MIJ_ENCFF302UYV ENCFF013AMD_ENCFF563YFA_ENCFF336MIJ_ENCFF302UYV Middle frontal area 46 (Alzheimers disease), female adult (88 years) with Alzheimers disease: (1) cCREs Regulation 
ENCFF799QGM_ENCFF436OWL_ENCFF484YUA_ENCFF685MPU ENCFF799QGM_ENCFF436OWL_ENCFF484YUA_ENCFF685MPU Middle frontal area 46 (mild cognitive impairment), female adult (90 or above years) with mild cognitive impairment: (1) cCREs Regulation 
ENCFF796XMI_ENCFF679AWS_ENCFF703DMY_ENCFF782LSR ENCFF796XMI_ENCFF679AWS_ENCFF703DMY_ENCFF782LSR Middle frontal area 46, female adult (90 or above years): (1) cCREs Regulation 
ENCFF963PFR_ENCFF577BWJ_ENCFF643ZMC_ENCFF714NPP ENCFF963PFR_ENCFF577BWJ_ENCFF643ZMC_ENCFF714NPP Astrocyte: (1) cCREs Regulation 
ENCFF926MIK_ENCFF153BJG_ENCFF751GCN_ENCFF569HGW ENCFF926MIK_ENCFF153BJG_ENCFF751GCN_ENCFF569HGW Astrocyte, male adult (53 years): (1) cCREs Regulation 
ENCFF386FNE_ENCFF768NPJ_ENCFF435NQW_ENCFF541XGP ENCFF386FNE_ENCFF768NPJ_ENCFF435NQW_ENCFF541XGP Bipolar neuron (treated), male adult (53 years) treated with 0.5 μg/mL doxycycline hyclate for 4 days: (1) cCREs Regulation 
ENCFF269VAY_ENCFF346LEZ_ENCFF118OBT_ENCFF536VOI ENCFF269VAY_ENCFF346LEZ_ENCFF118OBT_ENCFF536VOI Glutamatergic neuron, male adult (53 years) male adult (53 years) nuclear fraction: (1) cCREs Regulation 
ENCFF286QGB_ENCFF835JIA_ENCFF618RAO_ENCFF700SCP ENCFF286QGB_ENCFF835JIA_ENCFF618RAO_ENCFF700SCP Neural progenitor cell, female embryo (5 days): (1) cCREs Regulation 
ENCFF280RMA_ENCFF651WOM_ENCFF262UEH_ENCFF850MLW ENCFF280RMA_ENCFF651WOM_ENCFF262UEH_ENCFF850MLW SK-N-SH: (1) cCREs Regulation 
ENCFF146ZBO_ENCFF684UUJ_ENCFF900UMO_ENCFF327WOL ENCFF146ZBO_ENCFF684UUJ_ENCFF900UMO_ENCFF327WOL NCI-H929: (1) cCREs Regulation 
ENCFF226FAT_ENCFF582GHH_ENCFF441MGU_ENCFF897TLT ENCFF226FAT_ENCFF582GHH_ENCFF441MGU_ENCFF897TLT Osteocyte, female embryo (5 days): (1) cCREs Regulation 
ENCFF156LUX_ENCFF696UEY_ENCFF762YWL_ENCFF429ZQN ENCFF156LUX_ENCFF696UEY_ENCFF762YWL_ENCFF429ZQN Thoracic aorta, male adult (37 years): (1) cCREs Regulation 
ENCFF013UBZ_ENCFF901QWB_ENCFF972ZHA_ENCFF500RDL ENCFF013UBZ_ENCFF901QWB_ENCFF972ZHA_ENCFF500RDL Tibial artery, male adult (37 years): (1) cCREs Regulation 
ENCFF383WYK_ENCFF811RQX_ENCFF130NUG_ENCFF341RAH ENCFF383WYK_ENCFF811RQX_ENCFF130NUG_ENCFF341RAH Coronary artery, female adult (53 years): (1) cCREs Regulation 
ENCFF022SDS_ENCFF132YWJ_ENCFF118EKX_ENCFF857NIC ENCFF022SDS_ENCFF132YWJ_ENCFF118EKX_ENCFF857NIC Ascending aorta, female adult (53 years): (1) cCREs Regulation 
ENCFF707HLC_ENCFF935CPK_ENCFF557HHH_ENCFF880CZK ENCFF707HLC_ENCFF935CPK_ENCFF557HHH_ENCFF880CZK Ascending aorta, female adult (51 years): (1) cCREs Regulation 
ENCFF472WAW_ENCFF559ALK_ENCFF575FKS_ENCFF176ELT ENCFF472WAW_ENCFF559ALK_ENCFF575FKS_ENCFF176ELT Brain microvascular endothelial cell: (1) cCREs Regulation 
ENCFF389PZY_ENCFF587XGD_ENCFF184NWF_ENCFF496PSJ ENCFF389PZY_ENCFF587XGD_ENCFF184NWF_ENCFF496PSJ CD14-positive monocyte, female: (1) cCREs Regulation 
ENCFF735XLO_ENCFF970LMB_ENCFF481LLD_ENCFF838OJW ENCFF735XLO_ENCFF970LMB_ENCFF481LLD_ENCFF838OJW MM.1S: (1) cCREs Regulation 
ENCFF136RNO_ENCFF630BQS_ENCFF611XLA_ENCFF975BGM ENCFF136RNO_ENCFF630BQS_ENCFF611XLA_ENCFF975BGM OCI-LY7: (1) cCREs Regulation 
ENCFF969JHD_ENCFF308GJB_ENCFF341LLL_ENCFF398MEO ENCFF969JHD_ENCFF308GJB_ENCFF341LLL_ENCFF398MEO DND-41: (1) cCREs Regulation 
ENCFF339ZGM_ENCFF695YII_ENCFF383GZA_ENCFF244CXJ ENCFF339ZGM_ENCFF695YII_ENCFF383GZA_ENCFF244CXJ HL-60: (1) cCREs Regulation 
ENCFF428XFI_ENCFF280PUF_ENCFF469WVA_ENCFF644EEX ENCFF428XFI_ENCFF280PUF_ENCFF469WVA_ENCFF644EEX GM12878: (1) cCREs Regulation 
ENCFF414OGC_ENCFF806YEZ_ENCFF849TDM_ENCFF736UDR ENCFF414OGC_ENCFF806YEZ_ENCFF849TDM_ENCFF736UDR K562: (1) cCREs Regulation 
ENCFF801REE_ENCFF053KMZ_ENCFF860MMV_ENCFF804PBU ENCFF801REE_ENCFF053KMZ_ENCFF860MMV_ENCFF804PBU Adrenal gland, male adult (37 years): (1) cCREs Regulation 
ENCFF518SGA_ENCFF827GEQ_ENCFF235TYQ_ENCFF419QIY ENCFF518SGA_ENCFF827GEQ_ENCFF235TYQ_ENCFF419QIY Adrenal gland, female adult (53 years): (1) cCREs Regulation 
ENCFF237KCK_ENCFF700TZZ_ENCFF988QAR_ENCFF796PZW ENCFF237KCK_ENCFF700TZZ_ENCFF988QAR_ENCFF796PZW Adrenal gland, female adult (41 years): (1) cCREs Regulation 
ENCFF316SZE_ENCFF263CSV_ENCFF144JOJ_ENCFF035TJC ENCFF316SZE_ENCFF263CSV_ENCFF144JOJ_ENCFF035TJC Adrenal gland, male adult (54 years): (1) cCREs Regulation 
ENCFF693WYZ_ENCFF672KET_ENCFF355RRY_ENCFF673UYG ENCFF693WYZ_ENCFF672KET_ENCFF355RRY_ENCFF673UYG Adrenal gland, female adult (51 years): (1) cCREs Regulation 
nmdEscGencode NMD Escape Gencode NMD escape predictions: Gencode transcripts Genes and Gene Predictions Description The NMD escape ruleset tracks show predicted regions where a premature termination codon (PTC) or frameshift variant is likely to cause the transcript to escape nonsense-mediated decay (NMD), leading to the production of an aberrant truncated protein rather than degradation of the mRNA. The following rules were applied to transcript annotations to define predicted NMD escape regions (Nagy et al, Trends Biochem Sci 1998 and Lindeboom et al, Nat Genet 2016): 50 bp rule: Coding positions within 50 bp (mRNA distance) upstream of the transcript's last splice junction, plus any coding sequence downstream of that junction. A PTC in this window has no downstream exon-exon junction (or is too close to the last one) for NMD to be triggered. The last junction is determined from all exons of the transcript, including 3'UTR introns, since those introns deposit EJCs that can trigger NMD. For transcripts with no 3'UTR intron (the common case), this reduces to the entire last coding exon plus the last 50 bp of the penultimate coding exon. For transcripts with a 3'UTR intron (~4.5% of MANE transcripts), the last junction sits downstream of the stop codon; the escape region is only the stretch of CDS within 50 bp (mRNA distance) of that junction, so if the junction is more than 50 bp past the stop codon no CDS position escapes via this rule. No downstream EJC rule: Transcripts with a single coding exon and no 3'UTR intron. No exon-exon junction exists downstream of the stop codon, so no EJC is deposited that could trigger NMD at a PTC. This covers truly intronless transcripts as well as transcripts whose only introns are in the 5&#8242;UTR (where EJCs are cleared by the scanning 40S ribosomal subunit or sit upstream of the stop and are never encountered by the terminating ribosome). Transcripts with a single coding exon but a 3'UTR intron are excluded, because that intron deposits an EJC downstream of the stop codon that can trigger NMD. Start-proximal region: The first 100 bp of coding nucleotides. PTCs in this region do not lead to NMD, a phenomenon known as start-proximal NMD insensitivity. One proposed mechanism, supported by experimental evidence, is re-initiation of translation at a downstream AUG codon. Long exon rule: Coding exons longer than 400 bp (excluding the last coding exon, which is already covered by the 50 bp rule). Lindeboom et al. 2016 showed a marked drop in NMD efficiency (61% vs. 98%) for PTCs in exons longer than 400 nt, likely because the large distance between the stalled ribosome and the downstream EJC reduces UPF1-EJC contact. Non-coding transcripts (where CDS start equals CDS end) are excluded. Overlapping regions from multiple transcripts with identical coordinates and the same rule are collapsed into a single item, with the contributing transcript IDs stored as a comma-separated list. Three versions of this track are available, based on different transcript annotation sets: NMD escape MANE: Derived from the MANE Select plus MANE Plus Clinical transcript set, a jointly curated NCBI/EBI annotation that defines a single high-confidence transcript per protein-coding gene (Select), supplemented by additional transcripts of clinical importance (Plus Clinical). NMD escape Gencode: Derived from GENCODE V49 transcript annotations. NMD escape NCBI RefSeq: Derived from NCBI RefSeq Curated transcript annotations (NM_ and NR_ accessions; predicted XM_/XR_ models are excluded). Background NMD escape regions were predicted based on the Exon Junction Complex (EJC)-dependent model of NMD. During normal translation, EJCs are deposited at exon-exon junctions after splicing. As the ribosome translates the mRNA, it displaces each EJC it encounters. When a PTC causes the ribosome to stall prematurely, any remaining downstream EJCs recruit surveillance factors (notably UPF1) that trigger mRNA degradation via NMD. However, PTCs located in the last coding exon or within approximately 50 bp upstream of the last exon-exon junction are too close to the final EJC (or have no downstream EJC at all) for NMD to be triggered&mdash;the transcript escapes degradation. Conversely, PTCs located more than 50&ndash;55 bp upstream of the last exon-exon junction are predicted to elicit NMD. Additional escape mechanisms, supported by Lindeboom et al. 2016 and other studies, are captured by three further rules: Transcripts with no EJC downstream of the stop codon (single coding exon and no 3'UTR intron) cannot trigger NMD, so any PTC in the coding sequence escapes. 5&#8242;UTR introns are tolerated because their EJCs are upstream of the stop. Start-proximal PTCs (within the first 100 bp of coding sequence) escape NMD, likely through translation re-initiation at a downstream AUG codon. PTCs in long coding exons (&gt;400 bp) show reduced NMD efficiency (61% vs. 98% for shorter exons in Lindeboom et al. 2016), likely because the large distance between the stalled ribosome and the downstream EJC reduces UPF1-EJC contact. Display Conventions and Configuration Regions from overlapping transcripts with the same coordinates are collapsed into a single item. The gene symbol is shown as the item name. Mouseover displays the NMD escape rule and the number of transcripts. The details page lists all contributing transcript IDs. Items are colored by the NMD escape rule that applies: Red &ndash; Rule 1: CDS within 50 bp (mRNA distance) upstream of the last splice junction (or downstream of it). A PTC here is too close to the last exon junction complex (EJC) for NMD to be triggered. Orange &ndash; Rule 2: Single coding exon and no 3'UTR intron. No EJC is deposited downstream of the stop codon, so all PTCs in the coding sequence escape NMD. Dark red &ndash; Rule 3: First 100 bp of coding nucleotides. PTCs in this start-proximal region are insensitive to NMD, possibly due to translation re-initiation at a downstream AUG codon. Gold &ndash; Rule 4: Coding exons longer than 400 bp (excluding the last coding exon). NMD efficiency is reduced in these long exons because the PTC is far from the downstream exon-exon junction. Data Access The data underlying this track can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credits Thanks to Guido Neidhardt for suggesting this track at HUGO VEPTC 2025 and Andreas Lahner for feedback. Thanks to the Decipher Genome Browser team for introducing the idea of a track. References Kurosaki T, Popp MW, Maquat LE. Quality and quantity control of gene expression by nonsense-mediated mRNA decay. Nat Rev Mol Cell Biol. 2019 Jul;20(7):406-420. PMID: 30992545; PMC: PMC6855384 Lindeboom RGH, Supek F, Lehner B. The rules and impact of nonsense-mediated mRNA decay in human cancers. Nat Genet. 2016 Oct;48(10):1112-8. PMID: 27618451; PMC: PMC5045715 Nagy E, Maquat LE. A rule for termination-codon position within intron-containing genes: when nonsense affects RNA abundance. Trends Biochem Sci. 1998 Jun;23(6):198-9. PMID: 9644970 
wgEncodeRegDnaseClustered DNase Clusters DNase I Hypersensitivity Peak Clusters from ENCODE (95 cell types) Regulation Description This track shows clusters of DNaseI hypersensitivity derived from assays in 95 cell types by the John Stamatoyannapoulos lab at the University of Washington from September 2007 to January 2011, as part of the ENCODE project first production phase. Regulatory regions in general, and promoters in particular, tend to be DNase-sensitive. Additional views of this data sites are displayed from the DNaseI HS track. The peaks in that track are the basis for the clusters shown here, which combine data from peaks from the different cell lines. Please note that track colors for the DNase tracks are based on similiarity of cell types, while there is different coloring for cell types on the ENCODE hg38 Transcription track, Layered H3K4Me1 track, Layered H3K4Me3 track, and Layered H3K27Ac track, which match the coloring used in their previous versions lifted from the hg19 assembly. Display Conventions and Configuration A gray box indicates the extent of the hypersensitive region. The darkness is proportional to the maximum signal strength observed in any cell line. The number to the left of the box shows how many cell lines are hypersensitive in the region. The track can be configured to restrict the display to elements above a specified score in the range 1-1000 (where score is based on signal strength). Methods Raw sequence data files were processed by the UCSC ENCODE DNase analysis pipeline (July 2014 specification), diagrammed here: Credit: Qian Alvin Qin, X. Liu lab Briefly, sequence files were aligned to the hg38 (GRCh38) genome assembly augmented with 'sponge' sequence (ref). Multi-mapped reads were removed, as were reads that aligned to 'sponge' or mitochondiral sequence. Results from all replicates were pooled, and further processed by the Hotspot program to call peaks. Peaks of DNaseI hypersensitivity from the ENCODE DNase Analysis Pipeline at UCSC were assigned normalized scores (by UCSC regClusterMakeTableOfTables) in the range 0-1000 based on the narrowPeak signalValue and then clustered on score (by UCSC regCluster) to generate singly-linked clusters. Additional documentation on the methods used to identify hypersensitive sites are available from the DNaseI HS track. Credits This track is based on sequence data from the University of Washington ENCODE group, with subsequent processing by UCSC. For additional credits and references, see the DNaseI HS track. 
nmdEscNcbiRefSeq NMD Escape RefSeq NMD escape predictions: NCBI RefSeq Curated transcripts Genes and Gene Predictions Description The NMD escape ruleset tracks show predicted regions where a premature termination codon (PTC) or frameshift variant is likely to cause the transcript to escape nonsense-mediated decay (NMD), leading to the production of an aberrant truncated protein rather than degradation of the mRNA. The following rules were applied to transcript annotations to define predicted NMD escape regions (Nagy et al, Trends Biochem Sci 1998 and Lindeboom et al, Nat Genet 2016): 50 bp rule: Coding positions within 50 bp (mRNA distance) upstream of the transcript's last splice junction, plus any coding sequence downstream of that junction. A PTC in this window has no downstream exon-exon junction (or is too close to the last one) for NMD to be triggered. The last junction is determined from all exons of the transcript, including 3'UTR introns, since those introns deposit EJCs that can trigger NMD. For transcripts with no 3'UTR intron (the common case), this reduces to the entire last coding exon plus the last 50 bp of the penultimate coding exon. For transcripts with a 3'UTR intron (~4.5% of MANE transcripts), the last junction sits downstream of the stop codon; the escape region is only the stretch of CDS within 50 bp (mRNA distance) of that junction, so if the junction is more than 50 bp past the stop codon no CDS position escapes via this rule. No downstream EJC rule: Transcripts with a single coding exon and no 3'UTR intron. No exon-exon junction exists downstream of the stop codon, so no EJC is deposited that could trigger NMD at a PTC. This covers truly intronless transcripts as well as transcripts whose only introns are in the 5&#8242;UTR (where EJCs are cleared by the scanning 40S ribosomal subunit or sit upstream of the stop and are never encountered by the terminating ribosome). Transcripts with a single coding exon but a 3'UTR intron are excluded, because that intron deposits an EJC downstream of the stop codon that can trigger NMD. Start-proximal region: The first 100 bp of coding nucleotides. PTCs in this region do not lead to NMD, a phenomenon known as start-proximal NMD insensitivity. One proposed mechanism, supported by experimental evidence, is re-initiation of translation at a downstream AUG codon. Long exon rule: Coding exons longer than 400 bp (excluding the last coding exon, which is already covered by the 50 bp rule). Lindeboom et al. 2016 showed a marked drop in NMD efficiency (61% vs. 98%) for PTCs in exons longer than 400 nt, likely because the large distance between the stalled ribosome and the downstream EJC reduces UPF1-EJC contact. Non-coding transcripts (where CDS start equals CDS end) are excluded. Overlapping regions from multiple transcripts with identical coordinates and the same rule are collapsed into a single item, with the contributing transcript IDs stored as a comma-separated list. Three versions of this track are available, based on different transcript annotation sets: NMD escape MANE: Derived from the MANE Select plus MANE Plus Clinical transcript set, a jointly curated NCBI/EBI annotation that defines a single high-confidence transcript per protein-coding gene (Select), supplemented by additional transcripts of clinical importance (Plus Clinical). NMD escape Gencode: Derived from GENCODE V49 transcript annotations. NMD escape NCBI RefSeq: Derived from NCBI RefSeq Curated transcript annotations (NM_ and NR_ accessions; predicted XM_/XR_ models are excluded). Background NMD escape regions were predicted based on the Exon Junction Complex (EJC)-dependent model of NMD. During normal translation, EJCs are deposited at exon-exon junctions after splicing. As the ribosome translates the mRNA, it displaces each EJC it encounters. When a PTC causes the ribosome to stall prematurely, any remaining downstream EJCs recruit surveillance factors (notably UPF1) that trigger mRNA degradation via NMD. However, PTCs located in the last coding exon or within approximately 50 bp upstream of the last exon-exon junction are too close to the final EJC (or have no downstream EJC at all) for NMD to be triggered&mdash;the transcript escapes degradation. Conversely, PTCs located more than 50&ndash;55 bp upstream of the last exon-exon junction are predicted to elicit NMD. Additional escape mechanisms, supported by Lindeboom et al. 2016 and other studies, are captured by three further rules: Transcripts with no EJC downstream of the stop codon (single coding exon and no 3'UTR intron) cannot trigger NMD, so any PTC in the coding sequence escapes. 5&#8242;UTR introns are tolerated because their EJCs are upstream of the stop. Start-proximal PTCs (within the first 100 bp of coding sequence) escape NMD, likely through translation re-initiation at a downstream AUG codon. PTCs in long coding exons (&gt;400 bp) show reduced NMD efficiency (61% vs. 98% for shorter exons in Lindeboom et al. 2016), likely because the large distance between the stalled ribosome and the downstream EJC reduces UPF1-EJC contact. Display Conventions and Configuration Regions from overlapping transcripts with the same coordinates are collapsed into a single item. The gene symbol is shown as the item name. Mouseover displays the NMD escape rule and the number of transcripts. The details page lists all contributing transcript IDs. Items are colored by the NMD escape rule that applies: Red &ndash; Rule 1: CDS within 50 bp (mRNA distance) upstream of the last splice junction (or downstream of it). A PTC here is too close to the last exon junction complex (EJC) for NMD to be triggered. Orange &ndash; Rule 2: Single coding exon and no 3'UTR intron. No EJC is deposited downstream of the stop codon, so all PTCs in the coding sequence escape NMD. Dark red &ndash; Rule 3: First 100 bp of coding nucleotides. PTCs in this start-proximal region are insensitive to NMD, possibly due to translation re-initiation at a downstream AUG codon. Gold &ndash; Rule 4: Coding exons longer than 400 bp (excluding the last coding exon). NMD efficiency is reduced in these long exons because the PTC is far from the downstream exon-exon junction. Data Access The data underlying this track can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credits Thanks to Guido Neidhardt for suggesting this track at HUGO VEPTC 2025 and Andreas Lahner for feedback. Thanks to the Decipher Genome Browser team for introducing the idea of a track. References Kurosaki T, Popp MW, Maquat LE. Quality and quantity control of gene expression by nonsense-mediated mRNA decay. Nat Rev Mol Cell Biol. 2019 Jul;20(7):406-420. PMID: 30992545; PMC: PMC6855384 Lindeboom RGH, Supek F, Lehner B. The rules and impact of nonsense-mediated mRNA decay in human cancers. Nat Genet. 2016 Oct;48(10):1112-8. PMID: 27618451; PMC: PMC5045715 Nagy E, Maquat LE. A rule for termination-codon position within intron-containing genes: when nonsense affects RNA abundance. Trends Biochem Sci. 1998 Jun;23(6):198-9. PMID: 9644970 
nmdDetectiveAi NMDetective-AI NMDetective-AI: Deep-learning NMD efficiency prediction per position (MANE Select only) Genes and Gene Predictions Description The NMDetective-AI tracks display deep-learning predictions of nonsense-mediated mRNA decay (NMD) efficiency for every possible stop-gain single-nucleotide variant in MANE Select transcripts. The model was trained on ~14,000 somatic premature termination codons (PTCs) measured by allele-specific expression in large human cohorts (TCGA) and was tested on ~1,800 held-out germline PTCs (TCGA germline and GTEx) (Veiner et al.). Predictions are continuous: higher values indicate that a PTC at that codon is predicted to trigger NMD (the mRNA is degraded); lower values indicate that the PTC is predicted to evade NMD (the truncated mRNA may be translated into an aberrant protein). The output is normalized against canonical controls so that +0.5 corresponds to full NMD efficiency at a PTC and &minus;0.5 corresponds to no NMD efficiency (a last-exon PTC). The scale is not strictly bounded: due to measurement and prediction noise, observed values fall in roughly &minus;1.1 to +1.5, with the bulk of items inside the nominal &minus;0.5 to +0.5 interval. Subtracks TrackDescription NMDetective-AI Signal track (bigWig) showing the position-averaged prediction across all stop-gain SNVs at each codon. Useful for browsing efficiency along a transcript at a glance. NMDetective-AI variants Per-stop-gain track (bigBed) with one item per (transcript, codon, mutant codon) combination. Each item is colored by its prediction and carries the reference and mutant codon, amino-acid position, transcript accession, and a pre-rendered mouseover summary. Display Conventions and Configuration The NMDetective-AI signal track is drawn with a default y-axis range of &minus;1.1 to +1.5. Positions with positive values (predicted NMD-triggering) are shown above the baseline; positions with negative values (predicted NMD escape) are shown below. The NMDetective-AI variants track colors each item along a continuous diverging Okabe-Ito palette running from blue (most NMD-evading) through grey (near zero) to vermillion (most NMD-triggering). The mouseover verdict groups items into three categories using the binarization thresholds derived in the Veiner et al. Methods (Gaussian mixture model fit to gnomAD predictions): NMD-evading &ndash; prediction &le; &minus;0.17. Intermediate / uncertain &ndash; &minus;0.17 &lt; prediction &lt; +0.43. NMD-triggering &ndash; prediction &ge; +0.43. Mouseover for each variant shows the codon change, the prediction value with its NMD verdict, and the MANE Select transcript accession. Click an item to see the full set of fields on the details page. Methods NMDetective-AI is a fine-tuned version of the Orthrus mRNA foundation model (Mamba architecture, ~10M parameters), trained on full-length transcript sequences encoded as a six-track representation (four nucleotide channels, one CDS-start channel, one splice-site channel). The model integrates allele-specific PTC expression from large-scale genomic data with mRNA language-model embeddings and high-throughput deep mutational scanning, and predicts NMD efficiency for every possible stop-gain mutation in every codon of a MANE Select transcript. The training set comprised 14,337 somatic PTCs from TCGA, with chromosomes 1 and 20 held out as a validation set. The held-out test set comprised 1,065 germline PTCs from TCGA and 763 germline PTCs from GTEx. The authors report that the model's accuracy on the somatic validation set approaches the empirical reproducibility ceiling of the underlying allele-specific expression measurements. The publicly released predictions cover MANE Select transcripts at Gencode v46. Predictions for transcripts outside the MANE Select set are not yet available; broader coverage is planned by the authors after peer review. Source files were obtained from the Vejni/NMDetectiveAI GitHub repository (supplementary files NMDetectiveAI_MANE.bw.gz and NMDetectiveAI_MANE.bed.gz) and processed at UCSC: the bigWig is used as supplied; the BED was recolored with the diverging Okabe-Ito palette described above, rescored into the 0&ndash;1000 BED range, and augmented with a pre-rendered mouseover column before conversion to bigBed. Note: the manuscript is currently a bioRxiv preprint and has not yet completed peer review. Predictions may be refreshed when the final version of the data is released. Data Access The data underlying these tracks can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credits Thanks to Marcell Veiner and Fran Supek for sharing the NMDetective-AI predictions ahead of publication, and to the wider Veiner et al. author group for developing the model. References Veiner M, Toledano I, Palou-M&aacute;rquez G, Lehner B, Supek F. Quantitative prediction of nonsense-mediated mRNA decay across human genes by genomic language model and large-scale mutational scanning. bioRxiv. 2026 Mar 26. doi: 10.64898/2026.03.24.714003. Supplementary prediction files at github.com/Vejni/NMDetectiveAI. 
wgEncodeRegDnaseWig DNase Signal DNase I Hypersensitivity Signal Colored by Similarity from ENCODE Regulation Description This track provides an integrated display of DNase hypersensitivity in multiple cell types using overlapping colored graphs of signal density with graph colors assigned to cell types based on similarity of signal. The track is based on results of experiments performed by the John Stamatoyannapoulos lab at the University of Washington from September 2007 to January 2011 as part of the ENCODE project first production phase. The signal graphs displayed here are also included in the comprehensive DNaseI HS track, which also provides peak and region calls and uses the same coloring based on similiarity of cell types (please note there is different coloring on the ENCODE hg38 Transcription track, Layered H3K4Me1 track, Layered H3K4Me3 track, and Layered H3K27Ac track, which match the coloring used in their previous versions lifted from the hg19 assembly). Methods Raw sequence data files were processed by the UCSC ENCODE DNase analysis pipeline described in the DNaseI HS track description. Signal graphs were normalized so the average value genome-wide is 1. Colors for the signal graphs were assigned by the UCSC BigWigCluster tool. The cell types were clustered into a binary tree, a rainbow was cast to the leaf nodes providing coloring based on similarity. Credit: Chris Eisenhart, J. Kent lab Credits The processed data for this track were generated at UCSC. Credits for the primary data underlying this track are included in the DNaseI HS track description. References Miga KH, Eisenhart C, Kent WJ. Utilizing mapping targets of sequences underrepresented in the reference assembly to reduce false positive alignments. Nucleic Acids Res. 2015 Nov 16;43(20):e133. PMID: 26163063 Thurman RE, Rynes E, Humbert R, Vierstra J, Maurano MT, Haugen E, Sheffield NC, Stergachis AB, Wang H, Vernot B et al. The accessible chromatin landscape of the human genome. Nature. 2012 Sep 6;489(7414):75-82. PMID: 22955617; PMC: PMC3721348 See also the references in the DNaseI HS track. 
wgEncodeRegDnaseUwBe2cWig BE2_C Sg BE2_C neuroblastoma cell line DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwWerirb1Wig WERI-Rb-1 Sg WERI-Rb-1 retinoblastoma cell line DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwMcf7Estradiol100nm1hrWig MCF-7 estr 1h Sg MCF-7 mammary adenocarcinoma cell line (estradi 1h) DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwMcf7Estradiolctrl0hrWig MCF-7 estr 0h Sg MCF-7 mammary adenocarcinoma cell line (estradi 0h) DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwMcf7Wig MCF-7 Sg MCF-7 mammary adenocarcinoma cell line DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwSknmcWig SK-N-MC Sg SK-N-MC neuroepithelioma cell line DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHelas3Wig HeLa-S3 Sg HeLa-S3 cervical epithelial adenocarcinoma cell line DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHmvecdlyadWig HMVEC-dLy-Ad Sg HMVEC-dLy-Ad dermal MV endothelial cell, lymph DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHrpepicWig HRPEpiC Sg HRPEpiC retinal pigment epithelium DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwRptecWig RPTEC Sg RPTEC renal proximal tubule epithelium DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwH7hescDiffprota14dWig H7-ES diff 14d Sg H7-hESC embryonic stem cell (diff 14d) DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwH7hescDiffprota5dWig H7-ES diff 5d Sg H7-hESC embryonic stem cell (diff 5d) DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwH7hescWig H7-ES Sg H7-hESC embryonic stem cell DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwNb4Wig NB4 Sg NB4 acute promyelocytic leukemia (APL) cell line DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHl60Wig HL-60 Sg HL-60 acute promyelocytic leukemia (APL) cell line DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwMonocytescd14ro01746Wig Monocyte-CD14+ Sg Monocytes-CD14+_RO01746 monocyte, CD14+ DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwGm12865Wig GM12865 Sg GM12865 B-lymphocyte, lymphoblastoid cell line DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwGm12878Wig GM12878 Sg GM12878 B-lymphocyte, lymphoblastoid cell line DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwJurkatWig Jurkat Sg Jurkat T-lymphocyte acute leukemia cell line DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwTh1wb54553204Wig Th1_Wb54553204 Sg Th1_Wb54553204 T-lymphocyte, helper type 1 DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwTh2Wig Th2 Sg Th2 T-lymphocyte, helper type 2 DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwTh1Wig Th1 Sg Th1 T-lymphocyte, helper type 1 DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwCd20ro01778Wig CD20+_RO01778 Sg CD20+_RO01778 B-lymphocyte, CD20+ DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwSknshraWig SK-N-SH_RA Sg SK-N-SH_RA neuroblastoma cell line, RA treated DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwCaco2Wig Caco-2 Sg Caco-2 colon adenocarcinoma cell line DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHepg2Wig HepG2 Sg HepG2 hepatocellular carcinoma cell line DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwGm06990Wig GM06990 Sg GM06990 B-lymphocyte, lymphoblastoid cell line DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHeepicWig HEEpiC Sg HEEpiC esophageal epithelium DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwPrecWig PrEC Sg PrEC prostate epithelium DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwSaecWig SAEC Sg SAEC small airway epithelium DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwNhekWig NHEK Sg NHEK epidermal keratinocyte DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHreWig HRE Sg HRE renal epithelium DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHrcepicWig HRCEpiC Sg HRCEpiC renal cortical epithelium DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHmvecdadWig HMVEC-dAd Sg HMVEC-dAd dermal microvascular endothelial cell DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHmvecdneoWig HMVEC-dNeo Sg HMVEC-dNeo dermal MV endothelial cell, neonate DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHmvecllyWig HMVEC-LLy Sg HMVEC-LLy lung microvascular endothelial cell, lymph DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHrgecWig HRGEC Sg HRGEC renal glomerular endothelial cell DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHmvecdblneoWig HMVEC-dBl-Neo Sg HMVEC-dBl-Neo dermal MV endo cell, neonate blood DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHmvecdlyneoWig HMVEC-dLy-Neo Sg HMVEC-dLy-Neo dermal MV endo cell, neonate lymph DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHmvecdbladWig HMVEC-dBl-Ad Sg HMVEC-dBl-Ad dermal MV endothelial cell, blood DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHmveclblWig HMVEC-LBl Sg HMVEC-LBl lung microvascular epithelium. blood DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHuvecWig HUVEC Sg HUVEC umbilical vein endothelial cell DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHsmmtubeWig HSMMtube Sg HSMMtube skeletal muscle myotube DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwLhcnm2Diff4dWig LHCN-M2 diff4d Sg LHCN-M2 skeletal myoblast (diff 4d) DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwLhcnm2Wig LHCN-M2 Sg LHCN-M2 skeletal myoblast DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHsmmWig HSMM Sg HSMM skeletal muscle myoblast DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwNhdfadWig NHDF-Ad Sg NHDF-Ad dermal fibroblast DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwWi384ohtam20nm72hrWig WI-38 40HTAM Sg WI-38 embryonic lung fibroblast cell line (40HTAM) DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHcfaaWig HCFaa Sg HCFaa cardiac fibroblast DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHaspWig HA-sp Sg HA-sp spinal cord astrocyte DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwRpmi7951Wig RPMI-7951 Sg RPMI-7951 melanoma cell line DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwM059jWig M059J Sg M059J glioblastoma cell line DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHahWig HA-h Sg HA-h hippocampal astrocyte DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwAg04450Wig AG04450 Sg AG04450 fetal lung fibroblast DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwAg04449Wig AG04449 Sg AG04449 fetal skin fibroblast DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHbvsmcWig HBVSMC Sg HBVSMC brain vascular smooth muscle DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwSkmcWig SKMC Sg SKMC skeletal muscle cell DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHaepicWig HAEpiC Sg HAEpiC amniotic epithelium (AEC) DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwNhdfneoWig NHDF-neo Sg NHDF-neo dermal fibroblast, neonate DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHgfWig HGF Sg HGF gingival fibroblast DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHmfWig HMF Sg HMF mammary fibroblast DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwAg10803Wig AG10803 Sg AG10803 skin fibroblast DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwBonemarrowmscWig bonemarrow_MSC Sg bone_marrow_MSC bone marrow fibroblastoid DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHipepicWig HIPEpiC Sg HIPEpiC iris pigment epithelium DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHvmfWig HVMF Sg HVMF villous mesenchymal fibroblast DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHacWig HAc Sg HAc cerebellar astrocyte DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHconfWig HConF Sg HConF conjunctival fibroblast DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHpfWig HPF Sg HPF pulmonary fibroblast DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHcpepicWig HCPEpiC Sg HCPEpiC choroid plexus epithelium DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwAoafWig AoAF Sg AoAF aorta fibroblast DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHpafWig HPAF Sg HPAF pulmonary artery fibroblast DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHcmWig HCM Sg HCM cardiac myocyte DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHcfWig HCF Sg HCF cardiac fibroblast DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHpdlfWig HPdLF Sg HPdLF periodontal ligament fibroblast DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwAg09319Wig AG09319 Sg AG09319 gingival fibroblast DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHbmecWig HBMEC Sg HBMEC brain microvascular endothelial cell (MEC) DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwNhaWig NH-A Sg NH-A astrocyte DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwNhlfWig NHLF Sg NHLF lung fibroblast DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwGm04504Wig GM04504 Sg GM04504 skin fibroblast DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwGm04503Wig GM04503 Sg GM04503 skin fibroblast DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwWi38Wig WI-38 Sg WI-38 embryonic lung fibroblast cell line DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHnpcepicWig HNPCEpiC Sg HNPCEpiC non-pigmented ciliary epithelium (NPCEC) DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwAg09309Wig AG09309 Sg AG09309 skin fibroblast DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwBjWig BJ Sg BJ foreskin fibroblast cell line DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwNt2d1Wig NT2-D1 Sg NT2-D1 embryonal carcinoma (NTera2) cell line DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHffmycWig HFF-Myc Sg HFF-Myc foreskin fibroblast cell line, cMyc DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHffWig HFF Sg HFF foreskin fibroblast DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwNhberaWig NHBE_RA Sg NHBE_RA bronchial epithelium, RA treated DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHct116Wig HCT-116 Sg HCT-116 colorectal carcinoma cell line DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwPanc1Wig PANC-1 Sg PANC-1 pancreatic carcinoma cell line DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwT47dWig T-47D Sg T-47D mammary ductal carcinoma cell line DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHmecWig HMEC Sg HMEC mammary epithelium DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwLncapWig LNCaP Sg LNCaP prostate adenocarcinoma cell line DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwA549Wig A549 Sg A549 lung adenocarcinoma cell line DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwK562Wig K562 Sg K562 lymphoblast chronic myeloid leukemia cell line DNaseI Signal from ENCODE Regulation 
knownGeneV48 GENCODE V48 GENCODE V48 Genes and Gene Predictions Description The GENCODE Genes track (version 48, April 2025) shows high-quality manual annotations merged with evidence-based automated annotations across the entire human genome generated by the GENCODE project. By default, only the basic gene set is displayed, which is a subset of the comprehensive gene set. The basic set represents transcripts that GENCODE believes will be useful to the majority of users. The track includes protein-coding genes, non-coding RNA genes, and pseudo-genes, though pseudo-genes are not displayed by default. It contains annotations on the reference chromosomes as well as assembly patches and alternative loci (haplotypes). The v48 release was derived from the GTF file that contains annotations only on the main chromosomes. Statistics for this build and information on how they were generated can be found on the GENCODE site. For more information on the different gene tracks, see our Genes FAQ. Display Conventions and Configuration By default, this track displays only the basic GENCODE set, splice variants, and non-coding genes. It includes options to display the entire GENCODE set and pseudogenes. To customize these options, the respective boxes can be checked or unchecked at the top of this description page. This track also includes a variety of labels which identify the transcripts when visibility is set to &quot;full&quot; or &quot;pack&quot;. Gene symbols (e.g. NIPA1) are displayed by default, but additional options include GENCODE Transcript ID (ENST00000561183.5), UCSC Known Gene ID (uc001yve.4), UniProt Display ID (Q7RTP0). Additional information about gene and transcript names can be found in our FAQ. This track, in general, follows the display conventions for gene prediction tracks. The exons for putative non-coding genes and untranslated regions are represented by relatively thin blocks, while those for coding open reading frames are thicker. Coloring for the gene annotations is mostly based on the annotation type: MANE: MANE Select Plus Clinical transcripts. For non-MANE transcripts, the following conventions apply. coding: protein coding transcripts, including polymorphic pseudogenes non-coding: non-protein coding transcripts pseudogene: pseudogene transcript annotations problem: problem transcripts (Biotypes of retained_intron, TEC, or disrupted_domain) This track contains an optional codon coloring feature that allows users to quickly validate and compare gene predictions. There is also an option to display the data as a density graph, which can be helpful for visualizing the distribution of items over a region. Squishy-pack Display Within a gene using the pack display mode, transcripts below a specified rank will be condensed into a view similar to squish mode. The transcript ranking approach is preliminary and will change in future releases. The transcripts rankings are defined by the following criteria for protein-coding and non-coding genes: Protein_coding genes MANE or Ensembl canonical 1st: MANE Select / Ensembl canonical 2nd: MANE Plus Clinical Coding biotypes 1st: protein_coding and protein_coding_LoF 2nd: NMDs and NSDs 3rd: retained intron and protein_coding_CDS_not_defined Completeness 1st: full length 2nd: CDS start/end not found CARS score (only for coding transcripts) Transcript genomic span and length (only for non-coding transcripts) Non-coding genes Transcript biotype 1st: transcript biotype identical to gene biotype Ensembl canonical GENCODE basic Transcript genomic span Transcript length Methods The GENCODE v48 track was built from the GENCODE downloads file gencode.v48.chr_patch_hapl_scaff.annotation.gff3.gz. Data from other sources were correlated with the GENCODE data to build association tables. Related Data The GENCODE Genes transcripts are annotated in numerous tables, each of which is also available as a downloadable file. One can see a full list of the associated tables in the Table Browser by selecting GENCODE Genes from the track menu; this list is then available on the table menu. Data access GENCODE Genes and its associated tables can be explored interactively using the REST API, the Table Browser or the Data Integrator. The genePred format files for hg38 are available from our downloads directory or in our GTF download directory. All the tables can also be queried directly from our public MySQL servers, with more information available on our help page as well as on our blog. Credits The GENCODE Genes track was produced at UCSC from the GENCODE comprehensive gene set using a computational pipeline developed by Jim Kent and Brian Raney. This version of the track was generated by Jonathan Casper. References Mudge JM, Carbonell-Sala S, Diekhans M, Martinez JG, Hunt T, Jungreis I, Loveland JE, Arnan C, Barnes I, Bennett R et al. GENCODE 2025: reference gene annotation for human and mouse. Nucleic Acids Res. 2025 Jan 6;53(D1):D966-D975. PMID: 39565199; PMC: PMC11701607 A full list of GENCODE publications is available at The GENCODE Project web site. Data Release Policy GENCODE data are available for use without restrictions. 
knownGeneArchive GENCODE Archive GENCODE Archive Genes and Gene Predictions Description This super track contains previous versions of the GENCODE primary gene set. 
nmdDetectiveAiBed NMDetective-AI variants NMDetective-AI: Per-stop-gain predictions for every codon (MANE Select only) Genes and Gene Predictions Description The NMDetective-AI tracks display deep-learning predictions of nonsense-mediated mRNA decay (NMD) efficiency for every possible stop-gain single-nucleotide variant in MANE Select transcripts. The model was trained on ~14,000 somatic premature termination codons (PTCs) measured by allele-specific expression in large human cohorts (TCGA) and was tested on ~1,800 held-out germline PTCs (TCGA germline and GTEx) (Veiner et al.). Predictions are continuous: higher values indicate that a PTC at that codon is predicted to trigger NMD (the mRNA is degraded); lower values indicate that the PTC is predicted to evade NMD (the truncated mRNA may be translated into an aberrant protein). The output is normalized against canonical controls so that +0.5 corresponds to full NMD efficiency at a PTC and &minus;0.5 corresponds to no NMD efficiency (a last-exon PTC). The scale is not strictly bounded: due to measurement and prediction noise, observed values fall in roughly &minus;1.1 to +1.5, with the bulk of items inside the nominal &minus;0.5 to +0.5 interval. Subtracks TrackDescription NMDetective-AI Signal track (bigWig) showing the position-averaged prediction across all stop-gain SNVs at each codon. Useful for browsing efficiency along a transcript at a glance. NMDetective-AI variants Per-stop-gain track (bigBed) with one item per (transcript, codon, mutant codon) combination. Each item is colored by its prediction and carries the reference and mutant codon, amino-acid position, transcript accession, and a pre-rendered mouseover summary. Display Conventions and Configuration The NMDetective-AI signal track is drawn with a default y-axis range of &minus;1.1 to +1.5. Positions with positive values (predicted NMD-triggering) are shown above the baseline; positions with negative values (predicted NMD escape) are shown below. The NMDetective-AI variants track colors each item along a continuous diverging Okabe-Ito palette running from blue (most NMD-evading) through grey (near zero) to vermillion (most NMD-triggering). The mouseover verdict groups items into three categories using the binarization thresholds derived in the Veiner et al. Methods (Gaussian mixture model fit to gnomAD predictions): NMD-evading &ndash; prediction &le; &minus;0.17. Intermediate / uncertain &ndash; &minus;0.17 &lt; prediction &lt; +0.43. NMD-triggering &ndash; prediction &ge; +0.43. Mouseover for each variant shows the codon change, the prediction value with its NMD verdict, and the MANE Select transcript accession. Click an item to see the full set of fields on the details page. Methods NMDetective-AI is a fine-tuned version of the Orthrus mRNA foundation model (Mamba architecture, ~10M parameters), trained on full-length transcript sequences encoded as a six-track representation (four nucleotide channels, one CDS-start channel, one splice-site channel). The model integrates allele-specific PTC expression from large-scale genomic data with mRNA language-model embeddings and high-throughput deep mutational scanning, and predicts NMD efficiency for every possible stop-gain mutation in every codon of a MANE Select transcript. The training set comprised 14,337 somatic PTCs from TCGA, with chromosomes 1 and 20 held out as a validation set. The held-out test set comprised 1,065 germline PTCs from TCGA and 763 germline PTCs from GTEx. The authors report that the model's accuracy on the somatic validation set approaches the empirical reproducibility ceiling of the underlying allele-specific expression measurements. The publicly released predictions cover MANE Select transcripts at Gencode v46. Predictions for transcripts outside the MANE Select set are not yet available; broader coverage is planned by the authors after peer review. Source files were obtained from the Vejni/NMDetectiveAI GitHub repository (supplementary files NMDetectiveAI_MANE.bw.gz and NMDetectiveAI_MANE.bed.gz) and processed at UCSC: the bigWig is used as supplied; the BED was recolored with the diverging Okabe-Ito palette described above, rescored into the 0&ndash;1000 BED range, and augmented with a pre-rendered mouseover column before conversion to bigBed. Note: the manuscript is currently a bioRxiv preprint and has not yet completed peer review. Predictions may be refreshed when the final version of the data is released. Data Access The data underlying these tracks can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credits Thanks to Marcell Veiner and Fran Supek for sharing the NMDetective-AI predictions ahead of publication, and to the wider Veiner et al. author group for developing the model. References Veiner M, Toledano I, Palou-M&aacute;rquez G, Lehner B, Supek F. Quantitative prediction of nonsense-mediated mRNA decay across human genes by genomic language model and large-scale mutational scanning. bioRxiv. 2026 Mar 26. doi: 10.64898/2026.03.24.714003. Supplementary prediction files at github.com/Vejni/NMDetectiveAI. 
wgEncodeRegDnase DNase HS DNase I Hypersensitivity in 95 cell types from ENCODE Regulation Description These tracks contain the results of DNase I hypersensitivity experiments performed by the John Stamatoyannapoulos lab at the University of Washington from September 2007 to January 2011, as part of the ENCODE project first production phase. Colors were assigned to cell types based on similarity of signal. Other views of this data (along with additional documentation) are available from the hg19 ENCODE UW DNaseI HS track. Display Conventions and Configuration This track is a composite annotation track containing multiple subtracks, one for each cell type. The display mode and filtering of each subtrack can be individually controlled. For more information about track configuration, see Configuring Multi-View Tracks. Methods Raw sequence data files were processed by the UCSC ENCODE DNase analysis pipeline (July 2014 specification), diagrammed here: Credit: Qian Alvin Qin, X. Liu lab Briefly, sequence files were aligned to the hg38 (GRCh38) genome assembly augmented with 'sponge' sequence (ref). Multi-mapped reads were removed, as were reads that aligned to 'sponge' or mitochondrial sequence. Results from all replicates were pooled, and further processed by the Hotspot program to call peaks as well as broader regions of activity ('hotspots'), and to create signal density graphs. Signal graphs were normalized so the average value genome-wide is 1. The cell types were clustered into a binary tree, a rainbow was cast to the leaf nodes providing coloring based on similarity. Credit: Chris Eisenhart, J. Kent lab (Please note there is different coloring on the ENCODE hg38 Transcription track, Layered H3K4Me1 track, Layered H3K4Me3 track, and Layered H3K27Ac track, which match the coloring used in their previous versions lifted from the hg19 assembly). Credits The processed data for this track were produced by UCSC. Credits for the primary data underlying this track are included in the ENCODE UW DNaseI HS track description. References Miga KH, Eisenhart C, Kent WJ. Utilizing mapping targets of sequences underrepresented in the reference assembly to reduce false positive alignments. Nucleic Acids Res. 2015 Nov 16;43(20):e133. PMID: 26163063 Thurman RE, Rynes E, Humbert R, Vierstra J, Maurano MT, Haugen E, Sheffield NC, Stergachis AB, Wang H, Vernot B et al. The accessible chromatin landscape of the human genome. Nature. 2012 Sep 6;489(7414):75-82. PMID: 22955617; PMC: PMC3721348 See also the references in the ENCODE UW DNaseI HS track. 
wgEncodeRegDnaseSignal Signal HotSpot5 signal on BWA. Dupe, sponge and mitochondria filtered Regulation Description This track provides an integrated display of DNase hypersensitivity in multiple cell types using overlapping colored graphs of signal density with graph colors assigned to cell types based on similarity of signal. The track is based on results of experiments performed by the John Stamatoyannapoulos lab at the University of Washington from September 2007 to January 2011 as part of the ENCODE project first production phase. The signal graphs displayed here are also included in the comprehensive DNaseI HS track, which also provides peak and region calls and uses the same coloring based on similiarity of cell types (please note there is different coloring on the ENCODE hg38 Transcription track, Layered H3K4Me1 track, Layered H3K4Me3 track, and Layered H3K27Ac track, which match the coloring used in their previous versions lifted from the hg19 assembly). Methods Raw sequence data files were processed by the UCSC ENCODE DNase analysis pipeline described in the DNaseI HS track description. Signal graphs were normalized so the average value genome-wide is 1. Colors for the signal graphs were assigned by the UCSC BigWigCluster tool. The cell types were clustered into a binary tree, a rainbow was cast to the leaf nodes providing coloring based on similarity. Credit: Chris Eisenhart, J. Kent lab Credits The processed data for this track were generated at UCSC. Credits for the primary data underlying this track are included in the DNaseI HS track description. References Miga KH, Eisenhart C, Kent WJ. Utilizing mapping targets of sequences underrepresented in the reference assembly to reduce false positive alignments. Nucleic Acids Res. 2015 Nov 16;43(20):e133. PMID: 26163063 Thurman RE, Rynes E, Humbert R, Vierstra J, Maurano MT, Haugen E, Sheffield NC, Stergachis AB, Wang H, Vernot B et al. The accessible chromatin landscape of the human genome. Nature. 2012 Sep 6;489(7414):75-82. PMID: 22955617; PMC: PMC3721348 See also the references in the DNaseI HS track. 
wgEncodeRegDnaseUwBe2cSignal BE2_C Sg BE2_C neuroblastoma cell line DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwWerirb1Signal WERI-Rb-1 Sg WERI-Rb-1 retinoblastoma cell line DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwMcf7Estradiol100nm1hrSignal MCF-7 estr 1h Sg MCF-7 mammary adenocarcinoma cell line (estradi 1h) DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwMcf7Estradiolctrl0hrSignal MCF-7 estr 0h Sg MCF-7 mammary adenocarcinoma cell line (estradi 0h) DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwMcf7Signal MCF-7 Sg MCF-7 mammary adenocarcinoma cell line DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwSknmcSignal SK-N-MC Sg SK-N-MC neuroepithelioma cell line DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHelas3Signal HeLa-S3 Sg HeLa-S3 cervical epithelial adenocarcinoma cell line DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHmvecdlyadSignal HMVEC-dLy-Ad Sg HMVEC-dLy-Ad dermal MV endothelial cell, lymph DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHrpepicSignal HRPEpiC Sg HRPEpiC retinal pigment epithelium DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwRptecSignal RPTEC Sg RPTEC renal proximal tubule epithelium DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwH7hescDiffprota14dSignal H7-ES diff 14d Sg H7-hESC embryonic stem cell (diff 14d) DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwH7hescDiffprota5dSignal H7-ES diff 5d Sg H7-hESC embryonic stem cell (diff 5d) DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwH7hescSignal H7-ES Sg H7-hESC embryonic stem cell DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwNb4Signal NB4 Sg NB4 acute promyelocytic leukemia (APL) cell line DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHl60Signal HL-60 Sg HL-60 acute promyelocytic leukemia (APL) cell line DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwMonocytescd14ro01746Signal Monocyte-CD14+ Sg Monocytes-CD14+_RO01746 monocyte, CD14+ DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwGm12865Signal GM12865 Sg GM12865 B-lymphocyte, lymphoblastoid cell line DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwGm12878Signal GM12878 Sg GM12878 B-lymphocyte, lymphoblastoid cell line DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwJurkatSignal Jurkat Sg Jurkat T-lymphocyte acute leukemia cell line DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwTh1wb54553204Signal Th1_Wb54553204 Sg Th1_Wb54553204 T-lymphocyte, helper type 1 DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwTh2Signal Th2 Sg Th2 T-lymphocyte, helper type 2 DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwTh1Signal Th1 Sg Th1 T-lymphocyte, helper type 1 DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwCd20ro01778Signal CD20+_RO01778 Sg CD20+_RO01778 B-lymphocyte, CD20+ DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwSknshraSignal SK-N-SH_RA Sg SK-N-SH_RA neuroblastoma cell line, RA treated DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwCaco2Signal Caco-2 Sg Caco-2 colon adenocarcinoma cell line DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHepg2Signal HepG2 Sg HepG2 hepatocellular carcinoma cell line DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwGm06990Signal GM06990 Sg GM06990 B-lymphocyte, lymphoblastoid cell line DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHeepicSignal HEEpiC Sg HEEpiC esophageal epithelium DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwPrecSignal PrEC Sg PrEC prostate epithelium DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwSaecSignal SAEC Sg SAEC small airway epithelium DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwNhekSignal NHEK Sg NHEK epidermal keratinocyte DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHreSignal HRE Sg HRE renal epithelium DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHrcepicSignal HRCEpiC Sg HRCEpiC renal cortical epithelium DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHmvecdadSignal HMVEC-dAd Sg HMVEC-dAd dermal microvascular endothelial cell DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHmvecdneoSignal HMVEC-dNeo Sg HMVEC-dNeo dermal MV endothelial cell, neonate DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHmvecllySignal HMVEC-LLy Sg HMVEC-LLy lung microvascular endothelial cell, lymph DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHrgecSignal HRGEC Sg HRGEC renal glomerular endothelial cell DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHmvecdblneoSignal HMVEC-dBl-Neo Sg HMVEC-dBl-Neo dermal MV endo cell, neonate blood DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHmvecdlyneoSignal HMVEC-dLy-Neo Sg HMVEC-dLy-Neo dermal MV end cell, neonate lymph DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHmvecdbladSignal HMVEC-dBl-Ad Sg HMVEC-dBl-Ad dermal MV endothelial cell, blood DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHmveclblSignal HMVEC-LBl Sg HMVEC-LBl lung microvascular epithelium. blood DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHuvecSignal HUVEC Sg HUVEC umbilical vein endothelial cell DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHsmmtubeSignal HSMMtube Sg HSMMtube skeletal muscle myotube DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwLhcnm2Diff4dSignal LHCN-M2 diff4d Sg LHCN-M2 skeletal myoblast (diff 4d) DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwLhcnm2Signal LHCN-M2 Sg LHCN-M2 skeletal myoblast DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHsmmSignal HSMM Sg HSMM skeletal muscle myoblast DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwNhdfadSignal NHDF-Ad Sg NHDF-Ad dermal fibroblast DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwWi384ohtam20nm72hrSignal WI-38 40HTAM Sg WI-38 embryonic lung fibroblast cell line (40HTAM) DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHcfaaSignal HCFaa Sg HCFaa cardiac fibroblast DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHaspSignal HA-sp Sg HA-sp spinal cord astrocyte DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwRpmi7951Signal RPMI-7951 Sg RPMI-7951 melanoma cell line DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwM059jSignal M059J Sg M059J glioblastoma cell line DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHahSignal HA-h Sg HA-h hippocampal astrocyte DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwAg04450Signal AG04450 Sg AG04450 fetal lung fibroblast DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwAg04449Signal AG04449 Sg AG04449 fetal skin fibroblast DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHbvsmcSignal HBVSMC Sg HBVSMC brain vascular smooth muscle DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwSkmcSignal SKMC Sg SKMC skeletal muscle cell DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHaepicSignal HAEpiC Sg HAEpiC amniotic epithelium (AEC) DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwNhdfneoSignal NHDF-neo Sg NHDF-neo dermal fibroblast, neonate DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHgfSignal HGF Sg HGF gingival fibroblast DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHmfSignal HMF Sg HMF mammary fibroblast DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwAg10803Signal AG10803 Sg AG10803 skin fibroblast DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwBonemarrowmscSignal bonemarrow_MSC Sg bone_marrow_MSC bone marrow fibroblastoid DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHipepicSignal HIPEpiC Sg HIPEpiC iris pigment epithelium DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHvmfSignal HVMF Sg HVMF villous mesenchymal fibroblast DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHacSignal HAc Sg HAc cerebellar astrocyte DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHconfSignal HConF Sg HConF conjunctival fibroblast DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHpfSignal HPF Sg HPF pulmonary fibroblast DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHcpepicSignal HCPEpiC Sg HCPEpiC choroid plexus epithelium DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwAoafSignal AoAF Sg AoAF aorta fibroblast DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHpafSignal HPAF Sg HPAF pulmonary artery fibroblast DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHcmSignal HCM Sg HCM cardiac myocyte DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHcfSignal HCF Sg HCF cardiac fibroblast DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHpdlfSignal HPdLF Sg HPdLF periodontal ligament fibroblast DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwAg09319Signal AG09319 Sg AG09319 gingival fibroblast DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHbmecSignal HBMEC Sg HBMEC brain microvascular endothelial cell (MEC) DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwNhaSignal NH-A Sg NH-A astrocyte DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwNhlfSignal NHLF Sg NHLF lung fibroblast DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwGm04504Signal GM04504 Sg GM04504 skin fibroblast DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwGm04503Signal GM04503 Sg GM04503 skin fibroblast DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwWi38Signal WI-38 Sg WI-38 embryonic lung fibroblast cell line DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHnpcepicSignal HNPCEpiC Sg HNPCEpiC non-pigmented ciliary epithelium (NPCEC) DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwAg09309Signal AG09309 Sg AG09309 skin fibroblast DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwBjSignal BJ Sg BJ foreskin fibroblast cell line DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwNt2d1Signal NT2-D1 Sg NT2-D1 embryonal carcinoma (NTera2) cell line DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHffmycSignal HFF-Myc Sg HFF-Myc foreskin fibroblast cell line, cMyc DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHffSignal HFF Sg HFF foreskin fibroblast DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwNhberaSignal NHBE_RA Sg NHBE_RA bronchial epithelium, RA treated DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHct116Signal HCT-116 Sg HCT-116 colorectal carcinoma cell line DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwPanc1Signal PANC-1 Sg PANC-1 pancreatic carcinoma cell line DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwT47dSignal T-47D Sg T-47D mammary ductal carcinoma cell line DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwHmecSignal HMEC Sg HMEC mammary epithelium DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwLncapSignal LNCaP Sg LNCaP prostate adenocarcinoma cell line DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwA549Signal A549 Sg A549 lung adenocarcinoma cell line DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnaseUwK562Signal K562 Sg K562 lymphoblast chronic myeloid leukemia  cell line DNaseI Signal from ENCODE Regulation 
wgEncodeRegDnasePeak Peaks HotSpot5 peak calls on BWA. Dupe, sponge and mitochondria filtered Regulation 
wgEncodeRegDnaseUwBe2cPeak BE2_C Pk BE2_C neuroblastoma cell line DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwWerirb1Peak WERI-Rb-1 Pk WERI-Rb-1 retinoblastoma cell line DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwMcf7Estradiol100nm1hrPeak MCF-7 estr 1h Pk MCF-7 mammary adenocarcinoma cell line (estradi 1h) DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwMcf7Estradiolctrl0hrPeak MCF-7 estr 0h Pk MCF-7 mammary adenocarcinoma cell line (estradi 0h) DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwMcf7Peak MCF-7 Pk MCF-7 mammary adenocarcinoma cell line DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwSknmcPeak SK-N-MC Pk SK-N-MC neuroepithelioma cell line DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwHelas3Peak HeLa-S3 Pk HeLa-S3 cervical epithelial adenocarcinoma cell line DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwHmvecdlyadPeak HMVEC-dLy-Ad Pk HMVEC-dLy-Ad dermal MV endothelial cell, lymph DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwHrpepicPeak HRPEpiC Pk HRPEpiC retinal pigment epithelium DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwRptecPeak RPTEC Pk RPTEC renal proximal tubule epithelium DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwH7hescDiffprota14dPeak H7-ES diff 14d Pk H7-hESC embryonic stem cell (diff 14d) DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwH7hescDiffprota5dPeak H7-ES diff 5d Pk H7-hESC embryonic stem cell (diff 5d) DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwH7hescPeak H7-ES Pk H7-hESC embryonic stem cell DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwNb4Peak NB4 Pk NB4 acute promyelocytic leukemia (APL) cell line DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwHl60Peak HL-60 Pk HL-60 acute promyelocytic leukemia (APL) cell line DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwMonocytescd14ro01746Peak Monocyte-CD14+ Pk Monocytes-CD14+_RO01746 monocyte, CD14+ DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwGm12865Peak GM12865 Pk GM12865 B-lymphocyte, lymphoblastoid cell line DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwGm12878Peak GM12878 Pk GM12878 B-lymphocyte, lymphoblastoid cell line DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwJurkatPeak Jurkat Pk Jurkat T-lymphocyte acute leukemia cell line DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwTh1wb54553204Peak Th1_Wb54553204 Pk Th1_Wb54553204 T-lymphocyte, helper type 1 DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwTh2Peak Th2 Pk Th2 T-lymphocyte, helper type 2 DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwTh1Peak Th1 Pk Th1 T-lymphocyte, helper type 1 DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwCd20ro01778Peak CD20+_RO01778 Pk CD20+_RO01778 B-lymphocyte, CD20+ DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwSknshraPeak SK-N-SH_RA Pk SK-N-SH_RA neuroblastoma cell line, RA treated DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwCaco2Peak Caco-2 Pk Caco-2 colon adenocarcinoma cell line DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwHepg2Peak HepG2 Pk HepG2 hepatocellular carcinoma cell line DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwGm06990Peak GM06990 Pk GM06990 B-lymphocyte, lymphoblastoid cell line DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwHeepicPeak HEEpiC Pk HEEpiC esophageal epithelium DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwPrecPeak PrEC Pk PrEC prostate epithelium DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwSaecPeak SAEC Pk SAEC small airway epithelium DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwNhekPeak NHEK Pk NHEK epidermal keratinocyte DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwHrePeak HRE Pk HRE renal epithelium DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwHrcepicPeak HRCEpiC Pk HRCEpiC renal cortical epithelium DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwHmvecdadPeak HMVEC-dAd Pk HMVEC-dAd dermal microvascular endothelial cell DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwHmvecdneoPeak HMVEC-dNeo Pk HMVEC-dNeo dermal MV endothelial cell, neonate DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwHmvecllyPeak HMVEC-LLy Pk HMVEC-LLy lung microvascular endothelial cell, lymph DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwHrgecPeak HRGEC Pk HRGEC renal glomerular endothelial cell DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwHmvecdblneoPeak HMVEC-dBl-Neo Pk HMVEC-dBl-Neo dermal MV endothelial cell, neonate blood DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwHmvecdlyneoPeak HMVEC-dLy-Neo Pk HMVEC-dLy-Neo dermal MV endothelial cell, neonate lymph DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwHmvecdbladPeak HMVEC-dBl-Ad Pk HMVEC-dBl-Ad dermal MV endothelial cell, blood DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwHmveclblPeak HMVEC-LBl Pk HMVEC-LBl lung microvascular epithelium. blood DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwHuvecPeak HUVEC Pk HUVEC umbilical vein endothelial cell DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwHsmmtubePeak HSMMtube Pk HSMMtube skeletal muscle myotube DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwLhcnm2Diff4dPeak LHCN-M2 diff4d Pk LHCN-M2 skeletal myoblast (diff 4d) DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwLhcnm2Peak LHCN-M2 Pk LHCN-M2 skeletal myoblast DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwHsmmPeak HSMM Pk HSMM skeletal muscle myoblast DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwNhdfadPeak NHDF-Ad Pk NHDF-Ad dermal fibroblast DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwWi384ohtam20nm72hrPeak WI-38 40HTAM Pk WI-38 embryonic lung fibroblast cell line (40HTAM) DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwHcfaaPeak HCFaa Pk HCFaa cardiac fibroblast DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwHaspPeak HA-sp Pk HA-sp spinal cord astrocyte DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwRpmi7951Peak RPMI-7951 Pk RPMI-7951 melanoma cell line DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwM059jPeak M059J Pk M059J glioblastoma cell line DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwHahPeak HA-h Pk HA-h hippocampal astrocyte DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwAg04450Peak AG04450 Pk AG04450 fetal lung fibroblast DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwAg04449Peak AG04449 Pk AG04449 fetal skin fibroblast DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwHbvsmcPeak HBVSMC Pk HBVSMC brain vascular smooth muscle DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwSkmcPeak SKMC Pk SKMC skeletal muscle cell DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwHaepicPeak HAEpiC Pk HAEpiC amniotic epithelium (AEC) DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwNhdfneoPeak NHDF-neo Pk NHDF-neo dermal fibroblast, neonate DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwHgfPeak HGF Pk HGF gingival fibroblast DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwHmfPeak HMF Pk HMF mammary fibroblast DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwAg10803Peak AG10803 Pk AG10803 skin fibroblast DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwBonemarrowmscPeak bonemarrow_MSC Pk bone_marrow_MSC bone marrow fibroblastoid DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwHipepicPeak HIPEpiC Pk HIPEpiC iris pigment epithelium DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwHvmfPeak HVMF Pk HVMF villous mesenchymal fibroblast DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwHacPeak HAc Pk HAc cerebellar astrocyte DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwHconfPeak HConF Pk HConF conjunctival fibroblast DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwHpfPeak HPF Pk HPF pulmonary fibroblast DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwHcpepicPeak HCPEpiC Pk HCPEpiC choroid plexus epithelium DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwAoafPeak AoAF Pk AoAF aorta fibroblast DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwHpafPeak HPAF Pk HPAF pulmonary artery fibroblast DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwHcmPeak HCM Pk HCM cardiac myocyte DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwHcfPeak HCF Pk HCF cardiac fibroblast DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwHpdlfPeak HPdLF Pk HPdLF periodontal ligament fibroblast DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwAg09319Peak AG09319 Pk AG09319 gingival fibroblast DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwHbmecPeak HBMEC Pk HBMEC brain microvascular endothelial cell (MEC) DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwNhaPeak NH-A Pk NH-A astrocyte DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwNhlfPeak NHLF Pk NHLF lung fibroblast DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwGm04504Peak GM04504 Pk GM04504 skin fibroblast DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwGm04503Peak GM04503 Pk GM04503 skin fibroblast DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwWi38Peak WI-38 Pk WI-38 embryonic lung fibroblast cell line DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwHnpcepicPeak HNPCEpiC Pk HNPCEpiC non-pigmented ciliary epithelium (NPCEC) DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwAg09309Peak AG09309 Pk AG09309 skin fibroblast DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwBjPeak BJ Pk BJ foreskin fibroblast cell line DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwNt2d1Peak NT2-D1 Pk NT2-D1 embryonal carcinoma (NTera2) cell line DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwHffmycPeak HFF-Myc Pk HFF-Myc foreskin fibroblast cell line, cMyc DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwHffPeak HFF Pk HFF foreskin fibroblast DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwNhberaPeak NHBE_RA Pk NHBE_RA bronchial epithelium, RA treated DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwHct116Peak HCT-116 Pk HCT-116 colorectal carcinoma cell line DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwPanc1Peak PANC-1 Pk PANC-1 pancreatic carcinoma cell line DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwT47dPeak T-47D Pk T-47D mammary ductal carcinoma cell line DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwHmecPeak HMEC Pk HMEC mammary epithelium DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwLncapPeak LNCaP Pk LNCaP prostate adenocarcinoma cell line DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwA549Peak A549 Pk A549 lung adenocarcinoma cell line DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseUwK562Peak K562 Pk K562 lymphoblast chronic myeloid leukemia cell line DNaseI Peaks from ENCODE Regulation 
wgEncodeRegDnaseHotspot Hotspots Hotspot5 hotspot calls on BWA. Dupe, sponge and mitochondria filtered Regulation 
wgEncodeRegDnaseUwBe2cHotspot BE2_C Ht BE2_C neuroblastoma cell line DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwWerirb1Hotspot WERI-Rb-1 Ht WERI-Rb-1 retinoblastoma cell line DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwMcf7Estradiol100nm1hrHotspot MCF-7 estr 1h Ht MCF-7 mammary adenocarcinoma cell line (estradi 1h) DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwMcf7Estradiolctrl0hrHotspot MCF-7 estr 0h Ht MCF-7 mammary adenocarcinoma cell line (estradi 0h) DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwMcf7Hotspot MCF-7 Ht MCF-7 mammary adenocarcinoma cell line DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwSknmcHotspot SK-N-MC Ht SK-N-MC neuroepithelioma cell line DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwHelas3Hotspot HeLa-S3 Ht HeLa-S3 cervical epithelial adenocarcinoma cell line DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwHmvecdlyadHotspot HMVEC-dLy-Ad Ht HMVEC-dLy-Ad dermal MV endothelial cell, lymph DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwHrpepicHotspot HRPEpiC Ht HRPEpiC retinal pigment epithelium DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwRptecHotspot RPTEC Ht RPTEC renal proximal tubule epithelium DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwH7hescDiffprota14dHotspot H7-ES diff 14d Ht H7-hESC embryonic stem cell (diff 14d) DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwH7hescDiffprota5dHotspot H7-ES diff 5d Ht H7-hESC embryonic stem cell (diff 5d) DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwH7hescHotspot H7-ES Ht H7-hESC embryonic stem cell DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwNb4Hotspot NB4 Ht NB4 acute promyelocytic leukemia (APL) cell line DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwHl60Hotspot HL-60 Ht HL-60 acute promyelocytic leukemia (APL) cell line DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwMonocytescd14ro01746Hotspot Monocyte-CD14+ Ht Monocytes-CD14+_RO01746 monocyte, CD14+ DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwGm12865Hotspot GM12865 Ht GM12865 B-lymphocyte, lymphoblastoid cell line DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwGm12878Hotspot GM12878 Ht GM12878 B-lymphocyte, lymphoblastoid cell line DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwJurkatHotspot Jurkat Ht Jurkat T-lymphocyte acute leukemia cell line DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwTh1wb54553204Hotspot Th1_Wb54553204 Ht Th1_Wb54553204 T-lymphocyte, helper type 1 DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwTh2Hotspot Th2 Ht Th2 T-lymphocyte, helper type 2 DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwTh1Hotspot Th1 Ht Th1 T-lymphocyte, helper type 1 DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwCd20ro01778Hotspot CD20+_RO01778 Ht CD20+_RO01778 B-lymphocyte, CD20+ DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwSknshraHotspot SK-N-SH_RA Ht SK-N-SH_RA neuroblastoma cell line, RA treated DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwCaco2Hotspot Caco-2 Ht Caco-2 colon adenocarcinoma cell line DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwHepg2Hotspot HepG2 Ht HepG2 hepatocellular carcinoma cell line DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwGm06990Hotspot GM06990 Ht GM06990 B-lymphocyte, lymphoblastoid cell line DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwHeepicHotspot HEEpiC Ht HEEpiC esophageal epithelium DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwPrecHotspot PrEC Ht PrEC prostate epithelium DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwSaecHotspot SAEC Ht SAEC small airway epithelium DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwNhekHotspot NHEK Ht NHEK epidermal keratinocyte DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwHreHotspot HRE Ht HRE renal epithelium DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwHrcepicHotspot HRCEpiC Ht HRCEpiC renal cortical epithelium DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwHmvecdadHotspot HMVEC-dAd Ht HMVEC-dAd dermal microvascular endothelial cell DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwHmvecdneoHotspot HMVEC-dNeo Ht HMVEC-dNeo dermal microvascular endo cell, neonate DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwHmvecllyHotspot HMVEC-LLy Ht HMVEC-LLy lung microvascular endothelial cell, lymph DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwHrgecHotspot HRGEC Ht HRGEC renal glomerular endothelial cell DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwHmvecdblneoHotspot HMVEC-dBl-Neo Ht HMVEC-dBl-Neo dermal MV endo cell, neonate blood DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwHmvecdlyneoHotspot HMVEC-dLy-Neo Ht HMVEC-dLy-Neo dermal MV endo cell, neonate lymph DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwHmvecdbladHotspot HMVEC-dBl-Ad Ht HMVEC-dBl-Ad dermal MV endothelial cell, blood DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwHmveclblHotspot HMVEC-LBl Ht HMVEC-LBl lung microvascular epithelium. blood DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwHuvecHotspot HUVEC Ht HUVEC umbilical vein endothelial cell DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwHsmmtubeHotspot HSMMtube Ht HSMMtube skeletal muscle myotube DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwLhcnm2Diff4dHotspot LHCN-M2 diff4d Ht LHCN-M2 skeletal myoblast (diff 4d) DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwLhcnm2Hotspot LHCN-M2 Ht LHCN-M2 skeletal myoblast DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwHsmmHotspot HSMM Ht HSMM skeletal muscle myoblast DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwNhdfadHotspot NHDF-Ad Ht NHDF-Ad dermal fibroblast DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwWi384ohtam20nm72hrHotspot WI-38 40HTAM Ht WI-38 embryonic lung fibroblast cell line (40HTAM) DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwHcfaaHotspot HCFaa Ht HCFaa cardiac fibroblast DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwHaspHotspot HA-sp Ht HA-sp spinal cord astrocyte DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwRpmi7951Hotspot RPMI-7951 Ht RPMI-7951 melanoma cell line DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwM059jHotspot M059J Ht M059J glioblastoma cell line DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwHahHotspot HA-h Ht HA-h hippocampal astrocyte DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwAg04450Hotspot AG04450 Ht AG04450 fetal lung fibroblast DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwAg04449Hotspot AG04449 Ht AG04449 fetal skin fibroblast DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwHbvsmcHotspot HBVSMC Ht HBVSMC brain vascular smooth muscle DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwSkmcHotspot SKMC Ht SKMC skeletal muscle cell DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwHaepicHotspot HAEpiC Ht HAEpiC amniotic epithelium (AEC) DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwNhdfneoHotspot NHDF-neo Ht NHDF-neo dermal fibroblast, neonate DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwHgfHotspot HGF Ht HGF gingival fibroblast DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwHmfHotspot HMF Ht HMF mammary fibroblast DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwAg10803Hotspot AG10803 Ht AG10803 skin fibroblast DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwBonemarrowmscHotspot bonemarrow_MSC Ht bone_marrow_MSC bone marrow fibroblastoid DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwHipepicHotspot HIPEpiC Ht HIPEpiC iris pigment epithelium DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwHvmfHotspot HVMF Ht HVMF villous mesenchymal fibroblast DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwHacHotspot HAc Ht HAc cerebellar astrocyte DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwHconfHotspot HConF Ht HConF conjunctival fibroblast DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwHpfHotspot HPF Ht HPF pulmonary fibroblast DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwHcpepicHotspot HCPEpiC Ht HCPEpiC choroid plexus epithelium DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwAoafHotspot AoAF Ht AoAF aorta fibroblast DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwHpafHotspot HPAF Ht HPAF pulmonary artery fibroblast DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwHcmHotspot HCM Ht HCM cardiac myocyte DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwHcfHotspot HCF Ht HCF cardiac fibroblast DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwHpdlfHotspot HPdLF Ht HPdLF periodontal ligament fibroblast DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwAg09319Hotspot AG09319 Ht AG09319 gingival fibroblast DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwHbmecHotspot HBMEC Ht HBMEC brain microvascular endothelial cell (MEC) DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwNhaHotspot NH-A Ht NH-A astrocyte DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwNhlfHotspot NHLF Ht NHLF lung fibroblast DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwGm04504Hotspot GM04504 Ht GM04504 skin fibroblast DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwGm04503Hotspot GM04503 Ht GM04503 skin fibroblast DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwWi38Hotspot WI-38 Ht WI-38 embryonic lung fibroblast cell line DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwHnpcepicHotspot HNPCEpiC Ht HNPCEpiC non-pigmented ciliary epithelium (NPCEC) DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwAg09309Hotspot AG09309 Ht AG09309 skin fibroblast DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwBjHotspot BJ Ht BJ foreskin fibroblast cell line DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwNt2d1Hotspot NT2-D1 Ht NT2-D1 embryonal carcinoma (NTera2) cell line DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwHffmycHotspot HFF-Myc Ht HFF-Myc foreskin fibroblast cell line, cMyc DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwHffHotspot HFF Ht HFF foreskin fibroblast DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwNhberaHotspot NHBE_RA Ht NHBE_RA bronchial epithelium, RA treated DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwHct116Hotspot HCT-116 Ht HCT-116 colorectal carcinoma cell line DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwPanc1Hotspot PANC-1 Ht PANC-1 pancreatic carcinoma cell line DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwT47dHotspot T-47D Ht T-47D mammary ductal carcinoma cell line DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwHmecHotspot HMEC Ht HMEC mammary epithelium DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwLncapHotspot LNCaP Ht LNCaP prostate adenocarcinoma cell line DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwA549Hotspot A549 Ht A549 lung adenocarcinoma cell line DNaseI Hotspots from ENCODE Regulation 
wgEncodeRegDnaseUwK562Hotspot K562 Ht K562 lymphoblast chronic myeloid leukemia cell line DNaseI Hotspots from ENCODE Regulation 
knownGeneV47 GENCODE V47 GENCODE V47 Genes and Gene Predictions Description The GENCODE Genes track (version 47, October 2024) shows high-quality manual annotations merged with evidence-based automated annotations across the entire human genome generated by the GENCODE project. By default, only the basic gene set is displayed, which is a subset of the comprehensive gene set. The basic set represents transcripts that GENCODE believes will be useful to the majority of users. The track includes protein-coding genes, non-coding RNA genes, and pseudo-genes, though pseudo-genes are not displayed by default. It contains annotations on the reference chromosomes as well as assembly patches and alternative loci (haplotypes). The v47 release was derived from the GTF file that contains annotations only on the main chromosomes. Statistics for this build and information on how they were generated can be found on the GENCODE site. For more information on the different gene tracks, see our Genes FAQ. Display Conventions and Configuration By default, this track displays only the basic GENCODE set, splice variants, and non-coding genes. It includes options to display the entire GENCODE set and pseudogenes. To customize these options, the respective boxes can be checked or unchecked at the top of this description page. This track also includes a variety of labels which identify the transcripts when visibility is set to &quot;full&quot; or &quot;pack&quot;. Gene symbols (e.g. NIPA1) are displayed by default, but additional options include GENCODE Transcript ID (ENST00000561183.5), UCSC Known Gene ID (uc001yve.4), UniProt Display ID (Q7RTP0). Additional information about gene and transcript names can be found in our FAQ. This track, in general, follows the display conventions for gene prediction tracks. The exons for putative non-coding genes and untranslated regions are represented by relatively thin blocks, while those for coding open reading frames are thicker. Coloring for the gene annotations is mostly based on the annotation type: MANE: MANE Select Plus Clinical transcripts. For non-MANE transcripts, the following conventions apply. coding: protein coding transcripts, including polymorphic pseudogenes non-coding: non-protein coding transcripts pseudogene: pseudogene transcript annotations problem: problem transcripts (Biotypes of retained_intron, TEC, or disrupted_domain) This track contains an optional codon coloring feature that allows users to quickly validate and compare gene predictions. There is also an option to display the data as a density graph, which can be helpful for visualizing the distribution of items over a region. Squishy-pack Display Within a gene using the pack display mode, transcripts below a specified rank will be condensed into a view similar to squish mode. The transcript ranking approach is preliminary and will change in future releases. The transcripts rankings are defined by the following criteria for protein-coding and non-coding genes: Protein_coding genes MANE or Ensembl canonical 1st: MANE Select / Ensembl canonical 2nd: MANE Plus Clinical Coding biotypes 1st: protein_coding and protein_coding_LoF 2nd: NMDs and NSDs 3rd: retained intron and protein_coding_CDS_not_defined Completeness 1st: full length 2nd: CDS start/end not found CARS score (only for coding transcripts) Transcript genomic span and length (only for non-coding transcripts) Non-coding genes Transcript biotype 1st: transcript biotype identical to gene biotype Ensembl canonical GENCODE basic Transcript genomic span Transcript length Methods The GENCODE v47 track was built from the GENCODE downloads file gencode.v47.chr_patch_hapl_scaff.annotation.gff3.gz. Data from other sources were correlated with the GENCODE data to build association tables. Related Data The GENCODE Genes transcripts are annotated in numerous tables, each of which is also available as a downloadable file. One can see a full list of the associated tables in the Table Browser by selecting GENCODE Genes from the track menu; this list is then available on the table menu. Data access GENCODE Genes and its associated tables can be explored interactively using the REST API, the Table Browser or the Data Integrator. The genePred format files for hg38 are available from our downloads directory or in our GTF download directory. All the tables can also be queried directly from our public MySQL servers, with more information available on our help page as well as on our blog. Credits The GENCODE Genes track was produced at UCSC from the GENCODE comprehensive gene set using a computational pipeline developed by Jim Kent and Brian Raney. This version of the track was generated by Jonathan Casper. References Frankish A, Carbonell-Sala S, Diekhans M, Jungreis I, Loveland JE, Mudge JM, Sisu C, Wright JC, Arnan C, Barnes I et al. GENCODE: reference annotation for the human and mouse genomes in 2023. Nucleic Acids Res. 2023 Jan 6;51(D1):D942-D949. PMID: 36420896; PMC: PMC9825462 A full list of GENCODE publications is available at The GENCODE Project web site. Data Release Policy GENCODE data are available for use without restrictions. 
encRegTfbsClustered TF Clusters Transcription Factor ChIP-seq Clusters (340 factors, 129 cell types) from ENCODE 3 Regulation Description This track shows regions of transcription factor binding derived from a large collection of ChIP-seq experiments performed by the ENCODE project between February 2011 and November 2018, spanning the first production phase of ENCODE ("ENCODE 2") through the second full production phase ("ENCODE 3"). Transcription factors (TFs) are proteins that bind to DNA and interact with RNA polymerases to regulate gene expression. Some TFs contain a DNA binding domain and can bind directly to specific short DNA sequences ('motifs'); others bind to DNA indirectly through interactions with TFs containing a DNA binding domain. High-throughput antibody capture and sequencing methods (e.g. chromatin immunoprecipitation followed by sequencing, or 'ChIP-seq') can be used to identify regions of TF binding genome-wide. These regions are commonly called ChIP-seq peaks. ENCODE TF ChIP-seq data were processed using the ENCODE Transcription Factor ChIP-seq Processing Pipeline to generate peaks of TF binding. Peaks from 1264 experiments (1256 in hg38) representing 338 transcription factors (340 in hg38) in 130 cell types (129 in hg38) are combined here into clusters to produce a summary display showing occupancy regions for each factor. The underlying ChIP-seq peak data are available from the ENCODE 3 TF ChIP Peaks tracks ( hg19, hg38) Display Conventions A gray box encloses each peak cluster of transcription factor occupancy, with the darkness of the box being proportional to the maximum signal strength observed in any cell type contributing to the cluster. The HGNC gene name for the transcription factor is shown to the left of each cluster. To the right of the cluster a configurable label can optionally display information about the cell types contributing to the cluster and how many cell types were assayed for the factor (count where detected / count where assayed). For brevity in the display, each cell type is abbreviated to a single letter. The darkness of the letter is proportional to the signal strength observed in the cell line. Abbreviations starting with capital letters designate ENCODE cell types initially identified for intensive study, while those starting with lowercase letters designate cell lines added later in the project. Click on a peak cluster to see more information about the TF/cell assays contributing to the cluster and the cell line abbreviation table. Methods Peaks of transcription factor occupancy ("optimal peak set") from ENCODE ChIP-seq datasets were clustered using the UCSC hgBedsToBedExps tool. Scores were assigned to peaks by multiplying the input signal values by a normalization factor calculated as the ratio of the maximum score value (1000) to the signal value at one standard deviation from the mean, with values exceeding 1000 capped at 1000. This has the effect of distributing scores up to mean plus one 1 standard deviation across the score range, but assigning all above to the maximum score. The cluster score is the highest score for any peak contributing to the cluster. Data Access The raw data for the ENCODE3 TF Clusters track can be accessed from the Table Browser or combined with other datasets through the Data Integrator. This data is stored internally as a BED5+3 MySQL table with additional metadata tables. For automated analysis and download, the encRegTfbsClusteredWithCells.hg38.bed.gz track data file can be downloaded from our downloads server, which has 5 fields of BED data followed by a comma-separated list of cell types. The data can also be queried using the JSON API or the Public SQL server. Credits Thanks to the ENCODE Consortium, the ENCODE ChIP-seq production laboratories, and the ENCODE Data Coordination Center for generating and processing the TF ChIP-seq datasets used here. The ENCODE accession numbers of the constituent datasets are available from the peak details page. Special thanks to Henry Pratt, Jill Moore, Michael Purcaro, and Zhiping Weng, PI, at the ENCODE Data Analysis Center (ZLab at UMass Medical Center) for providing the peak datasets, metadata, and guidance developing this track. Please check the ZLab ENCODE Public Hubs for the most updated data. The integrative view presented here was developed by Jim Kent at UCSC. References ENCODE Project Consortium. A user's guide to the encyclopedia of DNA elements (ENCODE). PLoS Biol. 2011 Apr;9(4):e1001046. PMID: 21526222; PMCID: PMC3079585 ENCODE Project Consortium. An integrated encyclopedia of DNA elements in the human genome. Nature. 2012 Sep 6;489(7414):57-74. PMID: 22955616; PMCID: PMC3439153 Sloan CA, Chan ET, Davidson JM, Malladi VS, Strattan JS, Hitz BC, Gabdank I, Narayanan AK, Ho M, Lee BT et al. ENCODE data at the ENCODE portal. Nucleic Acids Res. 2016 Jan 4;44(D1):D726-32. PMID: 26527727; PMC: PMC4702836 Gerstein MB, Kundaje A, Hariharan M, Landt SG, Yan KK, Cheng C, Mu XJ, Khurana E, Rozowsky J, Alexander R et al. Architecture of the human regulatory network derived from ENCODE data. Nature. 2012 Sep 6;489(7414):91-100. PMID: 22955619 Wang J, Zhuang J, Iyer S, Lin X, Whitfield TW, Greven MC, Pierce BG, Dong X, Kundaje A, Cheng Y et al. Sequence features and chromatin structure around the genomic regions bound by 119 human transcription factors. Genome Res. 2012 Sep;22(9):1798-812. PMID: 22955990; PMC: PMC3431495 Wang J, Zhuang J, Iyer S, Lin XY, Greven MC, Kim BH, Moore J, Pierce BG, Dong X, Virgil D et al. Factorbook.org: a Wiki-based database for transcription factor-binding data generated by the ENCODE consortium. Nucleic Acids Res. 2013 Jan;41(Database issue):D171-6. PMID: 23203885; PMC: PMC3531197 Data Use Policy Users may freely download, analyze and publish results based on any ENCODE data without restrictions. Researchers using unpublished ENCODE data are encouraged to contact the data producers to discuss possible coordinated publications; however, this is optional. Users of ENCODE datasets are requested to cite the ENCODE Consortium and ENCODE production laboratory(s) that generated the datasets used, as described in Citing ENCODE. 
encTfChipPk TF ChIP Transcription Factor ChIP-seq Peaks (340 factors in 129 cell types) from ENCODE 3 Regulation Description This track represents a comprehensive set of human transcription factor binding sites based on ChIP-seq experiments generated by production groups in the ENCODE Consortium between February 2011 and November 2018. Transcription factors (TFs) are proteins that bind to DNA and interact with RNA polymerases to regulate gene expression. Some TFs contain a DNA binding domain and can bind directly to specific short DNA sequences ('motifs'); others bind to DNA indirectly through interactions with TFs containing a DNA binding domain. High-throughput antibody capture and sequencing methods (e.g. chromatin immunoprecipitation followed by sequencing, or 'ChIP-seq') can be used to identify regions of TF binding genome-wide. These regions are commonly called ChIP-seq peaks. The related Transcription Factor ChIP-seq Clusters tracks (hg19, hg38) provide summary views of this data. Display and File Conventions and Configuration The display for this track shows site location with the point-source of the peak marked with a colored vertical bar and the level of enrichment at the site indicated by the darkness of the item. The subtracks are colored by UCSC ENCODE 2 cell type color conventions on the hg19 assembly, and by similarity of cell types in DNaseI hypersensitivity assays (as in the DNase Signal) track in the hg38 assembly. The display can be filtered to higher valued items, using the Score range: configuration item. The score values were computed at UCSC based on signal values assigned by the ENCODE pipeline. The input signal values were multiplied by a normalization factor calculated as the ratio of the maximum score value (1000) to the signal value at 1 standard deviation from the mean, with values exceeding 1000 capped at 1000. This has the effect of distributing scores up to mean + 1std across the score range, but assigning all above to the maximum score. Methods The ChIP-seq peaks in this track were generated by the the ENCODE Transcription Factor ChIP-seq Processing Pipeline. Methods documentation and full metadata for each track can be found at the ENCODE project portal, using The ENCODE file accession (ENCFF*) listed in the track label. Credits Thanks to the ENCODE Consortium, the ENCODE ChIP-seq production laboratories, and the ENCODE Data Coordination Center for generating and processing the datasets used here. Special thanks to Henry Pratt, Jill Moore, Michael Purcaro, and Zhiping Weng, PI, at the ENCODE Data Analysis Center (ZLab at UMass Medical Center) for providing the peak datasets, metadata, and guidance developing this track. Please check the ZLab ENCODE Public Hubs for the most updated data. References ENCODE Project Consortium. A user's guide to the encyclopedia of DNA elements (ENCODE). PLoS Biol. 2011 Apr;9(4):e1001046. PMID: 21526222; PMCID: PMC3079585 ENCODE Project Consortium. An integrated encyclopedia of DNA elements in the human genome. Nature. 2012 Sep 6;489(7414):57-74. PMID: 22955616; PMCID: PMC3439153 Sloan CA, Chan ET, Davidson JM, Malladi VS, Strattan JS, Hitz BC, Gabdank I, Narayanan AK, Ho M, Lee BT et al. ENCODE data at the ENCODE portal. Nucleic Acids Res. 2016 Jan 4;44(D1):D726-32. PMID: 26527727; PMC: PMC4702836 Gerstein MB, Kundaje A, Hariharan M, Landt SG, Yan KK, Cheng C, Mu XJ, Khurana E, Rozowsky J, Alexander R et al. Architecture of the human regulatory network derived from ENCODE data. Nature. 2012 Sep 6;489(7414):91-100. PMID: 22955619 Wang J, Zhuang J, Iyer S, Lin X, Whitfield TW, Greven MC, Pierce BG, Dong X, Kundaje A, Cheng Y et al. Sequence features and chromatin structure around the genomic regions bound by 119 human transcription factors. Genome Res. 2012 Sep;22(9):1798-812. PMID: 22955990; PMC: PMC3431495 Wang J, Zhuang J, Iyer S, Lin XY, Greven MC, Kim BH, Moore J, Pierce BG, Dong X, Virgil D et al. Factorbook.org: a Wiki-based database for transcription factor-binding data generated by the ENCODE consortium. Nucleic Acids Res. 2013 Jan;41(Database issue):D171-6. PMID: 23203885; PMC: PMC3531197 Data Use Policy Users may freely download, analyze and publish results based on any ENCODE data without restrictions. Researchers using unpublished ENCODE data are encouraged to contact the data producers to discuss possible coordinated publications; however, this is optional. Users of ENCODE datasets are requested to cite the ENCODE Consortium and ENCODE production laboratory(s) that generated the datasets used, as described in Citing ENCODE. 
encTfChipPkENCFF635MUK vagina POLR2A 2 Transcription Factor ChIP-seq Peaks of POLR2A in vagina from ENCODE 3 (ENCFF635MUK) Regulation 
encTfChipPkENCFF865QLX vagina POLR2A 1 Transcription Factor ChIP-seq Peaks of POLR2A in vagina from ENCODE 3 (ENCFF865QLX) Regulation 
encTfChipPkENCFF242HMY vagina EP300 2 Transcription Factor ChIP-seq Peaks of EP300 in vagina from ENCODE 3 (ENCFF242HMY) Regulation 
encTfChipPkENCFF116VEG vagina EP300 1 Transcription Factor ChIP-seq Peaks of EP300 in vagina from ENCODE 3 (ENCFF116VEG) Regulation 
encTfChipPkENCFF508LRF vagina CTCF 2 Transcription Factor ChIP-seq Peaks of CTCF in vagina from ENCODE 3 (ENCFF508LRF) Regulation 
encTfChipPkENCFF579GUD vagina CTCF 1 Transcription Factor ChIP-seq Peaks of CTCF in vagina from ENCODE 3 (ENCFF579GUD) Regulation 
encTfChipPkENCFF198EUQ uterus POLR2A 2 Transcription Factor ChIP-seq Peaks of POLR2A in uterus from ENCODE 3 (ENCFF198EUQ) Regulation 
encTfChipPkENCFF236XBY uterus POLR2A 1 Transcription Factor ChIP-seq Peaks of POLR2A in uterus from ENCODE 3 (ENCFF236XBY) Regulation 
encTfChipPkENCFF179YWB uterus CTCF 2 Transcription Factor ChIP-seq Peaks of CTCF in uterus from ENCODE 3 (ENCFF179YWB) Regulation 
encTfChipPkENCFF866EIC uterus CTCF 1 Transcription Factor ChIP-seq Peaks of CTCF in uterus from ENCODE 3 (ENCFF866EIC) Regulation 
encTfChipPkENCFF834DID lungUpLb POLR2A 4 Transcription Factor ChIP-seq Peaks of POLR2A in upper_lobe_of_left_lung from ENCODE 3 (ENCFF834DID) Regulation 
encTfChipPkENCFF626AFW lungUpLb POLR2A 3 Transcription Factor ChIP-seq Peaks of POLR2A in upper_lobe_of_left_lung from ENCODE 3 (ENCFF626AFW) Regulation 
encTfChipPkENCFF468AEV lungUpLb POLR2A 2 Transcription Factor ChIP-seq Peaks of POLR2A in upper_lobe_of_left_lung from ENCODE 3 (ENCFF468AEV) Regulation 
encTfChipPkENCFF665TLS lungUpLb POLR2A 1 Transcription Factor ChIP-seq Peaks of POLR2A in upper_lobe_of_left_lung from ENCODE 3 (ENCFF665TLS) Regulation 
encTfChipPkENCFF567XKZ lungUpLbe EP300 4 Transcription Factor ChIP-seq Peaks of EP300 in upper_lobe_of_left_lung from ENCODE 3 (ENCFF567XKZ) Regulation 
encTfChipPkENCFF833NHM lungUpLbe EP300 3 Transcription Factor ChIP-seq Peaks of EP300 in upper_lobe_of_left_lung from ENCODE 3 (ENCFF833NHM) Regulation 
encTfChipPkENCFF676WYA lungUpLbe EP300 2 Transcription Factor ChIP-seq Peaks of EP300 in upper_lobe_of_left_lung from ENCODE 3 (ENCFF676WYA) Regulation 
encTfChipPkENCFF348MWL lungUpLbe EP300 1 Transcription Factor ChIP-seq Peaks of EP300 in upper_lobe_of_left_lung from ENCODE 3 (ENCFF348MWL) Regulation 
encTfChipPkENCFF716XFO lungUpLobe CTCF 4 Transcription Factor ChIP-seq Peaks of CTCF in upper_lobe_of_left_lung from ENCODE 3 (ENCFF716XFO) Regulation 
encTfChipPkENCFF254NYT lungUpLobe CTCF 3 Transcription Factor ChIP-seq Peaks of CTCF in upper_lobe_of_left_lung from ENCODE 3 (ENCFF254NYT) Regulation 
encTfChipPkENCFF749CMN lungUpLobe CTCF 2 Transcription Factor ChIP-seq Peaks of CTCF in upper_lobe_of_left_lung from ENCODE 3 (ENCFF749CMN) Regulation 
encTfChipPkENCFF869YGK lungUpLobe CTCF 1 Transcription Factor ChIP-seq Peaks of CTCF in upper_lobe_of_left_lung from ENCODE 3 (ENCFF869YGK) Regulation 
encTfChipPkENCFF028RZP trnsvCln POLR2A 4 Transcription Factor ChIP-seq Peaks of POLR2A in transverse_colon from ENCODE 3 (ENCFF028RZP) Regulation 
encTfChipPkENCFF228NVN trnsvCln POLR2A 3 Transcription Factor ChIP-seq Peaks of POLR2A in transverse_colon from ENCODE 3 (ENCFF228NVN) Regulation 
encTfChipPkENCFF211VGU trnsvCln POLR2A 2 Transcription Factor ChIP-seq Peaks of POLR2A in transverse_colon from ENCODE 3 (ENCFF211VGU) Regulation 
encTfChipPkENCFF185LTG trnsvCln POLR2A 1 Transcription Factor ChIP-seq Peaks of POLR2A in transverse_colon from ENCODE 3 (ENCFF185LTG) Regulation 
encTfChipPkENCFF580NSJ transvCln EP300 3 Transcription Factor ChIP-seq Peaks of EP300 in transverse_colon from ENCODE 3 (ENCFF580NSJ) Regulation 
encTfChipPkENCFF079CRY transvCln EP300 2 Transcription Factor ChIP-seq Peaks of EP300 in transverse_colon from ENCODE 3 (ENCFF079CRY) Regulation 
encTfChipPkENCFF244FQD transvCln EP300 1 Transcription Factor ChIP-seq Peaks of EP300 in transverse_colon from ENCODE 3 (ENCFF244FQD) Regulation 
encTfChipPkENCFF693TBO trnsvColon CTCF 4 Transcription Factor ChIP-seq Peaks of CTCF in transverse_colon from ENCODE 3 (ENCFF693TBO) Regulation 
encTfChipPkENCFF538QPY trnsvColon CTCF 3 Transcription Factor ChIP-seq Peaks of CTCF in transverse_colon from ENCODE 3 (ENCFF538QPY) Regulation 
encTfChipPkENCFF607VAP trnsvColon CTCF 2 Transcription Factor ChIP-seq Peaks of CTCF in transverse_colon from ENCODE 3 (ENCFF607VAP) Regulation 
encTfChipPkENCFF907KEJ trnsvColon CTCF 1 Transcription Factor ChIP-seq Peaks of CTCF in transverse_colon from ENCODE 3 (ENCFF907KEJ) Regulation 
encTfChipPkENCFF663DIG tblNerve POLR2A 2 Transcription Factor ChIP-seq Peaks of POLR2A in tibial_nerve from ENCODE 3 (ENCFF663DIG) Regulation 
encTfChipPkENCFF355SDI tblNerve POLR2A 1 Transcription Factor ChIP-seq Peaks of POLR2A in tibial_nerve from ENCODE 3 (ENCFF355SDI) Regulation 
encTfChipPkENCFF049JNK tbialNerv EP300 2 Transcription Factor ChIP-seq Peaks of EP300 in tibial_nerve from ENCODE 3 (ENCFF049JNK) Regulation 
encTfChipPkENCFF848EEE tbialNerv EP300 1 Transcription Factor ChIP-seq Peaks of EP300 in tibial_nerve from ENCODE 3 (ENCFF848EEE) Regulation 
encTfChipPkENCFF691IPU tibialNerve CTCF Transcription Factor ChIP-seq Peaks of CTCF in tibial_nerve from ENCODE 3 (ENCFF691IPU) Regulation 
encTfChipPkENCFF611MLV tbialNerve CTCF 2 Transcription Factor ChIP-seq Peaks of CTCF in tibial_nerve from ENCODE 3 (ENCFF611MLV) Regulation 
encTfChipPkENCFF237VLQ tbialNerve CTCF 1 Transcription Factor ChIP-seq Peaks of CTCF in tibial_nerve from ENCODE 3 (ENCFF237VLQ) Regulation 
encTfChipPkENCFF960TOX tibialArtery CTCF Transcription Factor ChIP-seq Peaks of CTCF in tibial_artery from ENCODE 3 (ENCFF960TOX) Regulation 
encTfChipPkENCFF445NPR thyroid POLR2A 2 Transcription Factor ChIP-seq Peaks of POLR2A in thyroid_gland from ENCODE 3 (ENCFF445NPR) Regulation 
encTfChipPkENCFF710ZQC thyroid POLR2A 1 Transcription Factor ChIP-seq Peaks of POLR2A in thyroid_gland from ENCODE 3 (ENCFF710ZQC) Regulation 
encTfChipPkENCFF989JUA thyroid CTCF 3 Transcription Factor ChIP-seq Peaks of CTCF in thyroid_gland from ENCODE 3 (ENCFF989JUA) Regulation 
encTfChipPkENCFF026ZWL thyroid CTCF 2 Transcription Factor ChIP-seq Peaks of CTCF in thyroid_gland from ENCODE 3 (ENCFF026ZWL) Regulation 
encTfChipPkENCFF728IYI thyroid CTCF 1 Transcription Factor ChIP-seq Peaks of CTCF in thyroid_gland from ENCODE 3 (ENCFF728IYI) Regulation 
encTfChipPkENCFF535DHF testis POLR2A Transcription Factor ChIP-seq Peaks of POLR2A in testis from ENCODE 3 (ENCFF535DHF) Regulation 
encTfChipPkENCFF046VTZ testis EP300 Transcription Factor ChIP-seq Peaks of EP300 in testis from ENCODE 3 (ENCFF046VTZ) Regulation 
encTfChipPkENCFF644JKD testis CTCF 2 Transcription Factor ChIP-seq Peaks of CTCF in testis from ENCODE 3 (ENCFF644JKD) Regulation 
encTfChipPkENCFF788RFY testis CTCF 1 Transcription Factor ChIP-seq Peaks of CTCF in testis from ENCODE 3 (ENCFF788RFY) Regulation 
encTfChipPkENCFF480OTT sprpSkin POLR2A 2 Transcription Factor ChIP-seq Peaks of POLR2A in suprapubic_skin from ENCODE 3 (ENCFF480OTT) Regulation 
encTfChipPkENCFF401DJJ sprpSkin POLR2A 1 Transcription Factor ChIP-seq Peaks of POLR2A in suprapubic_skin from ENCODE 3 (ENCFF401DJJ) Regulation 
encTfChipPkENCFF266KJH suprpSkin EP300 2 Transcription Factor ChIP-seq Peaks of EP300 in suprapubic_skin from ENCODE 3 (ENCFF266KJH) Regulation 
encTfChipPkENCFF104UOC suprpSkin EP300 1 Transcription Factor ChIP-seq Peaks of EP300 in suprapubic_skin from ENCODE 3 (ENCFF104UOC) Regulation 
encTfChipPkENCFF079BIZ suprpSkin EP300 Transcription Factor ChIP-seq Peaks of EP300 in suprapubic_skin from ENCODE 3 (ENCFF079BIZ) Regulation 
encTfChipPkENCFF783HDF suprpbSkin EP300 4 Transcription Factor ChIP-seq Peaks of EP300 in suprapubic_skin from ENCODE 3 (ENCFF783HDF) Regulation 
encTfChipPkENCFF102XCU suprpbSkin CTCF 2 Transcription Factor ChIP-seq Peaks of CTCF in suprapubic_skin from ENCODE 3 (ENCFF102XCU) Regulation 
encTfChipPkENCFF687WWO suprpbSkin CTCF 1 Transcription Factor ChIP-seq Peaks of CTCF in suprapubic_skin from ENCODE 3 (ENCFF687WWO) Regulation 
encTfChipPkENCFF085MWN subcutAdp EP300 4 Transcription Factor ChIP-seq Peaks of EP300 in subcutaneous_adipose_tissue from ENCODE 3 (ENCFF085MWN) Regulation 
encTfChipPkENCFF434OJH subcutAdp EP300 3 Transcription Factor ChIP-seq Peaks of EP300 in subcutaneous_adipose_tissue from ENCODE 3 (ENCFF434OJH) Regulation 
encTfChipPkENCFF191VCL subcutAdp EP300 2 Transcription Factor ChIP-seq Peaks of EP300 in subcutaneous_adipose_tissue from ENCODE 3 (ENCFF191VCL) Regulation 
encTfChipPkENCFF042DNR subcutAdp EP300 1 Transcription Factor ChIP-seq Peaks of EP300 in subcutaneous_adipose_tissue from ENCODE 3 (ENCFF042DNR) Regulation 
encTfChipPkENCFF688KFE subcutAdip CTCF 2 Transcription Factor ChIP-seq Peaks of CTCF in subcutaneous_adipose_tissue from ENCODE 3 (ENCFF688KFE) Regulation 
encTfChipPkENCFF719VDM subcutAdip CTCF 1 Transcription Factor ChIP-seq Peaks of CTCF in subcutaneous_adipose_tissue from ENCODE 3 (ENCFF719VDM) Regulation 
encTfChipPkENCFF280GHS stomach POLR2A 4 Transcription Factor ChIP-seq Peaks of POLR2A in stomach from ENCODE 3 (ENCFF280GHS) Regulation 
encTfChipPkENCFF905CUU stomach POLR2A 3 Transcription Factor ChIP-seq Peaks of POLR2A in stomach from ENCODE 3 (ENCFF905CUU) Regulation 
encTfChipPkENCFF880FUR stomach POLR2A 2 Transcription Factor ChIP-seq Peaks of POLR2A in stomach from ENCODE 3 (ENCFF880FUR) Regulation 
encTfChipPkENCFF827SHP stomach POLR2A 1 Transcription Factor ChIP-seq Peaks of POLR2A in stomach from ENCODE 3 (ENCFF827SHP) Regulation 
encTfChipPkENCFF469SGL stomach EP300 3 Transcription Factor ChIP-seq Peaks of EP300 in stomach from ENCODE 3 (ENCFF469SGL) Regulation 
encTfChipPkENCFF904COM stomach EP300 2 Transcription Factor ChIP-seq Peaks of EP300 in stomach from ENCODE 3 (ENCFF904COM) Regulation 
encTfChipPkENCFF856BRS stomach EP300 1 Transcription Factor ChIP-seq Peaks of EP300 in stomach from ENCODE 3 (ENCFF856BRS) Regulation 
encTfChipPkENCFF831BFL stomach CTCF 4 Transcription Factor ChIP-seq Peaks of CTCF in stomach from ENCODE 3 (ENCFF831BFL) Regulation 
encTfChipPkENCFF220VAH stomach CTCF 3 Transcription Factor ChIP-seq Peaks of CTCF in stomach from ENCODE 3 (ENCFF220VAH) Regulation 
encTfChipPkENCFF825XAC stomach CTCF 2 Transcription Factor ChIP-seq Peaks of CTCF in stomach from ENCODE 3 (ENCFF825XAC) Regulation 
encTfChipPkENCFF481CNC stomach CTCF 1 Transcription Factor ChIP-seq Peaks of CTCF in stomach from ENCODE 3 (ENCFF481CNC) Regulation 
encTfChipPkENCFF379SGB spleen POLR2A 4 Transcription Factor ChIP-seq Peaks of POLR2A in spleen from ENCODE 3 (ENCFF379SGB) Regulation 
encTfChipPkENCFF323FPP spleen POLR2A 3 Transcription Factor ChIP-seq Peaks of POLR2A in spleen from ENCODE 3 (ENCFF323FPP) Regulation 
encTfChipPkENCFF128AIK spleen POLR2A 2 Transcription Factor ChIP-seq Peaks of POLR2A in spleen from ENCODE 3 (ENCFF128AIK) Regulation 
encTfChipPkENCFF290BOD spleen POLR2A 1 Transcription Factor ChIP-seq Peaks of POLR2A in spleen from ENCODE 3 (ENCFF290BOD) Regulation 
encTfChipPkENCFF068YLN spleen CTCF 5 Transcription Factor ChIP-seq Peaks of CTCF in spleen from ENCODE 3 (ENCFF068YLN) Regulation 
encTfChipPkENCFF340BQM spleen CTCF 4 Transcription Factor ChIP-seq Peaks of CTCF in spleen from ENCODE 3 (ENCFF340BQM) Regulation 
encTfChipPkENCFF248QUD spleen CTCF 3 Transcription Factor ChIP-seq Peaks of CTCF in spleen from ENCODE 3 (ENCFF248QUD) Regulation 
encTfChipPkENCFF234VTM spleen CTCF 2 Transcription Factor ChIP-seq Peaks of CTCF in spleen from ENCODE 3 (ENCFF234VTM) Regulation 
encTfChipPkENCFF540DVR spleen CTCF 1 Transcription Factor ChIP-seq Peaks of CTCF in spleen from ENCODE 3 (ENCFF540DVR) Regulation 
encTfChipPkENCFF141MTA smoothMuscle CTCF Transcription Factor ChIP-seq Peaks of CTCF in smooth_muscle_cell from ENCODE 3 (ENCFF141MTA) Regulation 
encTfChipPkENCFF928ZSB sigmdCln POLR2A 5 Transcription Factor ChIP-seq Peaks of POLR2A in sigmoid_colon from ENCODE 3 (ENCFF928ZSB) Regulation 
encTfChipPkENCFF191BTJ sigmdCln POLR2A 4 Transcription Factor ChIP-seq Peaks of POLR2A in sigmoid_colon from ENCODE 3 (ENCFF191BTJ) Regulation 
encTfChipPkENCFF680JEG sigmdCln POLR2A 3 Transcription Factor ChIP-seq Peaks of POLR2A in sigmoid_colon from ENCODE 3 (ENCFF680JEG) Regulation 
encTfChipPkENCFF182ETN sigmdCln POLR2A 2 Transcription Factor ChIP-seq Peaks of POLR2A in sigmoid_colon from ENCODE 3 (ENCFF182ETN) Regulation 
encTfChipPkENCFF328BTO sigmdCln POLR2A 1 Transcription Factor ChIP-seq Peaks of POLR2A in sigmoid_colon from ENCODE 3 (ENCFF328BTO) Regulation 
encTfChipPkENCFF091KSY sigmdCln EP300 4 Transcription Factor ChIP-seq Peaks of EP300 in sigmoid_colon from ENCODE 3 (ENCFF091KSY) Regulation 
encTfChipPkENCFF169FFA sigmdCln EP300 3 Transcription Factor ChIP-seq Peaks of EP300 in sigmoid_colon from ENCODE 3 (ENCFF169FFA) Regulation 
encTfChipPkENCFF231LOU sigmdCln EP300 2 Transcription Factor ChIP-seq Peaks of EP300 in sigmoid_colon from ENCODE 3 (ENCFF231LOU) Regulation 
encTfChipPkENCFF616YFR sigmdCln EP300 1 Transcription Factor ChIP-seq Peaks of EP300 in sigmoid_colon from ENCODE 3 (ENCFF616YFR) Regulation 
encTfChipPkENCFF615AFS sigmdColon CTCF 4 Transcription Factor ChIP-seq Peaks of CTCF in sigmoid_colon from ENCODE 3 (ENCFF615AFS) Regulation 
encTfChipPkENCFF782FTD sigmdColon CTCF 3 Transcription Factor ChIP-seq Peaks of CTCF in sigmoid_colon from ENCODE 3 (ENCFF782FTD) Regulation 
encTfChipPkENCFF668SIT sigmdColon CTCF 2 Transcription Factor ChIP-seq Peaks of CTCF in sigmoid_colon from ENCODE 3 (ENCFF668SIT) Regulation 
encTfChipPkENCFF070ILT sigmdColon CTCF 1 Transcription Factor ChIP-seq Peaks of CTCF in sigmoid_colon from ENCODE 3 (ENCFF070ILT) Regulation 
encTfChipPkENCFF113NNM liverRLobe CTCF 1 Transcription Factor ChIP-seq Peaks of POLR2A in right_lobe_of_liver from ENCODE 3 (ENCFF113NNM) Regulation 
encTfChipPkENCFF136LAP liverRLobe CTCF 2 Transcription Factor ChIP-seq Peaks of CTCF in right_lobe_of_liver from ENCODE 3 (ENCFF136LAP) Regulation 
encTfChipPkENCFF409DTL retinPgmtEpi CTCF Transcription Factor ChIP-seq Peaks of CTCF in retinal_pigment_epithelial_cell from ENCODE 3 (ENCFF409DTL) Regulation 
encTfChipPkENCFF674MDG prostate POLR2A 2 Transcription Factor ChIP-seq Peaks of POLR2A in prostate_gland from ENCODE 3 (ENCFF674MDG) Regulation 
encTfChipPkENCFF160SYU prostate POLR2A 1 Transcription Factor ChIP-seq Peaks of POLR2A in prostate_gland from ENCODE 3 (ENCFF160SYU) Regulation 
encTfChipPkENCFF341UHT prostate CTCF 2 Transcription Factor ChIP-seq Peaks of CTCF in prostate_gland from ENCODE 3 (ENCFF341UHT) Regulation 
encTfChipPkENCFF142JXX prostate CTCF 1 Transcription Factor ChIP-seq Peaks of CTCF in prostate_gland from ENCODE 3 (ENCFF142JXX) Regulation 
encTfChipPkENCFF016APK ovary POLR2A Transcription Factor ChIP-seq Peaks of POLR2A in ovary from ENCODE 3 (ENCFF016APK) Regulation 
encTfChipPkENCFF353CLB ovary EP300 2 Transcription Factor ChIP-seq Peaks of EP300 in ovary from ENCODE 3 (ENCFF353CLB) Regulation 
encTfChipPkENCFF970XBE ovary EP300 1 Transcription Factor ChIP-seq Peaks of EP300 in ovary from ENCODE 3 (ENCFF970XBE) Regulation 
encTfChipPkENCFF886WWT ovary CTCF 2 Transcription Factor ChIP-seq Peaks of CTCF in ovary from ENCODE 3 (ENCFF886WWT) Regulation 
encTfChipPkENCFF006YGI ovary CTCF 1 Transcription Factor ChIP-seq Peaks of CTCF in ovary from ENCODE 3 (ENCFF006YGI) Regulation 
encTfChipPkENCFF454DZP omntalFat EP300 4 Transcription Factor ChIP-seq Peaks of EP300 in omental_fat_pad from ENCODE 3 (ENCFF454DZP) Regulation 
encTfChipPkENCFF102IIP omntalFat EP300 3 Transcription Factor ChIP-seq Peaks of EP300 in omental_fat_pad from ENCODE 3 (ENCFF102IIP) Regulation 
encTfChipPkENCFF895RTD omntalFat EP300 2 Transcription Factor ChIP-seq Peaks of EP300 in omental_fat_pad from ENCODE 3 (ENCFF895RTD) Regulation 
encTfChipPkENCFF199FCD omntalFat EP300 1 Transcription Factor ChIP-seq Peaks of EP300 in omental_fat_pad from ENCODE 3 (ENCFF199FCD) Regulation 
encTfChipPkENCFF157OEN omentalFat CTCF 3 Transcription Factor ChIP-seq Peaks of CTCF in omental_fat_pad from ENCODE 3 (ENCFF157OEN) Regulation 
encTfChipPkENCFF399NTP omentalFat CTCF 2 Transcription Factor ChIP-seq Peaks of CTCF in omental_fat_pad from ENCODE 3 (ENCFF399NTP) Regulation 
encTfChipPkENCFF668UDC omentalFat CTCF 1 Transcription Factor ChIP-seq Peaks of CTCF in omental_fat_pad from ENCODE 3 (ENCFF668UDC) Regulation 
encTfChipPkENCFF122IMV neutrophil CTCF Transcription Factor ChIP-seq Peaks of CTCF in neutrophil from ENCODE 3 (ENCFF122IMV) Regulation 
encTfChipPkENCFF295HQJ neurlProgntr EZH2 Transcription Factor ChIP-seq Peaks of EZH2 in neural_progenitor_cell from ENCODE 3 (ENCFF295HQJ) Regulation 
encTfChipPkENCFF560GGY neurlProgntr CTCF Transcription Factor ChIP-seq Peaks of CTCF in neural_progenitor_cell from ENCODE 3 (ENCFF560GGY) Regulation 
encTfChipPkENCFF944KJO neuralCell SMC3 Transcription Factor ChIP-seq Peaks of SMC3 in neural_cell from ENCODE 3 (ENCFF944KJO) Regulation 
encTfChipPkENCFF454TRL neuralCell RAD21 Transcription Factor ChIP-seq Peaks of RAD21 in neural_cell from ENCODE 3 (ENCFF454TRL) Regulation 
encTfChipPkENCFF255WJM neuralCell MXI1 Transcription Factor ChIP-seq Peaks of MXI1 in neural_cell from ENCODE 3 (ENCFF255WJM) Regulation 
encTfChipPkENCFF108BSU neuralCell EZH2 Transcription Factor ChIP-seq Peaks of EZH2 in neural_cell from ENCODE 3 (ENCFF108BSU) Regulation 
encTfChipPkENCFF459ARL neuralCell EP300 Transcription Factor ChIP-seq Peaks of EP300 in neural_cell from ENCODE 3 (ENCFF459ARL) Regulation 
encTfChipPkENCFF372JOV neuralCell CTCF Transcription Factor ChIP-seq Peaks of CTCF in neural_cell from ENCODE 3 (ENCFF372JOV) Regulation 
encTfChipPkENCFF719TNH myotube CTCF Transcription Factor ChIP-seq Peaks of CTCF in myotube from ENCODE 3 (ENCFF719TNH) Regulation 
encTfChipPkENCFF845NAG medlblastoma CTCF Transcription Factor ChIP-seq Peaks of CTCF in medulloblastoma from ENCODE 3 (ENCFF845NAG) Regulation 
encTfChipPkENCFF493HJH mammaryEpith CTCF Transcription Factor ChIP-seq Peaks of CTCF in mammary_epithelial_cell from ENCODE 3 (ENCFF493HJH) Regulation 
encTfChipPkENCFF072MPX lwrLgSkn POLR2A 2 Transcription Factor ChIP-seq Peaks of POLR2A in lower_leg_skin from ENCODE 3 (ENCFF072MPX) Regulation 
encTfChipPkENCFF818GNJ lwrLgSkn POLR2A 1 Transcription Factor ChIP-seq Peaks of POLR2A in lower_leg_skin from ENCODE 3 (ENCFF818GNJ) Regulation 
encTfChipPkENCFF916FGF lwrLegSkin CTCF 4 Transcription Factor ChIP-seq Peaks of CTCF in lower_leg_skin from ENCODE 3 (ENCFF916FGF) Regulation 
encTfChipPkENCFF992DNN lwrLegSkin CTCF 3 Transcription Factor ChIP-seq Peaks of CTCF in lower_leg_skin from ENCODE 3 (ENCFF992DNN) Regulation 
encTfChipPkENCFF846VQK lwrLegSkin CTCF 2 Transcription Factor ChIP-seq Peaks of CTCF in lower_leg_skin from ENCODE 3 (ENCFF846VQK) Regulation 
encTfChipPkENCFF912XIE lwrLegSkin CTCF 1 Transcription Factor ChIP-seq Peaks of CTCF in lower_leg_skin from ENCODE 3 (ENCFF912XIE) Regulation 
encTfChipPkENCFF727ZIT liver ZBTB33 2 Transcription Factor ChIP-seq Peaks of ZBTB33 in liver from ENCODE 3 (ENCFF727ZIT) Regulation 
encTfChipPkENCFF882UHR liver ZBTB33 1 Transcription Factor ChIP-seq Peaks of ZBTB33 in liver from ENCODE 3 (ENCFF882UHR) Regulation 
encTfChipPkENCFF459TWF liver YY1 2 Transcription Factor ChIP-seq Peaks of YY1 in liver from ENCODE 3 (ENCFF459TWF) Regulation 
encTfChipPkENCFF838VFX liver YY1 1 Transcription Factor ChIP-seq Peaks of YY1 in liver from ENCODE 3 (ENCFF838VFX) Regulation 
encTfChipPkENCFF214OJW liver TAF1 Transcription Factor ChIP-seq Peaks of TAF1 in liver from ENCODE 3 (ENCFF214OJW) Regulation 
encTfChipPkENCFF978TMH liver SP1 2 Transcription Factor ChIP-seq Peaks of SP1 in liver from ENCODE 3 (ENCFF978TMH) Regulation 
encTfChipPkENCFF433EFF liver SP1 1 Transcription Factor ChIP-seq Peaks of SP1 in liver from ENCODE 3 (ENCFF433EFF) Regulation 
encTfChipPkENCFF572MCI liver RXRA 2 Transcription Factor ChIP-seq Peaks of RXRA in liver from ENCODE 3 (ENCFF572MCI) Regulation 
encTfChipPkENCFF201KGJ liver RXRA 1 Transcription Factor ChIP-seq Peaks of RXRA in liver from ENCODE 3 (ENCFF201KGJ) Regulation 
encTfChipPkENCFF288XHG liver REST 2 Transcription Factor ChIP-seq Peaks of REST in liver from ENCODE 3 (ENCFF288XHG) Regulation 
encTfChipPkENCFF178WRO liver REST 1 Transcription Factor ChIP-seq Peaks of REST in liver from ENCODE 3 (ENCFF178WRO) Regulation 
encTfChipPkENCFF315BSV liver RAD21 3 Transcription Factor ChIP-seq Peaks of RAD21 in liver from ENCODE 3 (ENCFF315BSV) Regulation 
encTfChipPkENCFF295GOD liver RAD21 2 Transcription Factor ChIP-seq Peaks of RAD21 in liver from ENCODE 3 (ENCFF295GOD) Regulation 
encTfChipPkENCFF229WFR liver RAD21 1 Transcription Factor ChIP-seq Peaks of RAD21 in liver from ENCODE 3 (ENCFF229WFR) Regulation 
encTfChipPkENCFF819WNB liver NR2F2 2 Transcription Factor ChIP-seq Peaks of NR2F2 in liver from ENCODE 3 (ENCFF819WNB) Regulation 
encTfChipPkENCFF379TVQ liver NR2F2 1 Transcription Factor ChIP-seq Peaks of NR2F2 in liver from ENCODE 3 (ENCFF379TVQ) Regulation 
encTfChipPkENCFF669BQN liver MAX 2 Transcription Factor ChIP-seq Peaks of MAX in liver from ENCODE 3 (ENCFF669BQN) Regulation 
encTfChipPkENCFF493ZMX liver MAX 1 Transcription Factor ChIP-seq Peaks of MAX in liver from ENCODE 3 (ENCFF493ZMX) Regulation 
encTfChipPkENCFF229COM liver JUND 2 Transcription Factor ChIP-seq Peaks of JUND in liver from ENCODE 3 (ENCFF229COM) Regulation 
encTfChipPkENCFF420PED liver JUND 1 Transcription Factor ChIP-seq Peaks of JUND in liver from ENCODE 3 (ENCFF420PED) Regulation 
encTfChipPkENCFF497MUF liver HNF4G Transcription Factor ChIP-seq Peaks of HNF4G in liver from ENCODE 3 (ENCFF497MUF) Regulation 
encTfChipPkENCFF905JAC liver HNF4A 2 Transcription Factor ChIP-seq Peaks of HNF4A in liver from ENCODE 3 (ENCFF905JAC) Regulation 
encTfChipPkENCFF837QHJ liver HNF4A 1 Transcription Factor ChIP-seq Peaks of HNF4A in liver from ENCODE 3 (ENCFF837QHJ) Regulation 
encTfChipPkENCFF280YAF liver GABPA 2 Transcription Factor ChIP-seq Peaks of GABPA in liver from ENCODE 3 (ENCFF280YAF) Regulation 
encTfChipPkENCFF344XWK liver GABPA 1 Transcription Factor ChIP-seq Peaks of GABPA in liver from ENCODE 3 (ENCFF344XWK) Regulation 
encTfChipPkENCFF293LRQ liver FOXA2 2 Transcription Factor ChIP-seq Peaks of FOXA2 in liver from ENCODE 3 (ENCFF293LRQ) Regulation 
encTfChipPkENCFF168JLI liver FOXA2 1 Transcription Factor ChIP-seq Peaks of FOXA2 in liver from ENCODE 3 (ENCFF168JLI) Regulation 
encTfChipPkENCFF324QGE liver FOXA1 2 Transcription Factor ChIP-seq Peaks of FOXA1 in liver from ENCODE 3 (ENCFF324QGE) Regulation 
encTfChipPkENCFF951VPZ liver FOXA1 1 Transcription Factor ChIP-seq Peaks of FOXA1 in liver from ENCODE 3 (ENCFF951VPZ) Regulation 
encTfChipPkENCFF617JQS liver EGR1 2 Transcription Factor ChIP-seq Peaks of EGR1 in liver from ENCODE 3 (ENCFF617JQS) Regulation 
encTfChipPkENCFF808WST liver EGR1 1 Transcription Factor ChIP-seq Peaks of EGR1 in liver from ENCODE 3 (ENCFF808WST) Regulation 
encTfChipPkENCFF143HEE liver CTCF Transcription Factor ChIP-seq Peaks of CTCF in liver from ENCODE 3 (ENCFF143HEE) Regulation 
encTfChipPkENCFF146URA liver ATF3 2 Transcription Factor ChIP-seq Peaks of ATF3 in liver from ENCODE 3 (ENCFF146URA) Regulation 
encTfChipPkENCFF782SGI liver ATF3 1 Transcription Factor ChIP-seq Peaks of ATF3 in liver from ENCODE 3 (ENCFF782SGI) Regulation 
encTfChipPkENCFF674KUN kidneyEpith CTCF Transcription Factor ChIP-seq Peaks of CTCF in kidney_epithelial_cell from ENCODE 3 (ENCFF674KUN) Regulation 
encTfChipPkENCFF028IIR keratinocyte CTCF Transcription Factor ChIP-seq Peaks of CTCF in keratinocyte from ENCODE 3 (ENCFF028IIR) Regulation 
encTfChipPkENCFF324UNA hepatocyte EZH2 Transcription Factor ChIP-seq Peaks of EZH2 in hepatocyte from ENCODE 3 (ENCFF324UNA) Regulation 
encTfChipPkENCFF846FYU hepatocyte CTCF Transcription Factor ChIP-seq Peaks of CTCF in hepatocyte from ENCODE 3 (ENCFF846FYU) Regulation 
encTfChipPkENCFF226GKH hrtLfVnt POLR2A 2 Transcription Factor ChIP-seq Peaks of POLR2A in heart_left_ventricle from ENCODE 3 (ENCFF226GKH) Regulation 
encTfChipPkENCFF156SPI hrtLfVnt POLR2A 1 Transcription Factor ChIP-seq Peaks of POLR2A in heart_left_ventricle from ENCODE 3 (ENCFF156SPI) Regulation 
encTfChipPkENCFF552XDP heartLftVent CTCF Transcription Factor ChIP-seq Peaks of CTCF in heart_left_ventricle from ENCODE 3 (ENCFF552XDP) Regulation 
encTfChipPkENCFF530FGP gEsphSph POLR2A 3 Transcription Factor ChIP-seq Peaks of POLR2A in gastroesophageal_sphincter from ENCODE 3 (ENCFF530FGP) Regulation 
encTfChipPkENCFF128UUT gEsphSph POLR2A 2 Transcription Factor ChIP-seq Peaks of POLR2A in gastroesophageal_sphincter from ENCODE 3 (ENCFF128UUT) Regulation 
encTfChipPkENCFF835VAP gEsphSph POLR2A 1 Transcription Factor ChIP-seq Peaks of POLR2A in gastroesophageal_sphincter from ENCODE 3 (ENCFF835VAP) Regulation 
encTfChipPkENCFF291RDN gsEsphSph EP300 3 Transcription Factor ChIP-seq Peaks of EP300 in gastroesophageal_sphincter from ENCODE 3 (ENCFF291RDN) Regulation 
encTfChipPkENCFF481USU gsEsphSph EP300 2 Transcription Factor ChIP-seq Peaks of EP300 in gastroesophageal_sphincter from ENCODE 3 (ENCFF481USU) Regulation 
encTfChipPkENCFF992XPI gsEsphSph EP300 1 Transcription Factor ChIP-seq Peaks of EP300 in gastroesophageal_sphincter from ENCODE 3 (ENCFF992XPI) Regulation 
encTfChipPkENCFF951SRP gstEsphSph CTCF 2 Transcription Factor ChIP-seq Peaks of CTCF in gastroesophageal_sphincter from ENCODE 3 (ENCFF951SRP) Regulation 
encTfChipPkENCFF973KKY gstEsphSph CTCF 1 Transcription Factor ChIP-seq Peaks of CTCF in gastroesophageal_sphincter from ENCODE 3 (ENCFF973KKY) Regulation 
encTfChipPkENCFF227YCI gstrcMed POLR2A 2 Transcription Factor ChIP-seq Peaks of POLR2A in gastrocnemius_medialis from ENCODE 3 (ENCFF227YCI) Regulation 
encTfChipPkENCFF089XKW gstrcMed POLR2A 1 Transcription Factor ChIP-seq Peaks of POLR2A in gastrocnemius_medialis from ENCODE 3 (ENCFF089XKW) Regulation 
encTfChipPkENCFF100SKI gastrocMed CTCF 3 Transcription Factor ChIP-seq Peaks of CTCF in gastrocnemius_medialis from ENCODE 3 (ENCFF100SKI) Regulation 
encTfChipPkENCFF016OGE gastrocMed CTCF 2 Transcription Factor ChIP-seq Peaks of CTCF in gastrocnemius_medialis from ENCODE 3 (ENCFF016OGE) Regulation 
encTfChipPkENCFF281XHU gastrocMed CTCF 1 Transcription Factor ChIP-seq Peaks of CTCF in gastrocnemius_medialis from ENCODE 3 (ENCFF281XHU) Regulation 
encTfChipPkENCFF060WTK frskinKrtn CTCF 3 Transcription Factor ChIP-seq Peaks of CTCF in foreskin_keratinocyte from ENCODE 3 (ENCFF060WTK) Regulation 
encTfChipPkENCFF236RJT frskinKrtn CTCF 2 Transcription Factor ChIP-seq Peaks of CTCF in foreskin_keratinocyte from ENCODE 3 (ENCFF236RJT) Regulation 
encTfChipPkENCFF349RNE frskinKrtn CTCF 1 Transcription Factor ChIP-seq Peaks of CTCF in foreskin_keratinocyte from ENCODE 3 (ENCFF349RNE) Regulation 
encTfChipPkENCFF273NIW frsknFibro CTCF 2 Transcription Factor ChIP-seq Peaks of CTCF in foreskin_fibroblast from ENCODE 3 (ENCFF273NIW) Regulation 
encTfChipPkENCFF178FRI frsknFibro CTCF 1 Transcription Factor ChIP-seq Peaks of CTCF in foreskin_fibroblast from ENCODE 3 (ENCFF178FRI) Regulation 
encTfChipPkENCFF032BJW vlMesenFibro CTCF Transcription Factor ChIP-seq Peaks of CTCF in fibroblast_of_villous_mesenchyme from ENCODE 3 (ENCFF032BJW) Regulation 
encTfChipPkENCFF322FBH aortaAdFibro CTCF Transcription Factor ChIP-seq Peaks of CTCF in fibroblast_of_the_aortic_adventitia from ENCODE 3 (ENCFF322FBH) Regulation 
encTfChipPkENCFF093QTY plArtryFibro CTCF Transcription Factor ChIP-seq Peaks of CTCF in fibroblast_of_pulmonary_artery from ENCODE 3 (ENCFF093QTY) Regulation 
encTfChipPkENCFF196CRQ mamryGlFibro CTCF Transcription Factor ChIP-seq Peaks of CTCF in fibroblast_of_mammary_gland from ENCODE 3 (ENCFF196CRQ) Regulation 
encTfChipPkENCFF218LOB lungFibro CTCF 2 Transcription Factor ChIP-seq Peaks of CTCF in fibroblast_of_lung from ENCODE 3 (ENCFF218LOB) Regulation 
encTfChipPkENCFF777ODE lungFibro CTCF 1 Transcription Factor ChIP-seq Peaks of CTCF in fibroblast_of_lung from ENCODE 3 (ENCFF777ODE) Regulation 
encTfChipPkENCFF930NQQ esphSqEp POLR2A 4 Transcription Factor ChIP-seq Peaks of POLR2A in esophagus_squamous_epithelium from ENCODE 3 (ENCFF930NQQ) Regulation 
encTfChipPkENCFF691ARB esphSqEp POLR2A 3 Transcription Factor ChIP-seq Peaks of POLR2A in esophagus_squamous_epithelium from ENCODE 3 (ENCFF691ARB) Regulation 
encTfChipPkENCFF542QLV esphSqEp POLR2A 2 Transcription Factor ChIP-seq Peaks of POLR2A in esophagus_squamous_epithelium from ENCODE 3 (ENCFF542QLV) Regulation 
encTfChipPkENCFF157FXA esphSqEp POLR2A 1 Transcription Factor ChIP-seq Peaks of POLR2A in esophagus_squamous_epithelium from ENCODE 3 (ENCFF157FXA) Regulation 
encTfChipPkENCFF505VMB esphSquEpi CTCF 4 Transcription Factor ChIP-seq Peaks of CTCF in esophagus_squamous_epithelium from ENCODE 3 (ENCFF505VMB) Regulation 
encTfChipPkENCFF661IIS esphSquEpi CTCF 3 Transcription Factor ChIP-seq Peaks of CTCF in esophagus_squamous_epithelium from ENCODE 3 (ENCFF661IIS) Regulation 
encTfChipPkENCFF350AMQ esphSquEpi CTCF 2 Transcription Factor ChIP-seq Peaks of CTCF in esophagus_squamous_epithelium from ENCODE 3 (ENCFF350AMQ) Regulation 
encTfChipPkENCFF898JJD esphSquEpi CTCF 1 Transcription Factor ChIP-seq Peaks of CTCF in esophagus_squamous_epithelium from ENCODE 3 (ENCFF898JJD) Regulation 
encTfChipPkENCFF906CSG esophMscMc POLR2A Transcription Factor ChIP-seq Peaks of POLR2A in esophagus_muscularis_mucosa from ENCODE 3 (ENCFF906CSG) Regulation 
encTfChipPkENCFF087RBS esphMscMc EP300 4 Transcription Factor ChIP-seq Peaks of EP300 in esophagus_muscularis_mucosa from ENCODE 3 (ENCFF087RBS) Regulation 
encTfChipPkENCFF287SLI esphMscMc EP300 3 Transcription Factor ChIP-seq Peaks of EP300 in esophagus_muscularis_mucosa from ENCODE 3 (ENCFF287SLI) Regulation 
encTfChipPkENCFF261OWX esphMscMc EP300 2 Transcription Factor ChIP-seq Peaks of EP300 in esophagus_muscularis_mucosa from ENCODE 3 (ENCFF261OWX) Regulation 
encTfChipPkENCFF081YBG esphMscMc EP300 1 Transcription Factor ChIP-seq Peaks of EP300 in esophagus_muscularis_mucosa from ENCODE 3 (ENCFF081YBG) Regulation 
encTfChipPkENCFF725FJK esphMscMuc CTCF 3 Transcription Factor ChIP-seq Peaks of CTCF in esophagus_muscularis_mucosa from ENCODE 3 (ENCFF725FJK) Regulation 
encTfChipPkENCFF373DVN esphMscMuc CTCF 2 Transcription Factor ChIP-seq Peaks of CTCF in esophagus_muscularis_mucosa from ENCODE 3 (ENCFF373DVN) Regulation 
encTfChipPkENCFF897UFD esphMscMuc CTCF 1 Transcription Factor ChIP-seq Peaks of CTCF in esophagus_muscularis_mucosa from ENCODE 3 (ENCFF897UFD) Regulation 
encTfChipPkENCFF180BYN erythblst GATA1 2 Transcription Factor ChIP-seq Peaks of GATA1 in erythroblast from ENCODE 3 (ENCFF180BYN) Regulation 
encTfChipPkENCFF789ZAT erythblst GATA1 1 Transcription Factor ChIP-seq Peaks of GATA1 in erythroblast from ENCODE 3 (ENCFF789ZAT) Regulation 
encTfChipPkENCFF712LFQ prostateEpi CTCF Transcription Factor ChIP-seq Peaks of CTCF in epithelial_cell_of_prostate from ENCODE 3 (ENCFF712LFQ) Regulation 
encTfChipPkENCFF796AAX esophagEpi CTCF Transcription Factor ChIP-seq Peaks of CTCF in epithelial_cell_of_esophagus from ENCODE 3 (ENCFF796AAX) Regulation 
encTfChipPkENCFF387VGY umbilVein POLR2A Transcription Factor ChIP-seq Peaks of POLR2A in endothelial_cell_of_umbilical_vein from ENCODE 3 (ENCFF387VGY) Regulation 
encTfChipPkENCFF987YIJ umbilVein GATA2 Transcription Factor ChIP-seq Peaks of GATA2 in endothelial_cell_of_umbilical_vein from ENCODE 3 (ENCFF987YIJ) Regulation 
encTfChipPkENCFF327GZX umbilVeinEndo FOS Transcription Factor ChIP-seq Peaks of FOS in endothelial_cell_of_umbilical_vein from ENCODE 3 (ENCFF327GZX) Regulation 
encTfChipPkENCFF522JCV umbilVenEndo CTCF Transcription Factor ChIP-seq Peaks of CTCF in endothelial_cell_of_umbilical_vein from ENCODE 3 (ENCFF522JCV) Regulation 
encTfChipPkENCFF136ZAK chorPlexEpi CTCF Transcription Factor ChIP-seq Peaks of CTCF in choroid_plexus_epithelial_cell from ENCODE 3 (ENCFF136ZAK) Regulation 
encTfChipPkENCFF863ZIN heartMuscl CTCF 2 Transcription Factor ChIP-seq Peaks of CTCF in cardiac_muscle_cell from ENCODE 3 (ENCFF863ZIN) Regulation 
encTfChipPkENCFF301YXM heartMuscl CTCF 1 Transcription Factor ChIP-seq Peaks of CTCF in cardiac_muscle_cell from ENCODE 3 (ENCFF301YXM) Regulation 
encTfChipPkENCFF243AGG heartFibro CTCF Transcription Factor ChIP-seq Peaks of CTCF in cardiac_fibroblast from ENCODE 3 (ENCFF243AGG) Regulation 
encTfChipPkENCFF607YLT brestEpi POLR2A 2 Transcription Factor ChIP-seq Peaks of POLR2A in breast_epithelium from ENCODE 3 (ENCFF607YLT) Regulation 
encTfChipPkENCFF294TAI brestEpi POLR2A 1 Transcription Factor ChIP-seq Peaks of POLR2A in breast_epithelium from ENCODE 3 (ENCFF294TAI) Regulation 
encTfChipPkENCFF906VTL breastEpi EP300 4 Transcription Factor ChIP-seq Peaks of EP300 in breast_epithelium from ENCODE 3 (ENCFF906VTL) Regulation 
encTfChipPkENCFF614VFU breastEpi EP300 3 Transcription Factor ChIP-seq Peaks of EP300 in breast_epithelium from ENCODE 3 (ENCFF614VFU) Regulation 
encTfChipPkENCFF757KZD breastEpi EP300 2 Transcription Factor ChIP-seq Peaks of EP300 in breast_epithelium from ENCODE 3 (ENCFF757KZD) Regulation 
encTfChipPkENCFF978RPI breastEpi EP300 1 Transcription Factor ChIP-seq Peaks of EP300 in breast_epithelium from ENCODE 3 (ENCFF978RPI) Regulation 
encTfChipPkENCFF113XGW breastEpi CTCF 3 Transcription Factor ChIP-seq Peaks of CTCF in breast_epithelium from ENCODE 3 (ENCFF113XGW) Regulation 
encTfChipPkENCFF167SCX breastEpi CTCF 2 Transcription Factor ChIP-seq Peaks of CTCF in breast_epithelium from ENCODE 3 (ENCFF167SCX) Regulation 
encTfChipPkENCFF338TGS breastEpi CTCF 1 Transcription Factor ChIP-seq Peaks of CTCF in breast_epithelium from ENCODE 3 (ENCFF338TGS) Regulation 
encTfChipPkENCFF427RYJ brainMicEndo CTCF Transcription Factor ChIP-seq Peaks of CTCF in brain_microvascular_endothelial_cell from ENCODE 3 (ENCFF427RYJ) Regulation 
encTfChipPkENCFF371GSC pancreas POLR2A 4 Transcription Factor ChIP-seq Peaks of POLR2A in body_of_pancreas from ENCODE 3 (ENCFF371GSC) Regulation 
encTfChipPkENCFF296AFJ pancreas POLR2A 3 Transcription Factor ChIP-seq Peaks of POLR2A in body_of_pancreas from ENCODE 3 (ENCFF296AFJ) Regulation 
encTfChipPkENCFF306CZZ pancreas POLR2A 2 Transcription Factor ChIP-seq Peaks of POLR2A in body_of_pancreas from ENCODE 3 (ENCFF306CZZ) Regulation 
encTfChipPkENCFF389ULP pancreas POLR2A 1 Transcription Factor ChIP-seq Peaks of POLR2A in body_of_pancreas from ENCODE 3 (ENCFF389ULP) Regulation 
encTfChipPkENCFF900GKE pancreas CTCF 4 Transcription Factor ChIP-seq Peaks of CTCF in body_of_pancreas from ENCODE 3 (ENCFF900GKE) Regulation 
encTfChipPkENCFF153EBU pancreas CTCF 3 Transcription Factor ChIP-seq Peaks of CTCF in body_of_pancreas from ENCODE 3 (ENCFF153EBU) Regulation 
encTfChipPkENCFF610UCL pancreas CTCF 2 Transcription Factor ChIP-seq Peaks of CTCF in body_of_pancreas from ENCODE 3 (ENCFF610UCL) Regulation 
encTfChipPkENCFF872XQU pancreas CTCF 1 Transcription Factor ChIP-seq Peaks of CTCF in body_of_pancreas from ENCODE 3 (ENCFF872XQU) Regulation 
encTfChipPkENCFF984VPB biplNeuron ZEB1 Transcription Factor ChIP-seq Peaks of ZEB1 in bipolar_neuron from ENCODE 3 (ENCFF984VPB) Regulation 
encTfChipPkENCFF482JUI bipNeuron SMARCA4 Transcription Factor ChIP-seq Peaks of SMARCA4 in bipolar_neuron from ENCODE 3 (ENCFF482JUI) Regulation 
encTfChipPkENCFF203ZIS biplNeuron CTCF 2 Transcription Factor ChIP-seq Peaks of CTCF in bipolar_neuron from ENCODE 3 (ENCFF203ZIS) Regulation 
encTfChipPkENCFF904CNB biplNeuron CTCF 1 Transcription Factor ChIP-seq Peaks of CTCF in bipolar_neuron from ENCODE 3 (ENCFF904CNB) Regulation 
encTfChipPkENCFF600CYD spinlAstrcyt CTCF Transcription Factor ChIP-seq Peaks of CTCF in astrocyte_of_the_spinal_cord from ENCODE 3 (ENCFF600CYD) Regulation 
encTfChipPkENCFF515KNI cerebAstrcyt CTCF Transcription Factor ChIP-seq Peaks of CTCF in astrocyte_of_the_cerebellum from ENCODE 3 (ENCFF515KNI) Regulation 
encTfChipPkENCFF148BSH astrocyte CTCF Transcription Factor ChIP-seq Peaks of CTCF in astrocyte from ENCODE 3 (ENCFF148BSH) Regulation 
encTfChipPkENCFF374MIO ascendAorta CTCF Transcription Factor ChIP-seq Peaks of CTCF in ascending_aorta from ENCODE 3 (ENCFF374MIO) Regulation 
encTfChipPkENCFF967EOL adrnlGld POLR2A 2 Transcription Factor ChIP-seq Peaks of POLR2A in adrenal_gland from ENCODE 3 (ENCFF967EOL) Regulation 
encTfChipPkENCFF363GNR adrnlGld POLR2A 1 Transcription Factor ChIP-seq Peaks of POLR2A in adrenal_gland from ENCODE 3 (ENCFF363GNR) Regulation 
encTfChipPkENCFF412TMX adrenlGlnd CTCF 4 Transcription Factor ChIP-seq Peaks of CTCF in adrenal_gland from ENCODE 3 (ENCFF412TMX) Regulation 
encTfChipPkENCFF574FIL adrenlGlnd CTCF 3 Transcription Factor ChIP-seq Peaks of CTCF in adrenal_gland from ENCODE 3 (ENCFF574FIL) Regulation 
encTfChipPkENCFF174CEI adrenlGlnd CTCF 2 Transcription Factor ChIP-seq Peaks of CTCF in adrenal_gland from ENCODE 3 (ENCFF174CEI) Regulation 
encTfChipPkENCFF114FNT adrenlGlnd CTCF 1 Transcription Factor ChIP-seq Peaks of CTCF in adrenal_gland from ENCODE 3 (ENCFF114FNT) Regulation 
encTfChipPkENCFF447UZC 22Rv1 ZFX Transcription Factor ChIP-seq Peaks of ZFX in 22Rv1 from ENCODE 3 (ENCFF447UZC) Regulation 
encTfChipPkENCFF147YCW 22Rv1 CTCF 2 Transcription Factor ChIP-seq Peaks of CTCF in 22Rv1 from ENCODE 3 (ENCFF147YCW) Regulation 
encTfChipPkENCFF730MQM 22Rv1 CTCF 1 Transcription Factor ChIP-seq Peaks of CTCF in 22Rv1 from ENCODE 3 (ENCFF730MQM) Regulation 
encTfChipPkENCFF695MEK WI38 CTCF Transcription Factor ChIP-seq Peaks of CTCF in WI38 from ENCODE 3 (ENCFF695MEK) Regulation 
encTfChipPkENCFF262ZOT WERI-Rb-1 CTCF Transcription Factor ChIP-seq Peaks of CTCF in WERI-Rb-1 from ENCODE 3 (ENCFF262ZOT) Regulation 
encTfChipPkENCFF078XBU VCaP CTCF Transcription Factor ChIP-seq Peaks of CTCF in VCaP from ENCODE 3 (ENCFF078XBU) Regulation 
encTfChipPkENCFF946YUA T47D JUND Transcription Factor ChIP-seq Peaks of JUND in T47D from ENCODE 3 (ENCFF946YUA) Regulation 
encTfChipPkENCFF574HSR T47D GATA3 Transcription Factor ChIP-seq Peaks of GATA3 in T47D from ENCODE 3 (ENCFF574HSR) Regulation 
encTfChipPkENCFF420MLJ T47D FOXA1 Transcription Factor ChIP-seq Peaks of FOXA1 in T47D from ENCODE 3 (ENCFF420MLJ) Regulation 
encTfChipPkENCFF396TFS T47D ESR1 3 Transcription Factor ChIP-seq Peaks of ESR1 in T47D from ENCODE 3 (ENCFF396TFS) Regulation 
encTfChipPkENCFF637WCT T47D ESR1 2 Transcription Factor ChIP-seq Peaks of ESR1 in T47D from ENCODE 3 (ENCFF637WCT) Regulation 
encTfChipPkENCFF433NIE T47D ESR1 1 Transcription Factor ChIP-seq Peaks of ESR1 in T47D from ENCODE 3 (ENCFF433NIE) Regulation 
encTfChipPkENCFF938CRS SU-DHL-6 CTCF Transcription Factor ChIP-seq Peaks of CTCF in SU-DHL-6 from ENCODE 3 (ENCFF938CRS) Regulation 
encTfChipPkENCFF363UWP SK-N-SH YY1 Transcription Factor ChIP-seq Peaks of YY1 in SK-N-SH from ENCODE 3 (ENCFF363UWP) Regulation 
encTfChipPkENCFF261PAC SK-N-SH USF2 Transcription Factor ChIP-seq Peaks of USF2 in SK-N-SH from ENCODE 3 (ENCFF261PAC) Regulation 
encTfChipPkENCFF452RZW SK-N-SH USF1 Transcription Factor ChIP-seq Peaks of USF1 in SK-N-SH from ENCODE 3 (ENCFF452RZW) Regulation 
encTfChipPkENCFF423CTO SK-N-SH TAF1 Transcription Factor ChIP-seq Peaks of TAF1 in SK-N-SH from ENCODE 3 (ENCFF423CTO) Regulation 
encTfChipPkENCFF663RUS SK-N-SH SIN3A Transcription Factor ChIP-seq Peaks of SIN3A in SK-N-SH from ENCODE 3 (ENCFF663RUS) Regulation 
encTfChipPkENCFF502JJJ SK-N-SH RFX5 Transcription Factor ChIP-seq Peaks of RFX5 in SK-N-SH from ENCODE 3 (ENCFF502JJJ) Regulation 
encTfChipPkENCFF796YFZ SK-N-SH REST 2 Transcription Factor ChIP-seq Peaks of REST in SK-N-SH from ENCODE 3 (ENCFF796YFZ) Regulation 
encTfChipPkENCFF540FXB SK-N-SH REST 1 Transcription Factor ChIP-seq Peaks of REST in SK-N-SH from ENCODE 3 (ENCFF540FXB) Regulation 
encTfChipPkENCFF073ADA SK-N-SH RCOR1 Transcription Factor ChIP-seq Peaks of RCOR1 in SK-N-SH from ENCODE 3 (ENCFF073ADA) Regulation 
encTfChipPkENCFF557OCR SK-N-SH RAD21 Transcription Factor ChIP-seq Peaks of RAD21 in SK-N-SH from ENCODE 3 (ENCFF557OCR) Regulation 
encTfChipPkENCFF116RCK SK-N-SH MXI1 Transcription Factor ChIP-seq Peaks of MXI1 in SK-N-SH from ENCODE 3 (ENCFF116RCK) Regulation 
encTfChipPkENCFF187QQB SK-N-SH JUND 2 Transcription Factor ChIP-seq Peaks of JUND in SK-N-SH from ENCODE 3 (ENCFF187QQB) Regulation 
encTfChipPkENCFF246HKM SK-N-SH JUND 1 Transcription Factor ChIP-seq Peaks of JUND in SK-N-SH from ENCODE 3 (ENCFF246HKM) Regulation 
encTfChipPkENCFF917TPE SK-N-SH IRF3 Transcription Factor ChIP-seq Peaks of IRF3 in SK-N-SH from ENCODE 3 (ENCFF917TPE) Regulation 
encTfChipPkENCFF540DWT SK-N-SH CTCF 3 Transcription Factor ChIP-seq Peaks of CTCF in SK-N-SH from ENCODE 3 (ENCFF540DWT) Regulation 
encTfChipPkENCFF685KTA SK-N-SH CTCF 2 Transcription Factor ChIP-seq Peaks of CTCF in SK-N-SH from ENCODE 3 (ENCFF685KTA) Regulation 
encTfChipPkENCFF049UCF SK-N-SH CTCF 1 Transcription Factor ChIP-seq Peaks of CTCF in SK-N-SH from ENCODE 3 (ENCFF049UCF) Regulation 
encTfChipPkENCFF035WFT SK-N-MC EZH2 Transcription Factor ChIP-seq Peaks of EZH2 in SK-N-MC from ENCODE 3 (ENCFF035WFT) Regulation 
encTfChipPkENCFF626MUS SH-SY5Y GATA3 Transcription Factor ChIP-seq Peaks of GATA3 in SH-SY5Y from ENCODE 3 (ENCFF626MUS) Regulation 
encTfChipPkENCFF064YWN SH-SY5Y GATA2 Transcription Factor ChIP-seq Peaks of GATA2 in SH-SY5Y from ENCODE 3 (ENCFF064YWN) Regulation 
encTfChipPkENCFF798HCA Raji POLR2A Transcription Factor ChIP-seq Peaks of POLR2A in Raji from ENCODE 3 (ENCFF798HCA) Regulation 
encTfChipPkENCFF855KNL RWPE2 CTCF Transcription Factor ChIP-seq Peaks of CTCF in RWPE2 from ENCODE 3 (ENCFF855KNL) Regulation 
encTfChipPkENCFF273HTX RWPE1 CTCF Transcription Factor ChIP-seq Peaks of CTCF in RWPE1 from ENCODE 3 (ENCFF273HTX) Regulation 
encTfChipPkENCFF563GSK PeyrPtch POLR2A 2 Transcription Factor ChIP-seq Peaks of POLR2A in Peyer's_patch from ENCODE 3 (ENCFF563GSK) Regulation 
encTfChipPkENCFF797OLU PeyrPtch POLR2A 1 Transcription Factor ChIP-seq Peaks of POLR2A in Peyer's_patch from ENCODE 3 (ENCFF797OLU) Regulation 
encTfChipPkENCFF486UBE PeyerPatch CTCF 4 Transcription Factor ChIP-seq Peaks of CTCF in Peyer's_patch from ENCODE 3 (ENCFF486UBE) Regulation 
encTfChipPkENCFF072UWP PeyerPatch CTCF 3 Transcription Factor ChIP-seq Peaks of CTCF in Peyer's_patch from ENCODE 3 (ENCFF072UWP) Regulation 
encTfChipPkENCFF579XTC PeyerPatch CTCF 2 Transcription Factor ChIP-seq Peaks of CTCF in Peyer's_patch from ENCODE 3 (ENCFF579XTC) Regulation 
encTfChipPkENCFF805FIF PeyerPatch CTCF 1 Transcription Factor ChIP-seq Peaks of CTCF in Peyer's_patch from ENCODE 3 (ENCFF805FIF) Regulation 
encTfChipPkENCFF177UJN parathyAdn CTCF 2 Transcription Factor ChIP-seq Peaks of CTCF in Parathyroid_adenoma from ENCODE 3 (ENCFF177UJN) Regulation 
encTfChipPkENCFF509NRY parathyAdn CTCF 1 Transcription Factor ChIP-seq Peaks of CTCF in Parathyroid_adenoma from ENCODE 3 (ENCFF509NRY) Regulation 
encTfChipPkENCFF171XUS Panc1 TCF7L2 Transcription Factor ChIP-seq Peaks of TCF7L2 in Panc1 from ENCODE 3 (ENCFF171XUS) Regulation 
encTfChipPkENCFF713ZPE Panc1 REST Transcription Factor ChIP-seq Peaks of REST in Panc1 from ENCODE 3 (ENCFF713ZPE) Regulation 
encTfChipPkENCFF753HNR Panc1 CTCF Transcription Factor ChIP-seq Peaks of CTCF in Panc1 from ENCODE 3 (ENCFF753HNR) Regulation 
encTfChipPkENCFF213CYP PFSK-1 TAF1 Transcription Factor ChIP-seq Peaks of TAF1 in PFSK-1 from ENCODE 3 (ENCFF213CYP) Regulation 
encTfChipPkENCFF896RCP PFSK-1 REST Transcription Factor ChIP-seq Peaks of REST in PFSK-1 from ENCODE 3 (ENCFF896RCP) Regulation 
encTfChipPkENCFF476NAK PC-9 EZH2 Transcription Factor ChIP-seq Peaks of EZH2 in PC-9 from ENCODE 3 (ENCFF476NAK) Regulation 
encTfChipPkENCFF616KNI PC-9 CTCF Transcription Factor ChIP-seq Peaks of CTCF in PC-9 from ENCODE 3 (ENCFF616KNI) Regulation 
encTfChipPkENCFF702LEL PC-3 EZH2 Transcription Factor ChIP-seq Peaks of EZH2 in PC-3 from ENCODE 3 (ENCFF702LEL) Regulation 
encTfChipPkENCFF232FXZ PC-3 CTCF Transcription Factor ChIP-seq Peaks of CTCF in PC-3 from ENCODE 3 (ENCFF232FXZ) Regulation 
encTfChipPkENCFF186NOM OCI-LY7 CTCF Transcription Factor ChIP-seq Peaks of CTCF in OCI-LY7 from ENCODE 3 (ENCFF186NOM) Regulation 
encTfChipPkENCFF588MSD OCI-LY3 CTCF Transcription Factor ChIP-seq Peaks of CTCF in OCI-LY3 from ENCODE 3 (ENCFF588MSD) Regulation 
encTfChipPkENCFF520VKN OCI-LY1 EZH2 Transcription Factor ChIP-seq Peaks of EZH2 in OCI-LY1 from ENCODE 3 (ENCFF520VKN) Regulation 
encTfChipPkENCFF713PIC OCI-LY1 CTCF Transcription Factor ChIP-seq Peaks of CTCF in OCI-LY1 from ENCODE 3 (ENCFF713PIC) Regulation 
encTfChipPkENCFF597KMH NT2/D1 ZNF274 Transcription Factor ChIP-seq Peaks of ZNF274 in NT2/D1 from ENCODE 3 (ENCFF597KMH) Regulation 
encTfChipPkENCFF226OCL NT2/D1 YY1 Transcription Factor ChIP-seq Peaks of YY1 in NT2/D1 from ENCODE 3 (ENCFF226OCL) Regulation 
encTfChipPkENCFF259KAD NCI-H929 CTCF Transcription Factor ChIP-seq Peaks of CTCF in NCI-H929 from ENCODE 3 (ENCFF259KAD) Regulation 
encTfChipPkENCFF456PDQ NB4 CTCF Transcription Factor ChIP-seq Peaks of CTCF in NB4 from ENCODE 3 (ENCFF456PDQ) Regulation 
encTfChipPkENCFF253WCQ MM.1S EZH2 Transcription Factor ChIP-seq Peaks of EZH2 in MM.1S from ENCODE 3 (ENCFF253WCQ) Regulation 
encTfChipPkENCFF825ZYC MM.1S CTCF Transcription Factor ChIP-seq Peaks of CTCF in MM.1S from ENCODE 3 (ENCFF825ZYC) Regulation 
encTfChipPkENCFF014OJI MCF_10A STAT3 3 Transcription Factor ChIP-seq Peaks of STAT3 in MCF_10A from ENCODE 3 (ENCFF014OJI) Regulation 
encTfChipPkENCFF199CQN MCF_10A STAT3 2 Transcription Factor ChIP-seq Peaks of STAT3 in MCF_10A from ENCODE 3 (ENCFF199CQN) Regulation 
encTfChipPkENCFF854RVF MCF_10A STAT3 1 Transcription Factor ChIP-seq Peaks of STAT3 in MCF_10A from ENCODE 3 (ENCFF854RVF) Regulation 
encTfChipPkENCFF875HHT MCF_10A POLR2A 2 Transcription Factor ChIP-seq Peaks of POLR2A in MCF_10A from ENCODE 3 (ENCFF875HHT) Regulation 
encTfChipPkENCFF326DTU MCF_10A POLR2A 1 Transcription Factor ChIP-seq Peaks of POLR2A in MCF_10A from ENCODE 3 (ENCFF326DTU) Regulation 
encTfChipPkENCFF443CEL MCF_10A MYC Transcription Factor ChIP-seq Peaks of MYC in MCF_10A from ENCODE 3 (ENCFF443CEL) Regulation 
encTfChipPkENCFF558PJH MCF_10A FOS 4 Transcription Factor ChIP-seq Peaks of FOS in MCF_10A from ENCODE 3 (ENCFF558PJH) Regulation 
encTfChipPkENCFF222ZHH MCF_10A FOS 3 Transcription Factor ChIP-seq Peaks of FOS in MCF_10A from ENCODE 3 (ENCFF222ZHH) Regulation 
encTfChipPkENCFF353OBA MCF_10A FOS 2 Transcription Factor ChIP-seq Peaks of FOS in MCF_10A from ENCODE 3 (ENCFF353OBA) Regulation 
encTfChipPkENCFF436WHK MCF_10A FOS 1 Transcription Factor ChIP-seq Peaks of FOS in MCF_10A from ENCODE 3 (ENCFF436WHK) Regulation 
encTfChipPkENCFF525RRP MCF-7 ZNF8 Transcription Factor ChIP-seq Peaks of ZNF8 in MCF-7 from ENCODE 3 (ENCFF525RRP) Regulation 
encTfChipPkENCFF329QYZ MCF-7 ZNF687 Transcription Factor ChIP-seq Peaks of ZNF687 in MCF-7 from ENCODE 3 (ENCFF329QYZ) Regulation 
encTfChipPkENCFF541HRT MCF-7 ZNF592 2 Transcription Factor ChIP-seq Peaks of ZNF592 in MCF-7 from ENCODE 3 (ENCFF541HRT) Regulation 
encTfChipPkENCFF720PZA MCF-7 ZNF592 1 Transcription Factor ChIP-seq Peaks of ZNF592 in MCF-7 from ENCODE 3 (ENCFF720PZA) Regulation 
encTfChipPkENCFF306PBX MCF-7 ZNF579 Transcription Factor ChIP-seq Peaks of ZNF579 in MCF-7 from ENCODE 3 (ENCFF306PBX) Regulation 
encTfChipPkENCFF290LSS MCF-7 ZNF574 Transcription Factor ChIP-seq Peaks of ZNF574 in MCF-7 from ENCODE 3 (ENCFF290LSS) Regulation 
encTfChipPkENCFF414EYO MCF-7 ZNF512B 2 Transcription Factor ChIP-seq Peaks of ZNF512B in MCF-7 from ENCODE 3 (ENCFF414EYO) Regulation 
encTfChipPkENCFF209TEF MCF-7 ZNF512B 1 Transcription Factor ChIP-seq Peaks of ZNF512B in MCF-7 from ENCODE 3 (ENCFF209TEF) Regulation 
encTfChipPkENCFF675SAG MCF-7 ZNF507 Transcription Factor ChIP-seq Peaks of ZNF507 in MCF-7 from ENCODE 3 (ENCFF675SAG) Regulation 
encTfChipPkENCFF786XJV MCF-7 ZNF444 Transcription Factor ChIP-seq Peaks of ZNF444 in MCF-7 from ENCODE 3 (ENCFF786XJV) Regulation 
encTfChipPkENCFF619BFO MCF-7 ZNF24 Transcription Factor ChIP-seq Peaks of ZNF24 in MCF-7 from ENCODE 3 (ENCFF619BFO) Regulation 
encTfChipPkENCFF246ZMG MCF-7 ZNF217 2 Transcription Factor ChIP-seq Peaks of ZNF217 in MCF-7 from ENCODE 3 (ENCFF246ZMG) Regulation 
encTfChipPkENCFF620RPM MCF-7 ZNF217 1 Transcription Factor ChIP-seq Peaks of ZNF217 in MCF-7 from ENCODE 3 (ENCFF620RPM) Regulation 
encTfChipPkENCFF621ZSK MCF-7 ZNF207 Transcription Factor ChIP-seq Peaks of ZNF207 in MCF-7 from ENCODE 3 (ENCFF621ZSK) Regulation 
encTfChipPkENCFF687REM MCF-7 ZKSCAN1 Transcription Factor ChIP-seq Peaks of ZKSCAN1 in MCF-7 from ENCODE 3 (ENCFF687REM) Regulation 
encTfChipPkENCFF694ZRC MCF-7 ZHX2 Transcription Factor ChIP-seq Peaks of ZHX2 in MCF-7 from ENCODE 3 (ENCFF694ZRC) Regulation 
encTfChipPkENCFF775BWJ MCF-7 ZFX Transcription Factor ChIP-seq Peaks of ZFX in MCF-7 from ENCODE 3 (ENCFF775BWJ) Regulation 
encTfChipPkENCFF794UEM MCF-7 ZBTB7B Transcription Factor ChIP-seq Peaks of ZBTB7B in MCF-7 from ENCODE 3 (ENCFF794UEM) Regulation 
encTfChipPkENCFF932XEU MCF-7 ZBTB40 Transcription Factor ChIP-seq Peaks of ZBTB40 in MCF-7 from ENCODE 3 (ENCFF932XEU) Regulation 
encTfChipPkENCFF780WLS MCF-7 ZBTB33 Transcription Factor ChIP-seq Peaks of ZBTB33 in MCF-7 from ENCODE 3 (ENCFF780WLS) Regulation 
encTfChipPkENCFF496RVC MCF-7 ZBTB11 Transcription Factor ChIP-seq Peaks of ZBTB11 in MCF-7 from ENCODE 3 (ENCFF496RVC) Regulation 
encTfChipPkENCFF589MVU MCF-7 ZBTB1 Transcription Factor ChIP-seq Peaks of ZBTB1 in MCF-7 from ENCODE 3 (ENCFF589MVU) Regulation 
encTfChipPkENCFF452VLA MCF-7 TRIM22 Transcription Factor ChIP-seq Peaks of TRIM22 in MCF-7 from ENCODE 3 (ENCFF452VLA) Regulation 
encTfChipPkENCFF762MGC MCF-7 TAF1 Transcription Factor ChIP-seq Peaks of TAF1 in MCF-7 from ENCODE 3 (ENCFF762MGC) Regulation 
encTfChipPkENCFF258ZVN MCF-7 SUZ12 Transcription Factor ChIP-seq Peaks of SUZ12 in MCF-7 from ENCODE 3 (ENCFF258ZVN) Regulation 
encTfChipPkENCFF275WAD MCF-7 SREBF1 Transcription Factor ChIP-seq Peaks of SREBF1 in MCF-7 from ENCODE 3 (ENCFF275WAD) Regulation 
encTfChipPkENCFF577EMC MCF-7 SP1 Transcription Factor ChIP-seq Peaks of SP1 in MCF-7 from ENCODE 3 (ENCFF577EMC) Regulation 
encTfChipPkENCFF761NKP MCF-7 SMARCE1 Transcription Factor ChIP-seq Peaks of SMARCE1 in MCF-7 from ENCODE 3 (ENCFF761NKP) Regulation 
encTfChipPkENCFF618JNX MCF-7 SMARCA5 Transcription Factor ChIP-seq Peaks of SMARCA5 in MCF-7 from ENCODE 3 (ENCFF618JNX) Regulation 
encTfChipPkENCFF441UHA MCF-7 SIX4 Transcription Factor ChIP-seq Peaks of SIX4 in MCF-7 from ENCODE 3 (ENCFF441UHA) Regulation 
encTfChipPkENCFF220RUS MCF-7 SIN3A Transcription Factor ChIP-seq Peaks of SIN3A in MCF-7 from ENCODE 3 (ENCFF220RUS) Regulation 
encTfChipPkENCFF103MPW MCF-7 RFX5 Transcription Factor ChIP-seq Peaks of RFX5 in MCF-7 from ENCODE 3 (ENCFF103MPW) Regulation 
encTfChipPkENCFF150PTQ MCF-7 RFX1 2 Transcription Factor ChIP-seq Peaks of RFX1 in MCF-7 from ENCODE 3 (ENCFF150PTQ) Regulation 
encTfChipPkENCFF928YTD MCF-7 RFX1 1 Transcription Factor ChIP-seq Peaks of RFX1 in MCF-7 from ENCODE 3 (ENCFF928YTD) Regulation 
encTfChipPkENCFF838LXI MCF-7 RCOR1 Transcription Factor ChIP-seq Peaks of RCOR1 in MCF-7 from ENCODE 3 (ENCFF838LXI) Regulation 
encTfChipPkENCFF091AYX MCF-7 RAD51 Transcription Factor ChIP-seq Peaks of RAD51 in MCF-7 from ENCODE 3 (ENCFF091AYX) Regulation 
encTfChipPkENCFF964EVA MCF-7 POLR2A Transcription Factor ChIP-seq Peaks of POLR2A in MCF-7 from ENCODE 3 (ENCFF964EVA) Regulation 
encTfChipPkENCFF105PFS MCF-7 PKNOX1 Transcription Factor ChIP-seq Peaks of PKNOX1 in MCF-7 from ENCODE 3 (ENCFF105PFS) Regulation 
encTfChipPkENCFF473UHQ MCF-7 PAX8 Transcription Factor ChIP-seq Peaks of PAX8 in MCF-7 from ENCODE 3 (ENCFF473UHQ) Regulation 
encTfChipPkENCFF269RME MCF-7 NRF1 Transcription Factor ChIP-seq Peaks of NRF1 in MCF-7 from ENCODE 3 (ENCFF269RME) Regulation 
encTfChipPkENCFF927DIO MCF-7 NFXL1 Transcription Factor ChIP-seq Peaks of NFXL1 in MCF-7 from ENCODE 3 (ENCFF927DIO) Regulation 
encTfChipPkENCFF895MJB MCF-7 NFRKB Transcription Factor ChIP-seq Peaks of NFRKB in MCF-7 from ENCODE 3 (ENCFF895MJB) Regulation 
encTfChipPkENCFF385WUL MCF-7 NFIB 2 Transcription Factor ChIP-seq Peaks of NFIB in MCF-7 from ENCODE 3 (ENCFF385WUL) Regulation 
encTfChipPkENCFF519XTN MCF-7 NFIB 1 Transcription Factor ChIP-seq Peaks of NFIB in MCF-7 from ENCODE 3 (ENCFF519XTN) Regulation 
encTfChipPkENCFF059LJD MCF-7 NEUROD1 Transcription Factor ChIP-seq Peaks of NEUROD1 in MCF-7 from ENCODE 3 (ENCFF059LJD) Regulation 
encTfChipPkENCFF510UNI MCF-7 NCOA3 2 Transcription Factor ChIP-seq Peaks of NCOA3 in MCF-7 from ENCODE 3 (ENCFF510UNI) Regulation 
encTfChipPkENCFF320TAN MCF-7 NCOA3 1 Transcription Factor ChIP-seq Peaks of NCOA3 in MCF-7 from ENCODE 3 (ENCFF320TAN) Regulation 
encTfChipPkENCFF209WRW MCF-7 NBN Transcription Factor ChIP-seq Peaks of NBN in MCF-7 from ENCODE 3 (ENCFF209WRW) Regulation 
encTfChipPkENCFF370EQJ MCF-7 MYC 3 Transcription Factor ChIP-seq Peaks of MYC in MCF-7 from ENCODE 3 (ENCFF370EQJ) Regulation 
encTfChipPkENCFF658XME MCF-7 MYC 2 Transcription Factor ChIP-seq Peaks of MYC in MCF-7 from ENCODE 3 (ENCFF658XME) Regulation 
encTfChipPkENCFF300OKR MCF-7 MYC 1 Transcription Factor ChIP-seq Peaks of MYC in MCF-7 from ENCODE 3 (ENCFF300OKR) Regulation 
encTfChipPkENCFF083AZM MCF-7 MTA3 Transcription Factor ChIP-seq Peaks of MTA3 in MCF-7 from ENCODE 3 (ENCFF083AZM) Regulation 
encTfChipPkENCFF180XXZ MCF-7 MTA2 Transcription Factor ChIP-seq Peaks of MTA2 in MCF-7 from ENCODE 3 (ENCFF180XXZ) Regulation 
encTfChipPkENCFF225VFR MCF-7 MTA1 Transcription Factor ChIP-seq Peaks of MTA1 in MCF-7 from ENCODE 3 (ENCFF225VFR) Regulation 
encTfChipPkENCFF432GSK MCF-7 MNT 2 Transcription Factor ChIP-seq Peaks of MNT in MCF-7 from ENCODE 3 (ENCFF432GSK) Regulation 
encTfChipPkENCFF403BWK MCF-7 MNT 1 Transcription Factor ChIP-seq Peaks of MNT in MCF-7 from ENCODE 3 (ENCFF403BWK) Regulation 
encTfChipPkENCFF578NMN MCF-7 MLLT1 Transcription Factor ChIP-seq Peaks of MLLT1 in MCF-7 from ENCODE 3 (ENCFF578NMN) Regulation 
encTfChipPkENCFF464QAL MCF-7 MBD2 Transcription Factor ChIP-seq Peaks of MBD2 in MCF-7 from ENCODE 3 (ENCFF464QAL) Regulation 
encTfChipPkENCFF873SVI MCF-7 MAFK Transcription Factor ChIP-seq Peaks of MAFK in MCF-7 from ENCODE 3 (ENCFF873SVI) Regulation 
encTfChipPkENCFF569ZCY MCF-7 JUND Transcription Factor ChIP-seq Peaks of JUND in MCF-7 from ENCODE 3 (ENCFF569ZCY) Regulation 
encTfChipPkENCFF907UNK MCF-7 JUN Transcription Factor ChIP-seq Peaks of JUN in MCF-7 from ENCODE 3 (ENCFF907UNK) Regulation 
encTfChipPkENCFF708ACK MCF-7 HSF1 Transcription Factor ChIP-seq Peaks of HSF1 in MCF-7 from ENCODE 3 (ENCFF708ACK) Regulation 
encTfChipPkENCFF144OPN MCF-7 HES1 Transcription Factor ChIP-seq Peaks of HES1 in MCF-7 from ENCODE 3 (ENCFF144OPN) Regulation 
encTfChipPkENCFF401IAI MCF-7 HCFC1 Transcription Factor ChIP-seq Peaks of HCFC1 in MCF-7 from ENCODE 3 (ENCFF401IAI) Regulation 
encTfChipPkENCFF046BRP MCF-7 GATAD2B 2 Transcription Factor ChIP-seq Peaks of GATAD2B in MCF-7 from ENCODE 3 (ENCFF046BRP) Regulation 
encTfChipPkENCFF191SBE MCF-7 GATAD2B 1 Transcription Factor ChIP-seq Peaks of GATAD2B in MCF-7 from ENCODE 3 (ENCFF191SBE) Regulation 
encTfChipPkENCFF625IUE MCF-7 GATA3 Transcription Factor ChIP-seq Peaks of GATA3 in MCF-7 from ENCODE 3 (ENCFF625IUE) Regulation 
encTfChipPkENCFF899MQW MCF-7 FOXK2 Transcription Factor ChIP-seq Peaks of FOXK2 in MCF-7 from ENCODE 3 (ENCFF899MQW) Regulation 
encTfChipPkENCFF160RLI MCF-7 FOXA1 Transcription Factor ChIP-seq Peaks of FOXA1 in MCF-7 from ENCODE 3 (ENCFF160RLI) Regulation 
encTfChipPkENCFF170POB MCF-7 FOS Transcription Factor ChIP-seq Peaks of FOS in MCF-7 from ENCODE 3 (ENCFF170POB) Regulation 
encTfChipPkENCFF541DRZ MCF-7 ESRRA 2 Transcription Factor ChIP-seq Peaks of ESRRA in MCF-7 from ENCODE 3 (ENCFF541DRZ) Regulation 
encTfChipPkENCFF519TRJ MCF-7 ESRRA 1 Transcription Factor ChIP-seq Peaks of ESRRA in MCF-7 from ENCODE 3 (ENCFF519TRJ) Regulation 
encTfChipPkENCFF408TWV MCF-7 ELK1 Transcription Factor ChIP-seq Peaks of ELK1 in MCF-7 from ENCODE 3 (ENCFF408TWV) Regulation 
encTfChipPkENCFF020UCD MCF-7 ELF1 Transcription Factor ChIP-seq Peaks of ELF1 in MCF-7 from ENCODE 3 (ENCFF020UCD) Regulation 
encTfChipPkENCFF347USC MCF-7 E4F1 Transcription Factor ChIP-seq Peaks of E4F1 in MCF-7 from ENCODE 3 (ENCFF347USC) Regulation 
encTfChipPkENCFF072VGV MCF-7 E2F8 Transcription Factor ChIP-seq Peaks of E2F8 in MCF-7 from ENCODE 3 (ENCFF072VGV) Regulation 
encTfChipPkENCFF042AWM MCF-7 DPF2 Transcription Factor ChIP-seq Peaks of DPF2 in MCF-7 from ENCODE 3 (ENCFF042AWM) Regulation 
encTfChipPkENCFF762CDY MCF-7 CUX1 Transcription Factor ChIP-seq Peaks of CUX1 in MCF-7 from ENCODE 3 (ENCFF762CDY) Regulation 
encTfChipPkENCFF785NTC MCF-7 CTCF 6 Transcription Factor ChIP-seq Peaks of CTCF in MCF-7 from ENCODE 3 (ENCFF785NTC) Regulation 
encTfChipPkENCFF628EUU MCF-7 CTCF 5 Transcription Factor ChIP-seq Peaks of CTCF in MCF-7 from ENCODE 3 (ENCFF628EUU) Regulation 
encTfChipPkENCFF685HMV MCF-7 CTCF 4 Transcription Factor ChIP-seq Peaks of CTCF in MCF-7 from ENCODE 3 (ENCFF685HMV) Regulation 
encTfChipPkENCFF942TCG MCF-7 CTCF 3 Transcription Factor ChIP-seq Peaks of CTCF in MCF-7 from ENCODE 3 (ENCFF942TCG) Regulation 
encTfChipPkENCFF867BUQ MCF-7 CTCF 2 Transcription Factor ChIP-seq Peaks of CTCF in MCF-7 from ENCODE 3 (ENCFF867BUQ) Regulation 
encTfChipPkENCFF476DVJ MCF-7 CTCF 1 Transcription Factor ChIP-seq Peaks of CTCF in MCF-7 from ENCODE 3 (ENCFF476DVJ) Regulation 
encTfChipPkENCFF456MGR MCF-7 CTBP1 Transcription Factor ChIP-seq Peaks of CTBP1 in MCF-7 from ENCODE 3 (ENCFF456MGR) Regulation 
encTfChipPkENCFF883LRJ MCF-7 CREB1 2 Transcription Factor ChIP-seq Peaks of CREB1 in MCF-7 from ENCODE 3 (ENCFF883LRJ) Regulation 
encTfChipPkENCFF495PCJ MCF-7 CREB1 1 Transcription Factor ChIP-seq Peaks of CREB1 in MCF-7 from ENCODE 3 (ENCFF495PCJ) Regulation 
encTfChipPkENCFF682WFF MCF-7 COPS2 Transcription Factor ChIP-seq Peaks of COPS2 in MCF-7 from ENCODE 3 (ENCFF682WFF) Regulation 
encTfChipPkENCFF305CRL MCF-7 CLOCK 2 Transcription Factor ChIP-seq Peaks of CLOCK in MCF-7 from ENCODE 3 (ENCFF305CRL) Regulation 
encTfChipPkENCFF025SMR MCF-7 CLOCK 1 Transcription Factor ChIP-seq Peaks of CLOCK in MCF-7 from ENCODE 3 (ENCFF025SMR) Regulation 
encTfChipPkENCFF730UAD MCF-7 CHD1 Transcription Factor ChIP-seq Peaks of CHD1 in MCF-7 from ENCODE 3 (ENCFF730UAD) Regulation 
encTfChipPkENCFF414LXZ MCF-7 BMI1 Transcription Factor ChIP-seq Peaks of BMI1 in MCF-7 from ENCODE 3 (ENCFF414LXZ) Regulation 
encTfChipPkENCFF760ZVI MCF-7 ATF7 Transcription Factor ChIP-seq Peaks of ATF7 in MCF-7 from ENCODE 3 (ENCFF760ZVI) Regulation 
encTfChipPkENCFF618NVV MCF-7 ARID3A Transcription Factor ChIP-seq Peaks of ARID3A in MCF-7 from ENCODE 3 (ENCFF618NVV) Regulation 
encTfChipPkENCFF707BQD Loucy CTCF Transcription Factor ChIP-seq Peaks of CTCF in Loucy from ENCODE 3 (ENCFF707BQD) Regulation 
encTfChipPkENCFF670NSE LNCaP_FGC CTCF Transcription Factor ChIP-seq Peaks of CTCF in LNCaP_clone_FGC from ENCODE 3 (ENCFF670NSE) Regulation 
encTfChipPkENCFF501SHB LNCAP CTCF 2 Transcription Factor ChIP-seq Peaks of CTCF in LNCAP from ENCODE 3 (ENCFF501SHB) Regulation 
encTfChipPkENCFF850DQJ LNCAP CTCF 1 Transcription Factor ChIP-seq Peaks of CTCF in LNCAP from ENCODE 3 (ENCFF850DQJ) Regulation 
encTfChipPkENCFF649QKE KMS-11 CTCF Transcription Factor ChIP-seq Peaks of CTCF in KMS-11 from ENCODE 3 (ENCFF649QKE) Regulation 
encTfChipPkENCFF945HJR K562 ZZZ3 Transcription Factor ChIP-seq Peaks of ZZZ3 in K562 from ENCODE 3 (ENCFF945HJR) Regulation 
encTfChipPkENCFF979GFF K562 ZSCAN29 2 Transcription Factor ChIP-seq Peaks of ZSCAN29 in K562 from ENCODE 3 (ENCFF979GFF) Regulation 
encTfChipPkENCFF908ZLN K562 ZSCAN29 1 Transcription Factor ChIP-seq Peaks of ZSCAN29 in K562 from ENCODE 3 (ENCFF908ZLN) Regulation 
encTfChipPkENCFF979NKM K562 ZNF830 2 Transcription Factor ChIP-seq Peaks of ZNF830 in K562 from ENCODE 3 (ENCFF979NKM) Regulation 
encTfChipPkENCFF951OSW K562 ZNF830 1 Transcription Factor ChIP-seq Peaks of ZNF830 in K562 from ENCODE 3 (ENCFF951OSW) Regulation 
encTfChipPkENCFF008JJE K562 ZNF639 2 Transcription Factor ChIP-seq Peaks of ZNF639 in K562 from ENCODE 3 (ENCFF008JJE) Regulation 
encTfChipPkENCFF404EVY K562 ZNF639 1 Transcription Factor ChIP-seq Peaks of ZNF639 in K562 from ENCODE 3 (ENCFF404EVY) Regulation 
encTfChipPkENCFF972UGK K562 ZNF592 Transcription Factor ChIP-seq Peaks of ZNF592 in K562 from ENCODE 3 (ENCFF972UGK) Regulation 
encTfChipPkENCFF538GSS K562 ZNF407 2 Transcription Factor ChIP-seq Peaks of ZNF407 in K562 from ENCODE 3 (ENCFF538GSS) Regulation 
encTfChipPkENCFF644XES K562 ZNF407 1 Transcription Factor ChIP-seq Peaks of ZNF407 in K562 from ENCODE 3 (ENCFF644XES) Regulation 
encTfChipPkENCFF106YXG K562 ZNF384 Transcription Factor ChIP-seq Peaks of ZNF384 in K562 from ENCODE 3 (ENCFF106YXG) Regulation 
encTfChipPkENCFF082RIZ K562 ZNF318 2 Transcription Factor ChIP-seq Peaks of ZNF318 in K562 from ENCODE 3 (ENCFF082RIZ) Regulation 
encTfChipPkENCFF577LQR K562 ZNF318 1 Transcription Factor ChIP-seq Peaks of ZNF318 in K562 from ENCODE 3 (ENCFF577LQR) Regulation 
encTfChipPkENCFF056SEM K562 ZNF316 2 Transcription Factor ChIP-seq Peaks of ZNF316 in K562 from ENCODE 3 (ENCFF056SEM) Regulation 
encTfChipPkENCFF806GUF K562 ZNF316 1 Transcription Factor ChIP-seq Peaks of ZNF316 in K562 from ENCODE 3 (ENCFF806GUF) Regulation 
encTfChipPkENCFF596JDS K562 ZNF282 Transcription Factor ChIP-seq Peaks of ZNF282 in K562 from ENCODE 3 (ENCFF596JDS) Regulation 
encTfChipPkENCFF074WRG K562 ZNF280A Transcription Factor ChIP-seq Peaks of ZNF280A in K562 from ENCODE 3 (ENCFF074WRG) Regulation 
encTfChipPkENCFF498VQZ K562 ZNF274 2 Transcription Factor ChIP-seq Peaks of ZNF274 in K562 from ENCODE 3 (ENCFF498VQZ) Regulation 
encTfChipPkENCFF323AWS K562 ZNF274 1 Transcription Factor ChIP-seq Peaks of ZNF274 in K562 from ENCODE 3 (ENCFF323AWS) Regulation 
encTfChipPkENCFF260CBQ K562 ZNF24 3 Transcription Factor ChIP-seq Peaks of ZNF24 in K562 from ENCODE 3 (ENCFF260CBQ) Regulation 
encTfChipPkENCFF723JDW K562 ZNF24 2 Transcription Factor ChIP-seq Peaks of ZNF24 in K562 from ENCODE 3 (ENCFF723JDW) Regulation 
encTfChipPkENCFF007EEV K562 ZNF24 1 Transcription Factor ChIP-seq Peaks of ZNF24 in K562 from ENCODE 3 (ENCFF007EEV) Regulation 
encTfChipPkENCFF760EPB K562 ZNF184 2 Transcription Factor ChIP-seq Peaks of ZNF184 in K562 from ENCODE 3 (ENCFF760EPB) Regulation 
encTfChipPkENCFF855CUN K562 ZNF184 1 Transcription Factor ChIP-seq Peaks of ZNF184 in K562 from ENCODE 3 (ENCFF855CUN) Regulation 
encTfChipPkENCFF700GZI K562 ZNF143 Transcription Factor ChIP-seq Peaks of ZNF143 in K562 from ENCODE 3 (ENCFF700GZI) Regulation 
encTfChipPkENCFF195IFB K562 ZMYM3 Transcription Factor ChIP-seq Peaks of ZMYM3 in K562 from ENCODE 3 (ENCFF195IFB) Regulation 
encTfChipPkENCFF526PMI K562 ZMIZ1 Transcription Factor ChIP-seq Peaks of ZMIZ1 in K562 from ENCODE 3 (ENCFF526PMI) Regulation 
encTfChipPkENCFF704VDI K562 ZKSCAN1 Transcription Factor ChIP-seq Peaks of ZKSCAN1 in K562 from ENCODE 3 (ENCFF704VDI) Regulation 
encTfChipPkENCFF495BPY K562 ZHX1 Transcription Factor ChIP-seq Peaks of ZHX1 in K562 from ENCODE 3 (ENCFF495BPY) Regulation 
encTfChipPkENCFF150ZBH K562 ZFP91 Transcription Factor ChIP-seq Peaks of ZFP91 in K562 from ENCODE 3 (ENCFF150ZBH) Regulation 
encTfChipPkENCFF553KIK K562 ZEB2 2 Transcription Factor ChIP-seq Peaks of ZEB2 in K562 from ENCODE 3 (ENCFF553KIK) Regulation 
encTfChipPkENCFF808NWU K562 ZEB2 1 Transcription Factor ChIP-seq Peaks of ZEB2 in K562 from ENCODE 3 (ENCFF808NWU) Regulation 
encTfChipPkENCFF328SSL K562 ZBTB8A Transcription Factor ChIP-seq Peaks of ZBTB8A in K562 from ENCODE 3 (ENCFF328SSL) Regulation 
encTfChipPkENCFF245LRG K562 ZBTB7A Transcription Factor ChIP-seq Peaks of ZBTB7A in K562 from ENCODE 3 (ENCFF245LRG) Regulation 
encTfChipPkENCFF813GMP K562 ZBTB5 2 Transcription Factor ChIP-seq Peaks of ZBTB5 in K562 from ENCODE 3 (ENCFF813GMP) Regulation 
encTfChipPkENCFF014KUI K562 ZBTB5 1 Transcription Factor ChIP-seq Peaks of ZBTB5 in K562 from ENCODE 3 (ENCFF014KUI) Regulation 
encTfChipPkENCFF088LZZ K562 ZBTB40 Transcription Factor ChIP-seq Peaks of ZBTB40 in K562 from ENCODE 3 (ENCFF088LZZ) Regulation 
encTfChipPkENCFF556STK K562 ZBTB33 Transcription Factor ChIP-seq Peaks of ZBTB33 in K562 from ENCODE 3 (ENCFF556STK) Regulation 
encTfChipPkENCFF189WAO K562 ZBTB2 Transcription Factor ChIP-seq Peaks of ZBTB2 in K562 from ENCODE 3 (ENCFF189WAO) Regulation 
encTfChipPkENCFF913HCQ K562 ZBTB11 Transcription Factor ChIP-seq Peaks of ZBTB11 in K562 from ENCODE 3 (ENCFF913HCQ) Regulation 
encTfChipPkENCFF388TYU K562 ZBED1 Transcription Factor ChIP-seq Peaks of ZBED1 in K562 from ENCODE 3 (ENCFF388TYU) Regulation 
encTfChipPkENCFF635XCI K562 YY1 2 Transcription Factor ChIP-seq Peaks of YY1 in K562 from ENCODE 3 (ENCFF635XCI) Regulation 
encTfChipPkENCFF024TJO K562 YY1 1 Transcription Factor ChIP-seq Peaks of YY1 in K562 from ENCODE 3 (ENCFF024TJO) Regulation 
encTfChipPkENCFF929TWP K562 XRCC5 Transcription Factor ChIP-seq Peaks of XRCC5 in K562 from ENCODE 3 (ENCFF929TWP) Regulation 
encTfChipPkENCFF115PGE K562 XRCC3 Transcription Factor ChIP-seq Peaks of XRCC3 in K562 from ENCODE 3 (ENCFF115PGE) Regulation 
encTfChipPkENCFF157ZQI K562 WHSC1 Transcription Factor ChIP-seq Peaks of WHSC1 in K562 from ENCODE 3 (ENCFF157ZQI) Regulation 
encTfChipPkENCFF425FVY K562 USF2 Transcription Factor ChIP-seq Peaks of USF2 in K562 from ENCODE 3 (ENCFF425FVY) Regulation 
encTfChipPkENCFF403TAF K562 UBTF 2 Transcription Factor ChIP-seq Peaks of UBTF in K562 from ENCODE 3 (ENCFF403TAF) Regulation 
encTfChipPkENCFF345RRM K562 UBTF 1 Transcription Factor ChIP-seq Peaks of UBTF in K562 from ENCODE 3 (ENCFF345RRM) Regulation 
encTfChipPkENCFF134HBP K562 U2AF2 Transcription Factor ChIP-seq Peaks of U2AF2 in K562 from ENCODE 3 (ENCFF134HBP) Regulation 
encTfChipPkENCFF482DRO K562 U2AF1 Transcription Factor ChIP-seq Peaks of U2AF1 in K562 from ENCODE 3 (ENCFF482DRO) Regulation 
encTfChipPkENCFF534VQL K562 TRIP13 Transcription Factor ChIP-seq Peaks of TRIP13 in K562 from ENCODE 3 (ENCFF534VQL) Regulation 
encTfChipPkENCFF623ELO K562 TRIM28 3 Transcription Factor ChIP-seq Peaks of TRIM28 in K562 from ENCODE 3 (ENCFF623ELO) Regulation 
encTfChipPkENCFF996AMX K562 TRIM28 2 Transcription Factor ChIP-seq Peaks of TRIM28 in K562 from ENCODE 3 (ENCFF996AMX) Regulation 
encTfChipPkENCFF168KHS K562 TRIM28 1 Transcription Factor ChIP-seq Peaks of TRIM28 in K562 from ENCODE 3 (ENCFF168KHS) Regulation 
encTfChipPkENCFF950TOJ K562 TRIM24 2 Transcription Factor ChIP-seq Peaks of TRIM24 in K562 from ENCODE 3 (ENCFF950TOJ) Regulation 
encTfChipPkENCFF063NXI K562 TRIM24 1 Transcription Factor ChIP-seq Peaks of TRIM24 in K562 from ENCODE 3 (ENCFF063NXI) Regulation 
encTfChipPkENCFF309DMZ K562 THRA Transcription Factor ChIP-seq Peaks of THRA in K562 from ENCODE 3 (ENCFF309DMZ) Regulation 
encTfChipPkENCFF130TPD K562 THAP1 Transcription Factor ChIP-seq Peaks of THAP1 in K562 from ENCODE 3 (ENCFF130TPD) Regulation 
encTfChipPkENCFF547MLB K562 TEAD4 Transcription Factor ChIP-seq Peaks of TEAD4 in K562 from ENCODE 3 (ENCFF547MLB) Regulation 
encTfChipPkENCFF512IAI K562 TCF7 Transcription Factor ChIP-seq Peaks of TCF7 in K562 from ENCODE 3 (ENCFF512IAI) Regulation 
encTfChipPkENCFF912LXU K562 TCF12 2 Transcription Factor ChIP-seq Peaks of TCF12 in K562 from ENCODE 3 (ENCFF912LXU) Regulation 
encTfChipPkENCFF952JIK K562 TCF12 1 Transcription Factor ChIP-seq Peaks of TCF12 in K562 from ENCODE 3 (ENCFF952JIK) Regulation 
encTfChipPkENCFF370YGS K562 TBP Transcription Factor ChIP-seq Peaks of TBP in K562 from ENCODE 3 (ENCFF370YGS) Regulation 
encTfChipPkENCFF239WFN K562 TBL1XR1 2 Transcription Factor ChIP-seq Peaks of TBL1XR1 in K562 from ENCODE 3 (ENCFF239WFN) Regulation 
encTfChipPkENCFF868SWL K562 TBL1XR1 1 Transcription Factor ChIP-seq Peaks of TBL1XR1 in K562 from ENCODE 3 (ENCFF868SWL) Regulation 
encTfChipPkENCFF475LFH K562 TAL1 2 Transcription Factor ChIP-seq Peaks of TAL1 in K562 from ENCODE 3 (ENCFF475LFH) Regulation 
encTfChipPkENCFF078OUD K562 TAL1 1 Transcription Factor ChIP-seq Peaks of TAL1 in K562 from ENCODE 3 (ENCFF078OUD) Regulation 
encTfChipPkENCFF223HDM K562 TAF9B Transcription Factor ChIP-seq Peaks of TAF9B in K562 from ENCODE 3 (ENCFF223HDM) Regulation 
encTfChipPkENCFF852NOL K562 TAF7 Transcription Factor ChIP-seq Peaks of TAF7 in K562 from ENCODE 3 (ENCFF852NOL) Regulation 
encTfChipPkENCFF710LLF K562 TAF15 Transcription Factor ChIP-seq Peaks of TAF15 in K562 from ENCODE 3 (ENCFF710LLF) Regulation 
encTfChipPkENCFF856HYC K562 SUZ12 Transcription Factor ChIP-seq Peaks of SUZ12 in K562 from ENCODE 3 (ENCFF856HYC) Regulation 
encTfChipPkENCFF517IXK K562 STAT5A Transcription Factor ChIP-seq Peaks of STAT5A in K562 from ENCODE 3 (ENCFF517IXK) Regulation 
encTfChipPkENCFF204VQS K562 STAT2 Transcription Factor ChIP-seq Peaks of STAT2 in K562 from ENCODE 3 (ENCFF204VQS) Regulation 
encTfChipPkENCFF431NLF K562 STAT1 3 Transcription Factor ChIP-seq Peaks of STAT1 in K562 from ENCODE 3 (ENCFF431NLF) Regulation 
encTfChipPkENCFF747ICD K562 STAT1 2 Transcription Factor ChIP-seq Peaks of STAT1 in K562 from ENCODE 3 (ENCFF747ICD) Regulation 
encTfChipPkENCFF646MXG K562 STAT1 1 Transcription Factor ChIP-seq Peaks of STAT1 in K562 from ENCODE 3 (ENCFF646MXG) Regulation 
encTfChipPkENCFF217HAW K562 SRSF9 Transcription Factor ChIP-seq Peaks of SRSF9 in K562 from ENCODE 3 (ENCFF217HAW) Regulation 
encTfChipPkENCFF550VUN K562 SRSF7 Transcription Factor ChIP-seq Peaks of SRSF7 in K562 from ENCODE 3 (ENCFF550VUN) Regulation 
encTfChipPkENCFF777MYW K562 SREBF1 Transcription Factor ChIP-seq Peaks of SREBF1 in K562 from ENCODE 3 (ENCFF777MYW) Regulation 
encTfChipPkENCFF452LDK K562 SP1 Transcription Factor ChIP-seq Peaks of SP1 in K562 from ENCODE 3 (ENCFF452LDK) Regulation 
encTfChipPkENCFF431STY K562 SOX6 Transcription Factor ChIP-seq Peaks of SOX6 in K562 from ENCODE 3 (ENCFF431STY) Regulation 
encTfChipPkENCFF206MJS K562 SNRNP70 Transcription Factor ChIP-seq Peaks of SNRNP70 in K562 from ENCODE 3 (ENCFF206MJS) Regulation 
encTfChipPkENCFF175UEE K562 SMC3 Transcription Factor ChIP-seq Peaks of SMC3 in K562 from ENCODE 3 (ENCFF175UEE) Regulation 
encTfChipPkENCFF435SZS K562 SMARCE1 Transcription Factor ChIP-seq Peaks of SMARCE1 in K562 from ENCODE 3 (ENCFF435SZS) Regulation 
encTfChipPkENCFF751ZVX K562 SMARCC2 Transcription Factor ChIP-seq Peaks of SMARCC2 in K562 from ENCODE 3 (ENCFF751ZVX) Regulation 
encTfChipPkENCFF308QHX K562 SMARCB1 Transcription Factor ChIP-seq Peaks of SMARCB1 in K562 from ENCODE 3 (ENCFF308QHX) Regulation 
encTfChipPkENCFF481TNF K562 SMARCA5 Transcription Factor ChIP-seq Peaks of SMARCA5 in K562 from ENCODE 3 (ENCFF481TNF) Regulation 
encTfChipPkENCFF361RWX K562 SMARCA4 3 Transcription Factor ChIP-seq Peaks of SMARCA4 in K562 from ENCODE 3 (ENCFF361RWX) Regulation 
encTfChipPkENCFF868UOJ K562 SMARCA4 2 Transcription Factor ChIP-seq Peaks of SMARCA4 in K562 from ENCODE 3 (ENCFF868UOJ) Regulation 
encTfChipPkENCFF703NAE K562 SMARCA4 1 Transcription Factor ChIP-seq Peaks of SMARCA4 in K562 from ENCODE 3 (ENCFF703NAE) Regulation 
encTfChipPkENCFF069AAY K562 SMAD5 Transcription Factor ChIP-seq Peaks of SMAD5 in K562 from ENCODE 3 (ENCFF069AAY) Regulation 
encTfChipPkENCFF186MFI K562 SMAD2 Transcription Factor ChIP-seq Peaks of SMAD2 in K562 from ENCODE 3 (ENCFF186MFI) Regulation 
encTfChipPkENCFF084BUP K562 SMAD1 Transcription Factor ChIP-seq Peaks of SMAD1 in K562 from ENCODE 3 (ENCFF084BUP) Regulation 
encTfChipPkENCFF254QDM K562 SKIL Transcription Factor ChIP-seq Peaks of SKIL in K562 from ENCODE 3 (ENCFF254QDM) Regulation 
encTfChipPkENCFF247LOF K562 SIX5 Transcription Factor ChIP-seq Peaks of SIX5 in K562 from ENCODE 3 (ENCFF247LOF) Regulation 
encTfChipPkENCFF747XDN K562 SIRT6 Transcription Factor ChIP-seq Peaks of SIRT6 in K562 from ENCODE 3 (ENCFF747XDN) Regulation 
encTfChipPkENCFF543INR K562 SIN3B Transcription Factor ChIP-seq Peaks of SIN3B in K562 from ENCODE 3 (ENCFF543INR) Regulation 
encTfChipPkENCFF802JAN K562 SIN3A Transcription Factor ChIP-seq Peaks of SIN3A in K562 from ENCODE 3 (ENCFF802JAN) Regulation 
encTfChipPkENCFF690WNQ K562 SETDB1 Transcription Factor ChIP-seq Peaks of SETDB1 in K562 from ENCODE 3 (ENCFF690WNQ) Regulation 
encTfChipPkENCFF103RHL K562 SAP30 Transcription Factor ChIP-seq Peaks of SAP30 in K562 from ENCODE 3 (ENCFF103RHL) Regulation 
encTfChipPkENCFF087DKT K562 SAFB2 Transcription Factor ChIP-seq Peaks of SAFB2 in K562 from ENCODE 3 (ENCFF087DKT) Regulation 
encTfChipPkENCFF411YVY K562 SAFB Transcription Factor ChIP-seq Peaks of SAFB in K562 from ENCODE 3 (ENCFF411YVY) Regulation 
encTfChipPkENCFF091MQJ K562 RUNX1 2 Transcription Factor ChIP-seq Peaks of RUNX1 in K562 from ENCODE 3 (ENCFF091MQJ) Regulation 
encTfChipPkENCFF545WXN K562 RUNX1 1 Transcription Factor ChIP-seq Peaks of RUNX1 in K562 from ENCODE 3 (ENCFF545WXN) Regulation 
encTfChipPkENCFF462AZY K562 RNF2 4 Transcription Factor ChIP-seq Peaks of RNF2 in K562 from ENCODE 3 (ENCFF462AZY) Regulation 
encTfChipPkENCFF741CLJ K562 RNF2 3 Transcription Factor ChIP-seq Peaks of RNF2 in K562 from ENCODE 3 (ENCFF741CLJ) Regulation 
encTfChipPkENCFF820LKT K562 RNF2 2 Transcription Factor ChIP-seq Peaks of RNF2 in K562 from ENCODE 3 (ENCFF820LKT) Regulation 
encTfChipPkENCFF349MSP K562 RNF2 1 Transcription Factor ChIP-seq Peaks of RNF2 in K562 from ENCODE 3 (ENCFF349MSP) Regulation 
encTfChipPkENCFF599CBB K562 RLF Transcription Factor ChIP-seq Peaks of RLF in K562 from ENCODE 3 (ENCFF599CBB) Regulation 
encTfChipPkENCFF201YKU K562 RFX5 Transcription Factor ChIP-seq Peaks of RFX5 in K562 from ENCODE 3 (ENCFF201YKU) Regulation 
encTfChipPkENCFF193PVX K562 RFX1 2 Transcription Factor ChIP-seq Peaks of RFX1 in K562 from ENCODE 3 (ENCFF193PVX) Regulation 
encTfChipPkENCFF905GXS K562 RFX1 1 Transcription Factor ChIP-seq Peaks of RFX1 in K562 from ENCODE 3 (ENCFF905GXS) Regulation 
encTfChipPkENCFF023ZUW K562 REST 2 Transcription Factor ChIP-seq Peaks of REST in K562 from ENCODE 3 (ENCFF023ZUW) Regulation 
encTfChipPkENCFF290ESJ K562 REST 1 Transcription Factor ChIP-seq Peaks of REST in K562 from ENCODE 3 (ENCFF290ESJ) Regulation 
encTfChipPkENCFF968SUH K562 RCOR1 Transcription Factor ChIP-seq Peaks of RCOR1 in K562 from ENCODE 3 (ENCFF968SUH) Regulation 
encTfChipPkENCFF503DIK K562 RBM39 Transcription Factor ChIP-seq Peaks of RBM39 in K562 from ENCODE 3 (ENCFF503DIK) Regulation 
encTfChipPkENCFF670ILH K562 RBM34 Transcription Factor ChIP-seq Peaks of RBM34 in K562 from ENCODE 3 (ENCFF670ILH) Regulation 
encTfChipPkENCFF102XVH K562 RBM25 Transcription Factor ChIP-seq Peaks of RBM25 in K562 from ENCODE 3 (ENCFF102XVH) Regulation 
encTfChipPkENCFF420IBN K562 RBM22 Transcription Factor ChIP-seq Peaks of RBM22 in K562 from ENCODE 3 (ENCFF420IBN) Regulation 
encTfChipPkENCFF056OIG K562 RBM17 Transcription Factor ChIP-seq Peaks of RBM17 in K562 from ENCODE 3 (ENCFF056OIG) Regulation 
encTfChipPkENCFF563WDZ K562 RBM15 Transcription Factor ChIP-seq Peaks of RBM15 in K562 from ENCODE 3 (ENCFF563WDZ) Regulation 
encTfChipPkENCFF320YOI K562 RBM14 Transcription Factor ChIP-seq Peaks of RBM14 in K562 from ENCODE 3 (ENCFF320YOI) Regulation 
encTfChipPkENCFF232ASB K562 RBFOX2 Transcription Factor ChIP-seq Peaks of RBFOX2 in K562 from ENCODE 3 (ENCFF232ASB) Regulation 
encTfChipPkENCFF328QZM K562 RB1 Transcription Factor ChIP-seq Peaks of RB1 in K562 from ENCODE 3 (ENCFF328QZM) Regulation 
encTfChipPkENCFF740OPF K562 RAD51 Transcription Factor ChIP-seq Peaks of RAD51 in K562 from ENCODE 3 (ENCFF740OPF) Regulation 
encTfChipPkENCFF442XXV K562 PYGO2 Transcription Factor ChIP-seq Peaks of PYGO2 in K562 from ENCODE 3 (ENCFF442XXV) Regulation 
encTfChipPkENCFF917HXV K562 PTBP1 Transcription Factor ChIP-seq Peaks of PTBP1 in K562 from ENCODE 3 (ENCFF917HXV) Regulation 
encTfChipPkENCFF417RQZ K562 PRPF4 Transcription Factor ChIP-seq Peaks of PRPF4 in K562 from ENCODE 3 (ENCFF417RQZ) Regulation 
encTfChipPkENCFF600HPZ K562 PRDM10 Transcription Factor ChIP-seq Peaks of PRDM10 in K562 from ENCODE 3 (ENCFF600HPZ) Regulation 
encTfChipPkENCFF283CUY K562 POLR2G Transcription Factor ChIP-seq Peaks of POLR2G in K562 from ENCODE 3 (ENCFF283CUY) Regulation 
encTfChipPkENCFF285MBX K562 POLR2A 7 Transcription Factor ChIP-seq Peaks of POLR2A in K562 from ENCODE 3 (ENCFF285MBX) Regulation 
encTfChipPkENCFF668VIK K562 POLR2A 6 Transcription Factor ChIP-seq Peaks of POLR2A in K562 from ENCODE 3 (ENCFF668VIK) Regulation 
encTfChipPkENCFF881ONC K562 POLR2A 5 Transcription Factor ChIP-seq Peaks of POLR2A in K562 from ENCODE 3 (ENCFF881ONC) Regulation 
encTfChipPkENCFF099NYA K562 POLR2A 4 Transcription Factor ChIP-seq Peaks of POLR2A in K562 from ENCODE 3 (ENCFF099NYA) Regulation 
encTfChipPkENCFF730DLS K562 POLR2A 3 Transcription Factor ChIP-seq Peaks of POLR2A in K562 from ENCODE 3 (ENCFF730DLS) Regulation 
encTfChipPkENCFF741JES K562 POLR2A 2 Transcription Factor ChIP-seq Peaks of POLR2A in K562 from ENCODE 3 (ENCFF741JES) Regulation 
encTfChipPkENCFF182YZG K562 POLR2A 1 Transcription Factor ChIP-seq Peaks of POLR2A in K562 from ENCODE 3 (ENCFF182YZG) Regulation 
encTfChipPkENCFF800QDU K562 PML Transcription Factor ChIP-seq Peaks of PML in K562 from ENCODE 3 (ENCFF800QDU) Regulation 
encTfChipPkENCFF062VBB K562 PKNOX1 Transcription Factor ChIP-seq Peaks of PKNOX1 in K562 from ENCODE 3 (ENCFF062VBB) Regulation 
encTfChipPkENCFF952YDR K562 PHF8 Transcription Factor ChIP-seq Peaks of PHF8 in K562 from ENCODE 3 (ENCFF952YDR) Regulation 
encTfChipPkENCFF657UVA K562 PHF21A Transcription Factor ChIP-seq Peaks of PHF21A in K562 from ENCODE 3 (ENCFF657UVA) Regulation 
encTfChipPkENCFF259HUS K562 PHF20 Transcription Factor ChIP-seq Peaks of PHF20 in K562 from ENCODE 3 (ENCFF259HUS) Regulation 
encTfChipPkENCFF988OXX K562 PHB2 Transcription Factor ChIP-seq Peaks of PHB2 in K562 from ENCODE 3 (ENCFF988OXX) Regulation 
encTfChipPkENCFF941XZW K562 PCBP2 Transcription Factor ChIP-seq Peaks of PCBP2 in K562 from ENCODE 3 (ENCFF941XZW) Regulation 
encTfChipPkENCFF467RYH K562 PCBP1 Transcription Factor ChIP-seq Peaks of PCBP1 in K562 from ENCODE 3 (ENCFF467RYH) Regulation 
encTfChipPkENCFF885JMZ K562 NUFIP1 Transcription Factor ChIP-seq Peaks of NUFIP1 in K562 from ENCODE 3 (ENCFF885JMZ) Regulation 
encTfChipPkENCFF782YFS K562 NRF1 3 Transcription Factor ChIP-seq Peaks of NRF1 in K562 from ENCODE 3 (ENCFF782YFS) Regulation 
encTfChipPkENCFF626VDA K562 NRF1 2 Transcription Factor ChIP-seq Peaks of NRF1 in K562 from ENCODE 3 (ENCFF626VDA) Regulation 
encTfChipPkENCFF543STN K562 NRF1 1 Transcription Factor ChIP-seq Peaks of NRF1 in K562 from ENCODE 3 (ENCFF543STN) Regulation 
encTfChipPkENCFF315MUH K562 NR3C1 2 Transcription Factor ChIP-seq Peaks of NR3C1 in K562 from ENCODE 3 (ENCFF315MUH) Regulation 
encTfChipPkENCFF821YMC K562 NR3C1 1 Transcription Factor ChIP-seq Peaks of NR3C1 in K562 from ENCODE 3 (ENCFF821YMC) Regulation 
encTfChipPkENCFF194VBK K562 NR2F6 Transcription Factor ChIP-seq Peaks of NR2F6 in K562 from ENCODE 3 (ENCFF194VBK) Regulation 
encTfChipPkENCFF118HUH K562 NR2F2 Transcription Factor ChIP-seq Peaks of NR2F2 in K562 from ENCODE 3 (ENCFF118HUH) Regulation 
encTfChipPkENCFF363IQN K562 NR2F1 Transcription Factor ChIP-seq Peaks of NR2F1 in K562 from ENCODE 3 (ENCFF363IQN) Regulation 
encTfChipPkENCFF791ZPU K562 NR2C2 Transcription Factor ChIP-seq Peaks of NR2C2 in K562 from ENCODE 3 (ENCFF791ZPU) Regulation 
encTfChipPkENCFF023XHV K562 NR2C1 Transcription Factor ChIP-seq Peaks of NR2C1 in K562 from ENCODE 3 (ENCFF023XHV) Regulation 
encTfChipPkENCFF305OOU K562 NR0B1 Transcription Factor ChIP-seq Peaks of NR0B1 in K562 from ENCODE 3 (ENCFF305OOU) Regulation 
encTfChipPkENCFF329STX K562 NFXL1 Transcription Factor ChIP-seq Peaks of NFXL1 in K562 from ENCODE 3 (ENCFF329STX) Regulation 
encTfChipPkENCFF779KIS K562 NFRKB 2 Transcription Factor ChIP-seq Peaks of NFRKB in K562 from ENCODE 3 (ENCFF779KIS) Regulation 
encTfChipPkENCFF158FUG K562 NFRKB 1 Transcription Factor ChIP-seq Peaks of NFRKB in K562 from ENCODE 3 (ENCFF158FUG) Regulation 
encTfChipPkENCFF092TVM K562 NFIC Transcription Factor ChIP-seq Peaks of NFIC in K562 from ENCODE 3 (ENCFF092TVM) Regulation 
encTfChipPkENCFF312XHI K562 NFE2 Transcription Factor ChIP-seq Peaks of NFE2 in K562 from ENCODE 3 (ENCFF312XHI) Regulation 
encTfChipPkENCFF430JFH K562 NFATC3 2 Transcription Factor ChIP-seq Peaks of NFATC3 in K562 from ENCODE 3 (ENCFF430JFH) Regulation 
encTfChipPkENCFF082EPO K562 NFATC3 1 Transcription Factor ChIP-seq Peaks of NFATC3 in K562 from ENCODE 3 (ENCFF082EPO) Regulation 
encTfChipPkENCFF755APC K562 NEUROD1 Transcription Factor ChIP-seq Peaks of NEUROD1 in K562 from ENCODE 3 (ENCFF755APC) Regulation 
encTfChipPkENCFF638IIC K562 NCOR1 3 Transcription Factor ChIP-seq Peaks of NCOR1 in K562 from ENCODE 3 (ENCFF638IIC) Regulation 
encTfChipPkENCFF007ZUL K562 NCOR1 2 Transcription Factor ChIP-seq Peaks of NCOR1 in K562 from ENCODE 3 (ENCFF007ZUL) Regulation 
encTfChipPkENCFF856HUK K562 NCOR1 1 Transcription Factor ChIP-seq Peaks of NCOR1 in K562 from ENCODE 3 (ENCFF856HUK) Regulation 
encTfChipPkENCFF438BWN K562 NCOA6 Transcription Factor ChIP-seq Peaks of NCOA6 in K562 from ENCODE 3 (ENCFF438BWN) Regulation 
encTfChipPkENCFF749HKV K562 NCOA4 Transcription Factor ChIP-seq Peaks of NCOA4 in K562 from ENCODE 3 (ENCFF749HKV) Regulation 
encTfChipPkENCFF584SNZ K562 NCOA2 2 Transcription Factor ChIP-seq Peaks of NCOA2 in K562 from ENCODE 3 (ENCFF584SNZ) Regulation 
encTfChipPkENCFF071SOH K562 NCOA2 1 Transcription Factor ChIP-seq Peaks of NCOA2 in K562 from ENCODE 3 (ENCFF071SOH) Regulation 
encTfChipPkENCFF382RFJ K562 NCOA1 3 Transcription Factor ChIP-seq Peaks of NCOA1 in K562 from ENCODE 3 (ENCFF382RFJ) Regulation 
encTfChipPkENCFF474QDS K562 NCOA1 2 Transcription Factor ChIP-seq Peaks of NCOA1 in K562 from ENCODE 3 (ENCFF474QDS) Regulation 
encTfChipPkENCFF589OOF K562 NCOA1 1 Transcription Factor ChIP-seq Peaks of NCOA1 in K562 from ENCODE 3 (ENCFF589OOF) Regulation 
encTfChipPkENCFF728KKP K562 NBN Transcription Factor ChIP-seq Peaks of NBN in K562 from ENCODE 3 (ENCFF728KKP) Regulation 
encTfChipPkENCFF272LLG K562 MYNN Transcription Factor ChIP-seq Peaks of MYNN in K562 from ENCODE 3 (ENCFF272LLG) Regulation 
encTfChipPkENCFF605WXD K562 MYC 5 Transcription Factor ChIP-seq Peaks of MYC in K562 from ENCODE 3 (ENCFF605WXD) Regulation 
encTfChipPkENCFF527EGF K562 MYC 4 Transcription Factor ChIP-seq Peaks of MYC in K562 from ENCODE 3 (ENCFF527EGF) Regulation 
encTfChipPkENCFF492XUU K562 MYC 3 Transcription Factor ChIP-seq Peaks of MYC in K562 from ENCODE 3 (ENCFF492XUU) Regulation 
encTfChipPkENCFF339AQP K562 MYC 2 Transcription Factor ChIP-seq Peaks of MYC in K562 from ENCODE 3 (ENCFF339AQP) Regulation 
encTfChipPkENCFF700TLG K562 MYC 1 Transcription Factor ChIP-seq Peaks of MYC in K562 from ENCODE 3 (ENCFF700TLG) Regulation 
encTfChipPkENCFF905KOD K562 MYBL2 Transcription Factor ChIP-seq Peaks of MYBL2 in K562 from ENCODE 3 (ENCFF905KOD) Regulation 
encTfChipPkENCFF243QTL K562 MXI1 Transcription Factor ChIP-seq Peaks of MXI1 in K562 from ENCODE 3 (ENCFF243QTL) Regulation 
encTfChipPkENCFF459XLR K562 MTA3 Transcription Factor ChIP-seq Peaks of MTA3 in K562 from ENCODE 3 (ENCFF459XLR) Regulation 
encTfChipPkENCFF713ZVD K562 MTA2 2 Transcription Factor ChIP-seq Peaks of MTA2 in K562 from ENCODE 3 (ENCFF713ZVD) Regulation 
encTfChipPkENCFF558XIL K562 MTA2 1 Transcription Factor ChIP-seq Peaks of MTA2 in K562 from ENCODE 3 (ENCFF558XIL) Regulation 
encTfChipPkENCFF801KEW K562 MTA1 Transcription Factor ChIP-seq Peaks of MTA1 in K562 from ENCODE 3 (ENCFF801KEW) Regulation 
encTfChipPkENCFF459DYU K562 MNT 3 Transcription Factor ChIP-seq Peaks of MNT in K562 from ENCODE 3 (ENCFF459DYU) Regulation 
encTfChipPkENCFF454QQD K562 MNT 2 Transcription Factor ChIP-seq Peaks of MNT in K562 from ENCODE 3 (ENCFF454QQD) Regulation 
encTfChipPkENCFF926CRV K562 MNT 1 Transcription Factor ChIP-seq Peaks of MNT in K562 from ENCODE 3 (ENCFF926CRV) Regulation 
encTfChipPkENCFF388LUX K562 MLLT1 2 Transcription Factor ChIP-seq Peaks of MLLT1 in K562 from ENCODE 3 (ENCFF388LUX) Regulation 
encTfChipPkENCFF010AIG K562 MLLT1 1 Transcription Factor ChIP-seq Peaks of MLLT1 in K562 from ENCODE 3 (ENCFF010AIG) Regulation 
encTfChipPkENCFF071NYD K562 MITF 2 Transcription Factor ChIP-seq Peaks of MITF in K562 from ENCODE 3 (ENCFF071NYD) Regulation 
encTfChipPkENCFF262TMM K562 MITF 1 Transcription Factor ChIP-seq Peaks of MITF in K562 from ENCODE 3 (ENCFF262TMM) Regulation 
encTfChipPkENCFF163YZB K562 MIER1 Transcription Factor ChIP-seq Peaks of MIER1 in K562 from ENCODE 3 (ENCFF163YZB) Regulation 
encTfChipPkENCFF525MPI K562 MGA Transcription Factor ChIP-seq Peaks of MGA in K562 from ENCODE 3 (ENCFF525MPI) Regulation 
encTfChipPkENCFF937UEE K562 MEIS2 Transcription Factor ChIP-seq Peaks of MEIS2 in K562 from ENCODE 3 (ENCFF937UEE) Regulation 
encTfChipPkENCFF310SMW K562 MEF2A Transcription Factor ChIP-seq Peaks of MEF2A in K562 from ENCODE 3 (ENCFF310SMW) Regulation 
encTfChipPkENCFF288ZRD K562 MCM7 3 Transcription Factor ChIP-seq Peaks of MCM7 in K562 from ENCODE 3 (ENCFF288ZRD) Regulation 
encTfChipPkENCFF914ELA K562 MCM7 2 Transcription Factor ChIP-seq Peaks of MCM7 in K562 from ENCODE 3 (ENCFF914ELA) Regulation 
encTfChipPkENCFF159MQI K562 MCM7 1 Transcription Factor ChIP-seq Peaks of MCM7 in K562 from ENCODE 3 (ENCFF159MQI) Regulation 
encTfChipPkENCFF658SJY K562 MCM5 2 Transcription Factor ChIP-seq Peaks of MCM5 in K562 from ENCODE 3 (ENCFF658SJY) Regulation 
encTfChipPkENCFF603SXI K562 MCM5 1 Transcription Factor ChIP-seq Peaks of MCM5 in K562 from ENCODE 3 (ENCFF603SXI) Regulation 
encTfChipPkENCFF672PYP K562 MCM3 Transcription Factor ChIP-seq Peaks of MCM3 in K562 from ENCODE 3 (ENCFF672PYP) Regulation 
encTfChipPkENCFF571REC K562 MCM2 2 Transcription Factor ChIP-seq Peaks of MCM2 in K562 from ENCODE 3 (ENCFF571REC) Regulation 
encTfChipPkENCFF043HHG K562 MCM2 1 Transcription Factor ChIP-seq Peaks of MCM2 in K562 from ENCODE 3 (ENCFF043HHG) Regulation 
encTfChipPkENCFF617QSK K562 MBD2 Transcription Factor ChIP-seq Peaks of MBD2 in K562 from ENCODE 3 (ENCFF617QSK) Regulation 
encTfChipPkENCFF900NVQ K562 MAX 2 Transcription Factor ChIP-seq Peaks of MAX in K562 from ENCODE 3 (ENCFF900NVQ) Regulation 
encTfChipPkENCFF618VMC K562 MAX 1 Transcription Factor ChIP-seq Peaks of MAX in K562 from ENCODE 3 (ENCFF618VMC) Regulation 
encTfChipPkENCFF893SCL K562 MAFK Transcription Factor ChIP-seq Peaks of MAFK in K562 from ENCODE 3 (ENCFF893SCL) Regulation 
encTfChipPkENCFF498MGH K562 MAFF Transcription Factor ChIP-seq Peaks of MAFF in K562 from ENCODE 3 (ENCFF498MGH) Regulation 
encTfChipPkENCFF697VRJ K562 LEF1 2 Transcription Factor ChIP-seq Peaks of LEF1 in K562 from ENCODE 3 (ENCFF697VRJ) Regulation 
encTfChipPkENCFF134HQP K562 LEF1 1 Transcription Factor ChIP-seq Peaks of LEF1 in K562 from ENCODE 3 (ENCFF134HQP) Regulation 
encTfChipPkENCFF423LPW K562 L3MBTL2 Transcription Factor ChIP-seq Peaks of L3MBTL2 in K562 from ENCODE 3 (ENCFF423LPW) Regulation 
encTfChipPkENCFF379LKE K562 KLF16 Transcription Factor ChIP-seq Peaks of KLF16 in K562 from ENCODE 3 (ENCFF379LKE) Regulation 
encTfChipPkENCFF668XLN K562 KDM5B Transcription Factor ChIP-seq Peaks of KDM5B in K562 from ENCODE 3 (ENCFF668XLN) Regulation 
encTfChipPkENCFF955AOD K562 KDM4B 2 Transcription Factor ChIP-seq Peaks of KDM4B in K562 from ENCODE 3 (ENCFF955AOD) Regulation 
encTfChipPkENCFF470RHZ K562 KDM4B 1 Transcription Factor ChIP-seq Peaks of KDM4B in K562 from ENCODE 3 (ENCFF470RHZ) Regulation 
encTfChipPkENCFF483BRD K562 KDM1A 2 Transcription Factor ChIP-seq Peaks of KDM1A in K562 from ENCODE 3 (ENCFF483BRD) Regulation 
encTfChipPkENCFF796VMI K562 KDM1A 1 Transcription Factor ChIP-seq Peaks of KDM1A in K562 from ENCODE 3 (ENCFF796VMI) Regulation 
encTfChipPkENCFF207ZEK K562 KAT8 Transcription Factor ChIP-seq Peaks of KAT8 in K562 from ENCODE 3 (ENCFF207ZEK) Regulation 
encTfChipPkENCFF556XQQ K562 KAT2B Transcription Factor ChIP-seq Peaks of KAT2B in K562 from ENCODE 3 (ENCFF556XQQ) Regulation 
encTfChipPkENCFF213EYD K562 JUND Transcription Factor ChIP-seq Peaks of JUND in K562 from ENCODE 3 (ENCFF213EYD) Regulation 
encTfChipPkENCFF739XTO K562 JUNB Transcription Factor ChIP-seq Peaks of JUNB in K562 from ENCODE 3 (ENCFF739XTO) Regulation 
encTfChipPkENCFF032UMW K562 JUN 5 Transcription Factor ChIP-seq Peaks of JUN in K562 from ENCODE 3 (ENCFF032UMW) Regulation 
encTfChipPkENCFF394CEC K562 JUN 4 Transcription Factor ChIP-seq Peaks of JUN in K562 from ENCODE 3 (ENCFF394CEC) Regulation 
encTfChipPkENCFF167WUZ K562 JUN 3 Transcription Factor ChIP-seq Peaks of JUN in K562 from ENCODE 3 (ENCFF167WUZ) Regulation 
encTfChipPkENCFF672LKE K562 JUN 2 Transcription Factor ChIP-seq Peaks of JUN in K562 from ENCODE 3 (ENCFF672LKE) Regulation 
encTfChipPkENCFF881AVX K562 JUN 1 Transcription Factor ChIP-seq Peaks of JUN in K562 from ENCODE 3 (ENCFF881AVX) Regulation 
encTfChipPkENCFF886EVL K562 IRF2 Transcription Factor ChIP-seq Peaks of IRF2 in K562 from ENCODE 3 (ENCFF886EVL) Regulation 
encTfChipPkENCFF346LMY K562 IRF1 4 Transcription Factor ChIP-seq Peaks of IRF1 in K562 from ENCODE 3 (ENCFF346LMY) Regulation 
encTfChipPkENCFF938NBD K562 IRF1 3 Transcription Factor ChIP-seq Peaks of IRF1 in K562 from ENCODE 3 (ENCFF938NBD) Regulation 
encTfChipPkENCFF688XON K562 IRF1 2 Transcription Factor ChIP-seq Peaks of IRF1 in K562 from ENCODE 3 (ENCFF688XON) Regulation 
encTfChipPkENCFF978BBL K562 IRF1 1 Transcription Factor ChIP-seq Peaks of IRF1 in K562 from ENCODE 3 (ENCFF978BBL) Regulation 
encTfChipPkENCFF994OQH K562 IKZF1 2 Transcription Factor ChIP-seq Peaks of IKZF1 in K562 from ENCODE 3 (ENCFF994OQH) Regulation 
encTfChipPkENCFF785BTP K562 IKZF1 1 Transcription Factor ChIP-seq Peaks of IKZF1 in K562 from ENCODE 3 (ENCFF785BTP) Regulation 
encTfChipPkENCFF991ZSC K562 HNRNPUL1 Transcription Factor ChIP-seq Peaks of HNRNPUL1 in K562 from ENCODE 3 (ENCFF991ZSC) Regulation 
encTfChipPkENCFF662WPN K562 HNRNPLL Transcription Factor ChIP-seq Peaks of HNRNPLL in K562 from ENCODE 3 (ENCFF662WPN) Regulation 
encTfChipPkENCFF984ESZ K562 HNRNPL Transcription Factor ChIP-seq Peaks of HNRNPL in K562 from ENCODE 3 (ENCFF984ESZ) Regulation 
encTfChipPkENCFF984QUV K562 HNRNPK Transcription Factor ChIP-seq Peaks of HNRNPK in K562 from ENCODE 3 (ENCFF984QUV) Regulation 
encTfChipPkENCFF844QFF K562 HNRNPH1 Transcription Factor ChIP-seq Peaks of HNRNPH1 in K562 from ENCODE 3 (ENCFF844QFF) Regulation 
encTfChipPkENCFF718DFX K562 HMBOX1 Transcription Factor ChIP-seq Peaks of HMBOX1 in K562 from ENCODE 3 (ENCFF718DFX) Regulation 
encTfChipPkENCFF010OOE K562 HES1 Transcription Factor ChIP-seq Peaks of HES1 in K562 from ENCODE 3 (ENCFF010OOE) Regulation 
encTfChipPkENCFF295GBP K562 HDAC6 Transcription Factor ChIP-seq Peaks of HDAC6 in K562 from ENCODE 3 (ENCFF295GBP) Regulation 
encTfChipPkENCFF742LSD K562 HDAC3 Transcription Factor ChIP-seq Peaks of HDAC3 in K562 from ENCODE 3 (ENCFF742LSD) Regulation 
encTfChipPkENCFF618YRQ K562 HDAC2 3 Transcription Factor ChIP-seq Peaks of HDAC2 in K562 from ENCODE 3 (ENCFF618YRQ) Regulation 
encTfChipPkENCFF519RWJ K562 HDAC2 2 Transcription Factor ChIP-seq Peaks of HDAC2 in K562 from ENCODE 3 (ENCFF519RWJ) Regulation 
encTfChipPkENCFF363GSV K562 HDAC2 1 Transcription Factor ChIP-seq Peaks of HDAC2 in K562 from ENCODE 3 (ENCFF363GSV) Regulation 
encTfChipPkENCFF557WXK K562 HDAC1 4 Transcription Factor ChIP-seq Peaks of HDAC1 in K562 from ENCODE 3 (ENCFF557WXK) Regulation 
encTfChipPkENCFF188TBM K562 HDAC1 3 Transcription Factor ChIP-seq Peaks of HDAC1 in K562 from ENCODE 3 (ENCFF188TBM) Regulation 
encTfChipPkENCFF661VOO K562 HDAC1 2 Transcription Factor ChIP-seq Peaks of HDAC1 in K562 from ENCODE 3 (ENCFF661VOO) Regulation 
encTfChipPkENCFF758PGF K562 HDAC1 1 Transcription Factor ChIP-seq Peaks of HDAC1 in K562 from ENCODE 3 (ENCFF758PGF) Regulation 
encTfChipPkENCFF167RXK K562 HCFC1 Transcription Factor ChIP-seq Peaks of HCFC1 in K562 from ENCODE 3 (ENCFF167RXK) Regulation 
encTfChipPkENCFF678VPQ K562 GMEB1 Transcription Factor ChIP-seq Peaks of GMEB1 in K562 from ENCODE 3 (ENCFF678VPQ) Regulation 
encTfChipPkENCFF569CMJ K562 GATAD2B Transcription Factor ChIP-seq Peaks of GATAD2B in K562 from ENCODE 3 (ENCFF569CMJ) Regulation 
encTfChipPkENCFF950ZWP K562 GATAD2A Transcription Factor ChIP-seq Peaks of GATAD2A in K562 from ENCODE 3 (ENCFF950ZWP) Regulation 
encTfChipPkENCFF173TXA K562 GATA2 Transcription Factor ChIP-seq Peaks of GATA2 in K562 from ENCODE 3 (ENCFF173TXA) Regulation 
encTfChipPkENCFF148JKK K562 GATA1 Transcription Factor ChIP-seq Peaks of GATA1 in K562 from ENCODE 3 (ENCFF148JKK) Regulation 
encTfChipPkENCFF700DXR K562 GABPB1 Transcription Factor ChIP-seq Peaks of GABPB1 in K562 from ENCODE 3 (ENCFF700DXR) Regulation 
encTfChipPkENCFF124HAC K562 GABPA Transcription Factor ChIP-seq Peaks of GABPA in K562 from ENCODE 3 (ENCFF124HAC) Regulation 
encTfChipPkENCFF688ARM K562 FUS Transcription Factor ChIP-seq Peaks of FUS in K562 from ENCODE 3 (ENCFF688ARM) Regulation 
encTfChipPkENCFF778PWE K562 FOXM1 Transcription Factor ChIP-seq Peaks of FOXM1 in K562 from ENCODE 3 (ENCFF778PWE) Regulation 
encTfChipPkENCFF490EQR K562 FOXK2 2 Transcription Factor ChIP-seq Peaks of FOXK2 in K562 from ENCODE 3 (ENCFF490EQR) Regulation 
encTfChipPkENCFF066CWG K562 FOXK2 1 Transcription Factor ChIP-seq Peaks of FOXK2 in K562 from ENCODE 3 (ENCFF066CWG) Regulation 
encTfChipPkENCFF765NAN K562 FOXA1 Transcription Factor ChIP-seq Peaks of FOXA1 in K562 from ENCODE 3 (ENCFF765NAN) Regulation 
encTfChipPkENCFF087MFG K562 FOSL1 Transcription Factor ChIP-seq Peaks of FOSL1 in K562 from ENCODE 3 (ENCFF087MFG) Regulation 
encTfChipPkENCFF084DTV K562 FIP1L1 Transcription Factor ChIP-seq Peaks of FIP1L1 in K562 from ENCODE 3 (ENCFF084DTV) Regulation 
encTfChipPkENCFF560CYG K562 EWSR1 Transcription Factor ChIP-seq Peaks of EWSR1 in K562 from ENCODE 3 (ENCFF560CYG) Regulation 
encTfChipPkENCFF658SGJ K562 ETV6 2 Transcription Factor ChIP-seq Peaks of ETV6 in K562 from ENCODE 3 (ENCFF658SGJ) Regulation 
encTfChipPkENCFF426GSY K562 ETV6 1 Transcription Factor ChIP-seq Peaks of ETV6 in K562 from ENCODE 3 (ENCFF426GSY) Regulation 
encTfChipPkENCFF461PRP K562 ETS1 Transcription Factor ChIP-seq Peaks of ETS1 in K562 from ENCODE 3 (ENCFF461PRP) Regulation 
encTfChipPkENCFF592GWM K562 ESRRA Transcription Factor ChIP-seq Peaks of ESRRA in K562 from ENCODE 3 (ENCFF592GWM) Regulation 
encTfChipPkENCFF225BXA K562 EP400 Transcription Factor ChIP-seq Peaks of EP400 in K562 from ENCODE 3 (ENCFF225BXA) Regulation 
encTfChipPkENCFF755HCK K562 EP300 Transcription Factor ChIP-seq Peaks of EP300 in K562 from ENCODE 3 (ENCFF755HCK) Regulation 
encTfChipPkENCFF119SCQ K562 ELK1 Transcription Factor ChIP-seq Peaks of ELK1 in K562 from ENCODE 3 (ENCFF119SCQ) Regulation 
encTfChipPkENCFF539SXG K562 ELF4 Transcription Factor ChIP-seq Peaks of ELF4 in K562 from ENCODE 3 (ENCFF539SXG) Regulation 
encTfChipPkENCFF617ZLL K562 ELF1 Transcription Factor ChIP-seq Peaks of ELF1 in K562 from ENCODE 3 (ENCFF617ZLL) Regulation 
encTfChipPkENCFF682XPD K562 EHMT2 Transcription Factor ChIP-seq Peaks of EHMT2 in K562 from ENCODE 3 (ENCFF682XPD) Regulation 
encTfChipPkENCFF561OGS K562 EGR1 3 Transcription Factor ChIP-seq Peaks of EGR1 in K562 from ENCODE 3 (ENCFF561OGS) Regulation 
encTfChipPkENCFF175VSS K562 EGR1 2 Transcription Factor ChIP-seq Peaks of EGR1 in K562 from ENCODE 3 (ENCFF175VSS) Regulation 
encTfChipPkENCFF375RDB K562 EGR1 1 Transcription Factor ChIP-seq Peaks of EGR1 in K562 from ENCODE 3 (ENCFF375RDB) Regulation 
encTfChipPkENCFF752KNU K562 E4F1 Transcription Factor ChIP-seq Peaks of E4F1 in K562 from ENCODE 3 (ENCFF752KNU) Regulation 
encTfChipPkENCFF171WWF K562 E2F8 Transcription Factor ChIP-seq Peaks of E2F8 in K562 from ENCODE 3 (ENCFF171WWF) Regulation 
encTfChipPkENCFF013EHI K562 E2F7 Transcription Factor ChIP-seq Peaks of E2F7 in K562 from ENCODE 3 (ENCFF013EHI) Regulation 
encTfChipPkENCFF533GSH K562 E2F6 Transcription Factor ChIP-seq Peaks of E2F6 in K562 from ENCODE 3 (ENCFF533GSH) Regulation 
encTfChipPkENCFF445VTT K562 E2F1 2 Transcription Factor ChIP-seq Peaks of E2F1 in K562 from ENCODE 3 (ENCFF445VTT) Regulation 
encTfChipPkENCFF134JLR K562 E2F1 1 Transcription Factor ChIP-seq Peaks of E2F1 in K562 from ENCODE 3 (ENCFF134JLR) Regulation 
encTfChipPkENCFF217ZTP K562 DPF2 2 Transcription Factor ChIP-seq Peaks of DPF2 in K562 from ENCODE 3 (ENCFF217ZTP) Regulation 
encTfChipPkENCFF537VKZ K562 DPF2 1 Transcription Factor ChIP-seq Peaks of DPF2 in K562 from ENCODE 3 (ENCFF537VKZ) Regulation 
encTfChipPkENCFF549TVW K562 DNMT1 Transcription Factor ChIP-seq Peaks of DNMT1 in K562 from ENCODE 3 (ENCFF549TVW) Regulation 
encTfChipPkENCFF532HCE K562 DEAF1 Transcription Factor ChIP-seq Peaks of DEAF1 in K562 from ENCODE 3 (ENCFF532HCE) Regulation 
encTfChipPkENCFF870LJV K562 DACH1 Transcription Factor ChIP-seq Peaks of DACH1 in K562 from ENCODE 3 (ENCFF870LJV) Regulation 
encTfChipPkENCFF556HMX K562 CUX1 Transcription Factor ChIP-seq Peaks of CUX1 in K562 from ENCODE 3 (ENCFF556HMX) Regulation 
encTfChipPkENCFF396BZQ K562 CTCF 4 Transcription Factor ChIP-seq Peaks of CTCF in K562 from ENCODE 3 (ENCFF396BZQ) Regulation 
encTfChipPkENCFF119XFJ K562 CTCF 3 Transcription Factor ChIP-seq Peaks of CTCF in K562 from ENCODE 3 (ENCFF119XFJ) Regulation 
encTfChipPkENCFF519CXF K562 CTCF 2 Transcription Factor ChIP-seq Peaks of CTCF in K562 from ENCODE 3 (ENCFF519CXF) Regulation 
encTfChipPkENCFF843VHC K562 CTCF 1 Transcription Factor ChIP-seq Peaks of CTCF in K562 from ENCODE 3 (ENCFF843VHC) Regulation 
encTfChipPkENCFF349UTF K562 CTBP1 Transcription Factor ChIP-seq Peaks of CTBP1 in K562 from ENCODE 3 (ENCFF349UTF) Regulation 
encTfChipPkENCFF021XJN K562 CREM Transcription Factor ChIP-seq Peaks of CREM in K562 from ENCODE 3 (ENCFF021XJN) Regulation 
encTfChipPkENCFF678FRK K562 CREBBP Transcription Factor ChIP-seq Peaks of CREBBP in K562 from ENCODE 3 (ENCFF678FRK) Regulation 
encTfChipPkENCFF566HGU K562 CREB3L1 Transcription Factor ChIP-seq Peaks of CREB3L1 in K562 from ENCODE 3 (ENCFF566HGU) Regulation 
encTfChipPkENCFF552EBC K562 COPS2 Transcription Factor ChIP-seq Peaks of COPS2 in K562 from ENCODE 3 (ENCFF552EBC) Regulation 
encTfChipPkENCFF919KNQ K562 CHAMP1 2 Transcription Factor ChIP-seq Peaks of CHAMP1 in K562 from ENCODE 3 (ENCFF919KNQ) Regulation 
encTfChipPkENCFF646MEF K562 CHAMP1 1 Transcription Factor ChIP-seq Peaks of CHAMP1 in K562 from ENCODE 3 (ENCFF646MEF) Regulation 
encTfChipPkENCFF321KQD K562 CEBPB Transcription Factor ChIP-seq Peaks of CEBPB in K562 from ENCODE 3 (ENCFF321KQD) Regulation 
encTfChipPkENCFF384ALH K562 CDC5L Transcription Factor ChIP-seq Peaks of CDC5L in K562 from ENCODE 3 (ENCFF384ALH) Regulation 
encTfChipPkENCFF704PGT K562 CCAR2 Transcription Factor ChIP-seq Peaks of CCAR2 in K562 from ENCODE 3 (ENCFF704PGT) Regulation 
encTfChipPkENCFF180TUM K562 CC2D1A Transcription Factor ChIP-seq Peaks of CC2D1A in K562 from ENCODE 3 (ENCFF180TUM) Regulation 
encTfChipPkENCFF403TAE K562 CBX5 Transcription Factor ChIP-seq Peaks of CBX5 in K562 from ENCODE 3 (ENCFF403TAE) Regulation 
encTfChipPkENCFF951BQB K562 CBX3 2 Transcription Factor ChIP-seq Peaks of CBX3 in K562 from ENCODE 3 (ENCFF951BQB) Regulation 
encTfChipPkENCFF378YKS K562 CBX3 1 Transcription Factor ChIP-seq Peaks of CBX3 in K562 from ENCODE 3 (ENCFF378YKS) Regulation 
encTfChipPkENCFF163FLA K562 CBX1 Transcription Factor ChIP-seq Peaks of CBX1 in K562 from ENCODE 3 (ENCFF163FLA) Regulation 
encTfChipPkENCFF153IFH K562 CBFA2T3 Transcription Factor ChIP-seq Peaks of CBFA2T3 in K562 from ENCODE 3 (ENCFF153IFH) Regulation 
encTfChipPkENCFF419PEK K562 CBFA2T2 Transcription Factor ChIP-seq Peaks of CBFA2T2 in K562 from ENCODE 3 (ENCFF419PEK) Regulation 
encTfChipPkENCFF104MXG K562 C11orf30 Transcription Factor ChIP-seq Peaks of C11orf30 in K562 from ENCODE 3 (ENCFF104MXG) Regulation 
encTfChipPkENCFF411RMT K562 BRD9 Transcription Factor ChIP-seq Peaks of BRD9 in K562 from ENCODE 3 (ENCFF411RMT) Regulation 
encTfChipPkENCFF806CQB K562 BRD4 Transcription Factor ChIP-seq Peaks of BRD4 in K562 from ENCODE 3 (ENCFF806CQB) Regulation 
encTfChipPkENCFF652NES K562 BRCA1 Transcription Factor ChIP-seq Peaks of BRCA1 in K562 from ENCODE 3 (ENCFF652NES) Regulation 
encTfChipPkENCFF352DRR K562 BMI1 Transcription Factor ChIP-seq Peaks of BMI1 in K562 from ENCODE 3 (ENCFF352DRR) Regulation 
encTfChipPkENCFF477JTV K562 BHLHE40 Transcription Factor ChIP-seq Peaks of BHLHE40 in K562 from ENCODE 3 (ENCFF477JTV) Regulation 
encTfChipPkENCFF186JKG K562 BCOR Transcription Factor ChIP-seq Peaks of BCOR in K562 from ENCODE 3 (ENCFF186JKG) Regulation 
encTfChipPkENCFF543FNN K562 BACH1 Transcription Factor ChIP-seq Peaks of BACH1 in K562 from ENCODE 3 (ENCFF543FNN) Regulation 
encTfChipPkENCFF371SJR K562 ATF7 Transcription Factor ChIP-seq Peaks of ATF7 in K562 from ENCODE 3 (ENCFF371SJR) Regulation 
encTfChipPkENCFF182MNO K562 ATF4 Transcription Factor ChIP-seq Peaks of ATF4 in K562 from ENCODE 3 (ENCFF182MNO) Regulation 
encTfChipPkENCFF937OKC K562 ATF3 2 Transcription Factor ChIP-seq Peaks of ATF3 in K562 from ENCODE 3 (ENCFF937OKC) Regulation 
encTfChipPkENCFF467WOR K562 ATF3 1 Transcription Factor ChIP-seq Peaks of ATF3 in K562 from ENCODE 3 (ENCFF467WOR) Regulation 
encTfChipPkENCFF803FHN K562 ATF2 Transcription Factor ChIP-seq Peaks of ATF2 in K562 from ENCODE 3 (ENCFF803FHN) Regulation 
encTfChipPkENCFF958YSG K562 ASH1L Transcription Factor ChIP-seq Peaks of ASH1L in K562 from ENCODE 3 (ENCFF958YSG) Regulation 
encTfChipPkENCFF913AQF K562 ARNT 3 Transcription Factor ChIP-seq Peaks of ARNT in K562 from ENCODE 3 (ENCFF913AQF) Regulation 
encTfChipPkENCFF447FIO K562 ARNT 2 Transcription Factor ChIP-seq Peaks of ARNT in K562 from ENCODE 3 (ENCFF447FIO) Regulation 
encTfChipPkENCFF655EFA K562 ARNT 1 Transcription Factor ChIP-seq Peaks of ARNT in K562 from ENCODE 3 (ENCFF655EFA) Regulation 
encTfChipPkENCFF757OML K562 ARID3A Transcription Factor ChIP-seq Peaks of ARID3A in K562 from ENCODE 3 (ENCFF757OML) Regulation 
encTfChipPkENCFF344MKI K562 ARID2 Transcription Factor ChIP-seq Peaks of ARID2 in K562 from ENCODE 3 (ENCFF344MKI) Regulation 
encTfChipPkENCFF249TYS K562 ARID1B Transcription Factor ChIP-seq Peaks of ARID1B in K562 from ENCODE 3 (ENCFF249TYS) Regulation 
encTfChipPkENCFF089PKE K562 ARHGAP35 Transcription Factor ChIP-seq Peaks of ARHGAP35 in K562 from ENCODE 3 (ENCFF089PKE) Regulation 
encTfChipPkENCFF100VYA K562 AGO1 Transcription Factor ChIP-seq Peaks of AGO1 in K562 from ENCODE 3 (ENCFF100VYA) Regulation 
encTfChipPkENCFF489SKQ K562 AFF1 2 Transcription Factor ChIP-seq Peaks of AFF1 in K562 from ENCODE 3 (ENCFF489SKQ) Regulation 
encTfChipPkENCFF869BYK K562 AFF1 1 Transcription Factor ChIP-seq Peaks of AFF1 in K562 from ENCODE 3 (ENCFF869BYK) Regulation 
encTfChipPkENCFF085HJD Ishikawa POLR2A Transcription Factor ChIP-seq Peaks of POLR2A in Ishikawa from ENCODE 3 (ENCFF085HJD) Regulation 
encTfChipPkENCFF293OHT Ishikawa NR3C1 2 Transcription Factor ChIP-seq Peaks of NR3C1 in Ishikawa from ENCODE 3 (ENCFF293OHT) Regulation 
encTfChipPkENCFF519BOO Ishikawa NR3C1 1 Transcription Factor ChIP-seq Peaks of NR3C1 in Ishikawa from ENCODE 3 (ENCFF519BOO) Regulation 
encTfChipPkENCFF778BLL Ishikawa ESR1 3 Transcription Factor ChIP-seq Peaks of ESR1 in Ishikawa from ENCODE 3 (ENCFF778BLL) Regulation 
encTfChipPkENCFF279JGE Ishikawa ESR1 2 Transcription Factor ChIP-seq Peaks of ESR1 in Ishikawa from ENCODE 3 (ENCFF279JGE) Regulation 
encTfChipPkENCFF076OFH Ishikawa ESR1 1 Transcription Factor ChIP-seq Peaks of ESR1 in Ishikawa from ENCODE 3 (ENCFF076OFH) Regulation 
encTfChipPkENCFF675JJV Ishikawa CTCF Transcription Factor ChIP-seq Peaks of CTCF in Ishikawa from ENCODE 3 (ENCFF675JJV) Regulation 
encTfChipPkENCFF938BOJ IMR-90 USF2 Transcription Factor ChIP-seq Peaks of USF2 in IMR-90 from ENCODE 3 (ENCFF938BOJ) Regulation 
encTfChipPkENCFF380ZXB IMR-90 SMC3 Transcription Factor ChIP-seq Peaks of SMC3 in IMR-90 from ENCODE 3 (ENCFF380ZXB) Regulation 
encTfChipPkENCFF139EBY IMR-90 RCOR1 Transcription Factor ChIP-seq Peaks of RCOR1 in IMR-90 from ENCODE 3 (ENCFF139EBY) Regulation 
encTfChipPkENCFF895JAW IMR-90 RAD21 Transcription Factor ChIP-seq Peaks of RAD21 in IMR-90 from ENCODE 3 (ENCFF895JAW) Regulation 
encTfChipPkENCFF474PPT IMR-90 NFE2L2 Transcription Factor ChIP-seq Peaks of NFE2L2 in IMR-90 from ENCODE 3 (ENCFF474PPT) Regulation 
encTfChipPkENCFF351VGZ IMR-90 MAFK Transcription Factor ChIP-seq Peaks of MAFK in IMR-90 from ENCODE 3 (ENCFF351VGZ) Regulation 
encTfChipPkENCFF217ZMF IMR-90 FOS Transcription Factor ChIP-seq Peaks of FOS in IMR-90 from ENCODE 3 (ENCFF217ZMF) Regulation 
encTfChipPkENCFF687IUD IMR-90 ELK1 Transcription Factor ChIP-seq Peaks of ELK1 in IMR-90 from ENCODE 3 (ENCFF687IUD) Regulation 
encTfChipPkENCFF307XFM IMR-90 CTCF Transcription Factor ChIP-seq Peaks of CTCF in IMR-90 from ENCODE 3 (ENCFF307XFM) Regulation 
encTfChipPkENCFF510QXG IMR-90 CHD1 Transcription Factor ChIP-seq Peaks of CHD1 in IMR-90 from ENCODE 3 (ENCFF510QXG) Regulation 
encTfChipPkENCFF757KYL IMR-90 CEBPB Transcription Factor ChIP-seq Peaks of CEBPB in IMR-90 from ENCODE 3 (ENCFF757KYL) Regulation 
encTfChipPkENCFF567GON IMR-90 BHLHE40 Transcription Factor ChIP-seq Peaks of BHLHE40 in IMR-90 from ENCODE 3 (ENCFF567GON) Regulation 
encTfChipPkENCFF950VAR HepG2 ZNF384 Transcription Factor ChIP-seq Peaks of ZNF384 in HepG2 from ENCODE 3 (ENCFF950VAR) Regulation 
encTfChipPkENCFF482XNG HepG2 ZNF282 Transcription Factor ChIP-seq Peaks of ZNF282 in HepG2 from ENCODE 3 (ENCFF482XNG) Regulation 
encTfChipPkENCFF858WPR HepG2 ZNF24 2 Transcription Factor ChIP-seq Peaks of ZNF24 in HepG2 from ENCODE 3 (ENCFF858WPR) Regulation 
encTfChipPkENCFF904QAD HepG2 ZNF24 1 Transcription Factor ChIP-seq Peaks of ZNF24 in HepG2 from ENCODE 3 (ENCFF904QAD) Regulation 
encTfChipPkENCFF657ZXY HepG2 ZNF207 Transcription Factor ChIP-seq Peaks of ZNF207 in HepG2 from ENCODE 3 (ENCFF657ZXY) Regulation 
encTfChipPkENCFF769SEZ HepG2 ZMYM3 Transcription Factor ChIP-seq Peaks of ZMYM3 in HepG2 from ENCODE 3 (ENCFF769SEZ) Regulation 
encTfChipPkENCFF721NEC HepG2 ZKSCAN1 Transcription Factor ChIP-seq Peaks of ZKSCAN1 in HepG2 from ENCODE 3 (ENCFF721NEC) Regulation 
encTfChipPkENCFF964KDQ HepG2 ZHX2 Transcription Factor ChIP-seq Peaks of ZHX2 in HepG2 from ENCODE 3 (ENCFF964KDQ) Regulation 
encTfChipPkENCFF953JQD HepG2 ZBTB7A Transcription Factor ChIP-seq Peaks of ZBTB7A in HepG2 from ENCODE 3 (ENCFF953JQD) Regulation 
encTfChipPkENCFF624WDI HepG2 ZBTB40 Transcription Factor ChIP-seq Peaks of ZBTB40 in HepG2 from ENCODE 3 (ENCFF624WDI) Regulation 
encTfChipPkENCFF943WRA HepG2 ZBTB33 Transcription Factor ChIP-seq Peaks of ZBTB33 in HepG2 from ENCODE 3 (ENCFF943WRA) Regulation 
encTfChipPkENCFF177YDT HepG2 YY1 Transcription Factor ChIP-seq Peaks of YY1 in HepG2 from ENCODE 3 (ENCFF177YDT) Regulation 
encTfChipPkENCFF790ZAQ HepG2 XRCC5 Transcription Factor ChIP-seq Peaks of XRCC5 in HepG2 from ENCODE 3 (ENCFF790ZAQ) Regulation 
encTfChipPkENCFF914IFQ HepG2 USF1 Transcription Factor ChIP-seq Peaks of USF1 in HepG2 from ENCODE 3 (ENCFF914IFQ) Regulation 
encTfChipPkENCFF562ADR HepG2 U2AF2 Transcription Factor ChIP-seq Peaks of U2AF2 in HepG2 from ENCODE 3 (ENCFF562ADR) Regulation 
encTfChipPkENCFF034KUO HepG2 U2AF1 Transcription Factor ChIP-seq Peaks of U2AF1 in HepG2 from ENCODE 3 (ENCFF034KUO) Regulation 
encTfChipPkENCFF063GDN HepG2 TRIM22 Transcription Factor ChIP-seq Peaks of TRIM22 in HepG2 from ENCODE 3 (ENCFF063GDN) Regulation 
encTfChipPkENCFF912SQI HepG2 TFAP4 Transcription Factor ChIP-seq Peaks of TFAP4 in HepG2 from ENCODE 3 (ENCFF912SQI) Regulation 
encTfChipPkENCFF928MIN HepG2 TCF7 Transcription Factor ChIP-seq Peaks of TCF7 in HepG2 from ENCODE 3 (ENCFF928MIN) Regulation 
encTfChipPkENCFF299JYV HepG2 TCF12 2 Transcription Factor ChIP-seq Peaks of TCF12 in HepG2 from ENCODE 3 (ENCFF299JYV) Regulation 
encTfChipPkENCFF820PHL HepG2 TCF12 1 Transcription Factor ChIP-seq Peaks of TCF12 in HepG2 from ENCODE 3 (ENCFF820PHL) Regulation 
encTfChipPkENCFF887DUY HepG2 TBX3 2 Transcription Factor ChIP-seq Peaks of TBX3 in HepG2 from ENCODE 3 (ENCFF887DUY) Regulation 
encTfChipPkENCFF654KVO HepG2 TBX3 1 Transcription Factor ChIP-seq Peaks of TBX3 in HepG2 from ENCODE 3 (ENCFF654KVO) Regulation 
encTfChipPkENCFF534GKQ HepG2 TBP Transcription Factor ChIP-seq Peaks of TBP in HepG2 from ENCODE 3 (ENCFF534GKQ) Regulation 
encTfChipPkENCFF126KGW HepG2 TBL1XR1 Transcription Factor ChIP-seq Peaks of TBL1XR1 in HepG2 from ENCODE 3 (ENCFF126KGW) Regulation 
encTfChipPkENCFF718RXL HepG2 TAF15 Transcription Factor ChIP-seq Peaks of TAF15 in HepG2 from ENCODE 3 (ENCFF718RXL) Regulation 
encTfChipPkENCFF234TBW HepG2 TAF1 Transcription Factor ChIP-seq Peaks of TAF1 in HepG2 from ENCODE 3 (ENCFF234TBW) Regulation 
encTfChipPkENCFF239LRW HepG2 SUZ12 Transcription Factor ChIP-seq Peaks of SUZ12 in HepG2 from ENCODE 3 (ENCFF239LRW) Regulation 
encTfChipPkENCFF105XWO HepG2 SRSF9 Transcription Factor ChIP-seq Peaks of SRSF9 in HepG2 from ENCODE 3 (ENCFF105XWO) Regulation 
encTfChipPkENCFF122FVR HepG2 SRSF4 Transcription Factor ChIP-seq Peaks of SRSF4 in HepG2 from ENCODE 3 (ENCFF122FVR) Regulation 
encTfChipPkENCFF735WMX HepG2 SP1 2 Transcription Factor ChIP-seq Peaks of SP1 in HepG2 from ENCODE 3 (ENCFF735WMX) Regulation 
encTfChipPkENCFF175VXL HepG2 SP1 1 Transcription Factor ChIP-seq Peaks of SP1 in HepG2 from ENCODE 3 (ENCFF175VXL) Regulation 
encTfChipPkENCFF944LNI HepG2 SOX6 Transcription Factor ChIP-seq Peaks of SOX6 in HepG2 from ENCODE 3 (ENCFF944LNI) Regulation 
encTfChipPkENCFF257QND HepG2 SOX13 Transcription Factor ChIP-seq Peaks of SOX13 in HepG2 from ENCODE 3 (ENCFF257QND) Regulation 
encTfChipPkENCFF858FBZ HepG2 SNRNP70 Transcription Factor ChIP-seq Peaks of SNRNP70 in HepG2 from ENCODE 3 (ENCFF858FBZ) Regulation 
encTfChipPkENCFF035YWE HepG2 SMC3 Transcription Factor ChIP-seq Peaks of SMC3 in HepG2 from ENCODE 3 (ENCFF035YWE) Regulation 
encTfChipPkENCFF210HAA HepG2 SMARCE1 Transcription Factor ChIP-seq Peaks of SMARCE1 in HepG2 from ENCODE 3 (ENCFF210HAA) Regulation 
encTfChipPkENCFF150NHK HepG2 SMARCC2 Transcription Factor ChIP-seq Peaks of SMARCC2 in HepG2 from ENCODE 3 (ENCFF150NHK) Regulation 
encTfChipPkENCFF035ZFO HepG2 SKI Transcription Factor ChIP-seq Peaks of SKI in HepG2 from ENCODE 3 (ENCFF035ZFO) Regulation 
encTfChipPkENCFF193DQZ HepG2 SIN3B Transcription Factor ChIP-seq Peaks of SIN3B in HepG2 from ENCODE 3 (ENCFF193DQZ) Regulation 
encTfChipPkENCFF635YMI HepG2 SIN3A Transcription Factor ChIP-seq Peaks of SIN3A in HepG2 from ENCODE 3 (ENCFF635YMI) Regulation 
encTfChipPkENCFF105TFM HepG2 RXRA Transcription Factor ChIP-seq Peaks of RXRA in HepG2 from ENCODE 3 (ENCFF105TFM) Regulation 
encTfChipPkENCFF380SYL HepG2 RNF2 Transcription Factor ChIP-seq Peaks of RNF2 in HepG2 from ENCODE 3 (ENCFF380SYL) Regulation 
encTfChipPkENCFF059GWW HepG2 RFX5 Transcription Factor ChIP-seq Peaks of RFX5 in HepG2 from ENCODE 3 (ENCFF059GWW) Regulation 
encTfChipPkENCFF788CJF HepG2 RFX1 Transcription Factor ChIP-seq Peaks of RFX1 in HepG2 from ENCODE 3 (ENCFF788CJF) Regulation 
encTfChipPkENCFF986RRJ HepG2 REST 2 Transcription Factor ChIP-seq Peaks of REST in HepG2 from ENCODE 3 (ENCFF986RRJ) Regulation 
encTfChipPkENCFF669XCW HepG2 REST 1 Transcription Factor ChIP-seq Peaks of REST in HepG2 from ENCODE 3 (ENCFF669XCW) Regulation 
encTfChipPkENCFF987VKU HepG2 RCOR1 Transcription Factor ChIP-seq Peaks of RCOR1 in HepG2 from ENCODE 3 (ENCFF987VKU) Regulation 
encTfChipPkENCFF420ALF HepG2 RBM39 Transcription Factor ChIP-seq Peaks of RBM39 in HepG2 from ENCODE 3 (ENCFF420ALF) Regulation 
encTfChipPkENCFF305WYD HepG2 RBM22 Transcription Factor ChIP-seq Peaks of RBM22 in HepG2 from ENCODE 3 (ENCFF305WYD) Regulation 
encTfChipPkENCFF871YRG HepG2 RBFOX2 Transcription Factor ChIP-seq Peaks of RBFOX2 in HepG2 from ENCODE 3 (ENCFF871YRG) Regulation 
encTfChipPkENCFF859MBC HepG2 RAD51 Transcription Factor ChIP-seq Peaks of RAD51 in HepG2 from ENCODE 3 (ENCFF859MBC) Regulation 
encTfChipPkENCFF874VFZ HepG2 RAD21 2 Transcription Factor ChIP-seq Peaks of RAD21 in HepG2 from ENCODE 3 (ENCFF874VFZ) Regulation 
encTfChipPkENCFF093XOJ HepG2 RAD21 1 Transcription Factor ChIP-seq Peaks of RAD21 in HepG2 from ENCODE 3 (ENCFF093XOJ) Regulation 
encTfChipPkENCFF875ZPV HepG2 PTBP1 Transcription Factor ChIP-seq Peaks of PTBP1 in HepG2 from ENCODE 3 (ENCFF875ZPV) Regulation 
encTfChipPkENCFF908QCS HepG2 PRPF4 Transcription Factor ChIP-seq Peaks of PRPF4 in HepG2 from ENCODE 3 (ENCFF908QCS) Regulation 
encTfChipPkENCFF551IJP HepG2 POLR2G Transcription Factor ChIP-seq Peaks of POLR2G in HepG2 from ENCODE 3 (ENCFF551IJP) Regulation 
encTfChipPkENCFF565SUC HepG2 POLR2A Transcription Factor ChIP-seq Peaks of POLR2A in HepG2 from ENCODE 3 (ENCFF565SUC) Regulation 
encTfChipPkENCFF873OHG HepG2 PLRG1 Transcription Factor ChIP-seq Peaks of PLRG1 in HepG2 from ENCODE 3 (ENCFF873OHG) Regulation 
encTfChipPkENCFF202WIO HepG2 PHF8 Transcription Factor ChIP-seq Peaks of PHF8 in HepG2 from ENCODE 3 (ENCFF202WIO) Regulation 
encTfChipPkENCFF882RPA HepG2 PHB2 Transcription Factor ChIP-seq Peaks of PHB2 in HepG2 from ENCODE 3 (ENCFF882RPA) Regulation 
encTfChipPkENCFF642XRH HepG2 PCBP2 Transcription Factor ChIP-seq Peaks of PCBP2 in HepG2 from ENCODE 3 (ENCFF642XRH) Regulation 
encTfChipPkENCFF487WAN HepG2 PCBP1 Transcription Factor ChIP-seq Peaks of PCBP1 in HepG2 from ENCODE 3 (ENCFF487WAN) Regulation 
encTfChipPkENCFF313RFR HepG2 NRF1 2 Transcription Factor ChIP-seq Peaks of NRF1 in HepG2 from ENCODE 3 (ENCFF313RFR) Regulation 
encTfChipPkENCFF418DKQ HepG2 NRF1 1 Transcription Factor ChIP-seq Peaks of NRF1 in HepG2 from ENCODE 3 (ENCFF418DKQ) Regulation 
encTfChipPkENCFF350CKI HepG2 NR2F6 Transcription Factor ChIP-seq Peaks of NR2F6 in HepG2 from ENCODE 3 (ENCFF350CKI) Regulation 
encTfChipPkENCFF162TPR HepG2 NFRKB Transcription Factor ChIP-seq Peaks of NFRKB in HepG2 from ENCODE 3 (ENCFF162TPR) Regulation 
encTfChipPkENCFF882YLO HepG2 NFE2L2 Transcription Factor ChIP-seq Peaks of NFE2L2 in HepG2 from ENCODE 3 (ENCFF882YLO) Regulation 
encTfChipPkENCFF616RSZ HepG2 NCOR1 Transcription Factor ChIP-seq Peaks of NCOR1 in HepG2 from ENCODE 3 (ENCFF616RSZ) Regulation 
encTfChipPkENCFF516UWH HepG2 NBN Transcription Factor ChIP-seq Peaks of NBN in HepG2 from ENCODE 3 (ENCFF516UWH) Regulation 
encTfChipPkENCFF482JSR HepG2 MNT 2 Transcription Factor ChIP-seq Peaks of MNT in HepG2 from ENCODE 3 (ENCFF482JSR) Regulation 
encTfChipPkENCFF562FMQ HepG2 MNT 1 Transcription Factor ChIP-seq Peaks of MNT in HepG2 from ENCODE 3 (ENCFF562FMQ) Regulation 
encTfChipPkENCFF140PUO HepG2 MAX Transcription Factor ChIP-seq Peaks of MAX in HepG2 from ENCODE 3 (ENCFF140PUO) Regulation 
encTfChipPkENCFF171OJF HepG2 MAFK 2 Transcription Factor ChIP-seq Peaks of MAFK in HepG2 from ENCODE 3 (ENCFF171OJF) Regulation 
encTfChipPkENCFF770TZL HepG2 MAFK 1 Transcription Factor ChIP-seq Peaks of MAFK in HepG2 from ENCODE 3 (ENCFF770TZL) Regulation 
encTfChipPkENCFF493TIR HepG2 MAFF Transcription Factor ChIP-seq Peaks of MAFF in HepG2 from ENCODE 3 (ENCFF493TIR) Regulation 
encTfChipPkENCFF611PIO HepG2 LCORL Transcription Factor ChIP-seq Peaks of LCORL in HepG2 from ENCODE 3 (ENCFF611PIO) Regulation 
encTfChipPkENCFF334HKG HepG2 KDM5A Transcription Factor ChIP-seq Peaks of KDM5A in HepG2 from ENCODE 3 (ENCFF334HKG) Regulation 
encTfChipPkENCFF768FGG HepG2 KDM1A Transcription Factor ChIP-seq Peaks of KDM1A in HepG2 from ENCODE 3 (ENCFF768FGG) Regulation 
encTfChipPkENCFF091BEK HepG2 KAT2B Transcription Factor ChIP-seq Peaks of KAT2B in HepG2 from ENCODE 3 (ENCFF091BEK) Regulation 
encTfChipPkENCFF539GRW HepG2 JUND 2 Transcription Factor ChIP-seq Peaks of JUND in HepG2 from ENCODE 3 (ENCFF539GRW) Regulation 
encTfChipPkENCFF430PEI HepG2 JUND 1 Transcription Factor ChIP-seq Peaks of JUND in HepG2 from ENCODE 3 (ENCFF430PEI) Regulation 
encTfChipPkENCFF969BZA HepG2 IKZF1 Transcription Factor ChIP-seq Peaks of IKZF1 in HepG2 from ENCODE 3 (ENCFF969BZA) Regulation 
encTfChipPkENCFF509YFF HepG2 HNRNPUL1 Transcription Factor ChIP-seq Peaks of HNRNPUL1 in HepG2 from ENCODE 3 (ENCFF509YFF) Regulation 
encTfChipPkENCFF890KTX HepG2 HNRNPLL Transcription Factor ChIP-seq Peaks of HNRNPLL in HepG2 from ENCODE 3 (ENCFF890KTX) Regulation 
encTfChipPkENCFF039CUI HepG2 HNRNPL Transcription Factor ChIP-seq Peaks of HNRNPL in HepG2 from ENCODE 3 (ENCFF039CUI) Regulation 
encTfChipPkENCFF828KXG HepG2 HNRNPK Transcription Factor ChIP-seq Peaks of HNRNPK in HepG2 from ENCODE 3 (ENCFF828KXG) Regulation 
encTfChipPkENCFF046NUR HepG2 HNRNPH1 Transcription Factor ChIP-seq Peaks of HNRNPH1 in HepG2 from ENCODE 3 (ENCFF046NUR) Regulation 
encTfChipPkENCFF086CTA HepG2 HNF4G Transcription Factor ChIP-seq Peaks of HNF4G in HepG2 from ENCODE 3 (ENCFF086CTA) Regulation 
encTfChipPkENCFF072CXB HepG2 HNF4A Transcription Factor ChIP-seq Peaks of HNF4A in HepG2 from ENCODE 3 (ENCFF072CXB) Regulation 
encTfChipPkENCFF800QTO HepG2 HNF1A Transcription Factor ChIP-seq Peaks of HNF1A in HepG2 from ENCODE 3 (ENCFF800QTO) Regulation 
encTfChipPkENCFF109EXK HepG2 HDAC6 Transcription Factor ChIP-seq Peaks of HDAC6 in HepG2 from ENCODE 3 (ENCFF109EXK) Regulation 
encTfChipPkENCFF182XZZ HepG2 HDAC2 2 Transcription Factor ChIP-seq Peaks of HDAC2 in HepG2 from ENCODE 3 (ENCFF182XZZ) Regulation 
encTfChipPkENCFF589GSN HepG2 HDAC2 1 Transcription Factor ChIP-seq Peaks of HDAC2 in HepG2 from ENCODE 3 (ENCFF589GSN) Regulation 
encTfChipPkENCFF069KPS HepG2 HDAC1 Transcription Factor ChIP-seq Peaks of HDAC1 in HepG2 from ENCODE 3 (ENCFF069KPS) Regulation 
encTfChipPkENCFF485SRU HepG2 HCFC1 Transcription Factor ChIP-seq Peaks of HCFC1 in HepG2 from ENCODE 3 (ENCFF485SRU) Regulation 
encTfChipPkENCFF097OXR HepG2 GATA4 Transcription Factor ChIP-seq Peaks of GATA4 in HepG2 from ENCODE 3 (ENCFF097OXR) Regulation 
encTfChipPkENCFF054HJA HepG2 GABPA Transcription Factor ChIP-seq Peaks of GABPA in HepG2 from ENCODE 3 (ENCFF054HJA) Regulation 
encTfChipPkENCFF216YZI HepG2 FUS Transcription Factor ChIP-seq Peaks of FUS in HepG2 from ENCODE 3 (ENCFF216YZI) Regulation 
encTfChipPkENCFF029UJC HepG2 FOXP1 Transcription Factor ChIP-seq Peaks of FOXP1 in HepG2 from ENCODE 3 (ENCFF029UJC) Regulation 
encTfChipPkENCFF315CHX HepG2 FOXK2 Transcription Factor ChIP-seq Peaks of FOXK2 in HepG2 from ENCODE 3 (ENCFF315CHX) Regulation 
encTfChipPkENCFF259BJR HepG2 FOXA2 2 Transcription Factor ChIP-seq Peaks of FOXA2 in HepG2 from ENCODE 3 (ENCFF259BJR) Regulation 
encTfChipPkENCFF184NAC HepG2 FOXA2 1 Transcription Factor ChIP-seq Peaks of FOXA2 in HepG2 from ENCODE 3 (ENCFF184NAC) Regulation 
encTfChipPkENCFF367TQC HepG2 FOXA1 3 Transcription Factor ChIP-seq Peaks of FOXA1 in HepG2 from ENCODE 3 (ENCFF367TQC) Regulation 
encTfChipPkENCFF872MGU HepG2 FOXA1 2 Transcription Factor ChIP-seq Peaks of FOXA1 in HepG2 from ENCODE 3 (ENCFF872MGU) Regulation 
encTfChipPkENCFF152BOT HepG2 FOXA1 1 Transcription Factor ChIP-seq Peaks of FOXA1 in HepG2 from ENCODE 3 (ENCFF152BOT) Regulation 
encTfChipPkENCFF054ESU HepG2 FOSL2 Transcription Factor ChIP-seq Peaks of FOSL2 in HepG2 from ENCODE 3 (ENCFF054ESU) Regulation 
encTfChipPkENCFF031LBW HepG2 FIP1L1 Transcription Factor ChIP-seq Peaks of FIP1L1 in HepG2 from ENCODE 3 (ENCFF031LBW) Regulation 
encTfChipPkENCFF504QZJ HepG2 EZH2 Transcription Factor ChIP-seq Peaks of EZH2 in HepG2 from ENCODE 3 (ENCFF504QZJ) Regulation 
encTfChipPkENCFF710CRT HepG2 ETV4 Transcription Factor ChIP-seq Peaks of ETV4 in HepG2 from ENCODE 3 (ENCFF710CRT) Regulation 
encTfChipPkENCFF128TUP HepG2 ETS1 Transcription Factor ChIP-seq Peaks of ETS1 in HepG2 from ENCODE 3 (ENCFF128TUP) Regulation 
encTfChipPkENCFF674QCU HepG2 EP300 2 Transcription Factor ChIP-seq Peaks of EP300 in HepG2 from ENCODE 3 (ENCFF674QCU) Regulation 
encTfChipPkENCFF806JJS HepG2 EP300 1 Transcription Factor ChIP-seq Peaks of EP300 in HepG2 from ENCODE 3 (ENCFF806JJS) Regulation 
encTfChipPkENCFF840RWO HepG2 ELF1 Transcription Factor ChIP-seq Peaks of ELF1 in HepG2 from ENCODE 3 (ENCFF840RWO) Regulation 
encTfChipPkENCFF413RQL HepG2 EHMT2 Transcription Factor ChIP-seq Peaks of EHMT2 in HepG2 from ENCODE 3 (ENCFF413RQL) Regulation 
encTfChipPkENCFF543WTP HepG2 CTCF Transcription Factor ChIP-seq Peaks of CTCF in HepG2 from ENCODE 3 (ENCFF543WTP) Regulation 
encTfChipPkENCFF290UGF HepG2 CREM Transcription Factor ChIP-seq Peaks of CREM in HepG2 from ENCODE 3 (ENCFF290UGF) Regulation 
encTfChipPkENCFF550TXR HepG2 CREB1 Transcription Factor ChIP-seq Peaks of CREB1 in HepG2 from ENCODE 3 (ENCFF550TXR) Regulation 
encTfChipPkENCFF148ABR HepG2 CHD4 Transcription Factor ChIP-seq Peaks of CHD4 in HepG2 from ENCODE 3 (ENCFF148ABR) Regulation 
encTfChipPkENCFF915ZYE HepG2 CEBPB 2 Transcription Factor ChIP-seq Peaks of CEBPB in HepG2 from ENCODE 3 (ENCFF915ZYE) Regulation 
encTfChipPkENCFF862DXR HepG2 CEBPB 1 Transcription Factor ChIP-seq Peaks of CEBPB in HepG2 from ENCODE 3 (ENCFF862DXR) Regulation 
encTfChipPkENCFF039LHY HepG2 CCAR2 Transcription Factor ChIP-seq Peaks of CCAR2 in HepG2 from ENCODE 3 (ENCFF039LHY) Regulation 
encTfChipPkENCFF501QII HepG2 CBX2 Transcription Factor ChIP-seq Peaks of CBX2 in HepG2 from ENCODE 3 (ENCFF501QII) Regulation 
encTfChipPkENCFF736GHL HepG2 BRD4 Transcription Factor ChIP-seq Peaks of BRD4 in HepG2 from ENCODE 3 (ENCFF736GHL) Regulation 
encTfChipPkENCFF897ETK HepG2 BRCA1 Transcription Factor ChIP-seq Peaks of BRCA1 in HepG2 from ENCODE 3 (ENCFF897ETK) Regulation 
encTfChipPkENCFF361YXC HepG2 BHLHE40 2 Transcription Factor ChIP-seq Peaks of BHLHE40 in HepG2 from ENCODE 3 (ENCFF361YXC) Regulation 
encTfChipPkENCFF863ATX HepG2 BHLHE40 1 Transcription Factor ChIP-seq Peaks of BHLHE40 in HepG2 from ENCODE 3 (ENCFF863ATX) Regulation 
encTfChipPkENCFF906FVB HepG2 ATM Transcription Factor ChIP-seq Peaks of ATM in HepG2 from ENCODE 3 (ENCFF906FVB) Regulation 
encTfChipPkENCFF498YGH HepG2 ATF7 Transcription Factor ChIP-seq Peaks of ATF7 in HepG2 from ENCODE 3 (ENCFF498YGH) Regulation 
encTfChipPkENCFF137OEY HepG2 ATF3 Transcription Factor ChIP-seq Peaks of ATF3 in HepG2 from ENCODE 3 (ENCFF137OEY) Regulation 
encTfChipPkENCFF089BQU HepG2 ATF2 Transcription Factor ChIP-seq Peaks of ATF2 in HepG2 from ENCODE 3 (ENCFF089BQU) Regulation 
encTfChipPkENCFF638IUM HepG2 ASH2L Transcription Factor ChIP-seq Peaks of ASH2L in HepG2 from ENCODE 3 (ENCFF638IUM) Regulation 
encTfChipPkENCFF616WXJ HepG2 ARNT Transcription Factor ChIP-seq Peaks of ARNT in HepG2 from ENCODE 3 (ENCFF616WXJ) Regulation 
encTfChipPkENCFF247GXE HepG2 ARID3A Transcription Factor ChIP-seq Peaks of ARID3A in HepG2 from ENCODE 3 (ENCFF247GXE) Regulation 
encTfChipPkENCFF465FII HepG2 AGO2 Transcription Factor ChIP-seq Peaks of AGO2 in HepG2 from ENCODE 3 (ENCFF465FII) Regulation 
encTfChipPkENCFF627BHP HepG2 AGO1 Transcription Factor ChIP-seq Peaks of AGO1 in HepG2 from ENCODE 3 (ENCFF627BHP) Regulation 
encTfChipPkENCFF267DZF HeLa-S3 ZHX1 Transcription Factor ChIP-seq Peaks of ZHX1 in HeLa-S3 from ENCODE 3 (ENCFF267DZF) Regulation 
encTfChipPkENCFF834LQR HeLa-S3 UBTF Transcription Factor ChIP-seq Peaks of UBTF in HeLa-S3 from ENCODE 3 (ENCFF834LQR) Regulation 
encTfChipPkENCFF302RQH HeLa-S3 TBP Transcription Factor ChIP-seq Peaks of TBP in HeLa-S3 from ENCODE 3 (ENCFF302RQH) Regulation 
encTfChipPkENCFF044DFE HeLa-S3 SUPT20H Transcription Factor ChIP-seq Peaks of SUPT20H in HeLa-S3 from ENCODE 3 (ENCFF044DFE) Regulation 
encTfChipPkENCFF785YII HeLa-S3 SREBF2 Transcription Factor ChIP-seq Peaks of SREBF2 in HeLa-S3 from ENCODE 3 (ENCFF785YII) Regulation 
encTfChipPkENCFF208NUB HeLa-S3 REST Transcription Factor ChIP-seq Peaks of REST in HeLa-S3 from ENCODE 3 (ENCFF208NUB) Regulation 
encTfChipPkENCFF246QVY HeLa-S3 POLR2A Transcription Factor ChIP-seq Peaks of POLR2A in HeLa-S3 from ENCODE 3 (ENCFF246QVY) Regulation 
encTfChipPkENCFF305KIK HeLa-S3 NFE2L2 Transcription Factor ChIP-seq Peaks of NFE2L2 in HeLa-S3 from ENCODE 3 (ENCFF305KIK) Regulation 
encTfChipPkENCFF328IZQ HeLa-S3 MAFK Transcription Factor ChIP-seq Peaks of MAFK in HeLa-S3 from ENCODE 3 (ENCFF328IZQ) Regulation 
encTfChipPkENCFF672LKL HeLa-S3 MAFF Transcription Factor ChIP-seq Peaks of MAFF in HeLa-S3 from ENCODE 3 (ENCFF672LKL) Regulation 
encTfChipPkENCFF091UDB HeLa-S3 GABPA Transcription Factor ChIP-seq Peaks of GABPA in HeLa-S3 from ENCODE 3 (ENCFF091UDB) Regulation 
encTfChipPkENCFF260KLJ HeLa-S3 EZH2 Transcription Factor ChIP-seq Peaks of EZH2 in HeLa-S3 from ENCODE 3 (ENCFF260KLJ) Regulation 
encTfChipPkENCFF797QGP HL-60 SPI1 Transcription Factor ChIP-seq Peaks of SPI1 in HL-60 from ENCODE 3 (ENCFF797QGP) Regulation 
encTfChipPkENCFF839LPE HL-60 REST Transcription Factor ChIP-seq Peaks of REST in HL-60 from ENCODE 3 (ENCFF839LPE) Regulation 
encTfChipPkENCFF564YAP HL-60 GABPA Transcription Factor ChIP-seq Peaks of GABPA in HL-60 from ENCODE 3 (ENCFF564YAP) Regulation 
encTfChipPkENCFF152JZK HL-60 CTCF Transcription Factor ChIP-seq Peaks of CTCF in HL-60 from ENCODE 3 (ENCFF152JZK) Regulation 
encTfChipPkENCFF750KVF HFF-Myc CTCF Transcription Factor ChIP-seq Peaks of CTCF in HFF-Myc from ENCODE 3 (ENCFF750KVF) Regulation 
encTfChipPkENCFF817UEX HEK293T ZNF384 Transcription Factor ChIP-seq Peaks of ZNF384 in HEK293T from ENCODE 3 (ENCFF817UEX) Regulation 
encTfChipPkENCFF829NNC HEK293T ZFX Transcription Factor ChIP-seq Peaks of ZFX in HEK293T from ENCODE 3 (ENCFF829NNC) Regulation 
encTfChipPkENCFF708RSP HEK293T SUZ12 Transcription Factor ChIP-seq Peaks of SUZ12 in HEK293T from ENCODE 3 (ENCFF708RSP) Regulation 
encTfChipPkENCFF532KPP HEK293T SP1 Transcription Factor ChIP-seq Peaks of SP1 in HEK293T from ENCODE 3 (ENCFF532KPP) Regulation 
encTfChipPkENCFF234WZT HEK293T PKNOX1 Transcription Factor ChIP-seq Peaks of PKNOX1 in HEK293T from ENCODE 3 (ENCFF234WZT) Regulation 
encTfChipPkENCFF421INQ HEK293T NFRKB Transcription Factor ChIP-seq Peaks of NFRKB in HEK293T from ENCODE 3 (ENCFF421INQ) Regulation 
encTfChipPkENCFF939UTN HEK293T LEF1 Transcription Factor ChIP-seq Peaks of LEF1 in HEK293T from ENCODE 3 (ENCFF939UTN) Regulation 
encTfChipPkENCFF156RLT HEK293T L3MBTL2 Transcription Factor ChIP-seq Peaks of L3MBTL2 in HEK293T from ENCODE 3 (ENCFF156RLT) Regulation 
encTfChipPkENCFF685TME HEK293T FOXM1 Transcription Factor ChIP-seq Peaks of FOXM1 in HEK293T from ENCODE 3 (ENCFF685TME) Regulation 
encTfChipPkENCFF959TZW HEK293T FOXK2 Transcription Factor ChIP-seq Peaks of FOXK2 in HEK293T from ENCODE 3 (ENCFF959TZW) Regulation 
encTfChipPkENCFF514ZNN HEK293T FOXA1 Transcription Factor ChIP-seq Peaks of FOXA1 in HEK293T from ENCODE 3 (ENCFF514ZNN) Regulation 
encTfChipPkENCFF919JTO HEK293T ELF4 Transcription Factor ChIP-seq Peaks of ELF4 in HEK293T from ENCODE 3 (ENCFF919JTO) Regulation 
encTfChipPkENCFF867WWZ HEK293T CTBP1 Transcription Factor ChIP-seq Peaks of CTBP1 in HEK293T from ENCODE 3 (ENCFF867WWZ) Regulation 
encTfChipPkENCFF104NYV HEK293T BHLHE40 Transcription Factor ChIP-seq Peaks of BHLHE40 in HEK293T from ENCODE 3 (ENCFF104NYV) Regulation 
encTfChipPkENCFF694XWV HEK293T ARNT Transcription Factor ChIP-seq Peaks of ARNT in HEK293T from ENCODE 3 (ENCFF694XWV) Regulation 
encTfChipPkENCFF827SZZ HEK293 ZNF263 Transcription Factor ChIP-seq Peaks of ZNF263 in HEK293 from ENCODE 3 (ENCFF827SZZ) Regulation 
encTfChipPkENCFF860DHS HEK293 TRIM28 Transcription Factor ChIP-seq Peaks of TRIM28 in HEK293 from ENCODE 3 (ENCFF860DHS) Regulation 
encTfChipPkENCFF215SIC HCT116 ZFX Transcription Factor ChIP-seq Peaks of ZFX in HCT116 from ENCODE 3 (ENCFF215SIC) Regulation 
encTfChipPkENCFF998KDQ HCT116 JUND Transcription Factor ChIP-seq Peaks of JUND in HCT116 from ENCODE 3 (ENCFF998KDQ) Regulation 
encTfChipPkENCFF926EZW HCT116 EZH2 Transcription Factor ChIP-seq Peaks of EZH2 in HCT116 from ENCODE 3 (ENCFF926EZW) Regulation 
encTfChipPkENCFF171SNH HCT116 CTCF 3 Transcription Factor ChIP-seq Peaks of CTCF in HCT116 from ENCODE 3 (ENCFF171SNH) Regulation 
encTfChipPkENCFF518MQA HCT116 CTCF 2 Transcription Factor ChIP-seq Peaks of CTCF in HCT116 from ENCODE 3 (ENCFF518MQA) Regulation 
encTfChipPkENCFF549PGC HCT116 CTCF 1 Transcription Factor ChIP-seq Peaks of CTCF in HCT116 from ENCODE 3 (ENCFF549PGC) Regulation 
encTfChipPkENCFF723LVE H54 CTCF Transcription Factor ChIP-seq Peaks of CTCF in H54 from ENCODE 3 (ENCFF723LVE) Regulation 
encTfChipPkENCFF933WSP H1-hESC ZNF143 Transcription Factor ChIP-seq Peaks of ZNF143 in H1-hESC from ENCODE 3 (ENCFF933WSP) Regulation 
encTfChipPkENCFF509GYP H1-hESC YY1 Transcription Factor ChIP-seq Peaks of YY1 in H1-hESC from ENCODE 3 (ENCFF509GYP) Regulation 
encTfChipPkENCFF710JBU H1-hESC USF2 Transcription Factor ChIP-seq Peaks of USF2 in H1-hESC from ENCODE 3 (ENCFF710JBU) Regulation 
encTfChipPkENCFF699HXL H1-hESC USF1 Transcription Factor ChIP-seq Peaks of USF1 in H1-hESC from ENCODE 3 (ENCFF699HXL) Regulation 
encTfChipPkENCFF740HPV H1-hESC TCF12 Transcription Factor ChIP-seq Peaks of TCF12 in H1-hESC from ENCODE 3 (ENCFF740HPV) Regulation 
encTfChipPkENCFF748YXF H1-hESC TBP Transcription Factor ChIP-seq Peaks of TBP in H1-hESC from ENCODE 3 (ENCFF748YXF) Regulation 
encTfChipPkENCFF243PSJ H1-hESC TAF7 Transcription Factor ChIP-seq Peaks of TAF7 in H1-hESC from ENCODE 3 (ENCFF243PSJ) Regulation 
encTfChipPkENCFF870SFJ H1-hESC TAF1 Transcription Factor ChIP-seq Peaks of TAF1 in H1-hESC from ENCODE 3 (ENCFF870SFJ) Regulation 
encTfChipPkENCFF671SZQ H1-hESC SUZ12 Transcription Factor ChIP-seq Peaks of SUZ12 in H1-hESC from ENCODE 3 (ENCFF671SZQ) Regulation 
encTfChipPkENCFF345IDL H1-hESC SRF Transcription Factor ChIP-seq Peaks of SRF in H1-hESC from ENCODE 3 (ENCFF345IDL) Regulation 
encTfChipPkENCFF500JFI H1-hESC SP1 Transcription Factor ChIP-seq Peaks of SP1 in H1-hESC from ENCODE 3 (ENCFF500JFI) Regulation 
encTfChipPkENCFF644BNN H1-hESC SIX5 Transcription Factor ChIP-seq Peaks of SIX5 in H1-hESC from ENCODE 3 (ENCFF644BNN) Regulation 
encTfChipPkENCFF539KSF H1-hESC SIRT6 Transcription Factor ChIP-seq Peaks of SIRT6 in H1-hESC from ENCODE 3 (ENCFF539KSF) Regulation 
encTfChipPkENCFF514BGQ H1-hESC SIN3A 2 Transcription Factor ChIP-seq Peaks of SIN3A in H1-hESC from ENCODE 3 (ENCFF514BGQ) Regulation 
encTfChipPkENCFF905VZD H1-hESC SIN3A 1 Transcription Factor ChIP-seq Peaks of SIN3A in H1-hESC from ENCODE 3 (ENCFF905VZD) Regulation 
encTfChipPkENCFF193TFR H1-hESC SAP30 Transcription Factor ChIP-seq Peaks of SAP30 in H1-hESC from ENCODE 3 (ENCFF193TFR) Regulation 
encTfChipPkENCFF430SIE H1-hESC RXRA Transcription Factor ChIP-seq Peaks of RXRA in H1-hESC from ENCODE 3 (ENCFF430SIE) Regulation 
encTfChipPkENCFF283MNG H1-hESC RNF2 Transcription Factor ChIP-seq Peaks of RNF2 in H1-hESC from ENCODE 3 (ENCFF283MNG) Regulation 
encTfChipPkENCFF062WBN H1-hESC RFX5 Transcription Factor ChIP-seq Peaks of RFX5 in H1-hESC from ENCODE 3 (ENCFF062WBN) Regulation 
encTfChipPkENCFF403CAJ H1-hESC REST 2 Transcription Factor ChIP-seq Peaks of REST in H1-hESC from ENCODE 3 (ENCFF403CAJ) Regulation 
encTfChipPkENCFF779CWH H1-hESC REST 1 Transcription Factor ChIP-seq Peaks of REST in H1-hESC from ENCODE 3 (ENCFF779CWH) Regulation 
encTfChipPkENCFF607WCG H1-hESC RBBP5 Transcription Factor ChIP-seq Peaks of RBBP5 in H1-hESC from ENCODE 3 (ENCFF607WCG) Regulation 
encTfChipPkENCFF060IVS H1-hESC RAD21 2 Transcription Factor ChIP-seq Peaks of RAD21 in H1-hESC from ENCODE 3 (ENCFF060IVS) Regulation 
encTfChipPkENCFF255FRL H1-hESC RAD21 1 Transcription Factor ChIP-seq Peaks of RAD21 in H1-hESC from ENCODE 3 (ENCFF255FRL) Regulation 
encTfChipPkENCFF422HDN H1-hESC POLR2A Transcription Factor ChIP-seq Peaks of POLR2A in H1-hESC from ENCODE 3 (ENCFF422HDN) Regulation 
encTfChipPkENCFF651QOL H1-hESC PHF8 Transcription Factor ChIP-seq Peaks of PHF8 in H1-hESC from ENCODE 3 (ENCFF651QOL) Regulation 
encTfChipPkENCFF407IVS H1-hESC NRF1 Transcription Factor ChIP-seq Peaks of NRF1 in H1-hESC from ENCODE 3 (ENCFF407IVS) Regulation 
encTfChipPkENCFF794GVQ H1-hESC NANOG Transcription Factor ChIP-seq Peaks of NANOG in H1-hESC from ENCODE 3 (ENCFF794GVQ) Regulation 
encTfChipPkENCFF392JJN H1-hESC MYC Transcription Factor ChIP-seq Peaks of MYC in H1-hESC from ENCODE 3 (ENCFF392JJN) Regulation 
encTfChipPkENCFF712RIS H1-hESC MAFK Transcription Factor ChIP-seq Peaks of MAFK in H1-hESC from ENCODE 3 (ENCFF712RIS) Regulation 
encTfChipPkENCFF342EEV H1-hESC KDM5A Transcription Factor ChIP-seq Peaks of KDM5A in H1-hESC from ENCODE 3 (ENCFF342EEV) Regulation 
encTfChipPkENCFF205WRX H1-hESC KDM4A Transcription Factor ChIP-seq Peaks of KDM4A in H1-hESC from ENCODE 3 (ENCFF205WRX) Regulation 
encTfChipPkENCFF562OAN H1-hESC KDM1A Transcription Factor ChIP-seq Peaks of KDM1A in H1-hESC from ENCODE 3 (ENCFF562OAN) Regulation 
encTfChipPkENCFF646IUA H1-hESC JUND 2 Transcription Factor ChIP-seq Peaks of JUND in H1-hESC from ENCODE 3 (ENCFF646IUA) Regulation 
encTfChipPkENCFF443HNU H1-hESC JUND 1 Transcription Factor ChIP-seq Peaks of JUND in H1-hESC from ENCODE 3 (ENCFF443HNU) Regulation 
encTfChipPkENCFF312GEN H1-hESC JUN Transcription Factor ChIP-seq Peaks of JUN in H1-hESC from ENCODE 3 (ENCFF312GEN) Regulation 
encTfChipPkENCFF129WNO H1-hESC HDAC6 Transcription Factor ChIP-seq Peaks of HDAC6 in H1-hESC from ENCODE 3 (ENCFF129WNO) Regulation 
encTfChipPkENCFF497YNJ H1-hESC HDAC2 2 Transcription Factor ChIP-seq Peaks of HDAC2 in H1-hESC from ENCODE 3 (ENCFF497YNJ) Regulation 
encTfChipPkENCFF009IVJ H1-hESC HDAC2 1 Transcription Factor ChIP-seq Peaks of HDAC2 in H1-hESC from ENCODE 3 (ENCFF009IVJ) Regulation 
encTfChipPkENCFF225GFQ H1-hESC GABPA Transcription Factor ChIP-seq Peaks of GABPA in H1-hESC from ENCODE 3 (ENCFF225GFQ) Regulation 
encTfChipPkENCFF063OKB H1-hESC FOSL1 Transcription Factor ChIP-seq Peaks of FOSL1 in H1-hESC from ENCODE 3 (ENCFF063OKB) Regulation 
encTfChipPkENCFF483HNU H1-hESC EP300 2 Transcription Factor ChIP-seq Peaks of EP300 in H1-hESC from ENCODE 3 (ENCFF483HNU) Regulation 
encTfChipPkENCFF834UVX H1-hESC EP300 1 Transcription Factor ChIP-seq Peaks of EP300 in H1-hESC from ENCODE 3 (ENCFF834UVX) Regulation 
encTfChipPkENCFF477ANT H1-hESC EGR1 Transcription Factor ChIP-seq Peaks of EGR1 in H1-hESC from ENCODE 3 (ENCFF477ANT) Regulation 
encTfChipPkENCFF821AQO H1-hESC CTCF 2 Transcription Factor ChIP-seq Peaks of CTCF in H1-hESC from ENCODE 3 (ENCFF821AQO) Regulation 
encTfChipPkENCFF368LWM H1-hESC CTCF 1 Transcription Factor ChIP-seq Peaks of CTCF in H1-hESC from ENCODE 3 (ENCFF368LWM) Regulation 
encTfChipPkENCFF658SXI H1-hESC CHD7 Transcription Factor ChIP-seq Peaks of CHD7 in H1-hESC from ENCODE 3 (ENCFF658SXI) Regulation 
encTfChipPkENCFF806HXY H1-hESC CHD1 2 Transcription Factor ChIP-seq Peaks of CHD1 in H1-hESC from ENCODE 3 (ENCFF806HXY) Regulation 
encTfChipPkENCFF549ODQ H1-hESC CHD1 1 Transcription Factor ChIP-seq Peaks of CHD1 in H1-hESC from ENCODE 3 (ENCFF549ODQ) Regulation 
encTfChipPkENCFF962YTC H1-hESC BRCA1 Transcription Factor ChIP-seq Peaks of BRCA1 in H1-hESC from ENCODE 3 (ENCFF962YTC) Regulation 
encTfChipPkENCFF087VWX H1-hESC BCL11A 2 Transcription Factor ChIP-seq Peaks of BCL11A in H1-hESC from ENCODE 3 (ENCFF087VWX) Regulation 
encTfChipPkENCFF533KIC H1-hESC BCL11A 1 Transcription Factor ChIP-seq Peaks of BCL11A in H1-hESC from ENCODE 3 (ENCFF533KIC) Regulation 
encTfChipPkENCFF851YHG H1-hESC BACH1 Transcription Factor ChIP-seq Peaks of BACH1 in H1-hESC from ENCODE 3 (ENCFF851YHG) Regulation 
encTfChipPkENCFF487GLV H1-hESC ATF3 Transcription Factor ChIP-seq Peaks of ATF3 in H1-hESC from ENCODE 3 (ENCFF487GLV) Regulation 
encTfChipPkENCFF777DCR H1-hESC ASH2L Transcription Factor ChIP-seq Peaks of ASH2L in H1-hESC from ENCODE 3 (ENCFF777DCR) Regulation 
encTfChipPkENCFF904USP GM23338 REST Transcription Factor ChIP-seq Peaks of REST in GM23338 from ENCODE 3 (ENCFF904USP) Regulation 
encTfChipPkENCFF621PFM GM23338 NANOG Transcription Factor ChIP-seq Peaks of NANOG in GM23338 from ENCODE 3 (ENCFF621PFM) Regulation 
encTfChipPkENCFF097WNJ GM23338 EZH2 Transcription Factor ChIP-seq Peaks of EZH2 in GM23338 from ENCODE 3 (ENCFF097WNJ) Regulation 
encTfChipPkENCFF511AZU GM23338 ETS1 Transcription Factor ChIP-seq Peaks of ETS1 in GM23338 from ENCODE 3 (ENCFF511AZU) Regulation 
encTfChipPkENCFF960XTR GM23338 CTCF 2 Transcription Factor ChIP-seq Peaks of CTCF in GM23338 from ENCODE 3 (ENCFF960XTR) Regulation 
encTfChipPkENCFF322WKG GM23338 CTCF 1 Transcription Factor ChIP-seq Peaks of CTCF in GM23338 from ENCODE 3 (ENCFF322WKG) Regulation 
encTfChipPkENCFF976SAN GM23248 EZH2 Transcription Factor ChIP-seq Peaks of EZH2 in GM23248 from ENCODE 3 (ENCFF976SAN) Regulation 
encTfChipPkENCFF419PTP GM20000 CTCF Transcription Factor ChIP-seq Peaks of CTCF in GM20000 from ENCODE 3 (ENCFF419PTP) Regulation 
encTfChipPkENCFF084FRB GM13977 CTCF Transcription Factor ChIP-seq Peaks of CTCF in GM13977 from ENCODE 3 (ENCFF084FRB) Regulation 
encTfChipPkENCFF072IHJ GM12892 YY1 Transcription Factor ChIP-seq Peaks of YY1 in GM12892 from ENCODE 3 (ENCFF072IHJ) Regulation 
encTfChipPkENCFF033PLJ GM12892 TAF1 Transcription Factor ChIP-seq Peaks of TAF1 in GM12892 from ENCODE 3 (ENCFF033PLJ) Regulation 
encTfChipPkENCFF403ZEO GM12892 POLR2A Transcription Factor ChIP-seq Peaks of POLR2A in GM12892 from ENCODE 3 (ENCFF403ZEO) Regulation 
encTfChipPkENCFF538VYU GM12891 YY1 Transcription Factor ChIP-seq Peaks of YY1 in GM12891 from ENCODE 3 (ENCFF538VYU) Regulation 
encTfChipPkENCFF471NIK GM12891 TAF1 Transcription Factor ChIP-seq Peaks of TAF1 in GM12891 from ENCODE 3 (ENCFF471NIK) Regulation 
encTfChipPkENCFF744AGB GM12891 SPI1 Transcription Factor ChIP-seq Peaks of SPI1 in GM12891 from ENCODE 3 (ENCFF744AGB) Regulation 
encTfChipPkENCFF113EFE GM12891 POU2F2 Transcription Factor ChIP-seq Peaks of POU2F2 in GM12891 from ENCODE 3 (ENCFF113EFE) Regulation 
encTfChipPkENCFF021HUZ GM12891 POLR2A Transcription Factor ChIP-seq Peaks of POLR2A in GM12891 from ENCODE 3 (ENCFF021HUZ) Regulation 
encTfChipPkENCFF987CQF GM12891 PAX5 Transcription Factor ChIP-seq Peaks of PAX5 in GM12891 from ENCODE 3 (ENCFF987CQF) Regulation 
encTfChipPkENCFF260NAX GM12878 ZZZ3 Transcription Factor ChIP-seq Peaks of ZZZ3 in GM12878 from ENCODE 3 (ENCFF260NAX) Regulation 
encTfChipPkENCFF214NJL GM12878 ZSCAN29 Transcription Factor ChIP-seq Peaks of ZSCAN29 in GM12878 from ENCODE 3 (ENCFF214NJL) Regulation 
encTfChipPkENCFF137BRA GM12878 ZNF687 Transcription Factor ChIP-seq Peaks of ZNF687 in GM12878 from ENCODE 3 (ENCFF137BRA) Regulation 
encTfChipPkENCFF615DTQ GM12878 ZNF592 Transcription Factor ChIP-seq Peaks of ZNF592 in GM12878 from ENCODE 3 (ENCFF615DTQ) Regulation 
encTfChipPkENCFF942MDT GM12878 ZNF384 Transcription Factor ChIP-seq Peaks of ZNF384 in GM12878 from ENCODE 3 (ENCFF942MDT) Regulation 
encTfChipPkENCFF200SLC GM12878 ZNF217 Transcription Factor ChIP-seq Peaks of ZNF217 in GM12878 from ENCODE 3 (ENCFF200SLC) Regulation 
encTfChipPkENCFF676BIG GM12878 ZNF207 Transcription Factor ChIP-seq Peaks of ZNF207 in GM12878 from ENCODE 3 (ENCFF676BIG) Regulation 
encTfChipPkENCFF193POQ GM12878 ZNF143 2 Transcription Factor ChIP-seq Peaks of ZNF143 in GM12878 from ENCODE 3 (ENCFF193POQ) Regulation 
encTfChipPkENCFF153TQR GM12878 ZNF143 1 Transcription Factor ChIP-seq Peaks of ZNF143 in GM12878 from ENCODE 3 (ENCFF153TQR) Regulation 
encTfChipPkENCFF084IUW GM12878 ZBTB40 Transcription Factor ChIP-seq Peaks of ZBTB40 in GM12878 from ENCODE 3 (ENCFF084IUW) Regulation 
encTfChipPkENCFF475DID GM12878 ZBTB33 2 Transcription Factor ChIP-seq Peaks of ZBTB33 in GM12878 from ENCODE 3 (ENCFF475DID) Regulation 
encTfChipPkENCFF773OQL GM12878 ZBTB33 1 Transcription Factor ChIP-seq Peaks of ZBTB33 in GM12878 from ENCODE 3 (ENCFF773OQL) Regulation 
encTfChipPkENCFF630FLK GM12878 ZBED1 Transcription Factor ChIP-seq Peaks of ZBED1 in GM12878 from ENCODE 3 (ENCFF630FLK) Regulation 
encTfChipPkENCFF752IXD GM12878 YY1 2 Transcription Factor ChIP-seq Peaks of YY1 in GM12878 from ENCODE 3 (ENCFF752IXD) Regulation 
encTfChipPkENCFF223MUF GM12878 YY1 1 Transcription Factor ChIP-seq Peaks of YY1 in GM12878 from ENCODE 3 (ENCFF223MUF) Regulation 
encTfChipPkENCFF514DDI GM12878 WRNIP1 Transcription Factor ChIP-seq Peaks of WRNIP1 in GM12878 from ENCODE 3 (ENCFF514DDI) Regulation 
encTfChipPkENCFF514SWA GM12878 USF2 Transcription Factor ChIP-seq Peaks of USF2 in GM12878 from ENCODE 3 (ENCFF514SWA) Regulation 
encTfChipPkENCFF295ZLM GM12878 UBTF Transcription Factor ChIP-seq Peaks of UBTF in GM12878 from ENCODE 3 (ENCFF295ZLM) Regulation 
encTfChipPkENCFF552WAH GM12878 TRIM22 2 Transcription Factor ChIP-seq Peaks of TRIM22 in GM12878 from ENCODE 3 (ENCFF552WAH) Regulation 
encTfChipPkENCFF830TFU GM12878 TRIM22 1 Transcription Factor ChIP-seq Peaks of TRIM22 in GM12878 from ENCODE 3 (ENCFF830TFU) Regulation 
encTfChipPkENCFF152RNE GM12878 TCF7 Transcription Factor ChIP-seq Peaks of TCF7 in GM12878 from ENCODE 3 (ENCFF152RNE) Regulation 
encTfChipPkENCFF897RYA GM12878 TCF12 2 Transcription Factor ChIP-seq Peaks of TCF12 in GM12878 from ENCODE 3 (ENCFF897RYA) Regulation 
encTfChipPkENCFF768VSH GM12878 TCF12 1 Transcription Factor ChIP-seq Peaks of TCF12 in GM12878 from ENCODE 3 (ENCFF768VSH) Regulation 
encTfChipPkENCFF971VHK GM12878 TBX21 Transcription Factor ChIP-seq Peaks of TBX21 in GM12878 from ENCODE 3 (ENCFF971VHK) Regulation 
encTfChipPkENCFF896UZB GM12878 TBP Transcription Factor ChIP-seq Peaks of TBP in GM12878 from ENCODE 3 (ENCFF896UZB) Regulation 
encTfChipPkENCFF392JWA GM12878 TBL1XR1 Transcription Factor ChIP-seq Peaks of TBL1XR1 in GM12878 from ENCODE 3 (ENCFF392JWA) Regulation 
encTfChipPkENCFF540AAP GM12878 TAF1 Transcription Factor ChIP-seq Peaks of TAF1 in GM12878 from ENCODE 3 (ENCFF540AAP) Regulation 
encTfChipPkENCFF547FUI GM12878 SUZ12 Transcription Factor ChIP-seq Peaks of SUZ12 in GM12878 from ENCODE 3 (ENCFF547FUI) Regulation 
encTfChipPkENCFF069YVD GM12878 SUPT20H Transcription Factor ChIP-seq Peaks of SUPT20H in GM12878 from ENCODE 3 (ENCFF069YVD) Regulation 
encTfChipPkENCFF383YEA GM12878 STAT5A Transcription Factor ChIP-seq Peaks of STAT5A in GM12878 from ENCODE 3 (ENCFF383YEA) Regulation 
encTfChipPkENCFF923CHO GM12878 STAT3 Transcription Factor ChIP-seq Peaks of STAT3 in GM12878 from ENCODE 3 (ENCFF923CHO) Regulation 
encTfChipPkENCFF323QQU GM12878 STAT1 Transcription Factor ChIP-seq Peaks of STAT1 in GM12878 from ENCODE 3 (ENCFF323QQU) Regulation 
encTfChipPkENCFF182IFE GM12878 SRF 3 Transcription Factor ChIP-seq Peaks of SRF in GM12878 from ENCODE 3 (ENCFF182IFE) Regulation 
encTfChipPkENCFF829SEJ GM12878 SRF 2 Transcription Factor ChIP-seq Peaks of SRF in GM12878 from ENCODE 3 (ENCFF829SEJ) Regulation 
encTfChipPkENCFF766WWB GM12878 SRF 1 Transcription Factor ChIP-seq Peaks of SRF in GM12878 from ENCODE 3 (ENCFF766WWB) Regulation 
encTfChipPkENCFF572RPI GM12878 SMC3 Transcription Factor ChIP-seq Peaks of SMC3 in GM12878 from ENCODE 3 (ENCFF572RPI) Regulation 
encTfChipPkENCFF052STI GM12878 SMARCA5 Transcription Factor ChIP-seq Peaks of SMARCA5 in GM12878 from ENCODE 3 (ENCFF052STI) Regulation 
encTfChipPkENCFF855SJG GM12878 SMAD5 Transcription Factor ChIP-seq Peaks of SMAD5 in GM12878 from ENCODE 3 (ENCFF855SJG) Regulation 
encTfChipPkENCFF987PGY GM12878 SMAD1 Transcription Factor ChIP-seq Peaks of SMAD1 in GM12878 from ENCODE 3 (ENCFF987PGY) Regulation 
encTfChipPkENCFF903KEI GM12878 SKIL Transcription Factor ChIP-seq Peaks of SKIL in GM12878 from ENCODE 3 (ENCFF903KEI) Regulation 
encTfChipPkENCFF864TFH GM12878 SIX5 Transcription Factor ChIP-seq Peaks of SIX5 in GM12878 from ENCODE 3 (ENCFF864TFH) Regulation 
encTfChipPkENCFF050CYK GM12878 SIN3A Transcription Factor ChIP-seq Peaks of SIN3A in GM12878 from ENCODE 3 (ENCFF050CYK) Regulation 
encTfChipPkENCFF313BDA GM12878 RXRA Transcription Factor ChIP-seq Peaks of RXRA in GM12878 from ENCODE 3 (ENCFF313BDA) Regulation 
encTfChipPkENCFF677QUK GM12878 RUNX3 Transcription Factor ChIP-seq Peaks of RUNX3 in GM12878 from ENCODE 3 (ENCFF677QUK) Regulation 
encTfChipPkENCFF259LNG GM12878 RFX5 Transcription Factor ChIP-seq Peaks of RFX5 in GM12878 from ENCODE 3 (ENCFF259LNG) Regulation 
encTfChipPkENCFF313CII GM12878 REST Transcription Factor ChIP-seq Peaks of REST in GM12878 from ENCODE 3 (ENCFF313CII) Regulation 
encTfChipPkENCFF105YDI GM12878 RELB Transcription Factor ChIP-seq Peaks of RELB in GM12878 from ENCODE 3 (ENCFF105YDI) Regulation 
encTfChipPkENCFF470ZMK GM12878 RCOR1 Transcription Factor ChIP-seq Peaks of RCOR1 in GM12878 from ENCODE 3 (ENCFF470ZMK) Regulation 
encTfChipPkENCFF687SSY GM12878 RBBP5 Transcription Factor ChIP-seq Peaks of RBBP5 in GM12878 from ENCODE 3 (ENCFF687SSY) Regulation 
encTfChipPkENCFF034OSV GM12878 RB1 Transcription Factor ChIP-seq Peaks of RB1 in GM12878 from ENCODE 3 (ENCFF034OSV) Regulation 
encTfChipPkENCFF996NBR GM12878 RAD51 Transcription Factor ChIP-seq Peaks of RAD51 in GM12878 from ENCODE 3 (ENCFF996NBR) Regulation 
encTfChipPkENCFF654EGO GM12878 RAD21 Transcription Factor ChIP-seq Peaks of RAD21 in GM12878 from ENCODE 3 (ENCFF654EGO) Regulation 
encTfChipPkENCFF455ZLJ GM12878 POLR2A Transcription Factor ChIP-seq Peaks of POLR2A in GM12878 from ENCODE 3 (ENCFF455ZLJ) Regulation 
encTfChipPkENCFF335ADU GM12878 PKNOX1 Transcription Factor ChIP-seq Peaks of PKNOX1 in GM12878 from ENCODE 3 (ENCFF335ADU) Regulation 
encTfChipPkENCFF926LHG GM12878 PBX3 Transcription Factor ChIP-seq Peaks of PBX3 in GM12878 from ENCODE 3 (ENCFF926LHG) Regulation 
encTfChipPkENCFF992JWY GM12878 PAX8 Transcription Factor ChIP-seq Peaks of PAX8 in GM12878 from ENCODE 3 (ENCFF992JWY) Regulation 
encTfChipPkENCFF946SAG GM12878 PAX5 Transcription Factor ChIP-seq Peaks of PAX5 in GM12878 from ENCODE 3 (ENCFF946SAG) Regulation 
encTfChipPkENCFF652BRY GM12878 NRF1 Transcription Factor ChIP-seq Peaks of NRF1 in GM12878 from ENCODE 3 (ENCFF652BRY) Regulation 
encTfChipPkENCFF434HVY GM12878 NR2C2 Transcription Factor ChIP-seq Peaks of NR2C2 in GM12878 from ENCODE 3 (ENCFF434HVY) Regulation 
encTfChipPkENCFF510NDO GM12878 NFYB Transcription Factor ChIP-seq Peaks of NFYB in GM12878 from ENCODE 3 (ENCFF510NDO) Regulation 
encTfChipPkENCFF278GJK GM12878 NFYA Transcription Factor ChIP-seq Peaks of NFYA in GM12878 from ENCODE 3 (ENCFF278GJK) Regulation 
encTfChipPkENCFF860IXB GM12878 NFXL1 Transcription Factor ChIP-seq Peaks of NFXL1 in GM12878 from ENCODE 3 (ENCFF860IXB) Regulation 
encTfChipPkENCFF480WDX GM12878 NFIC Transcription Factor ChIP-seq Peaks of NFIC in GM12878 from ENCODE 3 (ENCFF480WDX) Regulation 
encTfChipPkENCFF743UMZ GM12878 NFE2 Transcription Factor ChIP-seq Peaks of NFE2 in GM12878 from ENCODE 3 (ENCFF743UMZ) Regulation 
encTfChipPkENCFF704PDA GM12878 NFATC3 Transcription Factor ChIP-seq Peaks of NFATC3 in GM12878 from ENCODE 3 (ENCFF704PDA) Regulation 
encTfChipPkENCFF138ZBJ GM12878 NFATC1 Transcription Factor ChIP-seq Peaks of NFATC1 in GM12878 from ENCODE 3 (ENCFF138ZBJ) Regulation 
encTfChipPkENCFF811VEN GM12878 NBN Transcription Factor ChIP-seq Peaks of NBN in GM12878 from ENCODE 3 (ENCFF811VEN) Regulation 
encTfChipPkENCFF402TSJ GM12878 MYB Transcription Factor ChIP-seq Peaks of MYB in GM12878 from ENCODE 3 (ENCFF402TSJ) Regulation 
encTfChipPkENCFF199HGX GM12878 MXI1 Transcription Factor ChIP-seq Peaks of MXI1 in GM12878 from ENCODE 3 (ENCFF199HGX) Regulation 
encTfChipPkENCFF661FMB GM12878 MTA3 Transcription Factor ChIP-seq Peaks of MTA3 in GM12878 from ENCODE 3 (ENCFF661FMB) Regulation 
encTfChipPkENCFF587POH GM12878 MTA2 Transcription Factor ChIP-seq Peaks of MTA2 in GM12878 from ENCODE 3 (ENCFF587POH) Regulation 
encTfChipPkENCFF125MEN GM12878 MLLT1 Transcription Factor ChIP-seq Peaks of MLLT1 in GM12878 from ENCODE 3 (ENCFF125MEN) Regulation 
encTfChipPkENCFF830BRO GM12878 MEF2C Transcription Factor ChIP-seq Peaks of MEF2C in GM12878 from ENCODE 3 (ENCFF830BRO) Regulation 
encTfChipPkENCFF623FAW GM12878 MEF2B Transcription Factor ChIP-seq Peaks of MEF2B in GM12878 from ENCODE 3 (ENCFF623FAW) Regulation 
encTfChipPkENCFF958GXF GM12878 MEF2A Transcription Factor ChIP-seq Peaks of MEF2A in GM12878 from ENCODE 3 (ENCFF958GXF) Regulation 
encTfChipPkENCFF270NAL GM12878 MAX Transcription Factor ChIP-seq Peaks of MAX in GM12878 from ENCODE 3 (ENCFF270NAL) Regulation 
encTfChipPkENCFF186AWV GM12878 MAFK Transcription Factor ChIP-seq Peaks of MAFK in GM12878 from ENCODE 3 (ENCFF186AWV) Regulation 
encTfChipPkENCFF417WPC GM12878 KLF5 Transcription Factor ChIP-seq Peaks of KLF5 in GM12878 from ENCODE 3 (ENCFF417WPC) Regulation 
encTfChipPkENCFF799KZP GM12878 KDM1A Transcription Factor ChIP-seq Peaks of KDM1A in GM12878 from ENCODE 3 (ENCFF799KZP) Regulation 
encTfChipPkENCFF710ROZ GM12878 KAT2A Transcription Factor ChIP-seq Peaks of KAT2A in GM12878 from ENCODE 3 (ENCFF710ROZ) Regulation 
encTfChipPkENCFF873DJD GM12878 JUND Transcription Factor ChIP-seq Peaks of JUND in GM12878 from ENCODE 3 (ENCFF873DJD) Regulation 
encTfChipPkENCFF478XNA GM12878 JUNB Transcription Factor ChIP-seq Peaks of JUNB in GM12878 from ENCODE 3 (ENCFF478XNA) Regulation 
encTfChipPkENCFF843HDK GM12878 IRF5 Transcription Factor ChIP-seq Peaks of IRF5 in GM12878 from ENCODE 3 (ENCFF843HDK) Regulation 
encTfChipPkENCFF720YMW GM12878 IRF4 Transcription Factor ChIP-seq Peaks of IRF4 in GM12878 from ENCODE 3 (ENCFF720YMW) Regulation 
encTfChipPkENCFF719MXF GM12878 IRF3 2 Transcription Factor ChIP-seq Peaks of IRF3 in GM12878 from ENCODE 3 (ENCFF719MXF) Regulation 
encTfChipPkENCFF604AZX GM12878 IRF3 1 Transcription Factor ChIP-seq Peaks of IRF3 in GM12878 from ENCODE 3 (ENCFF604AZX) Regulation 
encTfChipPkENCFF088OLI GM12878 IKZF2 2 Transcription Factor ChIP-seq Peaks of IKZF2 in GM12878 from ENCODE 3 (ENCFF088OLI) Regulation 
encTfChipPkENCFF526WVH GM12878 IKZF2 1 Transcription Factor ChIP-seq Peaks of IKZF2 in GM12878 from ENCODE 3 (ENCFF526WVH) Regulation 
encTfChipPkENCFF018NNF GM12878 IKZF1 3 Transcription Factor ChIP-seq Peaks of IKZF1 in GM12878 from ENCODE 3 (ENCFF018NNF) Regulation 
encTfChipPkENCFF968NOG GM12878 IKZF1 2 Transcription Factor ChIP-seq Peaks of IKZF1 in GM12878 from ENCODE 3 (ENCFF968NOG) Regulation 
encTfChipPkENCFF197ABX GM12878 IKZF1 1 Transcription Factor ChIP-seq Peaks of IKZF1 in GM12878 from ENCODE 3 (ENCFF197ABX) Regulation 
encTfChipPkENCFF603BID GM12878 HSF1 Transcription Factor ChIP-seq Peaks of HSF1 in GM12878 from ENCODE 3 (ENCFF603BID) Regulation 
encTfChipPkENCFF248JAL GM12878 HDAC6 Transcription Factor ChIP-seq Peaks of HDAC6 in GM12878 from ENCODE 3 (ENCFF248JAL) Regulation 
encTfChipPkENCFF299UPZ GM12878 HDAC2 Transcription Factor ChIP-seq Peaks of HDAC2 in GM12878 from ENCODE 3 (ENCFF299UPZ) Regulation 
encTfChipPkENCFF722QBB GM12878 HCFC1 Transcription Factor ChIP-seq Peaks of HCFC1 in GM12878 from ENCODE 3 (ENCFF722QBB) Regulation 
encTfChipPkENCFF298AIX GM12878 GATAD2B Transcription Factor ChIP-seq Peaks of GATAD2B in GM12878 from ENCODE 3 (ENCFF298AIX) Regulation 
encTfChipPkENCFF946ACA GM12878 GABPA Transcription Factor ChIP-seq Peaks of GABPA in GM12878 from ENCODE 3 (ENCFF946ACA) Regulation 
encTfChipPkENCFF990MTR GM12878 FOXK2 Transcription Factor ChIP-seq Peaks of FOXK2 in GM12878 from ENCODE 3 (ENCFF990MTR) Regulation 
encTfChipPkENCFF615NYO GM12878 EZH2 Transcription Factor ChIP-seq Peaks of EZH2 in GM12878 from ENCODE 3 (ENCFF615NYO) Regulation 
encTfChipPkENCFF745ANU GM12878 ETV6 2 Transcription Factor ChIP-seq Peaks of ETV6 in GM12878 from ENCODE 3 (ENCFF745ANU) Regulation 
encTfChipPkENCFF116AMK GM12878 ETV6 1 Transcription Factor ChIP-seq Peaks of ETV6 in GM12878 from ENCODE 3 (ENCFF116AMK) Regulation 
encTfChipPkENCFF980VOD GM12878 ETS1 Transcription Factor ChIP-seq Peaks of ETS1 in GM12878 from ENCODE 3 (ENCFF980VOD) Regulation 
encTfChipPkENCFF722LJP GM12878 ESRRA Transcription Factor ChIP-seq Peaks of ESRRA in GM12878 from ENCODE 3 (ENCFF722LJP) Regulation 
encTfChipPkENCFF510FUM GM12878 EP300 3 Transcription Factor ChIP-seq Peaks of EP300 in GM12878 from ENCODE 3 (ENCFF510FUM) Regulation 
encTfChipPkENCFF080HJX GM12878 EP300 2 Transcription Factor ChIP-seq Peaks of EP300 in GM12878 from ENCODE 3 (ENCFF080HJX) Regulation 
encTfChipPkENCFF865UDD GM12878 EP300 1 Transcription Factor ChIP-seq Peaks of EP300 in GM12878 from ENCODE 3 (ENCFF865UDD) Regulation 
encTfChipPkENCFF432AQP GM12878 ELK1 Transcription Factor ChIP-seq Peaks of ELK1 in GM12878 from ENCODE 3 (ENCFF432AQP) Regulation 
encTfChipPkENCFF948CPI GM12878 ELF1 Transcription Factor ChIP-seq Peaks of ELF1 in GM12878 from ENCODE 3 (ENCFF948CPI) Regulation 
encTfChipPkENCFF341EJT GM12878 EGR1 Transcription Factor ChIP-seq Peaks of EGR1 in GM12878 from ENCODE 3 (ENCFF341EJT) Regulation 
encTfChipPkENCFF023ALY GM12878 EED Transcription Factor ChIP-seq Peaks of EED in GM12878 from ENCODE 3 (ENCFF023ALY) Regulation 
encTfChipPkENCFF249SVT GM12878 EBF1 Transcription Factor ChIP-seq Peaks of EBF1 in GM12878 from ENCODE 3 (ENCFF249SVT) Regulation 
encTfChipPkENCFF035GFS GM12878 E4F1 Transcription Factor ChIP-seq Peaks of E4F1 in GM12878 from ENCODE 3 (ENCFF035GFS) Regulation 
encTfChipPkENCFF412GFI GM12878 E2F8 Transcription Factor ChIP-seq Peaks of E2F8 in GM12878 from ENCODE 3 (ENCFF412GFI) Regulation 
encTfChipPkENCFF687SFB GM12878 E2F4 Transcription Factor ChIP-seq Peaks of E2F4 in GM12878 from ENCODE 3 (ENCFF687SFB) Regulation 
encTfChipPkENCFF771IAW GM12878 DPF2 Transcription Factor ChIP-seq Peaks of DPF2 in GM12878 from ENCODE 3 (ENCFF771IAW) Regulation 
encTfChipPkENCFF567NFS GM12878 CUX1 Transcription Factor ChIP-seq Peaks of CUX1 in GM12878 from ENCODE 3 (ENCFF567NFS) Regulation 
encTfChipPkENCFF960ZGP GM12878 CTCF 2 Transcription Factor ChIP-seq Peaks of CTCF in GM12878 from ENCODE 3 (ENCFF960ZGP) Regulation 
encTfChipPkENCFF356LIU GM12878 CTCF 1 Transcription Factor ChIP-seq Peaks of CTCF in GM12878 from ENCODE 3 (ENCFF356LIU) Regulation 
encTfChipPkENCFF091YID GM12878 CREM Transcription Factor ChIP-seq Peaks of CREM in GM12878 from ENCODE 3 (ENCFF091YID) Regulation 
encTfChipPkENCFF249SIN GM12878 CHD4 Transcription Factor ChIP-seq Peaks of CHD4 in GM12878 from ENCODE 3 (ENCFF249SIN) Regulation 
encTfChipPkENCFF863CTN GM12878 CHD1 Transcription Factor ChIP-seq Peaks of CHD1 in GM12878 from ENCODE 3 (ENCFF863CTN) Regulation 
encTfChipPkENCFF786YYI GM12878 CEBPB Transcription Factor ChIP-seq Peaks of CEBPB in GM12878 from ENCODE 3 (ENCFF786YYI) Regulation 
encTfChipPkENCFF417SVR GM12878 CBX5 Transcription Factor ChIP-seq Peaks of CBX5 in GM12878 from ENCODE 3 (ENCFF417SVR) Regulation 
encTfChipPkENCFF552QOA GM12878 CBX3 Transcription Factor ChIP-seq Peaks of CBX3 in GM12878 from ENCODE 3 (ENCFF552QOA) Regulation 
encTfChipPkENCFF070SOX GM12878 CBFB Transcription Factor ChIP-seq Peaks of CBFB in GM12878 from ENCODE 3 (ENCFF070SOX) Regulation 
encTfChipPkENCFF005JKU GM12878 BRCA1 Transcription Factor ChIP-seq Peaks of BRCA1 in GM12878 from ENCODE 3 (ENCFF005JKU) Regulation 
encTfChipPkENCFF592LPO GM12878 BMI1 Transcription Factor ChIP-seq Peaks of BMI1 in GM12878 from ENCODE 3 (ENCFF592LPO) Regulation 
encTfChipPkENCFF370ZNL GM12878 BHLHE40 2 Transcription Factor ChIP-seq Peaks of BHLHE40 in GM12878 from ENCODE 3 (ENCFF370ZNL) Regulation 
encTfChipPkENCFF622HGF GM12878 BHLHE40 1 Transcription Factor ChIP-seq Peaks of BHLHE40 in GM12878 from ENCODE 3 (ENCFF622HGF) Regulation 
encTfChipPkENCFF247MHT GM12878 BCL3 Transcription Factor ChIP-seq Peaks of BCL3 in GM12878 from ENCODE 3 (ENCFF247MHT) Regulation 
encTfChipPkENCFF383HAY GM12878 BCL11A Transcription Factor ChIP-seq Peaks of BCL11A in GM12878 from ENCODE 3 (ENCFF383HAY) Regulation 
encTfChipPkENCFF832YIE GM12878 BATF Transcription Factor ChIP-seq Peaks of BATF in GM12878 from ENCODE 3 (ENCFF832YIE) Regulation 
encTfChipPkENCFF725YZH GM12878 BACH1 Transcription Factor ChIP-seq Peaks of BACH1 in GM12878 from ENCODE 3 (ENCFF725YZH) Regulation 
encTfChipPkENCFF495PWL GM12878 ATF7 Transcription Factor ChIP-seq Peaks of ATF7 in GM12878 from ENCODE 3 (ENCFF495PWL) Regulation 
encTfChipPkENCFF806KKM GM12878 ATF2 2 Transcription Factor ChIP-seq Peaks of ATF2 in GM12878 from ENCODE 3 (ENCFF806KKM) Regulation 
encTfChipPkENCFF210HTZ GM12878 ATF2 1 Transcription Factor ChIP-seq Peaks of ATF2 in GM12878 from ENCODE 3 (ENCFF210HTZ) Regulation 
encTfChipPkENCFF096XRG GM12878 ASH2L Transcription Factor ChIP-seq Peaks of ASH2L in GM12878 from ENCODE 3 (ENCFF096XRG) Regulation 
encTfChipPkENCFF758RQJ GM12878 ARNT Transcription Factor ChIP-seq Peaks of ARNT in GM12878 from ENCODE 3 (ENCFF758RQJ) Regulation 
encTfChipPkENCFF003VDB GM12878 ARID3A Transcription Factor ChIP-seq Peaks of ARID3A in GM12878 from ENCODE 3 (ENCFF003VDB) Regulation 
encTfChipPkENCFF834WWA GM12874 CTCF Transcription Factor ChIP-seq Peaks of CTCF in GM12874 from ENCODE 3 (ENCFF834WWA) Regulation 
encTfChipPkENCFF913EEI GM12873 CTCF Transcription Factor ChIP-seq Peaks of CTCF in GM12873 from ENCODE 3 (ENCFF913EEI) Regulation 
encTfChipPkENCFF965YZI GM12865 CTCF Transcription Factor ChIP-seq Peaks of CTCF in GM12865 from ENCODE 3 (ENCFF965YZI) Regulation 
encTfChipPkENCFF751IKT GM12864 CTCF Transcription Factor ChIP-seq Peaks of CTCF in GM12864 from ENCODE 3 (ENCFF751IKT) Regulation 
encTfChipPkENCFF178PUI GM10266 CTCF Transcription Factor ChIP-seq Peaks of CTCF in GM10266 from ENCODE 3 (ENCFF178PUI) Regulation 
encTfChipPkENCFF329TZO GM08714 ZNF274 Transcription Factor ChIP-seq Peaks of ZNF274 in GM08714 from ENCODE 3 (ENCFF329TZO) Regulation 
encTfChipPkENCFF897RQN GM06990 CTCF Transcription Factor ChIP-seq Peaks of CTCF in GM06990 from ENCODE 3 (ENCFF897RQN) Regulation 
encTfChipPkENCFF837RIT DOHH2 CTCF Transcription Factor ChIP-seq Peaks of CTCF in DOHH2 from ENCODE 3 (ENCFF837RIT) Regulation 
encTfChipPkENCFF990ZZT Caco-2 CTCF Transcription Factor ChIP-seq Peaks of CTCF in Caco-2 from ENCODE 3 (ENCFF990ZZT) Regulation 
encTfChipPkENCFF300XXC CD14+monocyte CTCF Transcription Factor ChIP-seq Peaks of CTCF in CD14-positive_monocyte from ENCODE 3 (ENCFF300XXC) Regulation 
encTfChipPkENCFF856AUX C4-2B ZFX Transcription Factor ChIP-seq Peaks of ZFX in C4-2B from ENCODE 3 (ENCFF856AUX) Regulation 
encTfChipPkENCFF675JFN C4-2B CTCF Transcription Factor ChIP-seq Peaks of CTCF in C4-2B from ENCODE 3 (ENCFF675JFN) Regulation 
encTfChipPkENCFF910TER B_cell CTCF Transcription Factor ChIP-seq Peaks of CTCF in B_cell from ENCODE 3 (ENCFF910TER) Regulation 
encTfChipPkENCFF704JHR BJ CTCF Transcription Factor ChIP-seq Peaks of CTCF in BJ from ENCODE 3 (ENCFF704JHR) Regulation 
encTfChipPkENCFF594OZI BE2C CTCF Transcription Factor ChIP-seq Peaks of CTCF in BE2C from ENCODE 3 (ENCFF594OZI) Regulation 
encTfChipPkENCFF100IYW AG10803 CTCF Transcription Factor ChIP-seq Peaks of CTCF in AG10803 from ENCODE 3 (ENCFF100IYW) Regulation 
encTfChipPkENCFF119XBW AG09319 CTCF Transcription Factor ChIP-seq Peaks of CTCF in AG09319 from ENCODE 3 (ENCFF119XBW) Regulation 
encTfChipPkENCFF826NCK AG09309 CTCF Transcription Factor ChIP-seq Peaks of CTCF in AG09309 from ENCODE 3 (ENCFF826NCK) Regulation 
encTfChipPkENCFF788LNG AG04450 CTCF Transcription Factor ChIP-seq Peaks of CTCF in AG04450 from ENCODE 3 (ENCFF788LNG) Regulation 
encTfChipPkENCFF652LEH AG04449 CTCF Transcription Factor ChIP-seq Peaks of CTCF in AG04449 from ENCODE 3 (ENCFF652LEH) Regulation 
encTfChipPkENCFF807XMX A673 EZH2 Transcription Factor ChIP-seq Peaks of EZH2 in A673 from ENCODE 3 (ENCFF807XMX) Regulation 
encTfChipPkENCFF695QMG A673 CTCF Transcription Factor ChIP-seq Peaks of CTCF in A673 from ENCODE 3 (ENCFF695QMG) Regulation 
encTfChipPkENCFF593ZJA A549 ZBTB33 Transcription Factor ChIP-seq Peaks of ZBTB33 in A549 from ENCODE 3 (ENCFF593ZJA) Regulation 
encTfChipPkENCFF613DTQ A549 YY1 Transcription Factor ChIP-seq Peaks of YY1 in A549 from ENCODE 3 (ENCFF613DTQ) Regulation 
encTfChipPkENCFF593EOW A549 USF2 Transcription Factor ChIP-seq Peaks of USF2 in A549 from ENCODE 3 (ENCFF593EOW) Regulation 
encTfChipPkENCFF228CDD A549 TCF12 Transcription Factor ChIP-seq Peaks of TCF12 in A549 from ENCODE 3 (ENCFF228CDD) Regulation 
encTfChipPkENCFF886KDK A549 TAF1 Transcription Factor ChIP-seq Peaks of TAF1 in A549 from ENCODE 3 (ENCFF886KDK) Regulation 
encTfChipPkENCFF483YCC A549 SREBF2 Transcription Factor ChIP-seq Peaks of SREBF2 in A549 from ENCODE 3 (ENCFF483YCC) Regulation 
encTfChipPkENCFF624DDK A549 SREBF1 Transcription Factor ChIP-seq Peaks of SREBF1 in A549 from ENCODE 3 (ENCFF624DDK) Regulation 
encTfChipPkENCFF404OSB A549 SP1 Transcription Factor ChIP-seq Peaks of SP1 in A549 from ENCODE 3 (ENCFF404OSB) Regulation 
encTfChipPkENCFF256LDD A549 SMC3 Transcription Factor ChIP-seq Peaks of SMC3 in A549 from ENCODE 3 (ENCFF256LDD) Regulation 
encTfChipPkENCFF189NMX A549 SIX5 Transcription Factor ChIP-seq Peaks of SIX5 in A549 from ENCODE 3 (ENCFF189NMX) Regulation 
encTfChipPkENCFF708HTR A549 SIN3A 2 Transcription Factor ChIP-seq Peaks of SIN3A in A549 from ENCODE 3 (ENCFF708HTR) Regulation 
encTfChipPkENCFF567BJI A549 SIN3A 1 Transcription Factor ChIP-seq Peaks of SIN3A in A549 from ENCODE 3 (ENCFF567BJI) Regulation 
encTfChipPkENCFF110EOX A549 RNF2 Transcription Factor ChIP-seq Peaks of RNF2 in A549 from ENCODE 3 (ENCFF110EOX) Regulation 
encTfChipPkENCFF179WDI A549 RFX5 Transcription Factor ChIP-seq Peaks of RFX5 in A549 from ENCODE 3 (ENCFF179WDI) Regulation 
encTfChipPkENCFF706DRE A549 REST 2 Transcription Factor ChIP-seq Peaks of REST in A549 from ENCODE 3 (ENCFF706DRE) Regulation 
encTfChipPkENCFF107EWI A549 REST 1 Transcription Factor ChIP-seq Peaks of REST in A549 from ENCODE 3 (ENCFF107EWI) Regulation 
encTfChipPkENCFF993WZP A549 RCOR1 Transcription Factor ChIP-seq Peaks of RCOR1 in A549 from ENCODE 3 (ENCFF993WZP) Regulation 
encTfChipPkENCFF897QCA A549 RAD21 Transcription Factor ChIP-seq Peaks of RAD21 in A549 from ENCODE 3 (ENCFF897QCA) Regulation 
encTfChipPkENCFF664KTN A549 POLR2A 2 Transcription Factor ChIP-seq Peaks of POLR2A in A549 from ENCODE 3 (ENCFF664KTN) Regulation 
encTfChipPkENCFF915LKZ A549 POLR2A 1 Transcription Factor ChIP-seq Peaks of POLR2A in A549 from ENCODE 3 (ENCFF915LKZ) Regulation 
encTfChipPkENCFF907WHF A549 PHF8 Transcription Factor ChIP-seq Peaks of PHF8 in A549 from ENCODE 3 (ENCFF907WHF) Regulation 
encTfChipPkENCFF463DJO A549 NR3C1 5 Transcription Factor ChIP-seq Peaks of NR3C1 in A549 from ENCODE 3 (ENCFF463DJO) Regulation 
encTfChipPkENCFF114SRD A549 NR3C1 4 Transcription Factor ChIP-seq Peaks of NR3C1 in A549 from ENCODE 3 (ENCFF114SRD) Regulation 
encTfChipPkENCFF963CGV A549 NR3C1 3 Transcription Factor ChIP-seq Peaks of NR3C1 in A549 from ENCODE 3 (ENCFF963CGV) Regulation 
encTfChipPkENCFF514IGC A549 NR3C1 2 Transcription Factor ChIP-seq Peaks of NR3C1 in A549 from ENCODE 3 (ENCFF514IGC) Regulation 
encTfChipPkENCFF714KXI A549 NR3C1 1 Transcription Factor ChIP-seq Peaks of NR3C1 in A549 from ENCODE 3 (ENCFF714KXI) Regulation 
encTfChipPkENCFF418TUX A549 NFE2L2 Transcription Factor ChIP-seq Peaks of NFE2L2 in A549 from ENCODE 3 (ENCFF418TUX) Regulation 
encTfChipPkENCFF542GMN A549 MYC Transcription Factor ChIP-seq Peaks of MYC in A549 from ENCODE 3 (ENCFF542GMN) Regulation 
encTfChipPkENCFF813WJW A549 MAFK Transcription Factor ChIP-seq Peaks of MAFK in A549 from ENCODE 3 (ENCFF813WJW) Regulation 
encTfChipPkENCFF149INM A549 KDM5A Transcription Factor ChIP-seq Peaks of KDM5A in A549 from ENCODE 3 (ENCFF149INM) Regulation 
encTfChipPkENCFF316CBQ A549 KDM1A Transcription Factor ChIP-seq Peaks of KDM1A in A549 from ENCODE 3 (ENCFF316CBQ) Regulation 
encTfChipPkENCFF587VEY A549 JUND Transcription Factor ChIP-seq Peaks of JUND in A549 from ENCODE 3 (ENCFF587VEY) Regulation 
encTfChipPkENCFF127HJG A549 JUN Transcription Factor ChIP-seq Peaks of JUN in A549 from ENCODE 3 (ENCFF127HJG) Regulation 
encTfChipPkENCFF814DAF A549 HDAC2 Transcription Factor ChIP-seq Peaks of HDAC2 in A549 from ENCODE 3 (ENCFF814DAF) Regulation 
encTfChipPkENCFF520GJC A549 GABPA Transcription Factor ChIP-seq Peaks of GABPA in A549 from ENCODE 3 (ENCFF520GJC) Regulation 
encTfChipPkENCFF167BKY A549 FOXA1 2 Transcription Factor ChIP-seq Peaks of FOXA1 in A549 from ENCODE 3 (ENCFF167BKY) Regulation 
encTfChipPkENCFF297HAX A549 FOXA1 1 Transcription Factor ChIP-seq Peaks of FOXA1 in A549 from ENCODE 3 (ENCFF297HAX) Regulation 
encTfChipPkENCFF808RWZ A549 FOSL2 Transcription Factor ChIP-seq Peaks of FOSL2 in A549 from ENCODE 3 (ENCFF808RWZ) Regulation 
encTfChipPkENCFF896WFR A549 ETS1 Transcription Factor ChIP-seq Peaks of ETS1 in A549 from ENCODE 3 (ENCFF896WFR) Regulation 
encTfChipPkENCFF558UWY A549 ESRRA Transcription Factor ChIP-seq Peaks of ESRRA in A549 from ENCODE 3 (ENCFF558UWY) Regulation 
encTfChipPkENCFF605JXG A549 ELK1 Transcription Factor ChIP-seq Peaks of ELK1 in A549 from ENCODE 3 (ENCFF605JXG) Regulation 
encTfChipPkENCFF935ZUW A549 ELF1 Transcription Factor ChIP-seq Peaks of ELF1 in A549 from ENCODE 3 (ENCFF935ZUW) Regulation 
encTfChipPkENCFF199OOU A549 EHMT2 Transcription Factor ChIP-seq Peaks of EHMT2 in A549 from ENCODE 3 (ENCFF199OOU) Regulation 
encTfChipPkENCFF646TUX A549 CTCF 3 Transcription Factor ChIP-seq Peaks of CTCF in A549 from ENCODE 3 (ENCFF646TUX) Regulation 
encTfChipPkENCFF615GTV A549 CTCF 2 Transcription Factor ChIP-seq Peaks of CTCF in A549 from ENCODE 3 (ENCFF615GTV) Regulation 
encTfChipPkENCFF535MZG A549 CTCF 1 Transcription Factor ChIP-seq Peaks of CTCF in A549 from ENCODE 3 (ENCFF535MZG) Regulation 
encTfChipPkENCFF186ZET A549 CREB1 2 Transcription Factor ChIP-seq Peaks of CREB1 in A549 from ENCODE 3 (ENCFF186ZET) Regulation 
encTfChipPkENCFF576PUH A549 CREB1 1 Transcription Factor ChIP-seq Peaks of CREB1 in A549 from ENCODE 3 (ENCFF576PUH) Regulation 
encTfChipPkENCFF766YPH A549 CHD4 Transcription Factor ChIP-seq Peaks of CHD4 in A549 from ENCODE 3 (ENCFF766YPH) Regulation 
encTfChipPkENCFF047UIF A549 CEBPB Transcription Factor ChIP-seq Peaks of CEBPB in A549 from ENCODE 3 (ENCFF047UIF) Regulation 
encTfChipPkENCFF330OCU A549 CBX8 Transcription Factor ChIP-seq Peaks of CBX8 in A549 from ENCODE 3 (ENCFF330OCU) Regulation 
encTfChipPkENCFF208AXT A549 CBX2 Transcription Factor ChIP-seq Peaks of CBX2 in A549 from ENCODE 3 (ENCFF208AXT) Regulation 
encTfChipPkENCFF093ZAB A549 BCL3 Transcription Factor ChIP-seq Peaks of BCL3 in A549 from ENCODE 3 (ENCFF093ZAB) Regulation 
encTfChipPkENCFF851UTY A549 ATF3 Transcription Factor ChIP-seq Peaks of ATF3 in A549 from ENCODE 3 (ENCFF851UTY) Regulation 
covidHgiGwasR4Pval COVID GWAS v4 COVID risk variants from GWAS meta-analyses by the COVID-19 Host Genetics Initiative (Rel 4, Oct 2020) Phenotypes, Variants, and Literature Description This track set shows the results of the GWAS Data Release 4 (October 2020) from the COVID-19 Host Genetics Initiative (HGI): a collaborative effort to facilitate the generation of meta-analysis across multiple studies contributed by partners world-wide to identify the genetic determinants of SARS-CoV-2 infection susceptibility, disease severity and outcomes. The COVID-19 HGI also aims to provide a platform for study partners to share analytical results in the form of summary statistics and/or individual level data of COVID-19 host genetics research. At the time of this release, a total of 137 studies were registered with this effort. The specific phenotypes studied by the COVID-19 HGI are those that benefit from maximal sample size: primary analysis on disease severity. For the Data Release 4 the number of cases have increased by nearly ten-fold (more than 30,000 COVID-19 cases and 1.47 million controls) by combining data from 34 studies across 16 countries. The four tracks here are based on data from HGI meta-analyses A2, B2, C1, and C2, described here: Severe COVID vars (A2): Cases with very severe respiratory failure confirmed for COVID-19 vs. population (i.e. everybody that is not a case). The increased sample size resulted in strong evidence of seven genomic regions associated with severe COVID-19 and one additional signal associated with COVID-19 partial-susceptibility. Many of these regions were identified by the Genetics of Mortality in Critical Care (GenOMICC) study and are shown below (table adapted from Pairo-Castineira et. al.). SNP Human GRCh37/hg19 Assembly Human GRCh38/hg38 Assembly Risk Allele Alternative Gene nearest to SNP rs73064425 chr3:45901089-45901089 chr3:45859597-45859597 T C LZTFL1 rs9380142 chr6:29798794-29798794 chr6:29831017-29831017 A G HLA-G rs143334143 chr6:31121426-31121426 chr6:31153649-31153649 A G CCHCR1 rs10735079 chr12:113380008-113380008 chr12:112942203-112942203 A G OAS3 rs74956615 chr19:10427721-10427721 chr19:10317045-10317045 A T ICAM5/TYK2 rs2109069 chr19:4719443-4719443 chr19:4719431-4719431 A G DPP9 rs2236757 chr21:34624917-34624917 chr21:33252612-33252612 A G IFNAR2 Hosp COVID vars (B2): Cases hospitalized and confirmed for COVID-19 vs. population (i.e. everybody that is not a case) Tested COVID vars (C1): Cases with laboratory confirmed SARS-CoV-2 infection, or health record/physician-confirmed COVID-19, or self-reported COVID-19 via questionare vs. laboratory /self-reported negative cases All COVID vars (C2): Cases with laboratory confirmed SARS-CoV-2 infection, or health record/physician-confirmed COVID-19, or self-reported COVID-19 vs. population (i.e. everybody that is not a case) Due to privacy concerns, these browser tracks exclude data provided by 23andMe contributed studies in the full analysis results. The actual study and case and control counts for the individual browser tracks are listed in the track labels. Details on all studies can be found here. Display Conventions Displayed items are colored by GWAS effect: red for positive (harmful) effect, blue for negative (protective) effect. The height ('lollipop stem') of the item is based on statistical significance (p-value). For better visualization of the data, only SNPs with p-values smaller than 1e-3 are displayed by default. The color saturation indicates effect size (beta coefficient): values over the median of effect size are brightly colored (bright red &nbsp;&nbsp; , bright blue &nbsp;&nbsp; ), those below the median are paler (light red &nbsp;&nbsp; , light blue &nbsp;&nbsp; ). Each track has separate display controls and data can be filtered according to the number of studies, minimum -log10 p-value, and the effect size (beta coefficient), using the track Configure options. Mouseover on items shows the rs ID (or chrom:pos if none assigned), both the non-effect and effect alleles, the effect size (beta coefficient), the p-value, and the number of studies. Additional information on each variant can be found on the details page by clicking on the item. Methods COVID-19 Host Genetics Initiative (HGI) GWAS meta-analysis round 4 (October 2020) results were used in this study. Each participating study partner submitted GWAS summary statistics for up to four of the COVID-19 phenotype definitions. Data were generated from genome-wide SNP array and whole exome and genome sequencing, leveraging the impact of both common and rare variants. The statistical analysis performed takes into account differences between sex, ancestry, and date of sample collection. Alleles were harmonized across studies and reported allele frequencies are based on gnomAD version 3.0 reference data. Most study partners used the SAIGE GWAS pipeline in order to generate summary statistics used for the COVID-19 HGI meta-analysis. The summary statistics of individual studies were manually examined for inflation, deflation, and excessive number of false positives. Qualifying summary statistics were filtered for INFO > 0.6 and MAF > 0.0001 prior to meta-analyzing the entirety of the data. The meta-analysis was performed using fixed effects inverse variance weighting. The meta-analysis software and workflow are available here. More information about the prospective studies, processing pipeline, results and data sharing can be found here. Data Access The data underlying these tracks and summary statistics results are publicly available in COVID19-hg Release 4 (October 2020). The raw data can be explored interactively with the Table Browser, or the Data Integrator. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credits Thanks to the COVID-19 Host Genetics Initiative contributors and project leads for making these data available, and in particular to Rachel Liao, Juha Karjalainen, and Kumar Veerapen at the Broad Institute for their review and input during browser track development. References COVID-19 Host Genetics Initiative. The COVID-19 Host Genetics Initiative, a global initiative to elucidate the role of host genetic factors in susceptibility and severity of the SARS-CoV-2 virus pandemic. Eur J Hum Genet. 2020 Jun;28(6):715-718. PMID: 32404885; PMC: PMC7220587 Pairo-Castineira E, Clohisey S, Klaric L, Bretherick AD, Rawlik K, Pasko D, Walker S, Parkinson N, Fourman MH, Russell CD et al. Genetic mechanisms of critical illness in Covid-19. Nature. 2020 Dec 11;. PMID: 33307546 
covid COVID Data Container of SARS-CoV-2 data Phenotypes, Variants, and Literature Description This is a container track for all data related to SARS-CoV-2 for hg38 in the UCSC Genome Browser. Click into any of the sub-tracks to see information details on the specific annotations. 
covidHgiGwasR4PvalC2 All COVID vars COVID risk variants from the COVID-19 HGI GWAS Analysis C2 (17965 cases, 33 studies, Rel 4: Oct 2020) Phenotypes, Variants, and Literature 
covidHgiGwasR4PvalC1 Tested COVID vars Tested COVID risk variants from the COVID-19 HGI GWAS Analyis C1 (11085 cases, 20 studies, Rel 4: Oct 2020) Phenotypes, Variants, and Literature 
covidHgiGwasR4PvalB2 Hosp COVID vars Hospitalized COVID risk variants from the COVID-19 HGI GWAS Analysis B2 (7885 cases, 21 studies, Rel 4: Oct 2020) Phenotypes, Variants, and Literature 
covidHgiGwasR4PvalA2 Severe COVID vars Severe respiratory COVID risk variants from the COVID-19 HGI GWAS Analysis A2 (4336 cases, 12 studies, Rel 4: Oct 2020) Phenotypes, Variants, and Literature 
crossTissueMapsFullDetails Cross Tissue Details Cross tissue nuclei full details Single Cell RNA-seq Description This track collection shows data from Single-nucleus cross-tissue molecular reference maps toward understanding disease gene function. The dataset covers ~200,000 single nuclei from a total of 16 human donors across 25 samples, using 4 different sample preparation protocols followed by droplet based single-cell RNA-seq. The samples were obtained from frozen tissue as part of the Genotype-Tissue Expression (GTEx) project. Samples were taken from the esophagus, skeletal muscle, heart, lung, prostate, breast, and skin. The dataset includes 43 broad cell classes, some specific to certain tissues and some shared across all tissue types. The read count is calculated by taking, for this cell type and gene location, the total number of transcript reads divided by the number of cells, and is therefore an average or mean value. This track collection contains three bar chart tracks of RNA expression. The first track, Cross Tissue Nuclei, allows cells to be grouped together and faceted on up to 4 categories: tissue, cell class, cell subclass, and cell type. The second track, Cross Tissue Details, allows cells to be grouped together and faceted on up to 7 categories: tissue, cell class, cell subclass, cell type, granular cell type, sex, and donor. The third track, GTEx Immune Atlas, allows cells to be grouped together and faceted on up to 5 categories: tissue, cell type, cell class, sex, and donor. Please see the GTEx portal for further interactive displays and additional data. Display Conventions and Configuration Tissue-cell type combinations in the Full and Combined tracks are colored by which cell type they belong to in the below table: Color Cell Type Endothelial Epithelial Glia Immune Neuron Stromal Other Tissue-cell type combinations in the Immune Atlas track are shaded according to the below table: Color Cell Type Inflammatory Macrophage Lung Macrophage Monocyte/Macrophage FCGR3A High Monocyte/Macrophage FCGR3A Low Macrophage HLAII High Macrophage LYVE1 High Proliferating Macrophage Dendritic Cell 1 Dendritic Cell 2 Mature Dendritic Cell Langerhans CD14+ Monocyte CD16+ Monocyte LAM-like Other Methods Using the previously collected tissue samples from the Genotype-Tissue Expression project, nuclei were isolated using four different protocols and sequenced using droplet based single cell RNA-seq. CellBender v2.1 and other standard quality control techniques were applied, resulting in 209,126 nuclei profiles across eight tissues, with a mean of 918 genes and 1519 transcripts per profile. Data from all samples was integrated with a conditional variation autoencoder in order to correct for multiple sources of variation like sex, and protocol while preserving tissue and cell type specific effects. For detailed methods, please refer to Eraslan et al, or the GTEx portal website. UCSC Methods The gene expression files were downloaded from the GTEx portal. The UCSC command line utilities matrixClusterColumns, matrixToBarChartBed, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions or our Data Access FAQ for more information. The expScores field for this track contains a comma-separated list of values for each cell type, and the expCount field is the size of the expScores array, which is the total number of cell types. The value in the expScores field corresponds to the read count for that cell type, and the order of the cell types is defined by the barChartBars line in the trackDb file for this track. Credits Thanks to the GTEx Consortium for creating and analyzing these data. References Eraslan G, Drokhlyansky E, Anand S, Fiskin E, Subramanian A, Slyper M, Wang J, Van Wittenberghe N, Rouhana JM, Waldman J et al. Single-nucleus cross-tissue molecular reference maps toward understanding disease gene function. Science. 2022 May 13;376(6594):eabl4290. PMID: 35549429; PMC: PMC9383269 
decipherSnvs DECIPHER SNVs DECIPHER: Chromosomal Imbalance and Phenotype in Humans (SNVs) Phenotypes, Variants, and Literature Description NOTE: While the DECIPHER database is open to the public, users seeking information about a personal medical or genetic condition are urged to consult with a qualified physician for diagnosis and for answers to personal questions. Because the UCSC Genes mappings for CNVs are based on associations from RefSeq and UniProt, they are dependent on any interpretations from those sources. Furthermore, because many DECIPHER records refer to multiple gene names, or syndromes not tightly mapped to individual genes, the associations in this track should be treated with skepticism and any conclusions based on them should be carefully scrutinized using independent resources. Data Display Agreement Notice The CNV/SNV data are only available for display in the Browser, and not for bulk download. Access to bulk data may be obtained directly from DECIPHER (https://www.deciphergenomics.org/about/data-sharing) and is subject to a Data Access Agreement, in which the user certifies that no attempt to identify individual patients will be undertaken. The same restrictions apply to the public data displayed at UCSC in the UCSC Genome Browser; no one is authorized to attempt to identify patients by any means. These data are made available as soon as possible and may be a pre-publication release. For information on the proper use of DECIPHER data, please see https://www.deciphergenomics.org/about/data-sharing. The DECIPHER consortium provides these data in good faith as a research tool, but without verifying the accuracy, clinical validity, or utility of the data. The DECIPHER consortium makes no warranty, express or implied, nor assumes any legal liability or responsibility for any purpose for which the data are used. The DECIPHER database of submicroscopic chromosomal imbalance collects clinical information about chromosomal microdeletions/duplications/insertions, translocations and inversions, and displays this information on the human genome map. The CNVs and SNVs tracks show genomic regions of reported cases and their associated phenotype information. All data have passed the strict consent requirements of the DECIPHER project and are approved for unrestricted public release. Clicking the Patient View ID link brings up a more detailed informational page on the patient at the DECIPHER web site. The Population CNVs track shows common copy-number variants (CNVs) and their population frequencies, lifted over from the hg19 assembly. Display Conventions and Configuration The genomic locations of DECIPHER variants are labeled with the DECIPHER variant descriptions. Mouseover on items shows variant details, clinical interpretation, and associated conditions. Further information on each variant is displayed on the details page by a click onto any variant. For the CNVs track, the entries are colored by the type of variant: red for loss blue for gain grey for amplification A light-to-dark color gradient indicates the clinical significance of each variant, with the lightest shade being benign, to the darkest shade being pathogenic. Detailed information on the CNV color code is described here. Items can be filtered according to the size of the variant, variant type, and clinical significance using the track Configure options. For the SNVs track, the entries are colored according to the estimated clinical significance of the variant: black for likely or definitely pathogenic dark grey for uncertain or unknown light grey for likely or definitely benign For the Population CNVs track, genomic variants are visually differentiated to facilitate quick and clear identification. Variants are colored according to their clinical significance and type: Red - exclusively deletion site. (deletions) Blue - exclusively duplication site. (duplication) Grey - deletions and duplications site. (del/dup) The Population CNVs track's mouseover tooltip provides the following information about the data: Position: Specifies the chromosomal range of the CNV. Type of CNV: Indicates if the variation is a loss, gain, or deletions/duplications(del/dup). Frequency of CNV: Reflects how often the CNV occurs in the sampled population. Number of Observations: The count of times this CNV was observed in the dataset. Sample Size of Study: The total number of samples examined. Method Data provided by the DECIPHER project group are imported and processed to create a simple BED track to annotate the genomic regions associated with individual patients. Contact For more information on DECIPHER, please contact &#99;&#111;n&#116;&#97;c&#116;&#64;&#100;&#101;&#99;&#105;p&#104;&#101;&#114;&#103;&#101;&#110;&#111;&#109;&#105;c&#115;. &#111;&#114;g Data Access The DECIPHER data access and documentation can be found at DECIPHER Downloads. References Firth HV, Richards SM, Bevan AP, Clayton S, Corpas M, Rajan D, Van Vooren S, Moreau Y, Pettett RM, Carter NP. DECIPHER: Database of Chromosomal Imbalance and Phenotype in Humans Using Ensembl Resources. Am J Hum Genet. 2009 Apr;84(4):524-33. PMID: 19344873; PMC: PMC2667985 
wgEncodeReg4Epigenetics DNase/ATAC/Histone/CTCF (Indiv.) Peaks and signal from individual DNase-seq, ATAC-seq, histone ChIP-seq, or CTCF ChIP-seq experiments from ENCODE 4 Experimental Description This track displays genome-wide epigenomic signals and peaks from 3,201 individual ENCODE experiments, including DNase-seq and ATAC-seq for chromatin accessibility, and ChIP-seq for the histone modifications H3K4me3 and H3K27ac, as well as CTCF binding. DNase-seq identifies regions of open chromatin commonly associated with enhancers, promoters, and insulators (shown in green) ATAC-seq identifies open chromatin via Tn5 transposase insertion (shown in cyan) H3K4me3 ChIP-seq marks active and poised promoters (shown in red) H3K27ac ChIP-seq marks active enhancers and promoters (shown in yellow) CTCF ChIP-seq identifies binding sites at insulators and chromatin loop anchors (shown in blue) The track includes two subtrack types: Signal - a bigWig track of the experiment's signal Peak - a bigBed track of the experiment's peaks These datasets provide the underlying experimental data used to generate the corresponding layered summary tracks. Additional datasets are available at the ENCODE portal. Display Conventions and Configuration Click a specific biosample type and organ/tissue combination to view available datasets. Subtracks can be further filtered by Assay (ATAC, DNase, CTCF, H3K27ac, and H3K4me3), Organ, Biosample Type, Data Type (Signal or Peak), and Life Stage. Available Organs and Tissues Organ/Tissue DNase ATAC H3K4me3 H3K27ac CTCF adipose&#10003;&#10003;&#10003;&#10003;&#10003; adrenal gland&#10003;&#10003;&#10003;&#10003;&#10003; blood&#10003;&#10003;&#10003;&#10003;&#10003; blood vessel&#10003;&#10003;&#10003;&#10003;&#10003; bone&#10003;&#8211;&#10003;&#10003;&#10003; bone marrow&#10003;&#10003;&#10003;&#10003;&#10003; brain&#10003;&#10003;&#10003;&#10003;&#10003; breast&#10003;&#10003;&#10003;&#10003;&#10003; connective tissue&#10003;&#8211;&#10003;&#10003;&#10003; embryo&#10003;&#8211;&#10003;&#10003;&#10003; epithelium&#10003;&#8211;&#10003;&#10003;&#10003; esophagus&#10003;&#10003;&#10003;&#10003;&#10003; eye&#10003;&#8211;&#10003;&#10003;&#10003; gallbladder&#10003;&#10003;&#8211;&#8211;&#8211; heart&#10003;&#10003;&#10003;&#10003;&#10003; kidney&#10003;&#8211;&#10003;&#10003;&#10003; large intestine&#10003;&#10003;&#10003;&#10003;&#10003; limb&#10003;&#8211;&#8211;&#8211;&#8211; liver&#10003;&#10003;&#10003;&#10003;&#10003; lung&#10003;&#10003;&#10003;&#10003;&#10003; lymphoid tissue&#10003;&#8211;&#8211;&#8211;&#8211; mouth&#10003;&#8211;&#10003;&#10003;&#10003; muscle&#10003;&#10003;&#10003;&#10003;&#10003; nerve&#10003;&#10003;&#10003;&#10003;&#10003; nose&#10003;&#8211;&#8211;&#8211;&#8211; ovary&#10003;&#10003;&#10003;&#10003;&#10003; pancreas&#10003;&#10003;&#10003;&#10003;&#10003; parathyroid gland&#8211;&#8211;&#10003;&#10003;&#10003; penis&#10003;&#8211;&#10003;&#10003;&#10003; placenta&#10003;&#8211;&#10003;&#10003;&#10003; prostate&#10003;&#10003;&#10003;&#10003;&#10003; skin&#10003;&#10003;&#10003;&#10003;&#10003; small intestine&#10003;&#10003;&#10003;&#10003;&#10003; spinal cord&#10003;&#8211;&#10003;&#10003;&#10003; spleen&#10003;&#10003;&#10003;&#10003;&#10003; stomach&#10003;&#10003;&#10003;&#10003;&#10003; testis&#10003;&#10003;&#10003;&#10003;&#10003; thymus&#10003;&#8211;&#10003;&#10003;&#8211; thyroid&#10003;&#10003;&#10003;&#10003;&#10003; urinary bladder&#10003;&#10003;&#10003;&#10003;&#8211; uterus&#10003;&#10003;&#10003;&#10003;&#10003; vagina&#10003;&#8211;&#10003;&#10003;&#10003; Data Access The ENCODE 4 Regulation data on the UCSC Genome Browser can be explored interactively with the Table Browser or the Data Integrator. For automated download and analysis, the genome annotation is stored in bigWig files that can be downloaded from our download server. The data may also be explored interactively using our REST API. The original data files are also available from the ENCODE portal. Clicking any accession in the track's configuration table links directly to the corresponding file details page on the ENCODE portal. These files may also be locally explored using our tool bigWigToWig, which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tool can also be used to obtain data confined to a given range, e.g., bigWigToWig -chrom=chr1 -start=100000 -end=100500 https://encode-public.s3.amazonaws.com/2021/02/25/f34812d4-08cd-4abb-956f-b722b516dcc6/ENCFF094EYJ.bigWig stdout Credits Data were generated by the ENCODE Consortium through the following production labs: Drs. Barbara Wold (Caltech), Bing Ren (UCSD), Bradley Bernstein (Broad), Gregory Crawford (Duke), John Stamatoyannopoulos (UW), Joseph Costello (UCSF), Michael Snyder (Stanford), Peggy Farnham (USC), Richard Myers (HAIB), Stephen Montgomery (Stanford), Vishwanath Iyer (UTA), Will Greenleaf (Stanford), and Yin Shen (UCSF). The data were further processed for visualization through a collaborative effort between the Weng lab and the Moore lab at UMass Chan Medical School (funded by NIH grant HG012343). Integration and visualization were developed by Drs. Mingshi Gao, Jill Moore, and Zhiping Weng at UMass Chan Medical School, who were part of the ENCODE Data Analysis Center. References ENCODE Project Consortium, Moore JE, Purcaro MJ, Pratt HE, Epstein CB, Shoresh N, Adrian J, Kawli T, Davis CA, Dobin A et al. Expanded encyclopaedias of DNA elements in the human and mouse genomes. Nature. 2020 Jul;583(7818):699-710. PMID: 32728249; PMC: PMC7410828 Moore JE, Pratt HE, Fan K, Phalke N, Fisher J, Elhajjajy SI, Andrews G, Gao M, Shedd N, Fu Y et al. An Expanded Registry of Candidate cis-Regulatory Elements for Studying Transcriptional Regulation. Nature. 2026 January 7. PMID: 39763870; PMC: PMC11703161 
wgEncodeReg4Epigenetics_ENCFF295PBU ENCSR999VDH Peak pancreas tissue female adult 59 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF876OBV ENCSR999VDH pancreas tissue female adult 59 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF255FLC ENCSR999TSD Peak coronary artery tissue female adult 51 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF875SCU ENCSR999TSD coronary artery tissue female adult 51 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF194LAU ENCSR999NKW Peak prostate gland tissue male adult 54 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF346EDM ENCSR999NKW prostate gland tissue male adult 54 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF028YXS ENCSR998QKF Peak Peyer's patch tissue male adult 54 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF305GQX ENCSR998QKF Peyer's patch tissue male adult 54 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF468QWC ENCSR998NQG Peak gastrocnemius medialis tissue male adult 54 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF782JRA ENCSR998NQG gastrocnemius medialis tissue male adult 54 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF169MCG ENCSR998IXQ Peak stimulated activated CD4-positive, alpha-beta T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 1 hour, 100 ng/mL Interleukin-15 for 1 hour DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF586UHW ENCSR998IXQ stimulated activated CD4-positive, alpha-beta T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 1 hour, 100 ng/mL Interleukin-15 for 1 hour DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF816SNN ENCSR998BBI Peak HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens MED14 treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF378TIG ENCSR998BBI HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens MED14 treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF365PDX ENCSR996ZCR Peak ovary tissue female adult 46 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF830ZZA ENCSR996ZCR ovary tissue female adult 46 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF368XUM ENCSR995YPS Peak with mild cognitive impairment middle frontal area 46 tissue female adult 87 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF732ABI ENCSR995YPS with mild cognitive impairment middle frontal area 46 tissue female adult 87 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF250IDG ENCSR995MHN Peak Caco-2 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF221TSA ENCSR995MHN Caco-2 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF408PGC ENCSR994PGV Peak naive thymus-derived CD4-positive, alpha-beta T cell male adult 42 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF543UQM ENCSR994PGV naive thymus-derived CD4-positive, alpha-beta T cell male adult 42 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF620SKK ENCSR994KTY Peak colonic mucosa tissue female adult 41 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF841ILF ENCSR994KTY colonic mucosa tissue female adult 41 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF460VCX ENCSR991PBP Peak activated CD4-positive, alpha-beta T cell male adult 20 years treated with anti-CD3 and anti-CD28 coated beads ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF858UDC ENCSR991PBP activated CD4-positive, alpha-beta T cell male adult 20 years treated with anti-CD3 and anti-CD28 coated beads ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF178AMH ENCSR991JSQ Peak HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens SUPT16H treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF100CVT ENCSR991JSQ HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens SUPT16H treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF422OHK ENCSR990XXC Peak right kidney tissue male embryo 115 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF809XFE ENCSR990XXC right kidney tissue male embryo 115 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF447ZCO ENCSR990NNX Peak upper lobe of right lung tissue male adult 60 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF138FYP ENCSR990NNX upper lobe of right lung tissue male adult 60 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF040TVW ENCSR989YIV Peak placenta tissue male embryo 91 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF197KYO ENCSR989YIV placenta tissue male embryo 91 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF241ROA ENCSR989RAL Peak iPS-20b H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF545ONK ENCSR989RAL iPS-20b H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF231CBA ENCSR989PTS Peak heart left ventricle tissue male adult 40 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF030MCS ENCSR989PTS heart left ventricle tissue male adult 40 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF965WUY ENCSR988YKR Peak kidney capillary endothelial cell female embryo 113 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF504BVV ENCSR988YKR kidney capillary endothelial cell female embryo 113 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF189KAL ENCSR988RUI Peak brain organoid female embryo 5 days, 90 days post differentiation H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF216XQB ENCSR988RUI brain organoid female embryo 5 days, 90 days post differentiation H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF248NST ENCSR988ITF Peak HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens SUPT16H treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF486EOD ENCSR988ITF HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens SUPT16H treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF692ZXT ENCSR987PNT Peak RWPE2 H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF311XTL ENCSR987PNT RWPE2 H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF280WIR ENCSR987GUS Peak stimulated activated CD4-positive, alpha-beta T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 24 hours, 100 ng/mL Interleukin-15 for 24 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF679QBE ENCSR987GUS stimulated activated CD4-positive, alpha-beta T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 24 hours, 100 ng/mL Interleukin-15 for 24 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF894XCZ ENCSR987FAM Peak middle frontal area 46 tissue female adult 82 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF962GLK ENCSR987FAM middle frontal area 46 tissue female adult 82 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF497IEK ENCSR987CQN Peak posterior cingulate gyrus tissue female adult 88 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF449WDF ENCSR987CQN posterior cingulate gyrus tissue female adult 88 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF428NZR ENCSR986YWZ Peak inferior parietal cortex tissue male adult 84 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF451YPK ENCSR986YWZ inferior parietal cortex tissue male adult 84 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF214DHP ENCSR986XLW Peak lung tissue embryo 101 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF171RLN ENCSR986XLW lung tissue embryo 101 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF114OPZ ENCSR986HEN Peak right renal pelvis tissue male embryo 105 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF316ZWI ENCSR986HEN right renal pelvis tissue male embryo 105 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF430LZO ENCSR986FPJ Peak SJCRH30 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF810CJQ ENCSR986FPJ SJCRH30 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF014ZQC ENCSR984SQJ Peak right atrium auricular region tissue female adult 53 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF832GZH ENCSR984SQJ right atrium auricular region tissue female adult 53 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF416HYY ENCSR984SDD Peak with mild cognitive impairment head of caudate nucleus tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF349JFX ENCSR984SDD with mild cognitive impairment head of caudate nucleus tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF044OOC ENCSR984KWT Peak thoracic aorta tissue male adult 37 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF696UEY ENCSR984KWT thoracic aorta tissue male adult 37 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF456RUT ENCSR984HJW Peak with Cognitive impairment, Alzheimer's disease head of caudate nucleus tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF346AYM ENCSR984HJW with Cognitive impairment, Alzheimer's disease head of caudate nucleus tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF744UJW ENCSR983HXF Peak stimulated activated naive CD8-positive, alpha-beta T cell nuclear fraction male adult 30 years treated with anti-CD3 and anti-CD28 coated beads, 10 ng/mL Interleukin-2 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF133HQE ENCSR983HXF stimulated activated naive CD8-positive, alpha-beta T cell nuclear fraction male adult 30 years treated with anti-CD3 and anti-CD28 coated beads, 10 ng/mL Interleukin-2 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF536ZGD ENCSR982XOK Peak middle frontal area 46 tissue male adult 71 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF980SJY ENCSR982XOK middle frontal area 46 tissue male adult 71 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF574BQO ENCSR982QIF Peak ascending aorta tissue female adult 51 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF557HHH ENCSR982QIF ascending aorta tissue female adult 51 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF664PMT ENCSR981USF Peak spleen tissue female adult 61 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF551GZK ENCSR981USF spleen tissue female adult 61 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF706UOX ENCSR981UJA Peak right lobe of liver tissue female adult 53 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF764VSN ENCSR981UJA right lobe of liver tissue female adult 53 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF005NYD ENCSR981TFL Peak middle frontal area 46 tissue female adult 90 or above years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF871ZNR ENCSR981TFL middle frontal area 46 tissue female adult 90 or above years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF409BGH ENCSR981CID Peak testis tissue male adult 54 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF245HIM ENCSR981CID testis tissue male adult 54 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF354XGW ENCSR980GWI Peak HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens SUPT16H DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF069HTN ENCSR980GWI HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens SUPT16H DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF747FWZ ENCSR979YHL Peak naive thymus-derived CD4-positive, alpha-beta T cell male adult 35 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF926THY ENCSR979YHL naive thymus-derived CD4-positive, alpha-beta T cell male adult 35 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF841TWE ENCSR979PTL Peak middle frontal area 46 tissue male adult 86 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF393UAO ENCSR979PTL middle frontal area 46 tissue male adult 86 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF686XMQ ENCSR978QUT Peak testis tissue male adult 54 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF428COP ENCSR978QUT testis tissue male adult 54 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF817DUW ENCSR978LBY Peak brain organoid male adult 53 years, 90 days post differentiation H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF473LYE ENCSR978LBY brain organoid male adult 53 years, 90 days post differentiation H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF413BXB ENCSR978HFU Peak K562 treated with 100 nM GSK J4 for 4 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF786OFP ENCSR978HFU K562 treated with 100 nM GSK J4 for 4 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF296YGV ENCSR977UMU Peak with multiple sclerosis CD4-positive, alpha-beta memory T cell DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF014IBC ENCSR977UMU with multiple sclerosis CD4-positive, alpha-beta memory T cell DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF059THC ENCSR977LVI Peak T-cell female adult 21 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF814ZWG ENCSR977LVI T-cell female adult 21 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF631BVU ENCSR977FMZ Peak immature natural killer cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF377NQI ENCSR977FMZ immature natural killer cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF018YEW ENCSR976XOY Peak left forelimb tissue male embryo 81 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF846JPR ENCSR976XOY left forelimb tissue male embryo 81 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF833JFG ENCSR976RWL Peak stimulated activated CD8-positive, alpha-beta memory T cell male adult 30 years treated with 10 ng/mL Interleukin-2 , anti-CD3 and anti-CD28 coated beads H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF339WFQ ENCSR976RWL stimulated activated CD8-positive, alpha-beta memory T cell male adult 30 years treated with 10 ng/mL Interleukin-2 , anti-CD3 and anti-CD28 coated beads H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF673AYP ENCSR976GAB Peak Calu3 H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF264HCG ENCSR976GAB Calu3 H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF679MON ENCSR975SCL Peak HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens BRD4 treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF220QVA ENCSR975SCL HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens BRD4 treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF408VJS ENCSR975NOU Peak thyroid gland tissue male adult 54 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF229BVH ENCSR975NOU thyroid gland tissue male adult 54 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF434UBG ENCSR975LGK Peak natural killer cell male adult 33 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF444IFX ENCSR975LGK natural killer cell male adult 33 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF224IOQ ENCSR974TXT Peak left kidney tissue female embryo 110 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF014GON ENCSR974TXT left kidney tissue female embryo 110 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF789KAO ENCSR974QYY Peak K562 treated with 10 nM Panobinostat for 12 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF821LOP ENCSR974QYY K562 treated with 10 nM Panobinostat for 12 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF674FYY ENCSR973MKT Peak spinal cord tissue female embryo 87 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF659IJT ENCSR973MKT spinal cord tissue female embryo 87 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF669DHP ENCSR972ETR Peak gastrocnemius medialis tissue male adult 54 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF772JUK ENCSR972ETR gastrocnemius medialis tissue male adult 54 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF177HOP ENCSR971MMF Peak activated CD8-positive, alpha-beta memory T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 48 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF799XYA ENCSR971MMF activated CD8-positive, alpha-beta memory T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 48 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF072QQK ENCSR971ETA Peak stomach smooth muscle tissue female adult 84 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF665TYI ENCSR971ETA stomach smooth muscle tissue female adult 84 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF059VKX ENCSR970ZLG Peak small intestine tissue male embryo 87 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF720KHC ENCSR970ZLG small intestine tissue male embryo 87 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF547UCM ENCSR970UNF Peak colonic mucosa tissue female adult 41 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF641HAD ENCSR970UNF colonic mucosa tissue female adult 41 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF774SBJ ENCSR970DQR Peak chondrocyte DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF807AUZ ENCSR970DQR chondrocyte DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF772QSE ENCSR969QKG Peak naive thymus-derived CD4-positive, alpha-beta T cell male adult 48 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF018LAK ENCSR969QKG naive thymus-derived CD4-positive, alpha-beta T cell male adult 48 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF784MJJ ENCSR969HBF Peak skin epidermis tissue male adult 58 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF868JPL ENCSR969HBF skin epidermis tissue male adult 58 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF022SDS ENCSR968TPO ascending aorta tissue female adult 53 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF458OBF ENCSR967QUQ Peak with mild cognitive impairment middle frontal area 46 tissue male adult 89 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF341CQE ENCSR967QUQ with mild cognitive impairment middle frontal area 46 tissue male adult 89 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF121QGK ENCSR967BSF Peak spleen tissue female adult 41 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF215HQE ENCSR967BSF spleen tissue female adult 41 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF349XYG ENCSR966ZCL Peak K562 treated with 10 nM Chaetocin for 48 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF188JVM ENCSR966ZCL K562 treated with 10 nM Chaetocin for 48 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF574WJV ENCSR966RWA Peak with Alzheimer's disease, Cognitive impairment middle frontal area 46 tissue female adult 90 or above years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF950LIB ENCSR966RWA with Alzheimer's disease, Cognitive impairment middle frontal area 46 tissue female adult 90 or above years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF624ROH ENCSR966QUX Peak CD4-positive, CD25-positive, alpha-beta regulatory T cell originated from blood cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF709FUJ ENCSR966QUX CD4-positive, CD25-positive, alpha-beta regulatory T cell originated from blood cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF589HXU ENCSR966OUM Peak nephron organoid female embryo 5 days, 21 days post differentiation originated from H9 CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF227QIR ENCSR966OUM nephron organoid female embryo 5 days, 21 days post differentiation originated from H9 CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF818XUW ENCSR965ZWZ Peak stimulated activated CD4-positive, alpha-beta T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 4 hours, 100 ng/mL TNF-alpha for 4 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF087ERU ENCSR965ZWZ stimulated activated CD4-positive, alpha-beta T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 4 hours, 100 ng/mL TNF-alpha for 4 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF708STN ENCSR965JHW Peak T-cell male adult 25 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF278AJU ENCSR965JHW T-cell male adult 25 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF831EAA ENCSR965CIV Peak middle frontal area 46 tissue male adult 86 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF557GVR ENCSR965CIV middle frontal area 46 tissue male adult 86 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF203UQX ENCSR964WHY Peak H9 G1b phase stably expressing CDT1, stably expressing GMNN DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF884POL ENCSR964WHY H9 G1b phase stably expressing CDT1, stably expressing GMNN DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF820UZO ENCSR964VVW Peak right lung tissue male embryo 96 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF621MQK ENCSR964VVW right lung tissue male embryo 96 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF323MNN ENCSR964MZQ Peak trophoblast cell embryo 39 weeks and embryo 40 weeks DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF325MYZ ENCSR964MZQ trophoblast cell embryo 39 weeks and embryo 40 weeks DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF820OIF ENCSR963LVX Peak chorionic villus tissue embryo 16 weeks H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF497DMG ENCSR963LVX chorionic villus tissue embryo 16 weeks H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF985JNJ ENCSR963ALV Peak neural progenitor cell originated from H9 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF286QGB ENCSR963ALV neural progenitor cell originated from H9 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF746ZRW ENCSR962VJO Peak adrenal gland tissue female child 16 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF544IBL ENCSR962VJO adrenal gland tissue female child 16 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF144PRF ENCSR962TDN Peak K562 treated with 5 μM JQ1 for 12 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF829ZCA ENCSR962TDN K562 treated with 5 μM JQ1 for 12 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF832BEH ENCSR962OTG Peak from a donor with amyotrophic lateral sclerosis motor neuron H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF214GOQ ENCSR962OTG from a donor with amyotrophic lateral sclerosis motor neuron H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF401USY ENCSR962ITF Peak HG03108 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF942LRJ ENCSR962ITF HG03108 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF151SDP ENCSR962EAP Peak thymus tissue male embryo 104 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF172TVE ENCSR962EAP thymus tissue male embryo 104 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF943BSK ENCSR962AKF Peak CD8-positive, alpha-beta memory T cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF652KLR ENCSR962AKF CD8-positive, alpha-beta memory T cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF065CBS ENCSR961SKY Peak spleen tissue male adult 26 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF980HXI ENCSR961SKY spleen tissue male adult 26 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF347FGX ENCSR960KGO Peak GM21515 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF186BYJ ENCSR960KGO GM21515 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF362TYY ENCSR960EVO Peak aorta tissue female adult 30 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF640NVF ENCSR960EVO aorta tissue female adult 30 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF502YFB ENCSR960EVM Peak stimulated activated CD8-positive, alpha-beta memory T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 48 hours, 100 ng/mL Interleukin-4 for 48 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF793HOD ENCSR960EVM stimulated activated CD8-positive, alpha-beta memory T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 48 hours, 100 ng/mL Interleukin-4 for 48 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF366WWE ENCSR960EJV Peak left lung tissue female embryo 110 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF002ZNX ENCSR960EJV left lung tissue female embryo 110 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF748YPU ENCSR960AAL Peak sigmoid colon tissue male adult 37 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF122GSI ENCSR960AAL sigmoid colon tissue male adult 37 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF165GTX ENCSR959ZXU Peak HeLa-S3 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF757GHL ENCSR959ZXU HeLa-S3 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF738VJP ENCSR959RHF Peak mesodermal cell originated from HUES64 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF166WND ENCSR959RHF mesodermal cell originated from HUES64 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF222SHZ ENCSR958QJN Peak activated CD8-positive, alpha-beta T cell male adult 21 years treated with anti-CD3 and anti-CD28 coated beads H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF599ITG ENCSR958QJN activated CD8-positive, alpha-beta T cell male adult 21 years treated with anti-CD3 and anti-CD28 coated beads H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF070FIZ ENCSR958CPV Peak with squamous cell carcinoma skin epidermis tissue male adult 84 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF303XXZ ENCSR958CPV with squamous cell carcinoma skin epidermis tissue male adult 84 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF630DTE ENCSR957XEV Peak T-helper 17 cell treated with phorbol 13-acetate 12-myristate , ionomycin H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF575MWN ENCSR957XEV T-helper 17 cell treated with phorbol 13-acetate 12-myristate , ionomycin H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF038AYW ENCSR957UQS Peak endocrine pancreas tissue male adult 45 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF615SIJ ENCSR957UQS endocrine pancreas tissue male adult 45 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF457ZGY ENCSR957UPE Peak with Alzheimer's disease middle frontal area 46 tissue female adult 89 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF695EYC ENCSR957UPE with Alzheimer's disease middle frontal area 46 tissue female adult 89 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF908LXX ENCSR957LSB Peak heart right ventricle tissue female adult 59 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF428HGT ENCSR957LSB heart right ventricle tissue female adult 59 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF376EBP ENCSR957EOR Peak HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens BRD4 treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF279SCT ENCSR957EOR HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens BRD4 treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF270VNP ENCSR957CYJ Peak neurosphere female embryo 17 weeks originated from cortex H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF875CHR ENCSR957CYJ neurosphere female embryo 17 weeks originated from cortex H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF093HRG ENCSR957BPJ Peak aorta tissue male adult 34 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF624LJY ENCSR957BPJ aorta tissue male adult 34 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF180WYX ENCSR956ZHU Peak renal pelvis tissue male embryo 113 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF688DWT ENCSR956ZHU renal pelvis tissue male embryo 113 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF570BXA ENCSR956NOL Peak muscle of arm tissue male embryo 127 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF131RJY ENCSR956NOL muscle of arm tissue male embryo 127 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF061ECL ENCSR956CTX Peak neuronal stem cell originated from H1 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF872FDO ENCSR956CTX neuronal stem cell originated from H1 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF401CGN ENCSR956CFX Peak layer of hippocampus tissue male adult 81 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF114PLO ENCSR956CFX layer of hippocampus tissue male adult 81 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF968TWQ ENCSR955XFL Peak trophoblast tissue female embryo 40 weeks H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF069DWA ENCSR955XFL trophoblast tissue female embryo 40 weeks H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF422ZQX ENCSR955RQG Peak with Alzheimer's disease posterior cingulate gyrus tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF325KOH ENCSR955RQG with Alzheimer's disease posterior cingulate gyrus tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF738UOA ENCSR955JSO Peak breast epithelium tissue male adult 54 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF665NGK ENCSR955JSO breast epithelium tissue male adult 54 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF676TUW ENCSR955IXZ Peak KMS-11 H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF778FKR ENCSR955IXZ KMS-11 H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF204HWS ENCSR955BIB Peak thyroid gland tissue female adult 51 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF397CJU ENCSR955BIB thyroid gland tissue female adult 51 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF043DDE ENCSR954ZLD Peak with multiple sclerosis naive thymus-derived CD4-positive, alpha-beta T cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF693ZQV ENCSR954ZLD with multiple sclerosis naive thymus-derived CD4-positive, alpha-beta T cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF979OME ENCSR954TSY Peak right atrium auricular region tissue female adult 51 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF163VOI ENCSR954TSY right atrium auricular region tissue female adult 51 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF032SJV ENCSR954IGQ Peak testis tissue male adult 54 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF246QNM ENCSR954IGQ testis tissue male adult 54 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF999KZE ENCSR954BDA Peak GM21529 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF607UBE ENCSR954BDA GM21529 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF090UKP ENCSR954AJK Peak Peyer's patch tissue male adult 37 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF926IJX ENCSR954AJK Peyer's patch tissue male adult 37 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF403PKJ ENCSR953XJU Peak left kidney tissue female embryo 107 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF149REN ENCSR953XJU left kidney tissue female embryo 107 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF246XJJ ENCSR953WJO Peak left lung tissue male embryo 105 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF576SBL ENCSR953WJO left lung tissue male embryo 105 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF243RBF ENCSR953ULK Peak fibroblast of breast female adult 26 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF183MQW ENCSR953ULK fibroblast of breast female adult 26 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF955WOK ENCSR953UJL Peak stimulated activated CD4-positive, alpha-beta T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 4 hours, 100 ng/mL Interleukin-12 subunit alpha for 4 hours, 100 ng/mL Interleukin-12 subunit beta for 4 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF640BEZ ENCSR953UJL stimulated activated CD4-positive, alpha-beta T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 4 hours, 100 ng/mL Interleukin-12 subunit alpha for 4 hours, 100 ng/mL Interleukin-12 subunit beta for 4 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF027FUY ENCSR953JVX Peak kidney tissue female embryo 105 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF270KWP ENCSR953JVX kidney tissue female embryo 105 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF595ATY ENCSR953GFW Peak rectal smooth muscle tissue tissue female adult 50 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF995LGE ENCSR953GFW rectal smooth muscle tissue tissue female adult 50 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF370OCL ENCSR952SPO Peak right lobe of liver tissue female child 16 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF469MOB ENCSR952SPO right lobe of liver tissue female child 16 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF812XMH ENCSR951XEN Peak muscle of arm tissue male embryo 104 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF652EOG ENCSR951XEN muscle of arm tissue male embryo 104 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF445TNT ENCSR951MYM Peak activated CD8-positive, alpha-beta memory T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 1 hour DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF056BEG ENCSR951MYM activated CD8-positive, alpha-beta memory T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 1 hour DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF084XWK ENCSR950YTI Peak activated CD8-positive, alpha-beta memory T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 4 hours, 50 U/mL Interleukin-2 for 4 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF007DTX ENCSR950YTI activated CD8-positive, alpha-beta memory T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 4 hours, 50 U/mL Interleukin-2 for 4 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF220QXY ENCSR950ICX Peak naive thymus-derived CD4-positive, alpha-beta T cell male adult 50 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF881YDJ ENCSR950ICX naive thymus-derived CD4-positive, alpha-beta T cell male adult 50 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF712YWW ENCSR949OYZ Peak psoas muscle tissue male adult 34 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF619HYF ENCSR949OYZ psoas muscle tissue male adult 34 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF504RHH ENCSR949JYS Peak muscle of arm tissue male embryo 105 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF555NPV ENCSR949JYS muscle of arm tissue male embryo 105 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF386XPK ENCSR948YYZ Peak gastrocnemius medialis tissue male adult 54 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF149TEN ENCSR948YYZ gastrocnemius medialis tissue male adult 54 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF778RSD ENCSR948TOS Peak upper lobe of left lung tissue male adult 54 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF752LEN ENCSR948TOS upper lobe of left lung tissue male adult 54 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF382VVV ENCSR948MQC Peak lower lobe of right lung tissue female adult 65 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF634JAM ENCSR948MQC lower lobe of right lung tissue female adult 65 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF885NHD ENCSR948CRE Peak stimulated activated effector memory CD8-positive, alpha-beta T cell male adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 72 hours, 100 ng/mL Interleukin-12 subunit beta for 72 hours, 100 ng/mL Interleukin-12 subunit alpha for 72 hours H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF401CHO ENCSR948CRE stimulated activated effector memory CD8-positive, alpha-beta T cell male adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 72 hours, 100 ng/mL Interleukin-12 subunit beta for 72 hours, 100 ng/mL Interleukin-12 subunit alpha for 72 hours H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF430TNE ENCSR947VPG Peak right lung tissue male embryo 87 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF477QMX ENCSR947VPG right lung tissue male embryo 87 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF603QNS ENCSR947POC Peak brain tissue male embryo 104 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF306OZT ENCSR947POC brain tissue male embryo 104 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF993OPR ENCSR946OIO Peak spleen tissue female adult 59 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF867EIA ENCSR946OIO spleen tissue female adult 59 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF257GFH ENCSR946MVP Peak SK-N-DZ DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF592HGE ENCSR946MVP SK-N-DZ DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF282EBO ENCSR946DXB Peak heart left ventricle tissue female embryo 101 days and female embryo 103 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF107UJS ENCSR946DXB heart left ventricle tissue female embryo 101 days and female embryo 103 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF637OXP ENCSR945RWN Peak small intestine tissue male embryo 108 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF318PWA ENCSR945RWN small intestine tissue male embryo 108 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF903YXP ENCSR945KSP Peak mesothelial cell of epicardium DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF447YDA ENCSR945KSP mesothelial cell of epicardium DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF655WIN ENCSR945JTU Peak naive B cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF748EFD ENCSR945JTU naive B cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF022LAN ENCSR945JJB Peak lung tissue female adult 47 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF787QGK ENCSR945JJB lung tissue female adult 47 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF929HQV ENCSR944QSH Peak small intestine tissue female adult 30 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF552GYH ENCSR944QSH small intestine tissue female adult 30 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF206XLU ENCSR944KAZ Peak stomach tissue male adult 37 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF975CDE ENCSR944KAZ stomach tissue male adult 37 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF048IOE ENCSR944JCE Peak esophagus muscularis mucosa tissue male adult 37 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF886QYD ENCSR944JCE esophagus muscularis mucosa tissue male adult 37 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF937KBP ENCSR944GPH Peak T-helper 22 cell female adult 25 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF616EZX ENCSR944GPH T-helper 22 cell female adult 25 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF360TSJ ENCSR943TBH Peak with mild cognitive impairment middle frontal area 46 tissue female adult 90 or above years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF922WUL ENCSR943TBH with mild cognitive impairment middle frontal area 46 tissue female adult 90 or above years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF744HMZ ENCSR943SYS Peak H9 G2 phase stably expressing CDT1, stably expressing GMNN DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF098RGO ENCSR943SYS H9 G2 phase stably expressing CDT1, stably expressing GMNN DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF767EWQ ENCSR943STF Peak type B pancreatic cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF530MCT ENCSR943STF type B pancreatic cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF392LPW ENCSR943PIR Peak muscle layer of colon tissue female adult 77 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF862HHR ENCSR943PIR muscle layer of colon tissue female adult 77 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF607YYD ENCSR943MRO Peak posterior cingulate gyrus tissue female adult 85 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF283AUC ENCSR943MRO posterior cingulate gyrus tissue female adult 85 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF768ULS ENCSR943KMD Peak T-helper 2 cell male adult 38 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF334DIH ENCSR943KMD T-helper 2 cell male adult 38 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF086EPA ENCSR943BCO Peak stimulated activated CD8-positive, alpha-beta memory T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 4 hours, 100 ng/mL Interleukin-4 for 4 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF748VLP ENCSR943BCO stimulated activated CD8-positive, alpha-beta memory T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 4 hours, 100 ng/mL Interleukin-4 for 4 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF843NIA ENCSR941YPY Peak iPS-11a H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF858BWE ENCSR941YPY iPS-11a H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF071CME ENCSR941SMM Peak stomach tissue embryo 101 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF427IFI ENCSR941SMM stomach tissue embryo 101 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF723DJX ENCSR941DTJ Peak kidney tissue female embryo 108 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF490IDX ENCSR941DTJ kidney tissue female embryo 108 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF578FFN ENCSR940YDN Peak HG03159 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF766IFY ENCSR940YDN HG03159 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF182GTU ENCSR940UEK Peak CD4-positive, alpha-beta T cell female adult 39 years treated with Interleukin-10 for 1 hour DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF189SHD ENCSR940UEK CD4-positive, alpha-beta T cell female adult 39 years treated with Interleukin-10 for 1 hour DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF583XOR ENCSR940NLN Peak PC-9 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF623TJB ENCSR940NLN PC-9 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF962DBL ENCSR940CXU Peak endodermal cell originated from H1 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF642DIW ENCSR940CXU endodermal cell originated from H1 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF473TJW ENCSR939UQD Peak B cell male adult 37 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF807GVN ENCSR939UQD B cell male adult 37 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF578ZMZ ENCSR939EVW Peak GM21528 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF336DGX ENCSR939EVW GM21528 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF271GRX ENCSR938UOR Peak muscle of leg tissue female embryo 115 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF657PLZ ENCSR938UOR muscle of leg tissue female embryo 115 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF863CJO ENCSR938OKL Peak naive thymus-derived CD8-positive, alpha-beta T cell DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF088QWN ENCSR938OKL naive thymus-derived CD8-positive, alpha-beta T cell DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF176GKX ENCSR937UWI Peak hematopoietic multipotent progenitor cell treated with interleukin-3 for 15 days, kit ligand for 15 days, hydrocortisone succinate for 15 days, erythropoietin for 15 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF322YXK ENCSR937UWI hematopoietic multipotent progenitor cell treated with interleukin-3 for 15 days, kit ligand for 15 days, hydrocortisone succinate for 15 days, erythropoietin for 15 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF300WSB ENCSR937RVN Peak muscle of leg tissue male embryo 115 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF798GFU ENCSR937RVN muscle of leg tissue male embryo 115 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF872UHN ENCSR937EVN Peak sigmoid colon tissue male adult 54 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF322NLT ENCSR937EVN sigmoid colon tissue male adult 54 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF593ARH ENCSR936OPP Peak natural killer cell male adult 47 years treated with 100 ng/mL Interleukin-18 for 72 hours, 100 ng/mL Interleukin-12 subunit beta for 72 hours, 100 ng/mL Interleukin-12 subunit alpha for 72 hours, 100 ng/mL Interleukin-15 for 72 hours H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF240ZJY ENCSR936OPP natural killer cell male adult 47 years treated with 100 ng/mL Interleukin-18 for 72 hours, 100 ng/mL Interleukin-12 subunit beta for 72 hours, 100 ng/mL Interleukin-12 subunit alpha for 72 hours, 100 ng/mL Interleukin-15 for 72 hours H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF794NZP ENCSR936FAH Peak lung tissue female embryo 120 days H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF839NZT ENCSR936FAH lung tissue female embryo 120 days H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF794BIC ENCSR935SBZ Peak memory B cell male adult 40 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF165CYH ENCSR935SBZ memory B cell male adult 40 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF564ZAP ENCSR935JVI Peak K562 treated with 2.5 μM Galeterone for 48 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF538PVC ENCSR935JVI K562 treated with 2.5 μM Galeterone for 48 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF557LKT ENCSR935HEI Peak activated CD4-positive, alpha-beta T cell male adult 20 years treated with anti-CD3 and anti-CD28 coated beads DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF685YHE ENCSR935HEI activated CD4-positive, alpha-beta T cell male adult 20 years treated with anti-CD3 and anti-CD28 coated beads DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF994YLC ENCSR935EVZ Peak left lung tissue male embryo 115 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF799EDE ENCSR935EVZ left lung tissue male embryo 115 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF299AOR ENCSR935EPK Peak with mild cognitive impairment middle frontal area 46 tissue female adult 87 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF127DBK ENCSR935EPK with mild cognitive impairment middle frontal area 46 tissue female adult 87 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF783HZN ENCSR935ELX Peak CD4-positive, alpha-beta memory T cell male adult 43 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF888BMF ENCSR935ELX CD4-positive, alpha-beta memory T cell male adult 43 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF699RFM ENCSR934FTO Peak K562 treated with 1 μM ARS-853 for 24 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF407WTK ENCSR934FTO K562 treated with 1 μM ARS-853 for 24 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF138RDY ENCSR933VOY Peak activated CD8-positive, alpha-beta memory T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 24 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF314PGJ ENCSR933VOY activated CD8-positive, alpha-beta memory T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 24 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF210HGM ENCSR933HFM Peak stimulated activated CD4-positive, alpha-beta T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 4 hours, 100 ng/mL Interleukin-12 subunit alpha for 4 hours, 100 ng/mL Interleukin-12 subunit beta for 4 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF151XQY ENCSR933HFM stimulated activated CD4-positive, alpha-beta T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 4 hours, 100 ng/mL Interleukin-12 subunit alpha for 4 hours, 100 ng/mL Interleukin-12 subunit beta for 4 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF925OBY ENCSR933GMM Peak right lobe of liver tissue female adult 41 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF082KAC ENCSR933GMM right lobe of liver tissue female adult 41 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF281HPM ENCSR933BVL Peak transverse colon tissue female adult 53 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF339CRV ENCSR933BVL transverse colon tissue female adult 53 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF772DML ENCSR932ZMX Peak GM23338 originated from GM23248 CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF369MIX ENCSR932ZMX GM23338 originated from GM23248 CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF255MAF ENCSR932XBJ Peak with Alzheimer's disease, Cognitive impairment middle frontal area 46 tissue male adult 87 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF982KVV ENCSR932XBJ with Alzheimer's disease, Cognitive impairment middle frontal area 46 tissue male adult 87 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF787EWJ ENCSR932QRC Peak heart left ventricle tissue male adult 43 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF617TKL ENCSR932QRC heart left ventricle tissue male adult 43 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF117VMO ENCSR932OSG Peak activated T-helper 1 cell male adult 42 years treated with anti-CD3 and anti-CD28 coated beads for 16 hours, 50 U/mL Interleukin-2 for 16 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF329PET ENCSR932OSG activated T-helper 1 cell male adult 42 years treated with anti-CD3 and anti-CD28 coated beads for 16 hours, 50 U/mL Interleukin-2 for 16 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF101TNF ENCSR932KWJ Peak A172 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF962YGV ENCSR932KWJ A172 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF960ZGM ENCSR932DHT Peak renal cortex interstitium tissue female embryo 96 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF157MKL ENCSR932DHT renal cortex interstitium tissue female embryo 96 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF242KTT ENCSR931WLE Peak mesodermal cell originated from HUES64 H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF376TDW ENCSR931WLE mesodermal cell originated from HUES64 H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF212UID ENCSR931UQB Peak small intestine tissue male adult 34 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF208PEH ENCSR931UQB small intestine tissue male adult 34 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF014FEY ENCSR930YSB Peak stomach tissue female embryo 96 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF633SRN ENCSR930YSB stomach tissue female embryo 96 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF975EKZ ENCSR930USX Peak CD4-positive, alpha-beta T cell male adult 42 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF627YJN ENCSR930USX CD4-positive, alpha-beta T cell male adult 42 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF685VRG ENCSR930SOT Peak brain organoid female embryo 5 days, 30 days post differentiation CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF305GTF ENCSR930SOT brain organoid female embryo 5 days, 30 days post differentiation CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF865PWK ENCSR930PDT Peak ovary tissue female adult 53 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF764IRG ENCSR930PDT ovary tissue female adult 53 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF216ZBC ENCSR930HLX Peak thoracic aorta tissue male adult 54 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF314WYI ENCSR930HLX thoracic aorta tissue male adult 54 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF687CWE ENCSR930EMO Peak HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens POLR2A H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF206GDZ ENCSR930EMO HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens POLR2A H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF966ZHV ENCSR930AUG Peak right lung tissue female embryo 108 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF242TEW ENCSR930AUG right lung tissue female embryo 108 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF388BBB ENCSR929TOD Peak with Alzheimer's disease middle frontal area 46 tissue female adult 90 or above years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF385OAX ENCSR929TOD with Alzheimer's disease middle frontal area 46 tissue female adult 90 or above years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF587RKN ENCSR928WMU Peak heart right ventricle tissue male adult 66 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF700MXZ ENCSR928WMU heart right ventricle tissue male adult 66 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF812RES ENCSR928SYE Peak left renal cortex interstitium tissue male embryo 105 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF675DRF ENCSR928SYE left renal cortex interstitium tissue male embryo 105 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF964NBK ENCSR928SPE Peak with mild cognitive impairment middle frontal area 46 tissue female adult 90 or above years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF889GHD ENCSR928SPE with mild cognitive impairment middle frontal area 46 tissue female adult 90 or above years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF027ORH ENCSR928RNP Peak heart right ventricle tissue male adult 43 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF505OIJ ENCSR928RNP heart right ventricle tissue male adult 43 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF333ALW ENCSR928PSU Peak CD8-positive, alpha-beta T cell male adult 21 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF272WIY ENCSR928PSU CD8-positive, alpha-beta T cell male adult 21 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF262ITI ENCSR928PKL Peak with Cognitive impairment middle frontal area 46 tissue female adult 81 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF987RXP ENCSR928PKL with Cognitive impairment middle frontal area 46 tissue female adult 81 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF997SQF ENCSR928HSI Peak heart right ventricle tissue male adult 34 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF316SUQ ENCSR928HSI heart right ventricle tissue male adult 34 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF347BFF ENCSR927IOS Peak with Alzheimer's disease middle frontal area 46 tissue female adult 90 or above years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF435BRK ENCSR927IOS with Alzheimer's disease middle frontal area 46 tissue female adult 90 or above years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF951UET ENCSR926NMC Peak adrenal gland tissue male adult 54 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF263CSV ENCSR926NMC adrenal gland tissue male adult 54 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF459ANK ENCSR925LGW Peak heart left ventricle tissue female adult 59 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF870BZD ENCSR925LGW heart left ventricle tissue female adult 59 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF689NTZ ENCSR925IAP Peak chondrocyte H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF317LGP ENCSR925IAP chondrocyte H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF848HFJ ENCSR925GDS Peak sigmoid colon tissue female adult 53 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF154FOF ENCSR925GDS sigmoid colon tissue female adult 53 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF519WXX ENCSR924SDV Peak GM18498 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF178BCK ENCSR924SDV GM18498 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF287XVA ENCSR924IHU Peak posterior cingulate gyrus tissue female adult 84 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF295JAT ENCSR924IHU posterior cingulate gyrus tissue female adult 84 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF482IAF ENCSR923VTG Peak lower lobe of right lung tissue male adult 60 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF538SJJ ENCSR923VTG lower lobe of right lung tissue male adult 60 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF150TCY ENCSR923JYH Peak transverse colon tissue male adult 37 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF753MXL ENCSR923JYH transverse colon tissue male adult 37 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF833LRI ENCSR923JIB Peak with multiple sclerosis naive thymus-derived CD8-positive, alpha-beta T cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF830BQT ENCSR923JIB with multiple sclerosis naive thymus-derived CD8-positive, alpha-beta T cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF093KUI ENCSR923IIU Peak subcutaneous abdominal adipose tissue tissue nuclear fraction female adult 59 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF985SAO ENCSR923IIU subcutaneous abdominal adipose tissue tissue nuclear fraction female adult 59 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF424PHZ ENCSR923EGO Peak with multiple sclerosis IgD-negative memory B cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF359NSV ENCSR923EGO with multiple sclerosis IgD-negative memory B cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF939FUQ ENCSR923BEY Peak with mild cognitive impairment head of caudate nucleus tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF109TWE ENCSR923BEY with mild cognitive impairment head of caudate nucleus tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF602QSG ENCSR922YEW Peak placenta tissue female embryo DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF581YXV ENCSR922YEW placenta tissue female embryo DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF516KIZ ENCSR922UKO Peak progenitor cell of endocrine pancreas H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF201DRD ENCSR922UKO progenitor cell of endocrine pancreas H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF087VBI ENCSR922HGS Peak with mild cognitive impairment middle frontal area 46 tissue female adult 90 or above years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF433RNM ENCSR922HGS with mild cognitive impairment middle frontal area 46 tissue female adult 90 or above years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF978RPH ENCSR922CAT Peak mid-neurogenesis radial glial cells stably expressing HES5 originated from H9 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF631FWF ENCSR922CAT mid-neurogenesis radial glial cells stably expressing HES5 originated from H9 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF781HMM ENCSR921PPJ Peak with mild cognitive impairment middle frontal area 46 tissue female adult 83 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF813QPY ENCSR921PPJ with mild cognitive impairment middle frontal area 46 tissue female adult 83 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF874PBS ENCSR920YDG Peak K562 treated with 10 nM Bortezomib for 12 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF189OKB ENCSR920YDG K562 treated with 10 nM Bortezomib for 12 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF193JNI ENCSR920JUM Peak stimulated activated CD4-positive, alpha-beta T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 1 hour, 100 ng/mL Interleukin-4 for 1 hour DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF935MLV ENCSR920JUM stimulated activated CD4-positive, alpha-beta T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 1 hour, 100 ng/mL Interleukin-4 for 1 hour DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF933SPS ENCSR920FQJ Peak HG02938 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF221CEP ENCSR920FQJ HG02938 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF828ATQ ENCSR919WLM Peak HL-60 H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF383GZA ENCSR919WLM HL-60 H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF418JRS ENCSR919BBI Peak skin epidermis tissue female adult 48 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF702ZYG ENCSR919BBI skin epidermis tissue female adult 48 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF352CYR ENCSR918TVE Peak pancreas tissue female adult 47 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF323APR ENCSR918TVE pancreas tissue female adult 47 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF552AKN ENCSR917WJS Peak GM18909 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF980AMP ENCSR917WJS GM18909 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF692MYO ENCSR917QEH Peak foreskin fibroblast male newborn H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF509UMN ENCSR917QEH foreskin fibroblast male newborn H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF554RHT ENCSR917BSW Peak stimulated activated effector memory CD8-positive, alpha-beta T cell male adult 36 years treated with 100 ng/mL Interleukin-12 subunit alpha for 72 hours, anti-CD3 and anti-CD28 coated beads for 72 hours, 100 ng/mL Interleukin-12 subunit beta for 72 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF427WCT ENCSR917BSW stimulated activated effector memory CD8-positive, alpha-beta T cell male adult 36 years treated with 100 ng/mL Interleukin-12 subunit alpha for 72 hours, anti-CD3 and anti-CD28 coated beads for 72 hours, 100 ng/mL Interleukin-12 subunit beta for 72 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF164XSH ENCSR917BHP Peak effector memory CD8-positive, alpha-beta T cell male adult 36 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF109ZZY ENCSR917BHP effector memory CD8-positive, alpha-beta T cell male adult 36 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF349ZYY ENCSR916MHX Peak head of caudate nucleus tissue male adult 78 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF487QRP ENCSR916MHX head of caudate nucleus tissue male adult 78 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF531XDK ENCSR915QOL Peak fibroblast of lung female child 11 years and male adult 45 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF626WSE ENCSR915QOL fibroblast of lung female child 11 years and male adult 45 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF791AAO ENCSR915MTG Peak stimulated activated CD8-positive, alpha-beta memory T cell nuclear fraction male adult 30 years treated with anti-CD3 and anti-CD28 coated beads, 10 ng/mL Interleukin-2 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF566VPO ENCSR915MTG stimulated activated CD8-positive, alpha-beta memory T cell nuclear fraction male adult 30 years treated with anti-CD3 and anti-CD28 coated beads, 10 ng/mL Interleukin-2 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF057VZD ENCSR915ISE Peak IgD-negative memory B cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF547IQF ENCSR915ISE IgD-negative memory B cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF490RKG ENCSR914DTI Peak thyroid gland tissue female adult 53 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF030MOD ENCSR914DTI thyroid gland tissue female adult 53 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF109LWO ENCSR914DOH Peak heart tissue female embryo 103 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF379QDO ENCSR914DOH heart tissue female embryo 103 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF277YTN ENCSR913SEI Peak with Alzheimer's disease middle frontal area 46 tissue female adult 86 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF754BJX ENCSR913SEI with Alzheimer's disease middle frontal area 46 tissue female adult 86 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF228LXZ ENCSR913OWV Peak from a donor with amyotrophic lateral sclerosis motor neuron ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF347SHR ENCSR913OWV from a donor with amyotrophic lateral sclerosis motor neuron ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF586LMA ENCSR913NYL Peak renal pelvis tissue male embryo 108 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF103XFN ENCSR913NYL renal pelvis tissue male embryo 108 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF828TQN ENCSR912VCU Peak heart left ventricle tissue female adult 46 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF152PBB ENCSR912VCU heart left ventricle tissue female adult 46 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF671XCB ENCSR912TVO Peak layer of hippocampus tissue male adult 81 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF465FOA ENCSR912TVO layer of hippocampus tissue male adult 81 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF402MRB ENCSR912QMS Peak pancreas tissue female adult 41 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF236JWD ENCSR912QMS pancreas tissue female adult 41 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF260VHL ENCSR911YVV Peak renal pelvis tissue female embryo 89 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF355BPJ ENCSR911YVV renal pelvis tissue female embryo 89 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF781OFC ENCSR911LTI Peak heart tissue embryo 96 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF881ZMX ENCSR911LTI heart tissue embryo 96 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF956UTA ENCSR911GFJ Peak right lobe of liver tissue female adult 53 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF005YBS ENCSR911GFJ right lobe of liver tissue female adult 53 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF087WQZ ENCSR910XKX Peak Karpas-422 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF118UUV ENCSR910XKX Karpas-422 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF037WEE ENCSR910RFG Peak naive B cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF626IVN ENCSR910RFG naive B cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF749OWC ENCSR910PDW Peak epithelial cell of prostate male H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF010HOO ENCSR910PDW epithelial cell of prostate male H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF756XAK ENCSR910OQF Peak spinal cord tissue female embryo 59 days and male embryo 72 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF921DTY ENCSR910OQF spinal cord tissue female embryo 59 days and male embryo 72 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF537LDV ENCSR909ZLE Peak chorion tissue male embryo 16 weeks H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF896KEC ENCSR909ZLE chorion tissue male embryo 16 weeks H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF631ESR ENCSR909YET Peak upper lobe of left lung tissue male adult 60 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF831NQC ENCSR909YET upper lobe of left lung tissue male adult 60 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF971UHF ENCSR909UAG Peak esophagus squamous epithelium tissue female adult 53 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF058GFX ENCSR909UAG esophagus squamous epithelium tissue female adult 53 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF736TJZ ENCSR909HFI Peak right lobe of liver tissue female adult 53 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF020EPF ENCSR909HFI right lobe of liver tissue female adult 53 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF612UJM ENCSR908MUU Peak with mild cognitive impairment posterior cingulate gyrus tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF389HFU ENCSR908MUU with mild cognitive impairment posterior cingulate gyrus tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF918PWP ENCSR907JPV spleen tissue male adult 26 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF594PFO ENCSR907BES Peak transverse colon tissue male adult 54 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF435CDF ENCSR907BES transverse colon tissue male adult 54 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF377QRX ENCSR905UNZ Peak with multiple sclerosis CD14-positive monocyte H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF297LZZ ENCSR905UNZ with multiple sclerosis CD14-positive monocyte H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF519BQX ENCSR905TYC Peak bipolar neuron originated from GM23338 treated with 0.5 μg/mL doxycycline hyclate for 4 days H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF435NQW ENCSR905TYC bipolar neuron originated from GM23338 treated with 0.5 μg/mL doxycycline hyclate for 4 days H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF287PWX ENCSR905PWV Peak HG02610 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF171ZOI ENCSR905PWV HG02610 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF440XFJ ENCSR904RIA Peak heart left ventricle tissue male adult 61 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF310JID ENCSR904RIA heart left ventricle tissue male adult 61 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF418MOB ENCSR904LMG Peak with Cognitive impairment, Alzheimer's disease middle frontal area 46 tissue male adult 87 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF831FJX ENCSR904LMG with Cognitive impairment, Alzheimer's disease middle frontal area 46 tissue male adult 87 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF395FBN ENCSR904KDP Peak left lung tissue female child 16 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF642TNR ENCSR904KDP left lung tissue female child 16 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF449HDL ENCSR903WVU Peak naive B cell male adult 40 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF527HBZ ENCSR903WVU naive B cell male adult 40 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF780RMD ENCSR903SKE Peak DND-41 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF969JHD ENCSR903SKE DND-41 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF235JIK ENCSR902QIJ Peak fibroblast of breast female adult 26 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF165UJO ENCSR902QIJ fibroblast of breast female adult 26 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF254UBP ENCSR902CFR Peak GM21423 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF372XDM ENCSR902CFR GM21423 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF833BIB ENCSR902BOX Peak T-cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF071AFK ENCSR902BOX T-cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF521KKL ENCSR901SIL Peak heart left ventricle tissue female adult 53 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF651XRK ENCSR901SIL heart left ventricle tissue female adult 53 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF492KHV ENCSR901NIN Peak progenitor cell of endocrine pancreas CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF559SRW ENCSR901NIN progenitor cell of endocrine pancreas CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF006OHN ENCSR901EDL Peak with mild cognitive impairment middle frontal area 46 tissue male adult 89 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF345SEW ENCSR901EDL with mild cognitive impairment middle frontal area 46 tissue male adult 89 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF488JIM ENCSR901BRV Peak thyroid gland tissue male adult 37 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF501SGE ENCSR901BRV thyroid gland tissue male adult 37 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF308TNW ENCSR900UIP Peak sigmoid colon tissue female adult 53 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF237VMY ENCSR900UIP sigmoid colon tissue female adult 53 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF553LFQ ENCSR900SJW Peak heart right ventricle tissue female adult 46 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF654FHZ ENCSR900SJW heart right ventricle tissue female adult 46 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF925LST ENCSR899YEP Peak heart left ventricle tissue male adult 61 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF676UJV ENCSR899YEP heart left ventricle tissue male adult 61 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF596QXB ENCSR899JSO Peak adrenal gland tissue male adult 37 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF804PBU ENCSR899JSO adrenal gland tissue male adult 37 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF287NMY ENCSR896LMT Peak posterior cingulate gyrus tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF823JWZ ENCSR896LMT posterior cingulate gyrus tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF776GAG ENCSR895TUV Peak with mild cognitive impairment head of caudate nucleus tissue female adult 87 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF925ICT ENCSR895TUV with mild cognitive impairment head of caudate nucleus tissue female adult 87 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF217XGU ENCSR895KTN Peak HAP-1 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF131QKT ENCSR895KTN HAP-1 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF998NCT ENCSR895GSY Peak Right ventricle myocardium superior tissue male adult 60 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF125HZY ENCSR895GSY Right ventricle myocardium superior tissue male adult 60 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF127DPQ ENCSR894OYM Peak HUES64 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF672FMX ENCSR894OYM HUES64 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF539RHT ENCSR894MOX Peak esophagus muscularis mucosa tissue female adult 51 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF524ZGX ENCSR894MOX esophagus muscularis mucosa tissue female adult 51 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF658GXV ENCSR892XTV Peak stimulated activated naive CD8-positive, alpha-beta T cell male adult 36 years treated with anti-CD3 and anti-CD28 coated beads for 72 hours, 100 ng/mL Interleukin-15 for 72 hours H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF006ONU ENCSR892XTV stimulated activated naive CD8-positive, alpha-beta T cell male adult 36 years treated with anti-CD3 and anti-CD28 coated beads for 72 hours, 100 ng/mL Interleukin-15 for 72 hours H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF297UKF ENCSR892XFG Peak small intestine tissue male embryo 108 days H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF941TND ENCSR892XFG small intestine tissue male embryo 108 days H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF129HCE ENCSR892HPQ Peak effector memory CD4-positive, alpha-beta T cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF185MAH ENCSR892HPQ effector memory CD4-positive, alpha-beta T cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF659YMY ENCSR891XGQ Peak angular gyrus tissue female adult 75 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF257QES ENCSR891XGQ angular gyrus tissue female adult 75 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF243UGB ENCSR891VOV Peak B cell female adult 34 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF791QXM ENCSR891VOV B cell female adult 34 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF840UCX ENCSR891KSP Peak common myeloid progenitor, CD34-positive female adult 27 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF871ZFZ ENCSR891KSP common myeloid progenitor, CD34-positive female adult 27 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF570QYR ENCSR891BTJ Peak tibial artery tissue male adult 37 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF972ZHA ENCSR891BTJ tibial artery tissue male adult 37 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF042XJO ENCSR890DWH Peak psoas muscle tissue female adult 41 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF458WHN ENCSR890DWH psoas muscle tissue female adult 41 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF424FJQ ENCSR889YWJ Peak stimulated activated CD8-positive, alpha-beta memory T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 48 hours, 100 ng/mL Interleukin-15 for 48 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF058QST ENCSR889YWJ stimulated activated CD8-positive, alpha-beta memory T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 48 hours, 100 ng/mL Interleukin-15 for 48 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF929RCA ENCSR889WKL Peak HL-60 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF339ZGM ENCSR889WKL HL-60 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF637HNV ENCSR889VGA Peak with multiple sclerosis CD14-positive monocyte H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF783FUP ENCSR889VGA with multiple sclerosis CD14-positive monocyte H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF490FXW ENCSR889TEU Peak with Alzheimer's disease, Cognitive impairment middle frontal area 46 tissue female adult 87 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF432RWD ENCSR889TEU with Alzheimer's disease, Cognitive impairment middle frontal area 46 tissue female adult 87 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF819NYN ENCSR889ONK Peak naive thymus-derived CD8-positive, alpha-beta T cell male adult 42 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF725EMR ENCSR889ONK naive thymus-derived CD8-positive, alpha-beta T cell male adult 42 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF796BFQ ENCSR888ZIZ Peak head of caudate nucleus tissue male adult 85 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF301CMS ENCSR888ZIZ head of caudate nucleus tissue male adult 85 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF411QEX ENCSR888WZL Peak iPS DF 19.11 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF363NMD ENCSR888WZL iPS DF 19.11 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF145XJG ENCSR888UPQ Peak thymus tissue male embryo 108 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF981ZHS ENCSR888UPQ thymus tissue male embryo 108 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF467SFP ENCSR888NRO Peak with Alzheimer's disease middle frontal area 46 tissue female adult 74 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF586MLV ENCSR888NRO with Alzheimer's disease middle frontal area 46 tissue female adult 74 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF913DUK ENCSR888JRM Peak K562 treated with 100 nM GSK J4 for 48 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF373UMR ENCSR888JRM K562 treated with 100 nM GSK J4 for 48 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF159EEX ENCSR888GBS Peak muscle of arm tissue male embryo 96 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF478TTG ENCSR888GBS muscle of arm tissue male embryo 96 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF806XHK ENCSR888EEH Peak with Alzheimer's disease middle frontal area 46 tissue female adult 89 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF100JXF ENCSR888EEH with Alzheimer's disease middle frontal area 46 tissue female adult 89 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF741DRJ ENCSR887VUC Peak with Cognitive impairment, Alzheimer's disease posterior cingulate gyrus tissue male adult 73 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF048PZN ENCSR887VUC with Cognitive impairment, Alzheimer's disease posterior cingulate gyrus tissue male adult 73 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF482EZO ENCSR887BNC Peak right renal cortex interstitium tissue male embryo 120 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF934HJD ENCSR887BNC right renal cortex interstitium tissue male embryo 120 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF024FED ENCSR886VCC Peak psoas muscle tissue female adult 47 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF542SXR ENCSR886VCC psoas muscle tissue female adult 47 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF090FCG ENCSR886LDA Peak memory B cell male adult 40 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF228CYK ENCSR886LDA memory B cell male adult 40 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF698CJG ENCSR885ZBV Peak with mild cognitive impairment posterior cingulate gyrus tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF820OSF ENCSR885ZBV with mild cognitive impairment posterior cingulate gyrus tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF522KEK ENCSR885WWJ Peak with Alzheimer's disease head of caudate nucleus tissue male adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF145YIG ENCSR885WWJ with Alzheimer's disease head of caudate nucleus tissue male adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF860YDE ENCSR885AWF Peak stimulated activated CD4-positive, alpha-beta T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 48 hours, 100 ng/mL TNF-alpha for 48 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF945VXT ENCSR885AWF stimulated activated CD4-positive, alpha-beta T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 48 hours, 100 ng/mL TNF-alpha for 48 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF289VBZ ENCSR884SIF Peak heart left ventricle tissue female adult 59 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF135RBK ENCSR884SIF heart left ventricle tissue female adult 59 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF681AAL ENCSR884ODJ Peak stimulated activated CD4-positive, alpha-beta T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 48 hours, 100 ng/mL Interleukin-12 subunit alpha for 48 hours, 100 ng/mL Interleukin-12 subunit beta for 48 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF448DQY ENCSR884ODJ stimulated activated CD4-positive, alpha-beta T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 48 hours, 100 ng/mL Interleukin-12 subunit alpha for 48 hours, 100 ng/mL Interleukin-12 subunit beta for 48 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF393ZDC ENCSR884MVN Peak naive B cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF221BVQ ENCSR884MVN naive B cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF766HEW ENCSR884MCZ Peak right kidney tissue female embryo 98 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF709SKU ENCSR884MCZ right kidney tissue female embryo 98 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF343CDD ENCSR884LIO Peak mesothelial cell of epicardium H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF712FDJ ENCSR884LIO mesothelial cell of epicardium H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF702YVR ENCSR884EVT Peak endocrine pancreas tissue adult 59 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF011VNN ENCSR884EVT endocrine pancreas tissue adult 59 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF842FQH ENCSR883WDW Peak CD4-positive, alpha-beta T cell female adult 37 years treated with Interleukin-6 for 4 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF844WLY ENCSR883WDW CD4-positive, alpha-beta T cell female adult 37 years treated with Interleukin-6 for 4 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF498YPU ENCSR883QMZ Peak substantia nigra tissue male adult 81 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF011PCV ENCSR883QMZ substantia nigra tissue male adult 81 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF692FJE ENCSR882EIQ Peak activated T-cell female adult 21 years treated with 50 U/mL Interleukin-2 for 72 hours, anti-CD3 and anti-CD28 coated beads for 72 hours H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF486UEU ENCSR882EIQ activated T-cell female adult 21 years treated with 50 U/mL Interleukin-2 for 72 hours, anti-CD3 and anti-CD28 coated beads for 72 hours H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF373QKQ ENCSR882CQE Peak HAP-1 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF487XII ENCSR882CQE HAP-1 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF769GAB ENCSR881YFU Peak heart left ventricle tissue male adult 66 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF251ATC ENCSR881YFU heart left ventricle tissue male adult 66 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF566TCW ENCSR881FBS Peak head of caudate nucleus tissue female adult 88 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF940HNG ENCSR881FBS head of caudate nucleus tissue female adult 88 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF213PAT ENCSR881CRY Peak stimulated activated CD4-positive, alpha-beta T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 48 hours, 100 ng/mL Interleukin-15 for 48 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF896QGC ENCSR881CRY stimulated activated CD4-positive, alpha-beta T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 48 hours, 100 ng/mL Interleukin-15 for 48 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF303FIJ ENCSR881AOK Peak CD8-positive, alpha-beta memory T cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF403ISY ENCSR881AOK CD8-positive, alpha-beta memory T cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF465NSC ENCSR880CUB Peak middle frontal area 46 tissue male adult 83 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF036SMP ENCSR880CUB middle frontal area 46 tissue male adult 83 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF739WTP ENCSR879XUH Peak middle frontal area 46 tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF258AWM ENCSR879XUH middle frontal area 46 tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF006NIX ENCSR879EVD Peak head of caudate nucleus tissue male adult 83 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF354GAT ENCSR879EVD head of caudate nucleus tissue male adult 83 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF311RKZ ENCSR878YHM Peak with multiple sclerosis naive thymus-derived CD4-positive, alpha-beta T cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF089MQX ENCSR878YHM with multiple sclerosis naive thymus-derived CD4-positive, alpha-beta T cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF679QZR ENCSR878VJL Peak HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens POLR2A DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF110HOX ENCSR878VJL HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens POLR2A DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF565YNW ENCSR878KIY Peak Peyer's patch tissue female adult 53 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF675KIN ENCSR878KIY Peyer's patch tissue female adult 53 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF900GJG ENCSR878JSF Peak B cell female adult 43 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF917JIG ENCSR878JSF B cell female adult 43 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF401BQW ENCSR878ITC Peak T-cell male adult 21 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF176BTL ENCSR878ITC T-cell male adult 21 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF383PUU ENCSR877OGW Peak middle frontal area 46 tissue male adult 83 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF352MMI ENCSR877OGW middle frontal area 46 tissue male adult 83 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF393CGI ENCSR876DCP Peak body of pancreas tissue male adult 37 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF285STS ENCSR876DCP body of pancreas tissue male adult 37 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF968HRS ENCSR875QDS Peak iPS DF 6.9 H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF206AKV ENCSR875QDS iPS DF 6.9 H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF999DBX ENCSR875PYX Peak middle frontal area 46 tissue male adult 83 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF730XOV ENCSR875PYX middle frontal area 46 tissue male adult 83 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF677VJZ ENCSR875OQJ Peak lower lobe of left lung tissue male adult 60 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF504NPN ENCSR875OQJ lower lobe of left lung tissue male adult 60 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF475AOE ENCSR875NEW Peak tibial nerve tissue female adult 53 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF678PGU ENCSR875NEW tibial nerve tissue female adult 53 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF485AAA ENCSR875IVR Peak with multiple sclerosis naive thymus-derived CD4-positive, alpha-beta T cell DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF785GPW ENCSR875IVR with multiple sclerosis naive thymus-derived CD4-positive, alpha-beta T cell DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF631ENP ENCSR874WOB Peak trophoblast cell originated from H1 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF727PNB ENCSR874WOB trophoblast cell originated from H1 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF418LZJ ENCSR874GXS Peak HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens CDK7 treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF075RIV ENCSR874GXS HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens CDK7 treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF074UVF ENCSR874GAJ Peak K562 treated with 5 μM C646 for 4 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF895FCZ ENCSR874GAJ K562 treated with 5 μM C646 for 4 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF952NMO ENCSR874CAK Peak large intestine tissue female embryo 108 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF451GMR ENCSR874CAK large intestine tissue female embryo 108 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF504YRH ENCSR873SVP Peak HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens MED14 treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF937FKH ENCSR873SVP HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens MED14 treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF235ERC ENCSR873ANE Peak kidney tissue female embryo 76 days and male embryo 76 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF475UUM ENCSR873ANE kidney tissue female embryo 76 days and male embryo 76 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF955FVE ENCSR872YGQ Peak with Alzheimer's disease middle frontal area 46 tissue female adult 89 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF380WZB ENCSR872YGQ with Alzheimer's disease middle frontal area 46 tissue female adult 89 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF068PVP ENCSR872WGW Peak HCT116 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF259PSA ENCSR872WGW HCT116 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF865WQU ENCSR872IXQ Peak T-helper 2 cell male adult 30 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF198SMG ENCSR872IXQ T-helper 2 cell male adult 30 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF951ERP ENCSR872DUY Peak ovary tissue female adult 41 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF779FIH ENCSR872DUY ovary tissue female adult 41 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF565YTM ENCSR871TIY Peak HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens RAD21 treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF380TOJ ENCSR871TIY HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens RAD21 treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF905VZH ENCSR871MKQ Peak H9 CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF963CHU ENCSR871MKQ H9 CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF728HFG ENCSR871APX Peak right kidney tissue female embryo 147 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF844BOT ENCSR871APX right kidney tissue female embryo 147 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF965ALS ENCSR869XBX Peak mucosa of descending colon tissue male adult 40 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF258EWK ENCSR869XBX mucosa of descending colon tissue male adult 40 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF437DHQ ENCSR869TDT Peak with squamous cell carcinoma skin epidermis tissue female adult 80 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF319LCS ENCSR869TDT with squamous cell carcinoma skin epidermis tissue female adult 80 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF185FNU ENCSR869QEN Peak CD8-positive, alpha-beta memory T cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF454FEA ENCSR869QEN CD8-positive, alpha-beta memory T cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF015CRM ENCSR869JYO Peak T-helper 2 cell male adult 42 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF869VIC ENCSR869JYO T-helper 2 cell male adult 42 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF200MOO ENCSR868ZOR Peak pancreas tissue female adult 59 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF306RJQ ENCSR868ZOR pancreas tissue female adult 59 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF204END ENCSR868XPR Peak muscle of arm tissue male embryo 115 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF561LKS ENCSR868XPR muscle of arm tissue male embryo 115 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF155DNF ENCSR867XFA Peak left colon tissue female adult 59 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF613BDA ENCSR867XFA left colon tissue female adult 59 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF988JWD ENCSR867ITQ Peak HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens CDK7 treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF051XFM ENCSR867ITQ HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens CDK7 treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF587DDU ENCSR866RCY Peak adrenal gland tissue female embryo 85 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF004OUB ENCSR866RCY adrenal gland tissue female embryo 85 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF931EYK ENCSR866ODX Peak testis tissue male adult 37 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF589CRI ENCSR866ODX testis tissue male adult 37 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF735IIE ENCSR865CYW Peak middle frontal area 46 tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF878ZQA ENCSR865CYW middle frontal area 46 tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF827KTY ENCSR864RGX Peak stimulated activated naive CD8-positive, alpha-beta T cell male adult 30 years treated with anti-CD3 and anti-CD28 coated beads, 10 ng/mL Interleukin-2 H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF828MOZ ENCSR864RGX stimulated activated naive CD8-positive, alpha-beta T cell male adult 30 years treated with anti-CD3 and anti-CD28 coated beads, 10 ng/mL Interleukin-2 H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF185EQB ENCSR864EXK Peak excitatory neuron H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF346LEZ ENCSR864EXK excitatory neuron H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF444RGS ENCSR864ECD Peak left lung tissue male adult 40 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF973MQG ENCSR864ECD left lung tissue male adult 40 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF097KAQ ENCSR864ADD Peak adrenal gland tissue female adult 41 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF854MVA ENCSR864ADD adrenal gland tissue female adult 41 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF886RHE ENCSR863OPD Peak heart right ventricle tissue male adult 69 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF538YZL ENCSR863OPD heart right ventricle tissue male adult 69 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF078VOL ENCSR863LZT Peak T-cell male adult 39 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF165MKR ENCSR863LZT T-cell male adult 39 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF361ENV ENCSR863BVD Peak heart left ventricle tissue female adult 46 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF352YYH ENCSR863BVD heart left ventricle tissue female adult 46 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF474BLB ENCSR862ZDV Peak CD4-positive, alpha-beta memory T cell DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF797CNF ENCSR862ZDV CD4-positive, alpha-beta memory T cell DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF967UGS ENCSR862SQC Peak head of caudate nucleus tissue male adult 84 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF158ZYM ENCSR862SQC head of caudate nucleus tissue male adult 84 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF012TPU ENCSR862INW Peak nephron organoid female embryo 5 days, 49 days post differentiation H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF229RJS ENCSR862INW nephron organoid female embryo 5 days, 49 days post differentiation H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF966KYV ENCSR861NUH muscle of leg tissue male embryo 104 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF720PQU ENCSR860UTH Peak head of caudate nucleus tissue male adult 86 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF057JIJ ENCSR860UTH head of caudate nucleus tissue male adult 86 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF060ZDD ENCSR860TEJ Peak middle frontal area 46 tissue female adult 90 or above years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF703DMY ENCSR860TEJ middle frontal area 46 tissue female adult 90 or above years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF323TMD ENCSR860NDZ Peak small intestine tissue female embryo 105 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF514NYA ENCSR860NDZ small intestine tissue female embryo 105 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF671AKB ENCSR860IDO Peak activated CD8-positive, alpha-beta memory T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 4 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF709RSH ENCSR860IDO activated CD8-positive, alpha-beta memory T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 4 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF912VHX ENCSR859LTL Peak breast epithelium tissue female adult 51 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF549MXK ENCSR859LTL breast epithelium tissue female adult 51 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF856NGX ENCSR859KGQ Peak right lung tissue female embryo 107 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF674YCS ENCSR859KGQ right lung tissue female embryo 107 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF320LBO ENCSR859HEW Peak with mild cognitive impairment posterior cingulate gyrus tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF660FQT ENCSR859HEW with mild cognitive impairment posterior cingulate gyrus tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF339QYU ENCSR859CZM Peak occipital lobe tissue male adult 84 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF935KGD ENCSR859CZM occipital lobe tissue male adult 84 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF412YNF ENCSR858GTE Peak HG03442 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF556WEK ENCSR858GTE HG03442 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF397ZZF ENCSR857RJQ Peak sigmoid colon tissue male adult 54 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF634JUC ENCSR857RJQ sigmoid colon tissue male adult 54 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF466OXN ENCSR857PBV Peak 22Rv1 CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF101XPW ENCSR857PBV 22Rv1 CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF745OTQ ENCSR857MCZ Peak HG02970 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF674JLK ENCSR857MCZ HG02970 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF619EQC ENCSR857GMX Peak OCI-LY3 H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF668LGR ENCSR857GMX OCI-LY3 H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF590KAW ENCSR857AEB Peak large intestine tissue male embryo 108 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF501IWZ ENCSR857AEB large intestine tissue male embryo 108 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF908ZEJ ENCSR856YVD Peak T-helper 1 cell male adult 35 years treated with 1 μg/mL Interleukin-4 antibody , 30 ng/mL Interleukin-12 subunit alpha , 30 ng/mL Interleukin-12 subunit beta H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF807SHG ENCSR856YVD T-helper 1 cell male adult 35 years treated with 1 μg/mL Interleukin-4 antibody , 30 ng/mL Interleukin-12 subunit alpha , 30 ng/mL Interleukin-12 subunit beta H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF806ZOY ENCSR856XLJ Peak gastrocnemius medialis tissue female adult 51 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF103WUK ENCSR856XLJ gastrocnemius medialis tissue female adult 51 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF453XJM ENCSR856XGY Peak with Alzheimer's disease head of caudate nucleus tissue female adult 89 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF526TNK ENCSR856XGY with Alzheimer's disease head of caudate nucleus tissue female adult 89 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF941APR ENCSR856QJX Peak adrenal gland tissue male embryo 85 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF242OKC ENCSR856QJX adrenal gland tissue male embryo 85 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF308UZN ENCSR856NXV Peak cardiac fibroblast female embryo 94 days and female embryo 98 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF129UGV ENCSR856NXV cardiac fibroblast female embryo 94 days and female embryo 98 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF911IEE ENCSR856JJB Peak RWPE2 CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF508ALM ENCSR856JJB RWPE2 CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF680JIN ENCSR855OKE Peak activated naive CD4-positive, alpha-beta T cell male adult 50 years treated with 50 U/mL Interleukin-2 for 72 hours, anti-CD3 and anti-CD28 coated beads for 72 hours H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF766FGE ENCSR855OKE activated naive CD4-positive, alpha-beta T cell male adult 50 years treated with 50 U/mL Interleukin-2 for 72 hours, anti-CD3 and anti-CD28 coated beads for 72 hours H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF208ROD ENCSR855NCG Peak with mild cognitive impairment middle frontal area 46 tissue female adult 83 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF820MMW ENCSR855NCG with mild cognitive impairment middle frontal area 46 tissue female adult 83 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF457NUS ENCSR855FOP Peak hematopoietic multipotent progenitor cell treated with interleukin-3 for 13 days, kit ligand for 13 days, hydrocortisone succinate for 13 days, erythropoietin for 13 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF271NTU ENCSR855FOP hematopoietic multipotent progenitor cell treated with interleukin-3 for 13 days, kit ligand for 13 days, hydrocortisone succinate for 13 days, erythropoietin for 13 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF704TOI ENCSR855BMI Peak Right ventricle myocardium inferior tissue male adult 60 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF684ZDU ENCSR855BMI Right ventricle myocardium inferior tissue male adult 60 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF304ZDL ENCSR854ZBA Peak HG02840 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF285ZYA ENCSR854ZBA HG02840 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF886SVW ENCSR854TTM Peak natural killer cell male adult 47 years treated with 100 ng/mL Interleukin-12 subunit alpha for 72 hours, 100 ng/mL Interleukin-15 for 72 hours, 100 ng/mL Interleukin-12 subunit beta for 72 hours, 100 ng/mL Interleukin-18 for 72 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF971FBW ENCSR854TTM natural killer cell male adult 47 years treated with 100 ng/mL Interleukin-12 subunit alpha for 72 hours, 100 ng/mL Interleukin-15 for 72 hours, 100 ng/mL Interleukin-12 subunit beta for 72 hours, 100 ng/mL Interleukin-18 for 72 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF816LCO ENCSR854OXF Peak heart left ventricle tissue female adult 53 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF320IPT ENCSR854OXF heart left ventricle tissue female adult 53 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF688ZLQ ENCSR852FRR Peak CD4-positive, alpha-beta T cell male adult 21 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF591RWC ENCSR852FRR CD4-positive, alpha-beta T cell male adult 21 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF759HAE ENCSR852BLA Peak pancreas tissue female child 16 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF521NYK ENCSR852BLA pancreas tissue female child 16 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF660ZPF ENCSR851ZFT Peak renal cortex interstitium tissue female embryo 89 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF276NWZ ENCSR851ZFT renal cortex interstitium tissue female embryo 89 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF762IFP ENCSR851SBY Peak stomach tissue male adult 54 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF841ZHA ENCSR851SBY stomach tissue male adult 54 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF967ADB ENCSR851EBF Peak heart left ventricle tissue female adult 53 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF928YID ENCSR851EBF heart left ventricle tissue female adult 53 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF992APJ ENCSR849YFO Peak bipolar neuron originated from GM23338 treated with 0.5 μg/mL doxycycline hyclate for 4 days H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF768NPJ ENCSR849YFO bipolar neuron originated from GM23338 treated with 0.5 μg/mL doxycycline hyclate for 4 days H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF803PNZ ENCSR849WGE Peak middle frontal area 46 tissue male adult 84 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF477CEG ENCSR849WGE middle frontal area 46 tissue male adult 84 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF846ZPW ENCSR849OKE Peak renal cortex interstitium tissue male embryo 127 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF211HIE ENCSR849OKE renal cortex interstitium tissue male embryo 127 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF664SDG ENCSR849CYU Peak with mild cognitive impairment head of caudate nucleus tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF654NNL ENCSR849CYU with mild cognitive impairment head of caudate nucleus tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF614PHX ENCSR848XJL Peak with multiple sclerosis naive thymus-derived CD8-positive, alpha-beta T cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF817YEB ENCSR848XJL with multiple sclerosis naive thymus-derived CD8-positive, alpha-beta T cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF679QSU ENCSR847XGE Peak 22Rv1 treated with 10 nM 17β-hydroxy-5α-androstan-3-one for 4 hours CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF167XIB ENCSR847XGE 22Rv1 treated with 10 nM 17β-hydroxy-5α-androstan-3-one for 4 hours CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF409BEB ENCSR847RSJ Peak lung tissue female embryo 96 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF743VYP ENCSR847RSJ lung tissue female embryo 96 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF812HQJ ENCSR847OSL Peak with mild cognitive impairment middle frontal area 46 tissue female adult 90 or above years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF374AEG ENCSR847OSL with mild cognitive impairment middle frontal area 46 tissue female adult 90 or above years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF395ZME ENCSR847AIA Peak adrenal gland tissue male embryo 97 days H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF735UKH ENCSR847AIA adrenal gland tissue male embryo 97 days H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF603MOP ENCSR846ZBX Peak breast epithelium tissue female adult 51 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF325WVA ENCSR846ZBX breast epithelium tissue female adult 51 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF150PRS ENCSR846VPV Peak heart left ventricle tissue female adult 66 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF840TYL ENCSR846VPV heart left ventricle tissue female adult 66 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF951OFF ENCSR846VLJ Peak sigmoid colon tissue female adult 53 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF784HME ENCSR846VLJ sigmoid colon tissue female adult 53 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF183VPL ENCSR846VGZ Peak posterior cingulate gyrus tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF293YDF ENCSR846VGZ posterior cingulate gyrus tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF451CCT ENCSR846JKO Peak ascending aorta tissue female adult 51 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF880CZK ENCSR846JKO ascending aorta tissue female adult 51 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF041ZPW ENCSR846CTA Peak right lung tissue male embryo 105 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF880ULX ENCSR846CTA right lung tissue male embryo 105 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF745CMX ENCSR845VVI Peak naive thymus-derived CD8-positive, alpha-beta T cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF926KJX ENCSR845VVI naive thymus-derived CD8-positive, alpha-beta T cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF969PHZ ENCSR845MEJ Peak right lung tissue female embryo 117 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF543JQI ENCSR845MEJ right lung tissue female embryo 117 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF382PBA ENCSR845GYI Peak activated CD4 positive, naive alpha-beta T cell male adult 43 years treated with anti-CD3 and anti-CD28 coated beads H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF458MRS ENCSR845GYI activated CD4 positive, naive alpha-beta T cell male adult 43 years treated with anti-CD3 and anti-CD28 coated beads H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF170XWC ENCSR845CFB Peak hematopoietic multipotent progenitor cell treated with interleukin-3 for 8 days, kit ligand for 8 days, hydrocortisone succinate for 8 days, erythropoietin for 8 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF141GMK ENCSR845CFB hematopoietic multipotent progenitor cell treated with interleukin-3 for 8 days, kit ligand for 8 days, hydrocortisone succinate for 8 days, erythropoietin for 8 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF831WJB ENCSR843UEZ Peak stomach tissue male adult 37 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF751MDE ENCSR843UEZ stomach tissue male adult 37 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF057ZZU ENCSR842VTJ Peak CD8-positive, alpha-beta T cell male adult 21 years treated with 7.5 μg/kg G-CSF for 4 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF486IBK ENCSR842VTJ CD8-positive, alpha-beta T cell male adult 21 years treated with 7.5 μg/kg G-CSF for 4 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF206CUJ ENCSR842NGQ Peak neuroepithelial stem cell stably expressing HES5 originated from H9 H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF127GNC ENCSR842NGQ neuroepithelial stem cell stably expressing HES5 originated from H9 H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF793YFI ENCSR842KCP Peak cardiac muscle cell originated from RUES2 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF648XPS ENCSR842KCP cardiac muscle cell originated from RUES2 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF661KQX ENCSR841UCZ Peak activated CD4-positive, alpha-beta T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 1 hour DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF495OBX ENCSR841UCZ activated CD4-positive, alpha-beta T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 1 hour DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF476AGS ENCSR841AJO Peak prostate gland tissue male adult 37 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF112GCV ENCSR841AJO prostate gland tissue male adult 37 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF598VZR ENCSR840USW Peak stimulated activated CD4-positive, alpha-beta T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 24 hours, 100 ng/mL Interleukin-4 for 24 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF788MVG ENCSR840USW stimulated activated CD4-positive, alpha-beta T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 24 hours, 100 ng/mL Interleukin-4 for 24 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF018DJF ENCSR840TVG Peak CD8-positive, alpha-beta T cell female adult 33 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF259VQH ENCSR840TVG CD8-positive, alpha-beta T cell female adult 33 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF273LNA ENCSR840QLA Peak stimulated activated CD4-positive, alpha-beta T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 48 hours, 100 ng/mL TNF-alpha for 48 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF712XRP ENCSR840QLA stimulated activated CD4-positive, alpha-beta T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 48 hours, 100 ng/mL TNF-alpha for 48 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF786ATD ENCSR840KVX Peak caudate nucleus tissue male adult 81 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF733OPS ENCSR840KVX caudate nucleus tissue male adult 81 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF741WMU ENCSR840EYN Peak heart right ventricle tissue female adult 59 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF317FXL ENCSR840EYN heart right ventricle tissue female adult 59 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF233BHH ENCSR839UOB Peak HG03432 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF275WVZ ENCSR839UOB HG03432 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF926AHQ ENCSR839RAJ Peak with Alzheimer's disease middle frontal area 46 tissue female adult 85 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF521HEY ENCSR839RAJ with Alzheimer's disease middle frontal area 46 tissue female adult 85 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF672XXK ENCSR839IAD Peak GM19397 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF169PJA ENCSR839IAD GM19397 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF144BWD ENCSR839GXY Peak heart right ventricle tissue male adult 73 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF318ILJ ENCSR839GXY heart right ventricle tissue male adult 73 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF856MLB ENCSR839GHA Peak with Alzheimer's disease head of caudate nucleus tissue female adult 89 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF395ZKW ENCSR839GHA with Alzheimer's disease head of caudate nucleus tissue female adult 89 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF700BXI ENCSR838RUX Peak esophagus squamous epithelium tissue male adult 37 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF536DEU ENCSR838RUX esophagus squamous epithelium tissue male adult 37 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF204GSU ENCSR838IPF Peak thymus tissue female embryo 105 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF405RFM ENCSR838IPF thymus tissue female embryo 105 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF161JSE ENCSR837ZSS Peak T-cell female adult 19 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF639VUL ENCSR837ZSS T-cell female adult 19 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF427JMD ENCSR837SGJ Peak Peyer's patch tissue female adult 53 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF302XLU ENCSR837SGJ Peyer's patch tissue female adult 53 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF102TOO ENCSR837CSL Peak adrenal gland tissue female adult 41 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF988QAR ENCSR837CSL adrenal gland tissue female adult 41 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF394CHS ENCSR836FIL Peak right lobe of liver tissue male adult 40 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF241ZLC ENCSR836FIL right lobe of liver tissue male adult 40 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF508MDQ ENCSR835YED Peak skin epidermis tissue male adult 77 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF863OBQ ENCSR835YED skin epidermis tissue male adult 77 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF837VTX ENCSR835WBW Peak HG03565 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF245DIM ENCSR835WBW HG03565 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF769QJU ENCSR835OJV Peak CD8-positive, alpha-beta T cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF495UDL ENCSR835OJV CD8-positive, alpha-beta T cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF495LXC ENCSR835MMN Peak SK-N-MC H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF247PMT ENCSR835MMN SK-N-MC H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF094EHJ ENCSR833ZKV Peak effector memory CD8-positive, alpha-beta T cell male adult 33 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF579KFE ENCSR833ZKV effector memory CD8-positive, alpha-beta T cell male adult 33 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF043PTB ENCSR833OER Peak T-cell male adult 38 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF787LLC ENCSR833OER T-cell male adult 38 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF566QAW ENCSR833ACP Peak HG03103 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF986NOL ENCSR833ACP HG03103 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF141HXZ ENCSR832XVZ Peak with Alzheimer's disease middle frontal area 46 tissue female adult 86 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF793FUR ENCSR832XVZ with Alzheimer's disease middle frontal area 46 tissue female adult 86 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF923YMF ENCSR832USV Peak endodermal cell originated from H1 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF040CKW ENCSR832USV endodermal cell originated from H1 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF042HLV ENCSR832UMM Peak with multiple sclerosis CD4-positive, alpha-beta memory T cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF776XVZ ENCSR832UMM with multiple sclerosis CD4-positive, alpha-beta memory T cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF483ZLP ENCSR832TWW Peak middle frontal area 46 tissue male adult 82 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF423POG ENCSR832TWW middle frontal area 46 tissue male adult 82 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF908NSF ENCSR832THJ Peak stimulated activated CD8-positive, alpha-beta memory T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 4 hours, 100 ng/mL Interleukin-15 for 4 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF192OTX ENCSR832THJ stimulated activated CD8-positive, alpha-beta memory T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 4 hours, 100 ng/mL Interleukin-15 for 4 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF410IFC ENCSR832IQN Peak CD4-positive, alpha-beta T cell female adult 39 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF258IVA ENCSR832IQN CD4-positive, alpha-beta T cell female adult 39 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF760ZBU ENCSR831QMZ Peak placenta tissue female embryo DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF351WIJ ENCSR831QMZ placenta tissue female embryo DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF024PBT ENCSR831KAH Peak tibial nerve tissue female adult 51 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF526USD ENCSR831KAH tibial nerve tissue female adult 51 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF376RUJ ENCSR830YQW Peak CD4-positive, alpha-beta memory T cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF435QDZ ENCSR830YQW CD4-positive, alpha-beta memory T cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF948LWW ENCSR830EXC Peak with Alzheimer's disease middle frontal area 46 tissue female adult 74 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF472UDH ENCSR830EXC with Alzheimer's disease middle frontal area 46 tissue female adult 74 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF815VYP ENCSR830ALP Peak activated T-cell male adult 43 years treated with anti-CD3 and anti-CD28 coated beads for 72 hours, 50 U/mL Interleukin-2 for 72 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF061KDF ENCSR830ALP activated T-cell male adult 43 years treated with anti-CD3 and anti-CD28 coated beads for 72 hours, 50 U/mL Interleukin-2 for 72 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF836HHN ENCSR829MXU Peak pons tissue male adult 78 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF722YGX ENCSR829MXU pons tissue male adult 78 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF655GBO ENCSR829HTO Peak prostate gland tissue male adult 54 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF308OYN ENCSR829HTO prostate gland tissue male adult 54 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF323GRI ENCSR828RNY Peak renal cortex interstitium tissue male embryo 108 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF184QIG ENCSR828RNY renal cortex interstitium tissue male embryo 108 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF783SDG ENCSR828FVZ Peak body of pancreas tissue female adult 53 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF597SDR ENCSR828FVZ body of pancreas tissue female adult 53 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF021HWL ENCSR828CCQ Peak ovary tissue female adult 53 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF938WJH ENCSR828CCQ ovary tissue female adult 53 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF537PUA ENCSR826UTD PC-3 H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF280IBV ENCSR826URD Peak neural crest cell DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF592CNZ ENCSR826URD neural crest cell DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF170BHD ENCSR826ERZ Peak muscle of arm tissue embryo 101 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF298XUL ENCSR826ERZ muscle of arm tissue embryo 101 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF413JHX ENCSR825NXC Peak heart left ventricle tissue female adult 56 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF412TOH ENCSR825NXC heart left ventricle tissue female adult 56 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF258XFS ENCSR824DUE Peak HG03378 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF171LKM ENCSR824DUE HG03378 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF815GIF ENCSR823ZCR Peak gastrocnemius medialis tissue female adult 51 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF128OID ENCSR823ZCR gastrocnemius medialis tissue female adult 51 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF271PDO ENCSR822ZIG Peak foreskin fibroblast male newborn H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF168UPV ENCSR822ZIG foreskin fibroblast male newborn H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF419KMA ENCSR822WVQ Peak natural killer cell female adult 41 years treated with 100 ng/mL Interleukin-18 for 72 hours, 100 ng/mL Interleukin-12 subunit beta for 72 hours, 100 ng/mL Interleukin-12 subunit alpha for 72 hours, 100 ng/mL Interleukin-15 for 72 hours H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF408GEO ENCSR822WVQ natural killer cell female adult 41 years treated with 100 ng/mL Interleukin-18 for 72 hours, 100 ng/mL Interleukin-12 subunit beta for 72 hours, 100 ng/mL Interleukin-12 subunit alpha for 72 hours, 100 ng/mL Interleukin-15 for 72 hours H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF359FBX ENCSR822IYG Peak K562 treated with 10 nM Chaetocin for 12 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF180ZAD ENCSR822IYG K562 treated with 10 nM Chaetocin for 12 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF291PWI ENCSR822GDF Peak posterior cingulate gyrus tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF670TZZ ENCSR822GDF posterior cingulate gyrus tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF115VTT ENCSR822EOS Peak with squamous cell carcinoma skin epidermis tissue female adult 80 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF485MOX ENCSR822EOS with squamous cell carcinoma skin epidermis tissue female adult 80 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF335ADI ENCSR822CEA Peak neural cell originated from H1 CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF270DID ENCSR822CEA neural cell originated from H1 CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF747YHO ENCSR821QHC Peak HG02642 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF624OOL ENCSR821QHC HG02642 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF769SVM ENCSR821JHD Peak HG02623 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF095RCU ENCSR821JHD HG02623 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF344ZXY ENCSR821DYI Peak heart right ventricle tissue female adult 56 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF509VVM ENCSR821DYI heart right ventricle tissue female adult 56 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF943GRI ENCSR821CPA Peak with multiple sclerosis CD14-positive monocyte H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF749RKS ENCSR821CPA with multiple sclerosis CD14-positive monocyte H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF693WMX ENCSR820XRX Peak brain tissue female embryo 105 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF852OBA ENCSR820XRX brain tissue female embryo 105 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF318AQJ ENCSR820WLP Peak dedifferentiated amniotic fluid mesenchymal stem cell male embryo 15 weeks DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF067QRI ENCSR820WLP dedifferentiated amniotic fluid mesenchymal stem cell male embryo 15 weeks DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF250YEU ENCSR820ICX Peak retina tissue female embryo 89 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF971FLC ENCSR820ICX retina tissue female embryo 89 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF157NQN ENCSR819NCZ Peak T-helper 17 cell male adult 50 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF715NXL ENCSR819NCZ T-helper 17 cell male adult 50 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF371MLT ENCSR819HSS Peak skeletal muscle satellite cell female adult originated from mesodermal cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF981RTA ENCSR819HSS skeletal muscle satellite cell female adult originated from mesodermal cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF562GQY ENCSR819GAF Peak with mild cognitive impairment middle frontal area 46 tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF799QGM ENCSR819GAF with mild cognitive impairment middle frontal area 46 tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF019NGA ENCSR819EPD Peak stimulated activated CD8-positive, alpha-beta memory T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 1 hour, 100 ng/mL Interleukin-15 for 1 hour DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF945YKN ENCSR819EPD stimulated activated CD8-positive, alpha-beta memory T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 1 hour, 100 ng/mL Interleukin-15 for 1 hour DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF126UEK ENCSR818PER Peak excitatory neuron H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF118OBT ENCSR818PER excitatory neuron H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF822SMG ENCSR818JGZ Peak limb tissue embryo 53 days and embryo 56 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF221VKT ENCSR818JGZ limb tissue embryo 53 days and embryo 56 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF940VXS ENCSR818HHN Peak osteocyte DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF226FAT ENCSR818HHN osteocyte DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF257EVE ENCSR816PPJ Peak HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens BRD4 treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF814TVW ENCSR816PPJ HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens BRD4 treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF066YHJ ENCSR815DWW Peak T-cell male adult 19 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF009GSJ ENCSR815DWW T-cell male adult 19 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF991DOM ENCSR814XPE Peak H1 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF760NUN ENCSR814XPE H1 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF407LFW ENCSR814KSK Peak middle frontal area 46 tissue male adult 82 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF272DJL ENCSR814KSK middle frontal area 46 tissue male adult 82 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF311XQM ENCSR814KRX Peak HT-29 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF151RWB ENCSR814KRX HT-29 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF474OUB ENCSR814DYF Peak with mild cognitive impairment head of caudate nucleus tissue male adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF410TMZ ENCSR814DYF with mild cognitive impairment head of caudate nucleus tissue male adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF009JUX ENCSR813ZEY Peak transverse colon tissue male adult 37 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF252OBP ENCSR813ZEY transverse colon tissue male adult 37 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF149PUN ENCSR813KUE Peak middle frontal area 46 tissue male adult 78 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF693AEK ENCSR813KUE middle frontal area 46 tissue male adult 78 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF352XLM ENCSR813CKU Peak urinary bladder tissue male embryo 76 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF284ARV ENCSR813CKU urinary bladder tissue male embryo 76 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF232HSN ENCSR813CFB Peak foreskin fibroblast male newborn H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF123FVI ENCSR813CFB foreskin fibroblast male newborn H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF521EBT ENCSR812ZKP Peak from a donor with amyotrophic lateral sclerosis motor neuron ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF657SKW ENCSR812ZKP from a donor with amyotrophic lateral sclerosis motor neuron ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF910BLL ENCSR812IND Peak B cell male adult 22 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF061VAL ENCSR812IND B cell male adult 22 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF204NSQ ENCSR811OUF Peak middle frontal area 46 tissue male adult 86 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF769AFQ ENCSR811OUF middle frontal area 46 tissue male adult 86 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF853HQF ENCSR810EPZ Peak CD8-positive, alpha-beta memory T cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF611GRL ENCSR810EPZ CD8-positive, alpha-beta memory T cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF754YRB ENCSR810CTB Peak activated T-cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 24 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF788LCO ENCSR810CTB activated T-cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 24 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF757GGJ ENCSR809YOX Peak HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens CDK7 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF282JSU ENCSR809YOX HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens CDK7 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF381DIA ENCSR809LCE Peak trophoblast cell embryo 23 weeks DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF597FNR ENCSR809LCE trophoblast cell embryo 23 weeks DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF481GAV ENCSR809CEA Peak H4 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF671ZCW ENCSR809CEA H4 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF082LFJ ENCSR808ZMK Peak pancreas tissue female adult 41 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF512NCO ENCSR808ZMK pancreas tissue female adult 41 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF733JDH ENCSR808HWS Peak natural killer cell female adult 41 years treated with 100 ng/mL Interleukin-18 for 72 hours, 100 ng/mL Interleukin-12 subunit beta for 72 hours, 100 ng/mL Interleukin-15 for 72 hours, 100 ng/mL Interleukin-12 subunit alpha for 72 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF918VRX ENCSR808HWS natural killer cell female adult 41 years treated with 100 ng/mL Interleukin-18 for 72 hours, 100 ng/mL Interleukin-12 subunit beta for 72 hours, 100 ng/mL Interleukin-15 for 72 hours, 100 ng/mL Interleukin-12 subunit alpha for 72 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF224URW ENCSR807YQE Peak mammary epithelial cell female adult 18 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF526WUE ENCSR807YQE mammary epithelial cell female adult 18 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF929PWA ENCSR807XUB Peak sigmoid colon tissue male adult 37 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF608MDC ENCSR807XUB sigmoid colon tissue male adult 37 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF074DVP ENCSR807WEO Peak CD4-positive, alpha-beta memory T cell originated from blood cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF893HGX ENCSR807WEO CD4-positive, alpha-beta memory T cell originated from blood cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF705XBU ENCSR807TBS Peak with mild cognitive impairment middle frontal area 46 tissue female adult 87 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF794RDI ENCSR807TBS with mild cognitive impairment middle frontal area 46 tissue female adult 87 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF499HGU ENCSR807LJO Peak ectodermal cell originated from HUES64 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF008WQX ENCSR807LJO ectodermal cell originated from HUES64 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF558JQZ ENCSR805XIF Peak femur tissue female embryo 98 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF755EZI ENCSR805XIF femur tissue female embryo 98 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF592WQK ENCSR805RJA Peak middle frontal area 46 tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF498PAW ENCSR805RJA middle frontal area 46 tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF600UFV ENCSR805EGZ Peak heart left ventricle tissue female adult 56 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF122VLP ENCSR805EGZ heart left ventricle tissue female adult 56 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF507CYT ENCSR804RSI Peak heart tissue embryo 80 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF091JLU ENCSR804RSI heart tissue embryo 80 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF378TCS ENCSR804MAP Peak HUES64 H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF162YIX ENCSR804MAP HUES64 H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF646JQF ENCSR803VCR Peak left lung tissue female embryo 91 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF703UBP ENCSR803VCR left lung tissue female embryo 91 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF844CCL ENCSR803QIE Peak K562 treated with 0.5 μM MB-3 for 48 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF632OBA ENCSR803QIE K562 treated with 0.5 μM MB-3 for 48 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF024EOV ENCSR803JYI Peak liver tissue female adult 25 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF280QYJ ENCSR803JYI liver tissue female adult 25 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF534CGF ENCSR803JVQ Peak T-cell male adult 34 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF422IHL ENCSR803JVQ T-cell male adult 34 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF553JXI ENCSR803FKU Peak T-helper 17 cell male adult 38 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF270ISQ ENCSR803FKU T-helper 17 cell male adult 38 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF312BAC ENCSR802ZYE Peak left lobe of liver tissue male adult 45 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF412PVV ENCSR802ZYE left lobe of liver tissue male adult 45 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF027RPR ENCSR802NBC Peak with Alzheimer's disease head of caudate nucleus tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF973NVP ENCSR802NBC with Alzheimer's disease head of caudate nucleus tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF529HBS ENCSR802MXQ Peak with multiple sclerosis CD4-positive, alpha-beta memory T cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF856USO ENCSR802MXQ with multiple sclerosis CD4-positive, alpha-beta memory T cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF478LVH ENCSR802GEV Peak cerebellum tissue male adult 20 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF847DVN ENCSR802GEV cerebellum tissue male adult 20 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF580DAG ENCSR802AJE Peak placenta tissue male embryo 85 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF575CKN ENCSR802AJE placenta tissue male embryo 85 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF047OUA ENCSR801VSK Peak activated CD4-positive, alpha-beta T cell female adult 37 years treated with Interleukin-4 for 8 hours, 50 U/mL Interleukin-2 for 16 hours, anti-CD3 and anti-CD28 coated beads for 16 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF240PRJ ENCSR801VSK activated CD4-positive, alpha-beta T cell female adult 37 years treated with Interleukin-4 for 8 hours, 50 U/mL Interleukin-2 for 16 hours, anti-CD3 and anti-CD28 coated beads for 16 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF565XQZ ENCSR801IPH Peak gastrocnemius medialis tissue male adult 37 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF793HOY ENCSR801IPH gastrocnemius medialis tissue male adult 37 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF351EZT ENCSR800RAH Peak K562 treated with 1 μM Methotrexate for 24 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF487NMR ENCSR800RAH K562 treated with 1 μM Methotrexate for 24 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF098KUD ENCSR800QGE Peak large intestine tissue female embryo 103 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF766GDO ENCSR800QGE large intestine tissue female embryo 103 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF888LCU ENCSR800MBE Peak middle frontal area 46 tissue female adult 82 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF427FGG ENCSR800MBE middle frontal area 46 tissue female adult 82 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF853SQQ ENCSR800KVI Peak middle frontal area 46 tissue female adult 84 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF018BZK ENCSR800KVI middle frontal area 46 tissue female adult 84 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF393MLF ENCSR800ADR Peak upper lobe of left lung tissue female adult 61 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF918MVE ENCSR800ADR upper lobe of left lung tissue female adult 61 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF828IDE ENCSR799WDT Peak Peyer's patch tissue male adult 54 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF694HBV ENCSR799WDT Peyer's patch tissue male adult 54 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF505BQS ENCSR799TMR Peak duodenal mucosa tissue male adult 59 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF759WSX ENCSR799TMR duodenal mucosa tissue male adult 59 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF108BCY ENCSR799TJD Peak upper lobe of left lung tissue female adult 51 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF468WUY ENCSR799TJD upper lobe of left lung tissue female adult 51 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF989CMY ENCSR799SRL Peak neuronal stem cell originated from H1 H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF110SOE ENCSR799SRL neuronal stem cell originated from H1 H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF724VRN ENCSR799MAX Peak stimulated activated CD4-positive, alpha-beta T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 24 hours, 100 ng/mL Interleukin-23 for 24 hours, 100 ng/mL Interleukin-1b for 24 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF603TWW ENCSR799MAX stimulated activated CD4-positive, alpha-beta T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 24 hours, 100 ng/mL Interleukin-23 for 24 hours, 100 ng/mL Interleukin-1b for 24 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF562ZLA ENCSR799GSS Peak HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens CDK7 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF635GBA ENCSR799GSS HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens CDK7 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF455DMI ENCSR799GJD Peak nephron progenitor cell, 8 days post differentiation CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF041NZX ENCSR799GJD nephron progenitor cell, 8 days post differentiation CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF928EFO ENCSR798XLO Peak ovary tissue female adult 46 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF971KWT ENCSR798XLO ovary tissue female adult 46 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF289WUU ENCSR798RTU Peak caudate nucleus tissue female adult 75 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF273JQE ENCSR798RTU caudate nucleus tissue female adult 75 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF631BWF ENCSR798NVH Peak uterus tissue female adult 51 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF245FMZ ENCSR798NVH uterus tissue female adult 51 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF064SHM ENCSR797POI Peak naive thymus-derived CD8-positive, alpha-beta T cell male adult 33 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF616UIE ENCSR797POI naive thymus-derived CD8-positive, alpha-beta T cell male adult 33 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF886LOB ENCSR797FIM Peak with Alzheimer's disease head of caudate nucleus tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF192IUT ENCSR797FIM with Alzheimer's disease head of caudate nucleus tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF439PAQ ENCSR796YOJ Peak with Alzheimer's disease middle frontal area 46 tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF686DIT ENCSR796YOJ with Alzheimer's disease middle frontal area 46 tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF319ZBG ENCSR796SJV Peak large intestine tissue female embryo 98 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF988XLP ENCSR796SJV large intestine tissue female embryo 98 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF642YZU ENCSR796FCS Peak CD14-positive monocyte male adult 37 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF739LQS ENCSR796FCS CD14-positive monocyte male adult 37 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF069WTO ENCSR796CSH Peak CD8-positive, alpha-beta T cell male adult 21 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF220LVT ENCSR796CSH CD8-positive, alpha-beta T cell male adult 21 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF676ZZP ENCSR795ZKB Peak HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens SUPT16H treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF656TCI ENCSR795ZKB HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens SUPT16H treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF950AWO ENCSR795VEN Peak with nonobstructive coronary artery disease liver tissue male adult 32 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF471TIS ENCSR795VEN with nonobstructive coronary artery disease liver tissue male adult 32 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF496OJD ENCSR795NQU Peak activated naive CD4-positive, alpha-beta T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 24 hours, 50 U/mL Interleukin-2 for 24 hours H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF819JGV ENCSR795NQU activated naive CD4-positive, alpha-beta T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 24 hours, 50 U/mL Interleukin-2 for 24 hours H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF943RIX ENCSR794TLA Peak natural killer cell female adult 41 years treated with 100 ng/mL Interleukin-12 subunit alpha for 72 hours, 100 ng/mL Interleukin-15 for 72 hours, 100 ng/mL Interleukin-12 subunit beta for 72 hours, 100 ng/mL Interleukin-18 for 72 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF308ZZS ENCSR794TLA natural killer cell female adult 41 years treated with 100 ng/mL Interleukin-12 subunit alpha for 72 hours, 100 ng/mL Interleukin-15 for 72 hours, 100 ng/mL Interleukin-12 subunit beta for 72 hours, 100 ng/mL Interleukin-18 for 72 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF390EBK ENCSR794KUS Peak with multiple sclerosis naive thymus-derived CD4-positive, alpha-beta T cell DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF390FDZ ENCSR794KUS with multiple sclerosis naive thymus-derived CD4-positive, alpha-beta T cell DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF306FOT ENCSR793YFK Peak K562 treated with 1 μM NCT-503 for 24 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF023XLW ENCSR793YFK K562 treated with 1 μM NCT-503 for 24 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF420SAZ ENCSR793YAD Peak tibial nerve tissue female adult 51 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF670COF ENCSR793YAD tibial nerve tissue female adult 51 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF994ZMG ENCSR793IKH Peak sigmoid colon tissue female adult 51 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF800VAP ENCSR793IKH sigmoid colon tissue female adult 51 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF278CWL ENCSR792ZXA Peak kidney tissue embryo 59 days and female embryo 59 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF828QRO ENCSR792ZXA kidney tissue embryo 59 days and female embryo 59 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF831CWE ENCSR792VLP Peak transverse colon tissue female adult 51 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF741NZM ENCSR792VLP transverse colon tissue female adult 51 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF917LYO ENCSR792QQE Peak heart right ventricle tissue male adult 54 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF956IPA ENCSR792QQE heart right ventricle tissue male adult 54 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF656QKV ENCSR792NZO Peak iPS-18c H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF825RFP ENCSR792NZO iPS-18c H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF520JUZ ENCSR792IJA Peak small intestine tissue male adult 34 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF566FYS ENCSR792IJA small intestine tissue male adult 34 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF832FQW ENCSR791KFQ Peak right atrium auricular region tissue female adult 53 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF646DAW ENCSR791KFQ right atrium auricular region tissue female adult 53 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF031TFU ENCSR791ISZ Peak psoas muscle tissue male adult 34 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF584CKL ENCSR791ISZ psoas muscle tissue male adult 34 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF348GAX ENCSR791GCO Peak heart right ventricle tissue male adult 34 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF644MVM ENCSR791GCO heart right ventricle tissue male adult 34 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF859OAX ENCSR791CAF Peak activated B cell male adult 22 years treated with 0.5 μM CpG ODN for 24 hours H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF044RVB ENCSR791CAF activated B cell male adult 22 years treated with 0.5 μM CpG ODN for 24 hours H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF180MOQ ENCSR791BWS Peak lower lobe of left lung tissue female adult 59 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF902HIA ENCSR791BWS lower lobe of left lung tissue female adult 59 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF060HCV ENCSR791BHE Peak gastrocnemius medialis tissue male adult 37 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF066BOK ENCSR791BHE gastrocnemius medialis tissue male adult 37 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF679KGJ ENCSR790NQG Peak IgD-negative memory B cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF651MOI ENCSR790NQG IgD-negative memory B cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF414KSH ENCSR789VGQ Peak MCF 10A DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF994HJN ENCSR789VGQ MCF 10A DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF344QQB ENCSR789FJF Peak posterior cingulate gyrus tissue female adult 87 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF143GBL ENCSR789FJF posterior cingulate gyrus tissue female adult 87 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF056FXJ ENCSR788UDH Peak endodermal cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF300WXD ENCSR788UDH endodermal cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF072RBJ ENCSR788TRR Peak omental fat pad tissue female adult 51 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF529ZQT ENCSR788TRR omental fat pad tissue female adult 51 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF479NEP ENCSR788SOI Peak spinal cord tissue male embryo 96 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF073VLK ENCSR788SOI spinal cord tissue male embryo 96 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF780SFN ENCSR788SKJ Peak T-cell male adult 37 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF653BKY ENCSR788SKJ T-cell male adult 37 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF227RGM ENCSR788IZL Peak breast epithelium tissue male adult 54 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF111NRY ENCSR788IZL breast epithelium tissue male adult 54 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF399HCX ENCSR787ZCK Peak naive thymus-derived CD4-positive, alpha-beta T cell male adult 48 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF556OOW ENCSR787ZCK naive thymus-derived CD4-positive, alpha-beta T cell male adult 48 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF776ANJ ENCSR787WSK Peak HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens MED14 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF838KNK ENCSR787WSK HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens MED14 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF281PZP ENCSR787QZE Peak with Cognitive impairment middle frontal area 46 tissue female adult 90 or above years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF478CLR ENCSR787QZE with Cognitive impairment middle frontal area 46 tissue female adult 90 or above years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF642KYO ENCSR787HDF Peak with multiple sclerosis CD8-positive, alpha-beta memory T cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF697UUG ENCSR787HDF with multiple sclerosis CD8-positive, alpha-beta memory T cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF570MDC ENCSR787ERP Peak naive thymus-derived CD4-positive, alpha-beta T cell female adult 25 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF613RDW ENCSR787ERP naive thymus-derived CD4-positive, alpha-beta T cell female adult 25 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF040OSE ENCSR787CAJ Peak chorion tissue female embryo 40 weeks H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF379RYN ENCSR787CAJ chorion tissue female embryo 40 weeks H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF110FGF ENCSR786VUJ Peak with Cognitive impairment middle frontal area 46 tissue female adult 86 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF146LLE ENCSR786VUJ with Cognitive impairment middle frontal area 46 tissue female adult 86 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF073WVE ENCSR786FWF Peak muscle of back tissue male embryo 127 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF655NDW ENCSR786FWF muscle of back tissue male embryo 127 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF525ZLI ENCSR785ZUI Peak WTC11 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF736FHB ENCSR785ZUI WTC11 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF770HHA ENCSR785YRL Peak neutrophil CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF300LXQ ENCSR785YRL neutrophil CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF329FQT ENCSR785RIM Peak T-cell male adult 49 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF409IUG ENCSR785RIM T-cell male adult 49 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF910ATF ENCSR785MXI Peak with mild cognitive impairment middle frontal area 46 tissue female adult 88 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF686OEZ ENCSR785MXI with mild cognitive impairment middle frontal area 46 tissue female adult 88 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF113OAG ENCSR785JXR Peak lower lobe of right lung tissue male adult 60 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF883DDK ENCSR785JXR lower lobe of right lung tissue male adult 60 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF103CAY ENCSR785DJD Peak gastrocnemius medialis tissue female adult 53 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF880UEZ ENCSR785DJD gastrocnemius medialis tissue female adult 53 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF914VZM ENCSR785BDQ Peak glomerular visceral epithelial cell child 3 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF687AAQ ENCSR785BDQ glomerular visceral epithelial cell child 3 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF177GDV ENCSR784RMA Peak T-cell male adult 36 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF726ANV ENCSR784RMA T-cell male adult 36 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF882DSF ENCSR784GVR Peak with mild cognitive impairment posterior cingulate gyrus tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF354KNF ENCSR784GVR with mild cognitive impairment posterior cingulate gyrus tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF495OOX ENCSR783VHL Peak nephron organoid female embryo 5 days, 35 days post differentiation H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF726YJF ENCSR783VHL nephron organoid female embryo 5 days, 35 days post differentiation H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF845RVB ENCSR783OCW Peak esophagus squamous epithelium tissue male adult 37 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF841VBI ENCSR783OCW esophagus squamous epithelium tissue male adult 37 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF845QEZ ENCSR782XFY Peak eye tissue embryo 56 days and male embryo 76 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF179SLC ENCSR782XFY eye tissue embryo 56 days and male embryo 76 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF248XHU ENCSR782SSS Peak stomach tissue male adult 34 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF604WCR ENCSR782SSS stomach tissue male adult 34 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF159JFM ENCSR780PLN Peak HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens MED14 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF017WYO ENCSR780PLN HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens MED14 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF173CEN ENCSR780OZE Peak parathyroid adenoma tissue male adult 62 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF105LYV ENCSR780OZE parathyroid adenoma tissue male adult 62 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF736ZKY ENCSR780FXX Peak brain tissue female embryo 17 weeks H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF389LZZ ENCSR780FXX brain tissue female embryo 17 weeks H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF922ESE ENCSR780CNW Peak tibial artery tissue male adult 37 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF901QWB ENCSR780CNW tibial artery tissue male adult 37 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF719JMO ENCSR780ABS Peak activated T-helper 2 cell male adult 35 years treated with 5 μg/mL Interferon-gamma antibody , 100 ng/mL Interleukin-4 , anti-CD3 and anti-CD28 coated beads DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF101VGF ENCSR780ABS activated T-helper 2 cell male adult 35 years treated with 5 μg/mL Interferon-gamma antibody , 100 ng/mL Interleukin-4 , anti-CD3 and anti-CD28 coated beads DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF403LNW ENCSR779YTI Peak middle frontal area 46 tissue female adult 90 or above years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF488PRF ENCSR779YTI middle frontal area 46 tissue female adult 90 or above years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF888ERQ ENCSR778ZPK Peak heart left ventricle tissue female adult 59 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF541CSJ ENCSR778ZPK heart left ventricle tissue female adult 59 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF123IDF ENCSR778VGY Peak ACC112 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF102ULC ENCSR778VGY ACC112 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF436TAH ENCSR778QHG Peak tibial nerve tissue female adult 51 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF549DZD ENCSR778QHG tibial nerve tissue female adult 51 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF883PFA ENCSR778NDP Peak with Cognitive impairment middle frontal area 46 tissue female adult 81 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF081IRZ ENCSR778NDP with Cognitive impairment middle frontal area 46 tissue female adult 81 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF948QRB ENCSR778DWG Peak activated CD4 positive, naive alpha-beta T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 16 hours, 50 U/mL Interleukin-2 for 16 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF311NAL ENCSR778DWG activated CD4 positive, naive alpha-beta T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 16 hours, 50 U/mL Interleukin-2 for 16 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF842SAW ENCSR777USE Peak thymus tissue female embryo 147 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF783ZKX ENCSR777USE thymus tissue female embryo 147 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF801QLX ENCSR777CQW Peak 22Rv1 treated with 10 nM 17β-hydroxy-5α-androstan-3-one for 4 hours H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF731WPS ENCSR777CQW 22Rv1 treated with 10 nM 17β-hydroxy-5α-androstan-3-one for 4 hours H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF491SVN ENCSR776TJT Peak with mild cognitive impairment middle frontal area 46 tissue female adult 90 or above years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF646GXZ ENCSR776TJT with mild cognitive impairment middle frontal area 46 tissue female adult 90 or above years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF777IWJ ENCSR776KLS Peak thymus tissue female embryo 110 days H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF740UPD ENCSR776KLS thymus tissue female embryo 110 days H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF818QNZ ENCSR776FPA Peak brain organoid male adult 53 years, 180 days post differentiation H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF040FSN ENCSR776FPA brain organoid male adult 53 years, 180 days post differentiation H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF937STC ENCSR776BTO Peak stimulated activated CD8-positive, alpha-beta T cell male adult 21 years treated with 10 ng/mL Interleukin-2 , anti-CD3 and anti-CD28 coated beads DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF621ZNM ENCSR776BTO stimulated activated CD8-positive, alpha-beta T cell male adult 21 years treated with 10 ng/mL Interleukin-2 , anti-CD3 and anti-CD28 coated beads DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF852IXW ENCSR775SYU Peak uterus tissue female adult 59 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF281ROQ ENCSR775SYU uterus tissue female adult 59 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF702LSR ENCSR775NSL Peak adrenal gland tissue female adult 41 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF700TZZ ENCSR775NSL adrenal gland tissue female adult 41 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF585TWF ENCSR775KMA Peak activated T-cell male adult 38 years treated with 50 U/mL Interleukin-2 for 4 hours, anti-CD3 and anti-CD28 coated beads for 4 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF938UXR ENCSR775KMA activated T-cell male adult 38 years treated with 50 U/mL Interleukin-2 for 4 hours, anti-CD3 and anti-CD28 coated beads for 4 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF199UEC ENCSR775KLH Peak with Alzheimer's disease head of caudate nucleus tissue male adult 87 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF882HED ENCSR775KLH with Alzheimer's disease head of caudate nucleus tissue male adult 87 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF197NBY ENCSR775FTU Peak muscle of trunk tissue female embryo 115 days H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF124NOK ENCSR775FTU muscle of trunk tissue female embryo 115 days H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF414EGA ENCSR774RCO Peak kidney tissue female embryo 105 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF932VQG ENCSR774RCO kidney tissue female embryo 105 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF315CUI ENCSR774PGN Peak pancreas tissue female adult 41 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF890FKH ENCSR774PGN pancreas tissue female adult 41 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF138XPQ ENCSR774NXA Peak psoas muscle tissue female adult 61 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF962YQG ENCSR774NXA psoas muscle tissue female adult 61 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF176YMQ ENCSR774IHJ Peak middle frontal area 46 tissue male adult 78 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF713LKP ENCSR774IHJ middle frontal area 46 tissue male adult 78 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF306FKU ENCSR773USD Peak body of pancreas tissue female adult 51 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF328BSE ENCSR773USD body of pancreas tissue female adult 51 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF220DQD ENCSR773PIU Peak esophagus squamous epithelium tissue female adult 51 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF044KLK ENCSR773PIU esophagus squamous epithelium tissue female adult 51 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF683HYK ENCSR773JBP Peak esophagus squamous epithelium tissue female adult 53 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF799HMN ENCSR773JBP esophagus squamous epithelium tissue female adult 53 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF616IJV ENCSR772HUG Peak common myeloid progenitor, CD34-positive male adult 37 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF972XXJ ENCSR772HUG common myeloid progenitor, CD34-positive male adult 37 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF154XAB ENCSR772ABL Peak heart right ventricle tissue female adult 59 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF996ISW ENCSR772ABL heart right ventricle tissue female adult 59 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF702HVU ENCSR771YJT Peak tibial nerve tissue female adult 53 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF402CVL ENCSR771YJT tibial nerve tissue female adult 53 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF959JXU ENCSR771DAX Peak globus pallidus tissue male adult 78 years and male adult 84 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF129CHK ENCSR771DAX globus pallidus tissue male adult 78 years and male adult 84 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF520OMY ENCSR770OTB Peak left ventricle myocardium inferior tissue male adult 60 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF644JWK ENCSR770OTB left ventricle myocardium inferior tissue male adult 60 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF442XOT ENCSR770JCP Peak posterior cingulate gyrus tissue female adult 75 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF514GFX ENCSR770JCP posterior cingulate gyrus tissue female adult 75 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF678WUB ENCSR770IWO Peak adrenal gland tissue female adult 53 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF419QIY ENCSR770IWO adrenal gland tissue female adult 53 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF609BJQ ENCSR770DEN Peak fibroblast of skin of scalp male embryo 97 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF250SQE ENCSR770DEN fibroblast of skin of scalp male embryo 97 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF471AZS ENCSR769WKR Peak transverse colon tissue female adult 53 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF493XMW ENCSR769WKR transverse colon tissue female adult 53 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF547WFT ENCSR769FOC Peak PC-9 H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF907RYE ENCSR769FOC PC-9 H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF223QGF ENCSR769FEY Peak CD4-positive, CD25-positive, alpha-beta regulatory T cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF846OSF ENCSR769FEY CD4-positive, CD25-positive, alpha-beta regulatory T cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF674YIN ENCSR769CSE Peak SJCRH30 H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF996IKY ENCSR769CSE SJCRH30 H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF804IOL ENCSR768YDB Peak middle frontal area 46 tissue female adult 88 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF198NDW ENCSR768YDB middle frontal area 46 tissue female adult 88 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF494RXV ENCSR768OLL Peak right kidney tissue male embryo 91 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF167HFC ENCSR768OLL right kidney tissue male embryo 91 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF522MFG ENCSR768AWY Peak activated CD4-positive, alpha-beta T cell male adult 42 years treated with anti-CD3 and anti-CD28 coated beads for 24 hours, 50 U/mL Interleukin-2 for 24 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF481RXU ENCSR768AWY activated CD4-positive, alpha-beta T cell male adult 42 years treated with anti-CD3 and anti-CD28 coated beads for 24 hours, 50 U/mL Interleukin-2 for 24 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF833ECH ENCSR767NIF Peak skeletal muscle tissue tissue female adult 72 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF141YUO ENCSR767NIF skeletal muscle tissue tissue female adult 72 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF412TMI ENCSR765ULM Peak activated CD4 positive, naive alpha-beta T cell male adult 43 years treated with anti-CD3 and anti-CD28 coated beads H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF447EBX ENCSR765ULM activated CD4 positive, naive alpha-beta T cell male adult 43 years treated with anti-CD3 and anti-CD28 coated beads H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF135VYM ENCSR765MXG Peak body of pancreas tissue male adult 54 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF799MDF ENCSR765MXG body of pancreas tissue male adult 54 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF383DDN ENCSR765BSU Peak right kidney tissue female embryo 117 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF026EJC ENCSR765BSU right kidney tissue female embryo 117 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF237XQH ENCSR764HZU Peak WERI-Rb-1 H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF949IKU ENCSR764HZU WERI-Rb-1 H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF593ODM ENCSR763XBU Peak with Alzheimer's disease middle frontal area 46 tissue female adult 88 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF013AMD ENCSR763XBU with Alzheimer's disease middle frontal area 46 tissue female adult 88 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF406ZHG ENCSR763VUL Peak with Cognitive impairment middle frontal area 46 tissue female adult 90 or above years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF250VKH ENCSR763VUL with Cognitive impairment middle frontal area 46 tissue female adult 90 or above years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF872NUG ENCSR763KTE Peak IgD-negative memory B cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF509YJB ENCSR763KTE IgD-negative memory B cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF249JEM ENCSR763IDK Peak prostate gland tissue male adult 54 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF423GAY ENCSR763IDK prostate gland tissue male adult 54 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF111TPD ENCSR763AKE Peak transverse colon tissue female adult 53 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF291LZE ENCSR763AKE transverse colon tissue female adult 53 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF952YBK ENCSR762YFD Peak GM18520 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF294PBK ENCSR762YFD GM18520 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF206QWZ ENCSR762PCG Peak subcutaneous adipose tissue tissue female adult 53 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF375DVU ENCSR762PCG subcutaneous adipose tissue tissue female adult 53 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF683YRO ENCSR762FCX Peak large intestine tissue male embryo 91 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF181AJE ENCSR762FCX large intestine tissue male embryo 91 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF074CGK ENCSR761ZFA Peak right renal pelvis tissue male embryo 105 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF664OWE ENCSR761ZFA right renal pelvis tissue male embryo 105 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF228ALI ENCSR761WVQ Peak thyroid gland tissue female adult 53 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF145RER ENCSR761WVQ thyroid gland tissue female adult 53 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF467YWF ENCSR761TKU Peak transverse colon tissue male adult 54 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF811ERB ENCSR761TKU transverse colon tissue male adult 54 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF817UIZ ENCSR761CBY Peak K562 treated with 0.5 μM MB-3 for 12 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF861CPS ENCSR761CBY K562 treated with 0.5 μM MB-3 for 12 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF734JSN ENCSR760QZM Peak transverse colon tissue female adult 51 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF138FMV ENCSR760QZM transverse colon tissue female adult 51 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF264ANE ENCSR759UNY Peak tongue tissue female embryo 59 days and female embryo 76 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF859XYE ENCSR759UNY tongue tissue female embryo 59 days and female embryo 76 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF301KFZ ENCSR758OEC Peak MM.1S H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF481LLD ENCSR758OEC MM.1S H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF942FRH ENCSR758KRK Peak Peyer's patch tissue male adult 54 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF485RWJ ENCSR758KRK Peyer's patch tissue male adult 54 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF293NPY ENCSR757NJT Peak lower lobe of left lung tissue male adult 60 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF421SBY ENCSR757NJT lower lobe of left lung tissue male adult 60 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF522YRQ ENCSR757EPJ Peak kidney tissue male embryo 85 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF954YGS ENCSR757EPJ kidney tissue male embryo 85 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF939BYJ ENCSR756ZKG Peak OCI-LY3 CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF786GSZ ENCSR756ZKG OCI-LY3 CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF198TWE ENCSR756KRS Peak suprapubic skin tissue female adult 51 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF580ZIB ENCSR756KRS suprapubic skin tissue female adult 51 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF306UEV ENCSR756IGI Peak H9 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF179HBV ENCSR756IGI H9 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF602BCL ENCSR756FQD Peak with Cognitive impairment, Alzheimer's disease head of caudate nucleus tissue male adult 87 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF097XXJ ENCSR756FQD with Cognitive impairment, Alzheimer's disease head of caudate nucleus tissue male adult 87 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF473XNM ENCSR755ZGS Peak with multiple sclerosis immature natural killer cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF987GHG ENCSR755ZGS with multiple sclerosis immature natural killer cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF562MJV ENCSR755WXO Peak with Alzheimer's disease middle frontal area 46 tissue female adult 89 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF812RLY ENCSR755WXO with Alzheimer's disease middle frontal area 46 tissue female adult 89 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF800SPQ ENCSR754LIN Peak H9 G1 phase stably expressing CDT1, stably expressing GMNN DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF172SIB ENCSR754LIN H9 G1 phase stably expressing CDT1, stably expressing GMNN DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF147WXL ENCSR754DRC Peak from a donor with amyotrophic lateral sclerosis motor neuron H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF223GDQ ENCSR754DRC from a donor with amyotrophic lateral sclerosis motor neuron H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF919VBQ ENCSR753RME Peak testis tissue male adult 37 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF453LVK ENCSR753RME testis tissue male adult 37 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF183JSS ENCSR753QKD muscle of arm tissue female embryo 98 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF713UEJ ENCSR752UOD Peak MCF-7 H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF063VLJ ENCSR752UOD MCF-7 H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF361HRG ENCSR752NTF Peak right renal pelvis tissue male embryo 105 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF678PNT ENCSR752NTF right renal pelvis tissue male embryo 105 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF365NYN ENCSR752EPH Peak MCF 10A treated with 1 μM tamoxifen for 24 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF407DFN ENCSR752EPH MCF 10A treated with 1 μM tamoxifen for 24 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF810CZH ENCSR751VMX Peak with mild cognitive impairment middle frontal area 46 tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF359QRX ENCSR751VMX with mild cognitive impairment middle frontal area 46 tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF106OOU ENCSR751GUM Peak pancreas tissue female child 16 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF849YNY ENCSR751GUM pancreas tissue female child 16 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF208VUV ENCSR751BHO Peak stomach tissue female adult 51 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF732NXU ENCSR751BHO stomach tissue female adult 51 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF110MZQ ENCSR749YCR Peak stimulated activated CD8-positive, alpha-beta memory T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 1 hour, 100 ng/mL Interleukin-7 for 1 hour DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF461MVZ ENCSR749YCR stimulated activated CD8-positive, alpha-beta memory T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 1 hour, 100 ng/mL Interleukin-7 for 1 hour DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF657EXN ENCSR749WVO Peak with mild cognitive impairment middle frontal area 46 tissue male adult 89 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF986YEI ENCSR749WVO with mild cognitive impairment middle frontal area 46 tissue male adult 89 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF297ZCG ENCSR749MUH Peak thyroid gland tissue male adult 37 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF211HIT ENCSR749MUH thyroid gland tissue male adult 37 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF521SKR ENCSR749BWV Peak heart tissue female embryo 116 days and female embryo 98 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF147PNW ENCSR749BWV heart tissue female embryo 116 days and female embryo 98 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF719QVL ENCSR748TFF Peak body of pancreas tissue female adult 53 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF229WEL ENCSR748TFF body of pancreas tissue female adult 53 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF647YNV ENCSR748RBT Peak prostate gland tissue male adult 54 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF466ENV ENCSR748RBT prostate gland tissue male adult 54 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF747QSK ENCSR747ZXN Peak immature natural killer cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF463VKU ENCSR747ZXN immature natural killer cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF132XGK ENCSR747VED Peak pancreas tissue male adult 34 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF317PKP ENCSR747VED pancreas tissue male adult 34 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF803IOF ENCSR747SEU Peak heart left ventricle tissue female adult 46 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF867HAD ENCSR747SEU heart left ventricle tissue female adult 46 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF089AYQ ENCSR747RGR Peak T-helper 17 cell male adult 24 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF917NQK ENCSR747RGR T-helper 17 cell male adult 24 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF233NSP ENCSR747HAM Peak ectodermal cell originated from HUES64 H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF994HCY ENCSR747HAM ectodermal cell originated from HUES64 H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF957TUH ENCSR746ZPP Peak L1-S8R DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF505IPS ENCSR746ZPP L1-S8R DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF645RUH ENCSR746RDJ Peak heart right ventricle tissue female embryo 101 days and female embryo 103 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF209VTG ENCSR746RDJ heart right ventricle tissue female embryo 101 days and female embryo 103 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF790RUT ENCSR746AIX Peak with multiple sclerosis immature natural killer cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF862SBF ENCSR746AIX with multiple sclerosis immature natural killer cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF399MXH ENCSR745TRI Peak from a donor with amyotrophic lateral sclerosis motor neuron H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF125KUI ENCSR745TRI from a donor with amyotrophic lateral sclerosis motor neuron H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF746GQI ENCSR745KUZ Peak K562 treated with DMSO for 4 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF481ZPF ENCSR745KUZ K562 treated with DMSO for 4 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF748ICQ ENCSR744YJR Peak thyroid gland tissue female adult 53 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF603TNI ENCSR744YJR thyroid gland tissue female adult 53 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF632CMF ENCSR743HTN Peak HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens CDK7 treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF448FEB ENCSR743HTN HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens CDK7 treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF737ZMU ENCSR743GCE Peak uterus tissue female adult 51 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF181HLF ENCSR743GCE uterus tissue female adult 51 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF393ZPD ENCSR743DDX Peak stomach tissue female embryo 96 days H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF133XXT ENCSR743DDX stomach tissue female embryo 96 days H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF699ULB ENCSR742HMR Peak activated T-helper 17 cell male adult 50 years treated with 50 U/mL Interleukin-2 for 72 hours, anti-CD3 and anti-CD28 coated beads for 72 hours H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF060YXX ENCSR742HMR activated T-helper 17 cell male adult 50 years treated with 50 U/mL Interleukin-2 for 72 hours, anti-CD3 and anti-CD28 coated beads for 72 hours H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF918VHT ENCSR742HBK Peak head of caudate nucleus tissue male adult 86 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF566NSN ENCSR742HBK head of caudate nucleus tissue male adult 86 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF500PWU ENCSR741XAE Peak with multiple sclerosis naive thymus-derived CD8-positive, alpha-beta T cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF157BRH ENCSR741XAE with multiple sclerosis naive thymus-derived CD8-positive, alpha-beta T cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF317SFD ENCSR741STU Peak DOHH2 H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF313VVF ENCSR741STU DOHH2 H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF709QWG ENCSR741QNS Peak K562 treated with 5 μM C646 for 24 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF993GAX ENCSR741QNS K562 treated with 5 μM C646 for 24 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF627ZNU ENCSR741HEF Peak heart right ventricle tissue male adult 61 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF345XIS ENCSR741HEF heart right ventricle tissue male adult 61 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF748IBN ENCSR740GKG Peak with Cognitive impairment middle frontal area 46 tissue female adult 86 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF884XLS ENCSR740GKG with Cognitive impairment middle frontal area 46 tissue female adult 86 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF747IVW ENCSR740DJQ Peak activated CD4-positive, alpha-beta T cell male adult 42 years treated with anti-CD3 and anti-CD28 coated beads for 1 hour, 50 U/mL Interleukin-2 for 1 hour DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF414WEG ENCSR740DJQ activated CD4-positive, alpha-beta T cell male adult 42 years treated with anti-CD3 and anti-CD28 coated beads for 1 hour, 50 U/mL Interleukin-2 for 1 hour DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF953QVR ENCSR739VKY Peak naive B cell female adult 39 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF310ZPG ENCSR739VKY naive B cell female adult 39 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF394PHQ ENCSR738SXD Peak upper lobe of left lung tissue female adult 53 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF174WAB ENCSR738SXD upper lobe of left lung tissue female adult 53 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF912MHH ENCSR738LBP Peak thymus tissue male child 3 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF303PLE ENCSR738LBP thymus tissue male child 3 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF110KYU ENCSR737WCC Peak left ventricle myocardium inferior tissue male adult 60 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF237QAL ENCSR737WCC left ventricle myocardium inferior tissue male adult 60 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF673EOO ENCSR737HKX Peak K562 treated with 10 nM Chaetocin for 24 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF122JBM ENCSR737HKX K562 treated with 10 nM Chaetocin for 24 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF864GMC ENCSR736VVP Peak memory B cell female adult 39 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF286HTZ ENCSR736VVP memory B cell female adult 39 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF696EWL ENCSR736PZW Peak left lung tissue female child 16 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF975RFH ENCSR736PZW left lung tissue female child 16 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF023UEM ENCSR736ALU Peak gastrocnemius medialis tissue female adult 53 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF825YXF ENCSR736ALU gastrocnemius medialis tissue female adult 53 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF439NDP ENCSR735SLW Peak parathyroid adenoma tissue male adult 62 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF707OIS ENCSR735SLW parathyroid adenoma tissue male adult 62 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF485JBC ENCSR735NTV Peak heart left ventricle tissue male adult 54 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF321BJG ENCSR735NTV heart left ventricle tissue male adult 54 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF201CXR ENCSR735MJZ Peak stimulated activated CD8-positive, alpha-beta memory T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 4 hours, 100 ng/mL Interleukin-4 for 4 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF678ORF ENCSR735MJZ stimulated activated CD8-positive, alpha-beta memory T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 4 hours, 100 ng/mL Interleukin-4 for 4 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF614YQA ENCSR735BIM Peak common myeloid progenitor, CD34-positive male adult 43 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF993LPG ENCSR735BIM common myeloid progenitor, CD34-positive male adult 43 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF026HNH ENCSR734VFU Peak stimulated activated CD4-positive, alpha-beta T cell male adult 42 years treated with anti-CD3 and anti-CD28 coated beads for 1 hour, 100 ng/mL Interleukin-23 for 1 hour, 100 ng/mL Interleukin-1b for 1 hour DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF781KCY ENCSR734VFU stimulated activated CD4-positive, alpha-beta T cell male adult 42 years treated with anti-CD3 and anti-CD28 coated beads for 1 hour, 100 ng/mL Interleukin-23 for 1 hour, 100 ng/mL Interleukin-1b for 1 hour DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF020MYN ENCSR733YNW Peak vagina tissue female adult 51 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF525EPU ENCSR733YNW vagina tissue female adult 51 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF890DHO ENCSR733FGY Peak stimulated activated CD8-positive, alpha-beta T cell male adult 21 years treated with 10 ng/mL Interleukin-2 , anti-CD3 and anti-CD28 coated beads H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF406HAS ENCSR733FGY stimulated activated CD8-positive, alpha-beta T cell male adult 21 years treated with 10 ng/mL Interleukin-2 , anti-CD3 and anti-CD28 coated beads H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF360JEW ENCSR732RIC Peak ovary tissue female adult 47 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF276GVH ENCSR732RIC ovary tissue female adult 47 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF651UCU ENCSR732IFV Peak activated effector memory CD4-positive, alpha-beta T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 16 hours, 50 U/mL Interleukin-2 for 16 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF526ZOQ ENCSR732IFV activated effector memory CD4-positive, alpha-beta T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 16 hours, 50 U/mL Interleukin-2 for 16 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF813YVW ENCSR731QXN Peak esophagus squamous epithelium tissue male adult 37 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF764HZI ENCSR731QXN esophagus squamous epithelium tissue male adult 37 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF508FYE ENCSR731QLJ Peak mesenchymal stem cell originated from H1 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF387STL ENCSR731QLJ mesenchymal stem cell originated from H1 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF931NIC ENCSR731ODJ Peak left cardiac atrium tissue female adult 58 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF330FOE ENCSR731ODJ left cardiac atrium tissue female adult 58 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF910XES ENCSR731KDL Peak T-helper 17 cell male adult 48 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF113ELV ENCSR731KDL T-helper 17 cell male adult 48 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF347ZKZ ENCSR730IHD Peak with Alzheimer's disease posterior cingulate gyrus tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF214ZVC ENCSR730IHD with Alzheimer's disease posterior cingulate gyrus tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF499XZZ ENCSR729UZM Peak progenitor cell of endocrine pancreas H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF165GJZ ENCSR729UZM progenitor cell of endocrine pancreas H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF601UNH ENCSR729TYE Peak posterior cingulate gyrus tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF836SMO ENCSR729TYE posterior cingulate gyrus tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF891CRM ENCSR729GQT Peak iPS-20b H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF661BET ENCSR729GQT iPS-20b H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF599RFU ENCSR729FNL Peak posterior cingulate cortex tissue male adult 20 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF752ZXK ENCSR729FNL posterior cingulate cortex tissue male adult 20 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF102QDM ENCSR729ENO Peak GM23338 originated from GM23248 H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF641QBD ENCSR729ENO GM23338 originated from GM23248 H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF228XWS ENCSR729DRB Peak testis tissue male embryo DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF047EHA ENCSR729DRB testis tissue male embryo DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF715HMS ENCSR729AAI Peak heart left ventricle tissue male adult 73 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF957OYD ENCSR729AAI heart left ventricle tissue male adult 73 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF732JKW ENCSR728KQX Peak HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens POLR2A treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF888OJS ENCSR728KQX HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens POLR2A treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF948ZGT ENCSR728KQL Peak stimulated activated CD8-positive, alpha-beta T cell male adult 21 years treated with 10 ng/mL Interleukin-2 , anti-CD3 and anti-CD28 coated beads H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF519AHX ENCSR728KQL stimulated activated CD8-positive, alpha-beta T cell male adult 21 years treated with 10 ng/mL Interleukin-2 , anti-CD3 and anti-CD28 coated beads H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF788AWZ ENCSR728BAD Peak adrenal gland tissue male embryo 108 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF379NJY ENCSR728BAD adrenal gland tissue male embryo 108 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF727CLQ ENCSR727HME Peak lower leg skin tissue female adult 51 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF544QXI ENCSR727HME lower leg skin tissue female adult 51 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF645MMW ENCSR726YMS Peak stomach tissue female embryo DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF361HOE ENCSR726YMS stomach tissue female embryo DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF266CEG ENCSR726WVB Peak substantia nigra tissue male adult 81 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF455VBG ENCSR726WVB substantia nigra tissue male adult 81 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF188MTY ENCSR726HTS Peak spleen tissue female adult 53 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF987FRB ENCSR726HTS spleen tissue female adult 53 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF327VLN ENCSR724YTA Peak middle frontal area 46 tissue male adult 87 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF961RFY ENCSR724YTA middle frontal area 46 tissue male adult 87 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF012FLF ENCSR724QTW Peak stimulated activated CD4-positive, alpha-beta T cell male adult 42 years treated with anti-CD3 and anti-CD28 coated beads for 4 hours, 100 ng/mL Interleukin-12 subunit alpha for 4 hours, 100 ng/mL Interleukin-12 subunit beta for 4 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF062VIQ ENCSR724QTW stimulated activated CD4-positive, alpha-beta T cell male adult 42 years treated with anti-CD3 and anti-CD28 coated beads for 4 hours, 100 ng/mL Interleukin-12 subunit alpha for 4 hours, 100 ng/mL Interleukin-12 subunit beta for 4 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF529EJB ENCSR724INK Peak effector memory CD4-positive, alpha-beta T cell male adult 56 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF871CWE ENCSR724INK effector memory CD4-positive, alpha-beta T cell male adult 56 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF826OVR ENCSR724GUS Peak CD4-positive, alpha-beta memory T cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF653TLI ENCSR724GUS CD4-positive, alpha-beta memory T cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF364PTO ENCSR724CND Peak foreskin keratinocyte male newborn DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF569MJW ENCSR724CND foreskin keratinocyte male newborn DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF527WRB ENCSR723VNG Peak left lung tissue male adult 40 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF990HTO ENCSR723VNG left lung tissue male adult 40 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF810MUC ENCSR723RUM Peak with Alzheimer's disease middle frontal area 46 tissue female adult 90 or above years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF111ACH ENCSR723RUM with Alzheimer's disease middle frontal area 46 tissue female adult 90 or above years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF294BPC ENCSR723MMA Peak activated CD4-positive, alpha-beta memory T cell male adult 43 years treated with anti-CD3 and anti-CD28 coated beads H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF916NRZ ENCSR723MMA activated CD4-positive, alpha-beta memory T cell male adult 43 years treated with anti-CD3 and anti-CD28 coated beads H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF085XSR ENCSR723JLG Peak natural killer cell female adult 34 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF114PBW ENCSR723JLG natural killer cell female adult 34 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF417OGW ENCSR722HJG Peak head of caudate nucleus tissue female adult 82 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF812WBM ENCSR722HJG head of caudate nucleus tissue female adult 82 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF252PVN ENCSR721XAP Peak inflammatory macrophage male adult 21 years and male adult 40 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF738EVM ENCSR721XAP inflammatory macrophage male adult 21 years and male adult 40 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF985PHG ENCSR721DFB Peak with mild cognitive impairment head of caudate nucleus tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF709BSK ENCSR721DFB with mild cognitive impairment head of caudate nucleus tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF219LPW ENCSR721AHD Peak sigmoid colon tissue male adult 37 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF460ECX ENCSR721AHD sigmoid colon tissue male adult 37 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF974WWY ENCSR720WUX Peak stimulated activated naive B cell female adult 39 years treated with 1 μg/mL anti-CD40 for 72 hours, 100 ng/mL Interleukin-4 for 72 hours, 10 μg/mL anti-IgM for 72 hours H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF302CQX ENCSR720WUX stimulated activated naive B cell female adult 39 years treated with 1 μg/mL anti-CD40 for 72 hours, 100 ng/mL Interleukin-4 for 72 hours, 10 μg/mL anti-IgM for 72 hours H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF979KAF ENCSR720USO Peak prostate gland tissue male adult 37 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF310UCW ENCSR720USO prostate gland tissue male adult 37 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF522DDQ ENCSR720TCN Peak stimulated activated CD4-positive, alpha-beta memory T cell male adult 43 years treated with 10 ng/mL Interleukin-2 , anti-CD3 and anti-CD28 coated beads DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF212LAY ENCSR720TCN stimulated activated CD4-positive, alpha-beta memory T cell male adult 43 years treated with 10 ng/mL Interleukin-2 , anti-CD3 and anti-CD28 coated beads DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF227MIQ ENCSR720FVJ Peak with mild cognitive impairment middle frontal area 46 tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF456EHL ENCSR720FVJ with mild cognitive impairment middle frontal area 46 tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF763XYK ENCSR720DYZ Peak with basal cell carcinoma skin epidermis tissue male adult 77 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF781HVS ENCSR720DYZ with basal cell carcinoma skin epidermis tissue male adult 77 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF364UMF ENCSR719FEJ Peak KOPT-K1 H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF625VJJ ENCSR719FEJ KOPT-K1 H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF575JEQ ENCSR718SDR Peak heart left ventricle tissue female adult 51 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF311FLH ENCSR718SDR heart left ventricle tissue female adult 51 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF967KZC ENCSR718JUS Peak HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens CDK7 treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF642BED ENCSR718JUS HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens CDK7 treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF412IPR ENCSR718HWW Peak activated CD8-positive, alpha-beta T cell male adult 21 years treated with anti-CD3 and anti-CD28 coated beads ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF568OPL ENCSR718HWW activated CD8-positive, alpha-beta T cell male adult 21 years treated with anti-CD3 and anti-CD28 coated beads ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF689EGT ENCSR718BTD Peak vagina tissue female adult 53 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF738HRV ENCSR718BTD vagina tissue female adult 53 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF621AVZ ENCSR718AAB Peak natural killer cell male adult 37 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF463QOD ENCSR718AAB natural killer cell male adult 37 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF536ANU ENCSR717HIA Peak placenta tissue male embryo 16 weeks H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF142AFQ ENCSR717HIA placenta tissue male embryo 16 weeks H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF472DYZ ENCSR717BBR Peak with mild cognitive impairment head of caudate nucleus tissue male adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF678RUZ ENCSR717BBR with mild cognitive impairment head of caudate nucleus tissue male adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF803LRA ENCSR717AJD Peak temporal lobe tissue male adult 81 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF347MTT ENCSR717AJD temporal lobe tissue male adult 81 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF304UFH ENCSR716ZJH Peak H9 stably expressing HES5 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF507QTV ENCSR716ZJH H9 stably expressing HES5 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF203TCV ENCSR716YIT Peak kidney tissue male adult 67 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF729ZPF ENCSR716YIT kidney tissue male adult 67 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF528HYV ENCSR716FUH Peak thyroid gland tissue female adult 53 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF050PLB ENCSR716FUH thyroid gland tissue female adult 53 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF242XAP ENCSR715TMH Peak T-cell female adult 32 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF142VCT ENCSR715TMH T-cell female adult 32 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF554VXE ENCSR715KGX Peak adrenal gland tissue male embryo 97 days H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF678USC ENCSR715KGX adrenal gland tissue male embryo 97 days H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF251HIQ ENCSR714TJD Peak A673 H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF213BSP ENCSR714TJD A673 H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF184JRA ENCSR714SGY Peak muscle of trunk tissue female embryo 115 days H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF581DIL ENCSR714SGY muscle of trunk tissue female embryo 115 days H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF988DLK ENCSR714MWV Peak stimulated activated naive CD8-positive, alpha-beta T cell male adult 30 years treated with anti-CD3 and anti-CD28 coated beads, 10 ng/mL Interleukin-2 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF830VDQ ENCSR714MWV stimulated activated naive CD8-positive, alpha-beta T cell male adult 30 years treated with anti-CD3 and anti-CD28 coated beads, 10 ng/mL Interleukin-2 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF870CPU ENCSR714KWW Peak CD4-positive, alpha-beta T cell treated with phorbol 13-acetate 12-myristate , ionomycin H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF295CPY ENCSR714KWW CD4-positive, alpha-beta T cell treated with phorbol 13-acetate 12-myristate , ionomycin H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF467ECW ENCSR714DIF Peak mesendoderm originated from H1 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF100WFU ENCSR714DIF mesendoderm originated from H1 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF722TQP ENCSR713ZYF Peak with multiple sclerosis naive B cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF022RWR ENCSR713ZYF with multiple sclerosis naive B cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF071KOB ENCSR713YDD Peak pancreas tissue female adult 59 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF083ENU ENCSR713YDD pancreas tissue female adult 59 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF777TNC ENCSR713SXF Peak cardiac muscle cell originated from RUES2 CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF466BIT ENCSR713SXF cardiac muscle cell originated from RUES2 CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF998LHW ENCSR713KNQ Peak aorta tissue female adult 41 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF660OZI ENCSR713KNQ aorta tissue female adult 41 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF469JKY ENCSR712ZRY Peak GM19463 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF139KXZ ENCSR712ZRY GM19463 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF642TPJ ENCSR712YZE Peak naive B cell female adult 39 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF837WOY ENCSR712YZE naive B cell female adult 39 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF379FJH ENCSR712YCY Peak CD4-positive, alpha-beta T cell male adult 20 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF059IYG ENCSR712YCY CD4-positive, alpha-beta T cell male adult 20 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF814BGS ENCSR712PYJ Peak ovary tissue female adult 30 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF406GUT ENCSR712PYJ ovary tissue female adult 30 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF572RFF ENCSR711AQM Peak suppressor macrophage male adult 21 years and male adult 24 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF469BIK ENCSR711AQM suppressor macrophage male adult 21 years and male adult 24 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF464KWH ENCSR710SZV Peak naive thymus-derived CD4-positive, alpha-beta T cell male adult 48 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF526YYM ENCSR710SZV naive thymus-derived CD4-positive, alpha-beta T cell male adult 48 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF327UXV ENCSR710SMN Peak heart right ventricle tissue female adult 58 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF347YOH ENCSR710SMN heart right ventricle tissue female adult 58 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF145ZYK ENCSR709YRE Peak T-helper 17 cell male adult 42 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF940NBY ENCSR709YRE T-helper 17 cell male adult 42 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF419LSP ENCSR709QRD Peak from a donor with amyotrophic lateral sclerosis motor neuron ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF729BQI ENCSR709QRD from a donor with amyotrophic lateral sclerosis motor neuron ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF659FAR ENCSR709PZI Peak with Alzheimer's disease posterior cingulate gyrus tissue female adult 88 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF460RKR ENCSR709PZI with Alzheimer's disease posterior cingulate gyrus tissue female adult 88 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF666GID ENCSR709PFC Peak HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens MED14 H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF426ZES ENCSR709PFC HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens MED14 H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF609JEI ENCSR709KME Peak stimulated activated naive B cell male adult 40 years treated with 1 μg/mL anti-CD40 for 72 hours, 100 ng/mL Interleukin-4 for 72 hours, 10 μg/mL anti-IgM for 72 hours H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF920IQC ENCSR709KME stimulated activated naive B cell male adult 40 years treated with 1 μg/mL anti-CD40 for 72 hours, 100 ng/mL Interleukin-4 for 72 hours, 10 μg/mL anti-IgM for 72 hours H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF767IOF ENCSR709IYR Peak suprapubic skin tissue male adult 54 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF642VOM ENCSR709IYR suprapubic skin tissue male adult 54 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF795FEU ENCSR709GBY Peak naive thymus-derived CD8-positive, alpha-beta T cell male adult 30 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF721OCD ENCSR709GBY naive thymus-derived CD8-positive, alpha-beta T cell male adult 30 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF335DHZ ENCSR706XFG Peak with Alzheimer's disease middle frontal area 46 tissue female adult 90 or above years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF220KZL ENCSR706XFG with Alzheimer's disease middle frontal area 46 tissue female adult 90 or above years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF441OBG ENCSR706IDL Peak midbrain tissue male adult 78 years and male adult 84 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF080QSA ENCSR706IDL midbrain tissue male adult 78 years and male adult 84 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF247XJC ENCSR706GDQ Peak GM19455 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF049TUN ENCSR706GDQ GM19455 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF650RTY ENCSR705VSO Peak with multiple sclerosis naive thymus-derived CD4-positive, alpha-beta T cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF566WWM ENCSR705VSO with multiple sclerosis naive thymus-derived CD4-positive, alpha-beta T cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF437VNC ENCSR705KEB Peak pancreas tissue female adult 59 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF594OAL ENCSR705KEB pancreas tissue female adult 59 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF365CXN ENCSR705GCU Peak CD8-positive, alpha-beta memory T cell male adult 30 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF098QPB ENCSR705GCU CD8-positive, alpha-beta memory T cell male adult 30 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF812JWS ENCSR705DNM Peak middle frontal area 46 tissue female adult 90 or above years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF161XMB ENCSR705DNM middle frontal area 46 tissue female adult 90 or above years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF283CCK ENCSR705CNJ Peak heart tissue male embryo 72 days and male embryo 76 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF077GHP ENCSR705CNJ heart tissue male embryo 72 days and male embryo 76 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF441YYY ENCSR705BTW Peak esophagus muscularis mucosa tissue male adult 54 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF304TYW ENCSR705BTW esophagus muscularis mucosa tissue male adult 54 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF937RTJ ENCSR704VZY Peak from a donor with amyotrophic lateral sclerosis motor neuron ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF746MNC ENCSR704VZY from a donor with amyotrophic lateral sclerosis motor neuron ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF415HHB ENCSR704HNG Peak natural killer cell male adult 21 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF228HDN ENCSR704HNG natural killer cell male adult 21 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF375BOE ENCSR703VGI Peak naive thymus-derived CD8-positive, alpha-beta T cell male adult 33 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF934ESI ENCSR703VGI naive thymus-derived CD8-positive, alpha-beta T cell male adult 33 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF284CBL ENCSR703TWY Peak with multiple sclerosis immature natural killer cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF934TRW ENCSR703TWY with multiple sclerosis immature natural killer cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF326ORG ENCSR703DFH Peak foreskin keratinocyte male newborn H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF557STL ENCSR703DFH foreskin keratinocyte male newborn H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF966YFT ENCSR703CYD Peak subcutaneous abdominal adipose tissue tissue nuclear fraction female adult 25 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF486KLP ENCSR703CYD subcutaneous abdominal adipose tissue tissue nuclear fraction female adult 25 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF989IYO ENCSR703AYZ Peak stimulated activated CD4-positive, alpha-beta T cell male adult 42 years treated with anti-CD3 and anti-CD28 coated beads for 24 hours, 100 ng/mL Interleukin-4 for 24 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF355HKW ENCSR703AYZ stimulated activated CD4-positive, alpha-beta T cell male adult 42 years treated with anti-CD3 and anti-CD28 coated beads for 24 hours, 100 ng/mL Interleukin-4 for 24 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF647VPV ENCSR702VYW Peak HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens CTCF treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF241EHU ENCSR702VYW HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens CTCF treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF508DDS ENCSR702OVJ Peak heart left ventricle tissue female adult 51 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF522YPN ENCSR702OVJ heart left ventricle tissue female adult 51 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF534ULI ENCSR702DPD Peak upper lobe of left lung tissue female adult 53 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF960WAV ENCSR702DPD upper lobe of left lung tissue female adult 53 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF096MIN ENCSR701GXD Peak natural killer cell female adult 41 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF956EMA ENCSR701GXD natural killer cell female adult 41 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF192AXG ENCSR701FGA Peak upper lobe of left lung tissue male adult 54 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF117DUU ENCSR701FGA upper lobe of left lung tissue male adult 54 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF298VZL ENCSR700ZDF Peak heart right ventricle tissue male adult 66 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF663EZB ENCSR700ZDF heart right ventricle tissue male adult 66 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF648TON ENCSR700LWI Peak with squamous cell carcinoma skin epidermis tissue female adult 64 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF794LAA ENCSR700LWI with squamous cell carcinoma skin epidermis tissue female adult 64 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF035RGV ENCSR700HPA Peak GM18499 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF227LPR ENCSR700HPA GM18499 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF835ZSJ ENCSR699BRV Peak with mild cognitive impairment middle frontal area 46 tissue female adult 90 or above years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF685MPU ENCSR699BRV with mild cognitive impairment middle frontal area 46 tissue female adult 90 or above years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF997QFN ENCSR698VDM Peak activated CD4-positive, alpha-beta T cell male adult 42 years treated with anti-CD3 and anti-CD28 coated beads for 4 hours, 50 U/mL Interleukin-2 for 4 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF004FDW ENCSR698VDM activated CD4-positive, alpha-beta T cell male adult 42 years treated with anti-CD3 and anti-CD28 coated beads for 4 hours, 50 U/mL Interleukin-2 for 4 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF841UKX ENCSR698CUE Peak muscle of back tissue male embryo 96 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF758ZXY ENCSR698CUE muscle of back tissue male embryo 96 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF341QWO ENCSR697YIN Peak breast epithelium tissue male adult 54 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF156LWF ENCSR697YIN breast epithelium tissue male adult 54 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF587UXO ENCSR697TWR Peak activated T-helper 2 cell male adult 35 years treated with 5 μg/mL Interferon-gamma antibody , 100 ng/mL Interleukin-4 , anti-CD3 and anti-CD28 coated beads H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF293SFN ENCSR697TWR activated T-helper 2 cell male adult 35 years treated with 5 μg/mL Interferon-gamma antibody , 100 ng/mL Interleukin-4 , anti-CD3 and anti-CD28 coated beads H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF413PJE ENCSR697MUJ Peak skin epidermis tissue female adult 64 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF762WCA ENCSR697MUJ skin epidermis tissue female adult 64 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF504LPR ENCSR697GPO Peak esophagus tissue female adult 30 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF772PDE ENCSR697GPO esophagus tissue female adult 30 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF733HNM ENCSR697FME Peak CD4-positive, alpha-beta T cell male adult 38 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF029XBE ENCSR697FME CD4-positive, alpha-beta T cell male adult 38 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF966HSZ ENCSR696ZDW Peak immature natural killer cell DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF932AQG ENCSR696ZDW immature natural killer cell DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF229DOC ENCSR696XSJ Peak adrenal gland tissue female embryo 113 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF676EBG ENCSR696XSJ adrenal gland tissue female embryo 113 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF468DSY ENCSR696LPC Peak activated CD4-positive, alpha-beta T cell male adult 42 years treated with anti-CD3 and anti-CD28 coated beads for 4 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF473VAY ENCSR696LPC activated CD4-positive, alpha-beta T cell male adult 42 years treated with anti-CD3 and anti-CD28 coated beads for 4 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF326ZDZ ENCSR696DVE Peak CD4-positive, alpha-beta memory T cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF606OFL ENCSR696DVE CD4-positive, alpha-beta memory T cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF275SKT ENCSR695FLC Peak mucosa of gallbladder tissue female child 16 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF840RIZ ENCSR695FLC mucosa of gallbladder tissue female child 16 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF295ATK ENCSR695AUY Peak CD14-positive monocyte female adult 34 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF353UAY ENCSR695AUY CD14-positive monocyte female adult 34 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF111KOF ENCSR694YJR Peak HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens MED14 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF609EOJ ENCSR694YJR HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens MED14 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF219GCS ENCSR694RCH Peak muscle layer of duodenum tissue male adult 59 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF106ZZM ENCSR694RCH muscle layer of duodenum tissue male adult 59 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF172GAK ENCSR694LFE Peak heart right ventricle tissue male adult 61 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF688CZD ENCSR694LFE heart right ventricle tissue male adult 61 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF379NGG ENCSR694DOX Peak posterior cingulate gyrus tissue male adult 83 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF130TYS ENCSR694DOX posterior cingulate gyrus tissue male adult 83 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF242LOL ENCSR693VHX Peak foreskin melanocyte male newborn H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF848DAV ENCSR693VHX foreskin melanocyte male newborn H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF190JLM ENCSR693UHT Peak omental fat pad tissue female adult 51 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF606INL ENCSR693UHT omental fat pad tissue female adult 51 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF056ABK ENCSR693GVU Peak cingulate gyrus tissue female adult 75 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF282SRM ENCSR693GVU cingulate gyrus tissue female adult 75 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF156MFM ENCSR692PKU Peak activated effector memory CD4-positive, alpha-beta T cell male adult 38 years treated with 50 U/mL Interleukin-2 for 16 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF540DAA ENCSR692PKU activated effector memory CD4-positive, alpha-beta T cell male adult 38 years treated with 50 U/mL Interleukin-2 for 16 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF871TSQ ENCSR691MQJ Peak EL DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF606CBT ENCSR691MQJ EL DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF821GYR ENCSR690CVL Peak with Alzheimer's disease posterior cingulate gyrus tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF108TMD ENCSR690CVL with Alzheimer's disease posterior cingulate gyrus tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF132XZI ENCSR690ADK Peak HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens SMARCA5 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF136DSS ENCSR690ADK HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens SMARCA5 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF755YSO ENCSR689VEF Peak tibial nerve tissue male adult 54 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF543LIT ENCSR689VEF tibial nerve tissue male adult 54 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF259OJM ENCSR689SDA Peak gastrocnemius medialis tissue female adult 53 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF124UIG ENCSR689SDA gastrocnemius medialis tissue female adult 53 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF359BHR ENCSR689LFJ Peak middle frontal area 46 tissue female adult 83 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF992YXC ENCSR689LFJ middle frontal area 46 tissue female adult 83 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF078TAI ENCSR689FYA Peak placenta tissue male embryo DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF146YLN ENCSR689FYA placenta tissue male embryo DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF098CGH ENCSR689DSM Peak Peyer's patch tissue female adult 53 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF812JCQ ENCSR689DSM Peyer's patch tissue female adult 53 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF364DQX ENCSR688OIJ Peak stimulated activated CD8-positive, alpha-beta memory T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 48 hours, 100 ng/mL Interleukin-2 for 48 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF887WPH ENCSR688OIJ stimulated activated CD8-positive, alpha-beta memory T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 48 hours, 100 ng/mL Interleukin-2 for 48 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF454FFL ENCSR688DKY Peak stimulated activated CD8-positive, alpha-beta memory T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 1 hour, 100 ng/mL Interleukin-4 for 1 hour DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF125BPF ENCSR688DKY stimulated activated CD8-positive, alpha-beta memory T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 1 hour, 100 ng/mL Interleukin-4 for 1 hour DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF359TMR ENCSR688AWP Peak head of caudate nucleus tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF634CTV ENCSR688AWP head of caudate nucleus tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF984EVG ENCSR687ZCM Peak muscle of leg tissue female embryo 110 days H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF420RNX ENCSR687ZCM muscle of leg tissue female embryo 110 days H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF317JYV ENCSR686WJL Peak gastrocnemius medialis tissue female adult 53 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF712ATQ ENCSR686WJL gastrocnemius medialis tissue female adult 53 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF016ZQG ENCSR686LOE Peak middle frontal area 46 tissue female adult 89 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF286BFK ENCSR686LOE middle frontal area 46 tissue female adult 89 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF107YGB ENCSR685ZMP Peak right lobe of liver tissue female adult 41 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF232QBB ENCSR685ZMP right lobe of liver tissue female adult 41 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF266JHF ENCSR685YMG Peak K562 treated with 2.5 μM Galeterone for 24 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF642SVV ENCSR685YMG K562 treated with 2.5 μM Galeterone for 24 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF472UAQ ENCSR685XVI Peak skin epidermis tissue male adult 78 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF926SMH ENCSR685XVI skin epidermis tissue male adult 78 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF176IQQ ENCSR685PCS Peak placenta tissue male embryo DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF146HIT ENCSR685PCS placenta tissue male embryo DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF971AID ENCSR685OFR Peak naive B cell female adult 39 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF577KRZ ENCSR685OFR naive B cell female adult 39 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF490PLI ENCSR685KZA Peak activated B cell male adult 22 years treated with 0.5 μM CpG ODN for 24 hours H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF632AAY ENCSR685KZA activated B cell male adult 22 years treated with 0.5 μM CpG ODN for 24 hours H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF727VJX ENCSR685JSL Peak MCF 10A H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF282YCX ENCSR685JSL MCF 10A H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF544RPM ENCSR685HSP Peak neural crest cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF346DEM ENCSR685HSP neural crest cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF994BKU ENCSR685BBN Peak CD14-positive monocyte H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF523ZCA ENCSR685BBN CD14-positive monocyte H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF837OEY ENCSR684PGO Peak uterus tissue female adult 53 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF700PHX ENCSR684PGO uterus tissue female adult 53 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF293DFO ENCSR684KUG Peak GM18870 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF946GAJ ENCSR684KUG GM18870 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF767DJU ENCSR684HLM Peak stimulated activated naive B cell female adult 39 years treated with 1 μg/mL anti-CD40 for 72 hours, 100 ng/mL Interleukin-4 for 72 hours, 10 μg/mL anti-IgM for 72 hours H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF672SYY ENCSR684HLM stimulated activated naive B cell female adult 39 years treated with 1 μg/mL anti-CD40 for 72 hours, 100 ng/mL Interleukin-4 for 72 hours, 10 μg/mL anti-IgM for 72 hours H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF798SWN ENCSR684GKG Peak naive thymus-derived CD8-positive, alpha-beta T cell male adult 36 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF697SJL ENCSR684GKG naive thymus-derived CD8-positive, alpha-beta T cell male adult 36 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF147WZD ENCSR684EPX Peak Peyer's patch tissue female adult 51 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF474VCQ ENCSR684EPX Peyer's patch tissue female adult 51 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF291TOQ ENCSR683YLO Peak stomach tissue female embryo 96 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF827PXJ ENCSR683YLO stomach tissue female embryo 96 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF384VRX ENCSR683RXF Peak with squamous cell carcinoma skin epidermis tissue male adult 78 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF950LVH ENCSR683RXF with squamous cell carcinoma skin epidermis tissue male adult 78 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF965JXN ENCSR683QJJ Peak CD4-positive, alpha-beta T cell male adult 21 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF363IZB ENCSR683QJJ CD4-positive, alpha-beta T cell male adult 21 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF503ZPH ENCSR682ZZT Peak head of caudate nucleus tissue female adult 83 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF648JOD ENCSR682ZZT head of caudate nucleus tissue female adult 83 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF442FQJ ENCSR682SDS Peak nephron progenitor cell, 8 days post differentiation H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF019OYK ENCSR682SDS nephron progenitor cell, 8 days post differentiation H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF299SUF ENCSR682PKY Peak thymus tissue female embryo DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF619PTY ENCSR682PKY thymus tissue female embryo DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF344XEB ENCSR682ETE Peak left lung tissue female child 16 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF314RIZ ENCSR682ETE left lung tissue female child 16 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF915FRP ENCSR681HMF Peak common myeloid progenitor, CD34-positive female adult 27 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF457WMD ENCSR681HMF common myeloid progenitor, CD34-positive female adult 27 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF403GTJ ENCSR681ELN Peak with mild cognitive impairment middle frontal area 46 tissue female adult 90 or above years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF383TGX ENCSR681ELN with mild cognitive impairment middle frontal area 46 tissue female adult 90 or above years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF621XBW ENCSR680XOP Peak K562 treated with 0.5 μM MB-3 for 4 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF210AIT ENCSR680XOP K562 treated with 0.5 μM MB-3 for 4 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF338KEP ENCSR680WMF Peak with mild cognitive impairment middle frontal area 46 tissue female adult 90 or above years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF264VOP ENCSR680WMF with mild cognitive impairment middle frontal area 46 tissue female adult 90 or above years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF093LLG ENCSR680SDS Peak left lung tissue female embryo 107 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF286GRJ ENCSR680SDS left lung tissue female embryo 107 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF320AMH ENCSR680IWU Peak from a donor with amyotrophic lateral sclerosis motor neuron H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF843YIN ENCSR680IWU from a donor with amyotrophic lateral sclerosis motor neuron H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF470UCK ENCSR679OVD Peak esophagus tissue male adult 34 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF153OFF ENCSR679OVD esophagus tissue male adult 34 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF148OGD ENCSR679IFH Peak spleen tissue embryo 112 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF884LDL ENCSR679IFH spleen tissue embryo 112 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF800BKE ENCSR679EFH Peak activated CD4-positive, alpha-beta T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 24 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF970MLX ENCSR679EFH activated CD4-positive, alpha-beta T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 24 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF155XWL ENCSR678PDD Peak spinal cord tissue female embryo 113 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF148THP ENCSR678PDD spinal cord tissue female embryo 113 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF412QJP ENCSR678LND Peak liver tissue female adult 25 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF853WPX ENCSR678LND liver tissue female adult 25 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF959ZNW ENCSR678ILN Peak ELF-1 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF103BBE ENCSR678ILN ELF-1 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF233EKM ENCSR677ZIJ Peak CD4-positive, CD25-positive, alpha-beta regulatory T cell male adult 42 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF406WIO ENCSR677ZIJ CD4-positive, CD25-positive, alpha-beta regulatory T cell male adult 42 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF776NNG ENCSR677XGD Peak with mild cognitive impairment head of caudate nucleus tissue male adult 89 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF784EMF ENCSR677XGD with mild cognitive impairment head of caudate nucleus tissue male adult 89 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF803LWI ENCSR677MOE Peak tibial nerve tissue female adult 51 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF958TLM ENCSR677MOE tibial nerve tissue female adult 51 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF678NWH ENCSR677LBH Peak gastroesophageal sphincter tissue female adult 53 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF980XLA ENCSR677LBH gastroesophageal sphincter tissue female adult 53 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF858TAY ENCSR676UFY Peak K562 treated with 5 μM C646 for 48 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF477WGG ENCSR676UFY K562 treated with 5 μM C646 for 48 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF696JOF ENCSR676LDQ Peak with Alzheimer's disease middle frontal area 46 tissue female adult 90 or above years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF345GCX ENCSR676LDQ with Alzheimer's disease middle frontal area 46 tissue female adult 90 or above years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF742CGW ENCSR676GAW Peak activated gamma-delta T cell female adult 33 years treated with 50 U/mL Interleukin-2 for 16 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF109KJR ENCSR676GAW activated gamma-delta T cell female adult 33 years treated with 50 U/mL Interleukin-2 for 16 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF530NQD ENCSR674VPA Peak naive thymus-derived CD4-positive, alpha-beta T cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF902LSI ENCSR674VPA naive thymus-derived CD4-positive, alpha-beta T cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF027HIM ENCSR674JIL Peak CD14-positive monocyte male adult 37 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF123VGW ENCSR674JIL CD14-positive monocyte male adult 37 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF790NVT ENCSR673ZMQ Peak HG03025 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF834DOX ENCSR673ZMQ HG03025 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF797RTH ENCSR673WZL Peak LNCAP treated with 10 nM 17β-hydroxy-5α-androstan-3-one for 4 hours CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF255VLG ENCSR673WZL LNCAP treated with 10 nM 17β-hydroxy-5α-androstan-3-one for 4 hours CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF048GMB ENCSR672RKZ Peak from a donor with amyotrophic lateral sclerosis motor neuron H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF145CKE ENCSR672RKZ from a donor with amyotrophic lateral sclerosis motor neuron H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF462XPG ENCSR672MOG Peak sciatic nerve tissue female adult 41 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF355SGW ENCSR672MOG sciatic nerve tissue female adult 41 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF199ZCQ ENCSR672HWL Peak common myeloid progenitor, CD34-positive H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF335ADL ENCSR672HWL common myeloid progenitor, CD34-positive H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF517WHD ENCSR672EWY Peak HFFc6 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF623ZIV ENCSR672EWY HFFc6 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF252YKH ENCSR671ZRV Peak central memory CD4-positive, alpha-beta T cell male adult 38 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF131POA ENCSR671ZRV central memory CD4-positive, alpha-beta T cell male adult 38 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF076XME ENCSR671YPX Peak head of caudate nucleus tissue female adult 77 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF157NVB ENCSR671YPX head of caudate nucleus tissue female adult 77 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF789FTV ENCSR671XCL Peak HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens CTCF treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF301DSI ENCSR671XCL HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens CTCF treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF574RPZ ENCSR670ZSA Peak right kidney tissue male embryo 96 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF721SSW ENCSR670ZSA right kidney tissue male embryo 96 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF436ZOP ENCSR670VQZ Peak fibroblast of upper back skin male embryo 97 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF186DYG ENCSR670VQZ fibroblast of upper back skin male embryo 97 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF010OKL ENCSR670REK Peak gastroesophageal sphincter tissue female adult 53 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF562MQW ENCSR670REK gastroesophageal sphincter tissue female adult 53 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF730ZIZ ENCSR670MKJ Peak posterior cingulate gyrus tissue female adult 89 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF184JSH ENCSR670MKJ posterior cingulate gyrus tissue female adult 89 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF511UGM ENCSR670BGI Peak middle frontal area 46 tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF796XMI ENCSR670BGI middle frontal area 46 tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF085JOI ENCSR669ZGZ Peak CD4-positive, CD25-positive, alpha-beta regulatory T cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF398ODB ENCSR669ZGZ CD4-positive, CD25-positive, alpha-beta regulatory T cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF065SLN ENCSR669NQZ Peak stimulated activated CD8-positive, alpha-beta memory T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 4 hours, 100 ng/mL Interleukin-7 for 4 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF561UGF ENCSR669NQZ stimulated activated CD8-positive, alpha-beta memory T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 4 hours, 100 ng/mL Interleukin-7 for 4 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF396QHI ENCSR668VCT Peak transverse colon tissue male adult 37 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF509NRA ENCSR668VCT transverse colon tissue male adult 37 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF525DUO ENCSR668QQL Peak with mild cognitive impairment middle frontal area 46 tissue female adult 90 or above years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF507KAZ ENCSR668QQL with mild cognitive impairment middle frontal area 46 tissue female adult 90 or above years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF708EVD ENCSR668GBL Peak spleen tissue female adult 51 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF502ALL ENCSR668GBL spleen tissue female adult 51 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF009GNA ENCSR668EVA Peak right atrium auricular region tissue female adult 51 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF791CAJ ENCSR668EVA right atrium auricular region tissue female adult 51 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF885HOD ENCSR668DIS Peak with mild cognitive impairment middle frontal area 46 tissue female adult 90 or above years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF238JTO ENCSR668DIS with mild cognitive impairment middle frontal area 46 tissue female adult 90 or above years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF291WZL ENCSR666YVE Peak large intestine tissue male embryo 105 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF327GXC ENCSR666YVE large intestine tissue male embryo 105 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF358JNR ENCSR666TFS Peak foreskin keratinocyte male newborn H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF340UKM ENCSR666TFS foreskin keratinocyte male newborn H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF092NXX ENCSR666JEF Peak with Alzheimer's disease middle frontal area 46 tissue female adult 85 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF263VJQ ENCSR666JEF with Alzheimer's disease middle frontal area 46 tissue female adult 85 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF154SUH ENCSR665QZU Peak CD14-positive monocyte H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF090HMA ENCSR665QZU CD14-positive monocyte H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF049IFX ENCSR664PKM Peak heart tissue embryo 59 days and female embryo 76 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF253NOO ENCSR664PKM heart tissue embryo 59 days and female embryo 76 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF312FVP ENCSR664DNR Peak osteocyte H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF582GHH ENCSR664DNR osteocyte H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF980AXC ENCSR663MNQ Peak with Alzheimer's disease head of caudate nucleus tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF469IVT ENCSR663MNQ with Alzheimer's disease head of caudate nucleus tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF058OVJ ENCSR662RIZ Peak H9 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF903ZCB ENCSR662RIZ H9 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF278HVG ENCSR662PLB Peak neuroepithelial stem cell stably expressing HES5 originated from H9 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF633ZGH ENCSR662PLB neuroepithelial stem cell stably expressing HES5 originated from H9 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF528LQK ENCSR662HMO Peak NAMALWA DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF548LNV ENCSR662HMO NAMALWA DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF476NPP ENCSR662BVK Peak middle frontal area 46 tissue female adult 87 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF562LUZ ENCSR662BVK middle frontal area 46 tissue female adult 87 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF582GAX ENCSR661XNQ Peak gastroesophageal sphincter tissue male adult 54 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF922TZX ENCSR661XNQ gastroesophageal sphincter tissue male adult 54 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF080KNR ENCSR661NXJ Peak breast epithelium tissue female adult 51 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF271PWB ENCSR661NXJ breast epithelium tissue female adult 51 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF660PPP ENCSR661MUS Peak neural progenitor cell originated from H9 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF835JIA ENCSR661MUS neural progenitor cell originated from H9 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF582WNF ENCSR661KMA Peak HCT116 H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF787LMI ENCSR661KMA HCT116 H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF678RSF ENCSR661AMM Peak middle frontal area 46 tissue female adult 83 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF813UXN ENCSR661AMM middle frontal area 46 tissue female adult 83 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF029UQY ENCSR660WSB Peak DND-41 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF679DXT ENCSR660WSB DND-41 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF276BCP ENCSR660KHZ Peak CD8-positive, alpha-beta T cell male adult 21 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF523KXW ENCSR660KHZ CD8-positive, alpha-beta T cell male adult 21 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF267ADA ENCSR660IQS Peak Karpas-422 H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF192JYE ENCSR660IQS Karpas-422 H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF489REG ENCSR660FSU Peak activated T-cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 4 hours, 50 U/mL Interleukin-2 for 4 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF731KOK ENCSR660FSU activated T-cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 4 hours, 50 U/mL Interleukin-2 for 4 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF083YZF ENCSR660EVU Peak naive B cell male adult 40 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF901BFR ENCSR660EVU naive B cell male adult 40 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF901OHC ENCSR659SFK Peak activated B cell male adult 22 years treated with 0.5 μM CpG ODN for 24 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF806WFB ENCSR659SFK activated B cell male adult 22 years treated with 0.5 μM CpG ODN for 24 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF525GTX ENCSR659RHV Peak large intestine tissue male embryo 108 days H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF199GYV ENCSR659RHV large intestine tissue male embryo 108 days H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF613ESS ENCSR659JPP Peak with mild cognitive impairment head of caudate nucleus tissue male adult 84 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF851FKA ENCSR659JPP with mild cognitive impairment head of caudate nucleus tissue male adult 84 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF642BOA ENCSR659FAS Peak chorionic villus tissue female embryo 40 weeks H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF169MHR ENCSR659FAS chorionic villus tissue female embryo 40 weeks H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF711CSQ ENCSR658UBE Peak left lung tissue female child 16 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF935VSX ENCSR658UBE left lung tissue female child 16 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF711ORK ENCSR658NVL Peak stimulated activated CD4-positive, alpha-beta T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 48 hours, 100 ng/mL Interleukin-2 for 48 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF845MYW ENCSR658NVL stimulated activated CD4-positive, alpha-beta T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 48 hours, 100 ng/mL Interleukin-2 for 48 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF921FLN ENCSR657RRI Peak Loucy H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF895OTG ENCSR657RRI Loucy H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF499GSM ENCSR657PXQ Peak CD4-positive, alpha-beta memory T cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF027TXS ENCSR657PXQ CD4-positive, alpha-beta memory T cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF388YQR ENCSR657DYL Peak GM23338 originated from GM23248 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF446OPT ENCSR657DYL GM23338 originated from GM23248 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF824EIO ENCSR656ZEQ Peak rectal smooth muscle tissue tissue female adult 50 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF917QCC ENCSR656ZEQ rectal smooth muscle tissue tissue female adult 50 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF702FKU ENCSR656QYL Peak renal cortex interstitium tissue female embryo 103 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF969UYR ENCSR656QYL renal cortex interstitium tissue female embryo 103 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF563XGA ENCSR656PGJ Peak UCSF-4 H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF504BRW ENCSR656PGJ UCSF-4 H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF415YFE ENCSR656KLT Peak placenta tissue female embryo DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF013LGY ENCSR656KLT placenta tissue female embryo DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF923CIE ENCSR655XLM Peak small intestine tissue female adult 30 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF310VRG ENCSR655XLM small intestine tissue female adult 30 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF902RQN ENCSR655ECZ Peak vagina tissue female adult 51 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF258LTU ENCSR655ECZ vagina tissue female adult 51 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF875CTC ENCSR654UYP Peak breast epithelium tissue female adult 53 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF507JTQ ENCSR654UYP breast epithelium tissue female adult 53 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF065NKV ENCSR654LST Peak immature natural killer cell DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF470KIN ENCSR654LST immature natural killer cell DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF449EXP ENCSR654GSG Peak with Alzheimer's disease posterior cingulate gyrus tissue male adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF825TKA ENCSR654GSG with Alzheimer's disease posterior cingulate gyrus tissue male adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF331IPM ENCSR653VSR Peak stimulated activated naive B cell female adult 39 years treated with 1 μg/mL anti-CD40 for 72 hours, 10 μg/mL anti-IgM for 72 hours, 100 ng/mL Interleukin-4 for 72 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF333YCC ENCSR653VSR stimulated activated naive B cell female adult 39 years treated with 1 μg/mL anti-CD40 for 72 hours, 10 μg/mL anti-IgM for 72 hours, 100 ng/mL Interleukin-4 for 72 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF374WLX ENCSR653OVF Peak activated T-cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 1 hour, 50 U/mL Interleukin-2 for 1 hour DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF233JIA ENCSR653OVF activated T-cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 1 hour, 50 U/mL Interleukin-2 for 1 hour DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF196PGN ENCSR653ISV Peak activated CD8-positive, alpha-beta memory T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 24 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF802FLJ ENCSR653ISV activated CD8-positive, alpha-beta memory T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 24 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF265RJW ENCSR652QNW Peak cardiac muscle cell originated from RUES2 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF207MNM ENCSR652QNW cardiac muscle cell originated from RUES2 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF274MUS ENCSR652IZW Peak posterior cingulate gyrus tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF636JMM ENCSR652IZW posterior cingulate gyrus tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF466OIH ENCSR651SOJ Peak adrenal gland tissue female adult 47 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF748LCE ENCSR651SOJ adrenal gland tissue female adult 47 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF225ELR ENCSR650TZF Peak with Alzheimer's disease head of caudate nucleus tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF806NJW ENCSR650TZF with Alzheimer's disease head of caudate nucleus tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF051ZNF ENCSR650FLQ Peak upper lobe of left lung tissue male adult 54 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF505TAB ENCSR650FLQ upper lobe of left lung tissue male adult 54 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF238AND ENCSR649PJN Peak muscle of arm tissue male embryo 97 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF527AEJ ENCSR649PJN muscle of arm tissue male embryo 97 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF292QKO ENCSR649MJI Peak with mild cognitive impairment head of caudate nucleus tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF539NFV ENCSR649MJI with mild cognitive impairment head of caudate nucleus tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF060IIB ENCSR649KBB Peak brain tissue male embryo 122 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF593ZPC ENCSR649KBB brain tissue male embryo 122 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF356AWC ENCSR648RAX Peak placenta tissue female embryo 85 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF297HLF ENCSR648RAX placenta tissue female embryo 85 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF427RFE ENCSR647SQF Peak mesothelial cell of epicardium CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF962LOU ENCSR647SQF mesothelial cell of epicardium CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF897DVN ENCSR647HAQ Peak vagina tissue female adult 51 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF904YBG ENCSR647HAQ vagina tissue female adult 51 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF459FTD ENCSR647AOY Peak lung tissue female adult 47 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF260QGF ENCSR647AOY lung tissue female adult 47 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF966DDC ENCSR646JBR Peak with Alzheimer's disease head of caudate nucleus tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF860TZJ ENCSR646JBR with Alzheimer's disease head of caudate nucleus tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF137ULI ENCSR645SYH Peak esophagus tissue female adult 30 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF322RWX ENCSR645SYH esophagus tissue female adult 30 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF538ZCA ENCSR645MXO Peak heart right ventricle tissue male adult 66 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF400FAA ENCSR645MXO heart right ventricle tissue male adult 66 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF898TLW ENCSR645HET Peak middle frontal area 46 tissue male adult 87 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF636BNY ENCSR645HET middle frontal area 46 tissue male adult 87 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF990UWP ENCSR645GJD Peak kidney tissue female embryo 113 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF582XBN ENCSR645GJD kidney tissue female embryo 113 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF347VDN ENCSR645FBM Peak ascending aorta tissue female adult 51 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF935CPK ENCSR645FBM ascending aorta tissue female adult 51 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF247ZOL ENCSR644SHG Peak with basal cell carcinoma skin epidermis tissue male adult 58 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF639KLT ENCSR644SHG with basal cell carcinoma skin epidermis tissue male adult 58 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF702BXQ ENCSR644KPP Peak K562 treated with 10 nM Vorinostat for 24 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF280CHW ENCSR644KPP K562 treated with 10 nM Vorinostat for 24 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF550BLV ENCSR643ZGR Peak inflammatory macrophage male adult 21 years and male adult 40 years, treated with lipopolysaccharide for 1 hour DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF926JZL ENCSR643ZGR inflammatory macrophage male adult 21 years and male adult 40 years, treated with lipopolysaccharide for 1 hour DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF315XIH ENCSR643TBI Peak chorionic villus tissue female embryo 40 weeks H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF715DNL ENCSR643TBI chorionic villus tissue female embryo 40 weeks H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF936LDA ENCSR643GHI Peak CD4-positive, alpha-beta T cell female adult 33 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF044PUS ENCSR643GHI CD4-positive, alpha-beta T cell female adult 33 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF131GFG ENCSR642HHF Peak adrenal gland tissue female adult 30 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF244XNP ENCSR642HHF adrenal gland tissue female adult 30 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF203PVX ENCSR642DZF Peak T-cell female adult 33 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF182EUF ENCSR642DZF T-cell female adult 33 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF686ZOR ENCSR642BXP Peak CD4-positive, alpha-beta T cell female adult 39 years treated with Interleukin-12 subunit beta for 1 hour, Interleukin-12 subunit alpha for 1 hour DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF491SMQ ENCSR642BXP CD4-positive, alpha-beta T cell female adult 39 years treated with Interleukin-12 subunit beta for 1 hour, Interleukin-12 subunit alpha for 1 hour DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF916CTR ENCSR641ZPF Peak stomach tissue female adult 51 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF384IMH ENCSR641ZPF stomach tissue female adult 51 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF230ECS ENCSR641YLG Peak skin epidermis tissue male adult 77 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF971OML ENCSR641YLG skin epidermis tissue male adult 77 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF220AEP ENCSR641SDI Peak sigmoid colon tissue female adult 51 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF468UEP ENCSR641SDI sigmoid colon tissue female adult 51 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF722WCB ENCSR641QPH Peak middle frontal area 46 tissue male adult 86 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF943HGP ENCSR641QPH middle frontal area 46 tissue male adult 86 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF521KYH ENCSR641KNU Peak GM21825 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF738JSK ENCSR641KNU GM21825 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF795AUJ ENCSR640XRV Peak transverse colon tissue male adult 37 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF532ZGB ENCSR640XRV transverse colon tissue male adult 37 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF966ARS ENCSR639ZJI Peak common myeloid progenitor, CD34-positive male adult 23 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF202UGT ENCSR639ZJI common myeloid progenitor, CD34-positive male adult 23 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF317PLN ENCSR639XWF Peak left lung tissue male embryo 96 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF427YCR ENCSR639XWF left lung tissue male embryo 96 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF972QHU ENCSR639VTO Peak with Cognitive impairment head of caudate nucleus tissue female adult 81 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF482QJG ENCSR639VTO with Cognitive impairment head of caudate nucleus tissue female adult 81 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF269QJD ENCSR639PCR Peak HFFc6 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF995LLA ENCSR639PCR HFFc6 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF173DGD ENCSR639PCO Peak activated CD4-positive, alpha-beta T cell male adult 20 years treated with anti-CD3 and anti-CD28 coated beads H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF010SJK ENCSR639PCO activated CD4-positive, alpha-beta T cell male adult 20 years treated with anti-CD3 and anti-CD28 coated beads H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF973WNA ENCSR638PZJ Peak with mild cognitive impairment head of caudate nucleus tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF634HGK ENCSR638PZJ with mild cognitive impairment head of caudate nucleus tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF508BFW ENCSR637ZLM Peak head of caudate nucleus tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF855MTJ ENCSR637ZLM head of caudate nucleus tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF230VHP ENCSR637OPZ Peak stimulated activated naive CD8-positive, alpha-beta T cell male adult 36 years treated with 100 ng/mL Interleukin-15 for 72 hours, anti-CD3 and anti-CD28 coated beads for 72 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF881NFV ENCSR637OPZ stimulated activated naive CD8-positive, alpha-beta T cell male adult 36 years treated with 100 ng/mL Interleukin-15 for 72 hours, anti-CD3 and anti-CD28 coated beads for 72 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF550SJE ENCSR637MUF Peak GM19035 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF201ZLC ENCSR637MUF GM19035 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF192OFG ENCSR636DIR Peak activated T-helper 1 cell male adult 35 years treated with 1 μg/mL Interleukin-4 antibody , 30 ng/mL Interleukin-12 subunit alpha , 30 ng/mL Interleukin-12 subunit beta , anti-CD3 and anti-CD28 coated beads DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF964VUC ENCSR636DIR activated T-helper 1 cell male adult 35 years treated with 1 μg/mL Interleukin-4 antibody , 30 ng/mL Interleukin-12 subunit alpha , 30 ng/mL Interleukin-12 subunit beta , anti-CD3 and anti-CD28 coated beads DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF794HKF ENCSR635VQU Peak CD4-positive, alpha-beta T cell female adult 39 years treated with Interleukin-4 for 4 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF518FWN ENCSR635VQU CD4-positive, alpha-beta T cell female adult 39 years treated with Interleukin-4 for 4 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF804VEK ENCSR635URJ Peak T-cell female adult 25 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF914OKV ENCSR635URJ T-cell female adult 25 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF194NKN ENCSR635QIZ Peak activated T-helper 1 cell female adult 33 years treated with 50 U/mL Interleukin-2 for 16 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF141RPA ENCSR635QIZ activated T-helper 1 cell female adult 33 years treated with 50 U/mL Interleukin-2 for 16 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF105TVY ENCSR635GDW Peak head of caudate nucleus tissue female adult 79 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF549PNN ENCSR635GDW head of caudate nucleus tissue female adult 79 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF231EWU ENCSR635CAC Peak GM19467 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF606TIH ENCSR635CAC GM19467 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF095CIH ENCSR635AIF Peak GM19468 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF014EAL ENCSR635AIF GM19468 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF384MLD ENCSR634ZYB Peak stimulated activated CD4-positive, alpha-beta T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 4 hours, 100 ng/mL Interleukin-23 for 4 hours, 100 ng/mL Interleukin-1b for 4 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF200ERT ENCSR634ZYB stimulated activated CD4-positive, alpha-beta T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 4 hours, 100 ng/mL Interleukin-23 for 4 hours, 100 ng/mL Interleukin-1b for 4 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF632WTY ENCSR634YVQ Peak HK-2 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF299RIU ENCSR634YVQ HK-2 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF735HVS ENCSR634WYX Peak from a donor with amyotrophic lateral sclerosis motor neuron ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF043JFJ ENCSR634WYX from a donor with amyotrophic lateral sclerosis motor neuron ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF305JAB ENCSR634OAQ Peak NCI-H929 CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF327WOL ENCSR634OAQ NCI-H929 CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF826UVC ENCSR632VDU Peak K562 treated with DMSO for 24 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF476RBQ ENCSR632VDU K562 treated with DMSO for 24 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF023ISC ENCSR632OWD Peak urinary bladder tissue male adult 34 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF089KQW ENCSR632OWD urinary bladder tissue male adult 34 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF583YPB ENCSR632ONQ Peak lower lobe of left lung tissue female adult 59 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF615BRP ENCSR632ONQ lower lobe of left lung tissue female adult 59 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF862BIR ENCSR631XIF Peak T-cell female adult 33 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF378HTI ENCSR631XIF T-cell female adult 33 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF274KQT ENCSR630XDN Peak T-cell female adult 18 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF956GKK ENCSR630XDN T-cell female adult 18 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF942NBZ ENCSR630SSL dendritic cell male adult 51 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF944FFG ENCSR630REB Peak tibial artery tissue male adult 54 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF891TZE ENCSR630REB tibial artery tissue male adult 54 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF616WTE ENCSR630OQI Peak naive thymus-derived CD8-positive, alpha-beta T cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF191RTJ ENCSR630OQI naive thymus-derived CD8-positive, alpha-beta T cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF676HXO ENCSR630DSN Peak heart right ventricle tissue male adult 61 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF330KOM ENCSR630DSN heart right ventricle tissue male adult 61 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF978ZWA ENCSR629TMA Peak with mild cognitive impairment head of caudate nucleus tissue female adult 83 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF610UZY ENCSR629TMA with mild cognitive impairment head of caudate nucleus tissue female adult 83 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF253VXS ENCSR628PLS Peak GM18861 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF169IGM ENCSR628PLS GM18861 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF225WME ENCSR628NEA Peak right lobe of liver tissue male adult 45 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF606YDZ ENCSR628NEA right lobe of liver tissue male adult 45 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF625ACP ENCSR628IRM Peak T-cell male adult 21 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF461UYC ENCSR628IRM T-cell male adult 21 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF205SWG ENCSR628GQE Peak with Alzheimer's disease posterior cingulate gyrus tissue female adult 88 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF346EOF ENCSR628GQE with Alzheimer's disease posterior cingulate gyrus tissue female adult 88 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF971XAE ENCSR627UDJ Peak T-cell male adult 36 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF719ZZK ENCSR627UDJ T-cell male adult 36 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF925UYF ENCSR627QIA Peak T-cell male adult 28 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF344QUF ENCSR627QIA T-cell male adult 28 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF742GGE ENCSR627NIF Peak lung tissue male embryo 54 days and male embryo 58 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF403IJQ ENCSR627NIF lung tissue male embryo 54 days and male embryo 58 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF268SBN ENCSR627KFV Peak stomach tissue female embryo 147 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF962GBD ENCSR627KFV stomach tissue female embryo 147 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF742LSG ENCSR626ZPK Peak activated naive CD8-positive, alpha-beta T cell male adult 30 years treated with anti-CD3 and anti-CD28 coated beads H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF525DJA ENCSR626ZPK activated naive CD8-positive, alpha-beta T cell male adult 30 years treated with anti-CD3 and anti-CD28 coated beads H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF465YRL ENCSR626SDX Peak HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens BRD4 treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF212IKP ENCSR626SDX HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens BRD4 treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF142GIM ENCSR626RVD Peak bipolar neuron originated from GM23338 treated with 0.5 μg/mL doxycycline hyclate for 4 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF386FNE ENCSR626RVD bipolar neuron originated from GM23338 treated with 0.5 μg/mL doxycycline hyclate for 4 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF341LTC ENCSR625WLB Peak CD8-positive, alpha-beta memory T cell male adult 30 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF245YIL ENCSR625WLB CD8-positive, alpha-beta memory T cell male adult 30 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF840DCE ENCSR624ODL Peak left lobe of liver tissue female adult 61 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF556YQA ENCSR624ODL left lobe of liver tissue female adult 61 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF619VQZ ENCSR624HJH Peak CD8-positive, alpha-beta memory T cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF517KZR ENCSR624HJH CD8-positive, alpha-beta memory T cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF194YBU ENCSR624CTU Peak HG03520 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF052HOE ENCSR624CTU HG03520 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF739TKP ENCSR623PVB Peak T-helper 17 cell female adult 25 years and male adult 30 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF943ISW ENCSR623PVB T-helper 17 cell female adult 25 years and male adult 30 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF798HUX ENCSR622QCU Peak middle frontal area 46 tissue female adult 89 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF617PMJ ENCSR622QCU middle frontal area 46 tissue female adult 89 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF570VMO ENCSR622HTS Peak right cardiac atrium tissue female adult 59 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF408XXY ENCSR622HTS right cardiac atrium tissue female adult 59 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF741CRV ENCSR622CAH Peak muscle of leg tissue male embryo 127 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF392SWN ENCSR622CAH muscle of leg tissue male embryo 127 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF055TKX ENCSR621MTP Peak esophagus muscularis mucosa tissue male adult 37 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF344ITP ENCSR621MTP esophagus muscularis mucosa tissue male adult 37 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF020GFK ENCSR621JYI Peak HG02885 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF850URQ ENCSR621JYI HG02885 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF911HWZ ENCSR621ENC Peak retina tissue embryo 74 days and embryo 85 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF110PNG ENCSR621ENC retina tissue embryo 74 days and embryo 85 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF313CVD ENCSR620TXL Peak adrenal gland tissue male adult 37 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF053KMZ ENCSR620TXL adrenal gland tissue male adult 37 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF501USZ ENCSR620AZM Peak common myeloid progenitor, CD34-positive female adult 33 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF064JOI ENCSR620AZM common myeloid progenitor, CD34-positive female adult 33 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF006FSY ENCSR619POC Peak chorionic villus tissue male embryo 38 weeks H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF451OTN ENCSR619POC chorionic villus tissue male embryo 38 weeks H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF034IEP ENCSR619IUE Peak bipolar neuron originated from GM23338 treated with 0.5 μg/mL doxycycline hyclate for 4 days CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF541XGP ENCSR619IUE bipolar neuron originated from GM23338 treated with 0.5 μg/mL doxycycline hyclate for 4 days CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF059SQV ENCSR619EZG Peak testis tissue male adult 54 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF665CXY ENCSR619EZG testis tissue male adult 54 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF967XNA ENCSR619DRM Peak renal pelvis tissue female embryo 105 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF387JED ENCSR619DRM renal pelvis tissue female embryo 105 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF321HQV ENCSR619BNL Peak muscle of arm tissue male embryo 97 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF276VCV ENCSR619BNL muscle of arm tissue male embryo 97 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF041WNW ENCSR618QYE Peak stomach tissue male adult 37 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF324HRF ENCSR618QYE stomach tissue male adult 37 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF004BWU ENCSR618HFT Peak stimulated activated CD4-positive, alpha-beta T cell male adult 42 years treated with anti-CD3 and anti-CD28 coated beads for 1 hour, 100 ng/mL TNF-alpha for 1 hour DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF174QMV ENCSR618HFT stimulated activated CD4-positive, alpha-beta T cell male adult 42 years treated with anti-CD3 and anti-CD28 coated beads for 1 hour, 100 ng/mL TNF-alpha for 1 hour DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF235UVY ENCSR617SVO Peak with mild cognitive impairment middle frontal area 46 tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF068GXP ENCSR617SVO with mild cognitive impairment middle frontal area 46 tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF353AHH ENCSR617NTY Peak activated T-cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 1 hour DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF806SGH ENCSR617NTY activated T-cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 1 hour DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF480OBK ENCSR617GMR Peak with multiple sclerosis naive B cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF674NLG ENCSR617GMR with multiple sclerosis naive B cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF276EAH ENCSR616PRQ Peak endothelial cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF708DDX ENCSR616PRQ endothelial cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF314MFP ENCSR616AEG Peak stimulated activated CD4-positive, alpha-beta T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 48 hours, 100 ng/mL Interleukin-12 subunit alpha for 48 hours, 100 ng/mL Interleukin-12 subunit beta for 48 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF174GJX ENCSR616AEG stimulated activated CD4-positive, alpha-beta T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 48 hours, 100 ng/mL Interleukin-12 subunit alpha for 48 hours, 100 ng/mL Interleukin-12 subunit beta for 48 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF734FUI ENCSR615YIL Peak HG03139 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF034VPU ENCSR615YIL HG03139 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF943EML ENCSR615WIN Peak spinal cord tissue female embryo 89 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF817FYZ ENCSR615WIN spinal cord tissue female embryo 89 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF213AWV ENCSR615HXA Peak peripheral blood mononuclear cell male adult 32 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF093NHZ ENCSR615HXA peripheral blood mononuclear cell male adult 32 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF634FLE ENCSR614NSH Peak naive thymus-derived CD4-positive, alpha-beta T cell DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF676INB ENCSR614NSH naive thymus-derived CD4-positive, alpha-beta T cell DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF552OEZ ENCSR614JAG Peak naive thymus-derived CD8-positive, alpha-beta T cell male adult 36 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF483NBG ENCSR614JAG naive thymus-derived CD8-positive, alpha-beta T cell male adult 36 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF079KZO ENCSR612IKQ Peak with Cognitive impairment, Alzheimer's disease posterior cingulate gyrus tissue female adult 87 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF262FOI ENCSR612IKQ with Cognitive impairment, Alzheimer's disease posterior cingulate gyrus tissue female adult 87 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF421STN ENCSR612GKP Peak spleen tissue female adult 41 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF077FBW ENCSR612GKP spleen tissue female adult 41 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF476TXD ENCSR612CTW Peak mucosa of descending colon tissue male adult 40 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF528JMP ENCSR612CTW mucosa of descending colon tissue male adult 40 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF031GUG ENCSR612BWE Peak pancreas tissue male adult 34 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF641QSU ENCSR612BWE pancreas tissue male adult 34 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF123WOM ENCSR611JJS Peak A673 CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF070LLG ENCSR611JJS A673 CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF832KWE ENCSR611HGB Peak GM23338 CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF553NAP ENCSR611HGB GM23338 CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF003BPG ENCSR611DJQ Peak testis tissue male adult 37 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF229BGF ENCSR611DJQ testis tissue male adult 37 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF619MPL ENCSR611BQR Peak T-helper 17 cell male adult 50 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF121MUN ENCSR611BQR T-helper 17 cell male adult 50 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF265AZL ENCSR610UDC Peak middle frontal area 46 tissue female adult 87 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF729DUW ENCSR610UDC middle frontal area 46 tissue female adult 87 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF478ZUB ENCSR610AQP Peak memory B cell male adult 40 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF509NWL ENCSR610AQP memory B cell male adult 40 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF231JVK ENCSR609GST Peak esophagus muscularis mucosa tissue male adult 54 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF454MKS ENCSR609GST esophagus muscularis mucosa tissue male adult 54 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF195HRP ENCSR609DDQ Peak CD8-positive, alpha-beta T cell female adult 34 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF326EII ENCSR609DDQ CD8-positive, alpha-beta T cell female adult 34 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF786KTR ENCSR608XIG Peak temporal lobe tissue female adult 75 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF558QCP ENCSR608XIG temporal lobe tissue female adult 75 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF653EYS ENCSR608WPS Peak transverse colon tissue male adult 37 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF646EZE ENCSR608WPS transverse colon tissue male adult 37 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF025WUI ENCSR608VNA Peak neural cell originated from H1 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF596SGE ENCSR608VNA neural cell originated from H1 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF296QEK ENCSR608NWP Peak right lobe of liver tissue female child 16 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF466DQD ENCSR608NWP right lobe of liver tissue female child 16 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF717RDK ENCSR608KJD Peak HG03097 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF463QQZ ENCSR608KJD HG03097 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF348CTO ENCSR608AHQ Peak stomach tissue male embryo 127 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF219RIL ENCSR608AHQ stomach tissue male embryo 127 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF331FCL ENCSR607YIY Peak naive thymus-derived CD4-positive, alpha-beta T cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF553GQP ENCSR607YIY naive thymus-derived CD4-positive, alpha-beta T cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF377XOL ENCSR607HIL Peak stimulated activated CD4-positive, alpha-beta T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 48 hours, 100 ng/mL Interleukin-2 for 48 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF697IRZ ENCSR607HIL stimulated activated CD4-positive, alpha-beta T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 48 hours, 100 ng/mL Interleukin-2 for 48 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF190XGG ENCSR607EJV Peak effector memory CD4-positive, alpha-beta T cell male adult 24 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF692GFN ENCSR607EJV effector memory CD4-positive, alpha-beta T cell male adult 24 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF770GTB ENCSR607BTF Peak right lobe of liver tissue male adult 45 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF646EEM ENCSR607BTF right lobe of liver tissue male adult 45 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF044ORX ENCSR607ARN Peak esophagus muscularis mucosa tissue female adult 53 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF586WBH ENCSR607ARN esophagus muscularis mucosa tissue female adult 53 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF778UZM ENCSR606WJA Peak chorionic villus tissue male embryo 16 weeks H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF873VQK ENCSR606WJA chorionic villus tissue male embryo 16 weeks H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF018SNZ ENCSR606UAR Peak renal pelvis tissue female embryo 96 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF674AFY ENCSR606UAR renal pelvis tissue female embryo 96 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF057QBG ENCSR606TNN Peak vagina tissue female adult 53 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF704JSE ENCSR606TNN vagina tissue female adult 53 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF265DWK ENCSR606QDB Peak middle frontal area 46 tissue male adult 82 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF571QPS ENCSR606QDB middle frontal area 46 tissue male adult 82 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF725CJJ ENCSR605SQL Peak stimulated activated CD4-positive, alpha-beta T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 4 hours, 100 ng/mL Interleukin-23 for 4 hours, 100 ng/mL Interleukin-1b for 4 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF883QIZ ENCSR605SQL stimulated activated CD4-positive, alpha-beta T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 4 hours, 100 ng/mL Interleukin-23 for 4 hours, 100 ng/mL Interleukin-1b for 4 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF334VPP ENCSR605QAV Peak adrenal gland tissue female adult 53 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF827GEQ ENCSR605QAV adrenal gland tissue female adult 53 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF061WIY ENCSR605NNZ Peak subcutaneous abdominal adipose tissue tissue nuclear fraction female adult 49 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF162OOB ENCSR605NNZ subcutaneous abdominal adipose tissue tissue nuclear fraction female adult 49 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF255LJM ENCSR604YEQ Peak HG02884 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF202SER ENCSR604YEQ HG02884 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF068NMN ENCSR604JDV Peak cingulate gyrus tissue female adult 75 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF377MKH ENCSR604JDV cingulate gyrus tissue female adult 75 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF622LQJ ENCSR604FER Peak activated CD4-positive, alpha-beta T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 48 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF816PGR ENCSR604FER activated CD4-positive, alpha-beta T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 48 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF870ILI ENCSR603LVR Peak B cell male adult 22 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF228BMJ ENCSR603LVR B cell male adult 22 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF519BEO ENCSR603LTN Peak with multiple sclerosis CD4-positive, CD25-positive, alpha-beta regulatory T cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF893FCB ENCSR603LTN with multiple sclerosis CD4-positive, CD25-positive, alpha-beta regulatory T cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF757EQW ENCSR601VHO Peak gastrocnemius medialis tissue female adult 51 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF638ZRF ENCSR601VHO gastrocnemius medialis tissue female adult 51 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF653ONC ENCSR601FEB Peak spleen tissue female adult 53 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF722HFK ENCSR601FEB spleen tissue female adult 53 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF354HJX ENCSR600ZHS Peak left colon tissue female adult 46 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF057BIJ ENCSR600ZHS left colon tissue female adult 46 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF874BCQ ENCSR600TOW Peak gastroesophageal sphincter tissue male adult 37 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF346QRJ ENCSR600TOW gastroesophageal sphincter tissue male adult 37 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF961TBE ENCSR600RAA Peak left kidney tissue male embryo 87 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF632IWJ ENCSR600RAA left kidney tissue male embryo 87 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF027CTL ENCSR599JZA Peak with Alzheimer's disease posterior cingulate gyrus tissue female adult 86 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF397DDP ENCSR599JZA with Alzheimer's disease posterior cingulate gyrus tissue female adult 86 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF756YUX ENCSR598RVJ Peak heart left ventricle tissue male adult 40 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF891ETR ENCSR598RVJ heart left ventricle tissue male adult 40 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF399SSE ENCSR598RRF Peak head of caudate nucleus tissue female adult 87 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF520DAO ENCSR598RRF head of caudate nucleus tissue female adult 87 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF322TEM ENCSR597URK Peak T-cell female adult 28 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF186BOY ENCSR597URK T-cell female adult 28 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF119KZI ENCSR597ULV Peak VCaP H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF450QIY ENCSR597ULV VCaP H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF307AFB ENCSR597UIG Peak spleen tissue female adult 41 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF722LEE ENCSR597UIG spleen tissue female adult 41 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF596PXL ENCSR597UDW Peak OCI-LY1 H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF895AAJ ENCSR597UDW OCI-LY1 H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF146MJR ENCSR597RXN Peak middle frontal area 46 tissue female adult 87 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF224JSW ENCSR597RXN middle frontal area 46 tissue female adult 87 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF023TZX ENCSR597BWL Peak thyroid gland tissue male adult 37 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF546UQS ENCSR597BWL thyroid gland tissue male adult 37 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF526SWP ENCSR596PFU Peak body of pancreas tissue male adult 54 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF940UMR ENCSR596PFU body of pancreas tissue male adult 54 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF129XIT ENCSR596FCE Peak CD4-positive, CD25-positive, alpha-beta regulatory T cell male adult 38 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF726SZQ ENCSR596FCE CD4-positive, CD25-positive, alpha-beta regulatory T cell male adult 38 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF857ROR ENCSR595THL Peak activated T-helper 1 cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 16 hours, 50 U/mL Interleukin-2 for 16 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF328WBJ ENCSR595THL activated T-helper 1 cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 16 hours, 50 U/mL Interleukin-2 for 16 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF570PEB ENCSR595KPI Peak UCSF-4 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF548YPZ ENCSR595KPI UCSF-4 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF410XLN ENCSR595HZQ Peak pancreas tissue female adult 30 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF345NSW ENCSR595HZQ pancreas tissue female adult 30 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF666HLD ENCSR595HWK Peak from a donor with amyotrophic lateral sclerosis motor neuron H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF435JQR ENCSR595HWK from a donor with amyotrophic lateral sclerosis motor neuron H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF967YRI ENCSR595DQM Peak aorta tissue female adult 59 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF192IUF ENCSR595DQM aorta tissue female adult 59 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF086IEQ ENCSR595CSH Peak brain tissue embryo 56 days and male embryo 58 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF712UVC ENCSR595CSH brain tissue embryo 56 days and male embryo 58 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF241IDS ENCSR595CME Peak HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens POLR2A treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF411KFC ENCSR595CME HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens POLR2A treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF911PSP ENCSR594TMY Peak HG03521 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF435ZPU ENCSR594TMY HG03521 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF831NSP ENCSR594OWA Peak small intestine tissue male embryo 91 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF729PQU ENCSR594OWA small intestine tissue male embryo 91 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF307PRR ENCSR594NSU Peak gastrocnemius medialis tissue male adult 37 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF070MOG ENCSR594NSU gastrocnemius medialis tissue male adult 37 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF298FXY ENCSR594NOE RPMI8226 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF722YOG ENCSR593OUE Peak activated CD4 positive, naive alpha-beta T cell male adult 42 years treated with anti-CD3 and anti-CD28 coated beads for 16 hours, 50 U/mL Interleukin-2 for 16 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF393YDE ENCSR593OUE activated CD4 positive, naive alpha-beta T cell male adult 42 years treated with anti-CD3 and anti-CD28 coated beads for 16 hours, 50 U/mL Interleukin-2 for 16 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF190AXR ENCSR593LTJ Peak trophoblast cell embryo 17 weeks and embryo 18 weeks DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF039CCA ENCSR593LTJ trophoblast cell embryo 17 weeks and embryo 18 weeks DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF048SGQ ENCSR593KDJ Peak right atrium auricular region tissue female adult 53 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF337EUB ENCSR593KDJ right atrium auricular region tissue female adult 53 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF164QHJ ENCSR593INW Peak spleen tissue male adult 54 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF948AUZ ENCSR593INW spleen tissue male adult 54 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF882XTL ENCSR591PIX Peak Panc1 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF757YRZ ENCSR591PIX Panc1 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF307YKD ENCSR590EFT Peak posterior cingulate gyrus tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF243RUA ENCSR590EFT posterior cingulate gyrus tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF013GMO ENCSR589HAC Peak pancreas tissue female adult 61 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF213UEB ENCSR589HAC pancreas tissue female adult 61 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF843ZMU ENCSR589DBF Peak spleen tissue female adult 51 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF762CST ENCSR589DBF spleen tissue female adult 51 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF688PPB ENCSR589CXZ Peak middle frontal area 46 tissue female adult 84 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF062WLH ENCSR589CXZ middle frontal area 46 tissue female adult 84 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF598OTM ENCSR588PZN Peak body of pancreas tissue female adult 51 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF127LVQ ENCSR588PZN body of pancreas tissue female adult 51 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF443PUZ ENCSR588JXI Peak left renal cortex interstitium tissue male embryo 105 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF575HHK ENCSR588JXI left renal cortex interstitium tissue male embryo 105 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF751WCT ENCSR587SZC Peak with Alzheimer's disease head of caudate nucleus tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF370TDH ENCSR587SZC with Alzheimer's disease head of caudate nucleus tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF755UXZ ENCSR587KPW Peak heart right ventricle tissue male adult 61 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF011PEP ENCSR587KPW heart right ventricle tissue male adult 61 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF473RNU ENCSR587HPR Peak lung tissue male embryo 82 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF296IXA ENCSR587HPR lung tissue male embryo 82 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF928RUD ENCSR585UDE Peak middle frontal area 46 tissue female adult 83 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF261GPQ ENCSR585UDE middle frontal area 46 tissue female adult 83 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF577TID ENCSR585JVS Peak heart right ventricle tissue male adult 69 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF359FNN ENCSR585JVS heart right ventricle tissue male adult 69 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF647KRH ENCSR585CGU Peak muscle of back tissue female embryo 105 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF415VWC ENCSR585CGU muscle of back tissue female embryo 105 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF512MBR ENCSR584RKY Peak with mild cognitive impairment middle frontal area 46 tissue female adult 90 or above years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF436OWL ENCSR584RKY with mild cognitive impairment middle frontal area 46 tissue female adult 90 or above years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF825VCT ENCSR584QLZ Peak naive thymus-derived CD8-positive, alpha-beta T cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF206QOX ENCSR584QLZ naive thymus-derived CD8-positive, alpha-beta T cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF048ZLO ENCSR584LUZ Ammon's horn tissue male adult 84 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF287MGN ENCSR584AXZ Peak coronary artery tissue female adult 51 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF978GSI ENCSR584AXZ coronary artery tissue female adult 51 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF612PJZ ENCSR582UTE Peak stomach tissue female adult 30 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF609WKU ENCSR582UTE stomach tissue female adult 30 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF071SAP ENCSR582QEW Peak effector memory CD4-positive, alpha-beta T cell female adult 25 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF240ZBU ENCSR582QEW effector memory CD4-positive, alpha-beta T cell female adult 25 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF608WCJ ENCSR582NPJ Peak K562 treated with 1 μM Methotrexate for 48 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF439EED ENCSR582NPJ K562 treated with 1 μM Methotrexate for 48 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF401HEA ENCSR582MYC Peak effector memory CD8-positive, alpha-beta T cell male adult 36 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF220PZT ENCSR582MYC effector memory CD8-positive, alpha-beta T cell male adult 36 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF414KCF ENCSR582MTM Peak lower leg skin tissue male adult 37 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF838CRU ENCSR582MTM lower leg skin tissue male adult 37 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF759NDV ENCSR582IPV Peak lung tissue embryo 80 days and male embryo 76 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF625DUL ENCSR582IPV lung tissue embryo 80 days and male embryo 76 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF235EQV ENCSR581RSO Peak T-cell male adult 34 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF501FTF ENCSR581RSO T-cell male adult 34 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF771SUV ENCSR581LUB Peak HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens SMARCA5 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF547MNW ENCSR581LUB HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens SMARCA5 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF942MMA ENCSR581LHW Peak with Alzheimer's disease posterior cingulate gyrus tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF411UNK ENCSR581LHW with Alzheimer's disease posterior cingulate gyrus tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF156YTC ENCSR581KPP middle frontal area 46 tissue male adult 83 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF302HBF ENCSR580RIQ Peak middle frontal area 46 tissue female adult 90 or above years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF834IHE ENCSR580RIQ middle frontal area 46 tissue female adult 90 or above years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF765RTN ENCSR580OAH Peak renal pelvis tissue male embryo 91 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF705DDM ENCSR580OAH renal pelvis tissue male embryo 91 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF648VSL ENCSR580JBA Peak GM18868 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF304QRZ ENCSR580JBA GM18868 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF739OHS ENCSR579YLO Peak fibroblast of breast female adult 17 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF422UWB ENCSR579YLO fibroblast of breast female adult 17 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF772XCE ENCSR579SNM Peak MG63 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF197ZMU ENCSR579SNM MG63 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF681MKR ENCSR579RVI Peak with Alzheimer's disease posterior cingulate gyrus tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF290JDE ENCSR579RVI with Alzheimer's disease posterior cingulate gyrus tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF656VHP ENCSR579NKR Peak activated CD8-positive, naive alpha-beta T cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF977OWA ENCSR579NKR activated CD8-positive, naive alpha-beta T cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF410XBU ENCSR579KDC Peak lower leg skin tissue female adult 53 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF654RET ENCSR579KDC lower leg skin tissue female adult 53 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF281EQE ENCSR579DZQ Peak CD4-positive, CD25-positive, alpha-beta regulatory T cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF520TNH ENCSR579DZQ CD4-positive, CD25-positive, alpha-beta regulatory T cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF422PGY ENCSR579DBA Peak stimulated activated CD4-positive, alpha-beta T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 4 hours, 100 ng/mL Interleukin-2 for 4 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF782QST ENCSR579DBA stimulated activated CD4-positive, alpha-beta T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 4 hours, 100 ng/mL Interleukin-2 for 4 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF751TEV ENCSR578KKD Peak immature natural killer cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF698IBI ENCSR578KKD immature natural killer cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF832OXT ENCSR578AKX Peak heart left ventricle tissue male adult 73 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF992WUL ENCSR578AKX heart left ventricle tissue male adult 73 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF962UHS ENCSR577QZP Peak with Alzheimer's disease posterior cingulate gyrus tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF765IHL ENCSR577QZP with Alzheimer's disease posterior cingulate gyrus tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF068PXG ENCSR577ILY Peak esophagus tissue male adult 34 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF223CEC ENCSR577ILY esophagus tissue male adult 34 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF631EBQ ENCSR577GVS Peak CD4-positive, CD25-positive, alpha-beta regulatory T cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF604ZNJ ENCSR577GVS CD4-positive, CD25-positive, alpha-beta regulatory T cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF910LHJ ENCSR577DVK Peak colonic mucosa tissue female adult 73 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF051JTV ENCSR577DVK colonic mucosa tissue female adult 73 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF969PZZ ENCSR576UAF Peak colonic mucosa tissue female child 16 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF761ZGJ ENCSR576UAF colonic mucosa tissue female child 16 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF478RRB ENCSR575WYM Peak middle frontal area 46 tissue female adult 87 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF653MQB ENCSR575WYM middle frontal area 46 tissue female adult 87 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF794POS ENCSR575VMI Peak placenta tissue female embryo 101 days and male embryo 105 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF831DVG ENCSR575VMI placenta tissue female embryo 101 days and male embryo 105 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF188HKO ENCSR575TRE Peak activated T-helper 1 cell male adult 35 years treated with 1 μg/mL Interleukin-4 antibody , 30 ng/mL Interleukin-12 subunit alpha , 30 ng/mL Interleukin-12 subunit beta , anti-CD3 and anti-CD28 coated beads H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF288VHI ENCSR575TRE activated T-helper 1 cell male adult 35 years treated with 1 μg/mL Interleukin-4 antibody , 30 ng/mL Interleukin-12 subunit alpha , 30 ng/mL Interleukin-12 subunit beta , anti-CD3 and anti-CD28 coated beads H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF878IKV ENCSR575ICR Peak germinal matrix tissue male embryo 20 weeks H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF051QIL ENCSR575ICR germinal matrix tissue male embryo 20 weeks H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF573IFU ENCSR574USP Peak colonic mucosa tissue female adult 41 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF173NSX ENCSR574USP colonic mucosa tissue female adult 41 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF475CCN ENCSR572LDG Peak brain tissue male embryo 101 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF019PQI ENCSR572LDG brain tissue male embryo 101 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF725TWJ ENCSR572HUG Peak activated CD8-positive, naive alpha-beta T cell male adult 42 years treated with anti-CD3 and anti-CD28 coated beads for 24 hours, 50 U/mL Interleukin-2 for 24 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF707PGX ENCSR572HUG activated CD8-positive, naive alpha-beta T cell male adult 42 years treated with anti-CD3 and anti-CD28 coated beads for 24 hours, 50 U/mL Interleukin-2 for 24 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF756FGB ENCSR572DUJ Peak body of pancreas tissue male adult 37 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF885ZLN ENCSR572DUJ body of pancreas tissue male adult 37 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF813JPG ENCSR571QQB Peak Caco-2 H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF619JXN ENCSR571QQB Caco-2 H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF302YGG ENCSR571HAY Peak from a donor with amyotrophic lateral sclerosis motor neuron H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF177MAG ENCSR571HAY from a donor with amyotrophic lateral sclerosis motor neuron H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF278ASK ENCSR571CNF Peak HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens CDK7 H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF995AGX ENCSR571CNF HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens CDK7 H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF435VGT ENCSR571CJM Peak middle frontal area 46 tissue female adult 87 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF874WYJ ENCSR571CJM middle frontal area 46 tissue female adult 87 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF487BBI ENCSR570PYH Peak middle frontal area 46 tissue male adult 84 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF580GFO ENCSR570PYH middle frontal area 46 tissue male adult 84 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF471AFP ENCSR570IJX Peak naive thymus-derived CD8-positive, alpha-beta T cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF848KXX ENCSR570IJX naive thymus-derived CD8-positive, alpha-beta T cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF419VOK ENCSR570BWW Peak with Alzheimer's disease middle frontal area 46 tissue female adult 89 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF318DDE ENCSR570BWW with Alzheimer's disease middle frontal area 46 tissue female adult 89 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF636NVO ENCSR570AUC Peak natural killer cell male adult 37 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF077KMI ENCSR570AUC natural killer cell male adult 37 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF092AZU ENCSR569ATD Peak CD4-positive, alpha-beta T cell male adult 21 years treated with 7.5 μg/kg G-CSF for 4 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF814BAJ ENCSR569ATD CD4-positive, alpha-beta T cell male adult 21 years treated with 7.5 μg/kg G-CSF for 4 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF455OWC ENCSR568QQU Peak breast epithelium tissue female adult 51 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF278ZAD ENCSR568QQU breast epithelium tissue female adult 51 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF081QPS ENCSR567IWT Peak CD4-positive, alpha-beta T cell female adult 37 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF289RUM ENCSR567IWT CD4-positive, alpha-beta T cell female adult 37 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF335OJR ENCSR567EEO Peak spleen tissue female adult 61 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF221CLN ENCSR567EEO spleen tissue female adult 61 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF172SUY ENCSR566VAK Peak placenta tissue female embryo DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF470BCI ENCSR566VAK placenta tissue female embryo DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF479XSM ENCSR566HLQ Peak stimulated activated CD4-positive, alpha-beta T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 24 hours, 100 ng/mL Interleukin-23 for 24 hours, 100 ng/mL Interleukin-1b for 24 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF047FBN ENCSR566HLQ stimulated activated CD4-positive, alpha-beta T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 24 hours, 100 ng/mL Interleukin-23 for 24 hours, 100 ng/mL Interleukin-1b for 24 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF770AFG ENCSR565RQI Peak activated CD8-positive, alpha-beta memory T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 1 hour, 50 U/mL Interleukin-2 for 1 hour DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF191OBG ENCSR565RQI activated CD8-positive, alpha-beta memory T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 1 hour, 50 U/mL Interleukin-2 for 1 hour DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF663LEI ENCSR565HBN Peak heart left ventricle tissue female adult 46 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF252IVK ENCSR565HBN heart left ventricle tissue female adult 46 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF718WZF ENCSR565EBN small intestine tissue female embryo 98 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF462SOC ENCSR564WJA Peak spleen tissue female adult 59 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF428HQD ENCSR564WJA spleen tissue female adult 59 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF138PUL ENCSR564TUY Peak common myeloid progenitor, CD34-positive male DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF026IDC ENCSR564TUY common myeloid progenitor, CD34-positive male DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF097RUH ENCSR564JUY Peak hematopoietic multipotent progenitor cell treated with interleukin-3 for 6 days, kit ligand for 6 days, hydrocortisone succinate for 6 days, erythropoietin for 6 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF633NER ENCSR564JUY hematopoietic multipotent progenitor cell treated with interleukin-3 for 6 days, kit ligand for 6 days, hydrocortisone succinate for 6 days, erythropoietin for 6 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF405TMF ENCSR564IGJ Peak SK-N-SH H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF262UEH ENCSR564IGJ SK-N-SH H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF456EXK ENCSR564FZH Peak prostate gland tissue male adult 37 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF865IXT ENCSR564FZH prostate gland tissue male adult 37 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF949TDF ENCSR564DHY Peak brain organoid female embryo 5 days, 180 days post differentiation H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF004VJG ENCSR564DHY brain organoid female embryo 5 days, 180 days post differentiation H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF744EKU ENCSR563ZNI Peak heart right ventricle tissue male adult 61 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF342SSO ENCSR563ZNI heart right ventricle tissue male adult 61 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF907CZB ENCSR563XRP Peak large intestine tissue female embryo 107 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF644UUT ENCSR563XRP large intestine tissue female embryo 107 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF048TOJ ENCSR563XBT Peak stimulated activated memory B cell male adult 40 years treated with 1 μg/mL anti-CD40 for 72 hours, 100 ng/mL Interleukin-4 for 72 hours, 10 μg/mL anti-IgM for 72 hours H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF027BYQ ENCSR563XBT stimulated activated memory B cell male adult 40 years treated with 1 μg/mL anti-CD40 for 72 hours, 100 ng/mL Interleukin-4 for 72 hours, 10 μg/mL anti-IgM for 72 hours H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF348OIX ENCSR563HBG Peak head of caudate nucleus tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF733ZHD ENCSR563HBG head of caudate nucleus tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF124TBP ENCSR563CZB Peak with mild cognitive impairment posterior cingulate gyrus tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF344UBD ENCSR563CZB with mild cognitive impairment posterior cingulate gyrus tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF686DFW ENCSR562FNN Peak liver tissue female embryo 101 days and female embryo 113 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF321UXJ ENCSR562FNN liver tissue female embryo 101 days and female embryo 113 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF085BZP ENCSR561ZLY Peak T-cell male adult 21 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF505ELW ENCSR561ZLY T-cell male adult 21 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF999HVO ENCSR561YSH Peak sigmoid colon tissue male adult 34 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF124AKT ENCSR561YSH sigmoid colon tissue male adult 34 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF958WGK ENCSR561VNL Peak heart left ventricle tissue female adult 56 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF707MHB ENCSR561VNL heart left ventricle tissue female adult 56 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF607WJD ENCSR561KOM Peak CD4-positive, alpha-beta T cell male adult 21 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF256WHR ENCSR561KOM CD4-positive, alpha-beta T cell male adult 21 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF297CUN ENCSR560XLD Peak heart left ventricle tissue female adult 56 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF869EMQ ENCSR560XLD heart left ventricle tissue female adult 56 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF661ORL ENCSR560UTV Peak central memory CD8-positive, alpha-beta T cell male adult 33 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF298DPU ENCSR560UTV central memory CD8-positive, alpha-beta T cell male adult 33 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF645JTM ENCSR560MXA Peak T-cell female adult 21 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF499NHY ENCSR560MXA T-cell female adult 21 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF492XQN ENCSR560BEL Peak with basal cell carcinoma skin epidermis tissue female adult 48 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF343QIC ENCSR560BEL with basal cell carcinoma skin epidermis tissue female adult 48 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF916KSQ ENCSR559WMK Peak tongue tissue male embryo 72 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF969WDE ENCSR559WMK tongue tissue male embryo 72 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF421MEH ENCSR559KAB Peak esophagus muscularis mucosa tissue male adult 37 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF526HRV ENCSR559KAB esophagus muscularis mucosa tissue male adult 37 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF557SSK ENCSR558ZSN Peak activated T-cell female adult 21 years treated with anti-CD3 and anti-CD28 coated beads for 72 hours, 50 U/mL Interleukin-2 for 72 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF347FGY ENCSR558ZSN activated T-cell female adult 21 years treated with anti-CD3 and anti-CD28 coated beads for 72 hours, 50 U/mL Interleukin-2 for 72 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF630CUO ENCSR558SUT Peak head of caudate nucleus tissue male adult 82 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF434ZTO ENCSR558SUT head of caudate nucleus tissue male adult 82 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF022THK ENCSR557OWY Peak transverse colon tissue male adult 54 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF568IBR ENCSR557OWY transverse colon tissue male adult 54 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF425BZT ENCSR557DFM Peak heart left ventricle tissue male child 3 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF395BUI ENCSR557DFM heart left ventricle tissue male child 3 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF292BNR ENCSR556QXD Peak spleen tissue male adult 37 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF057BYR ENCSR556QXD spleen tissue male adult 37 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF937MFL ENCSR556ARS Peak central memory CD4-positive, alpha-beta T cell male adult 42 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF309FFC ENCSR556ARS central memory CD4-positive, alpha-beta T cell male adult 42 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF540AHY ENCSR555ZDH Peak lower lobe of left lung tissue male adult 60 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF891GWZ ENCSR555ZDH lower lobe of left lung tissue male adult 60 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF746TEY ENCSR555VYM Peak CD14-positive monocyte male adult 30 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF779ZLB ENCSR555VYM CD14-positive monocyte male adult 30 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF415KGS ENCSR555HJT Peak middle frontal area 46 tissue male adult 87 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF658QWN ENCSR555HJT middle frontal area 46 tissue male adult 87 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF973CXQ ENCSR555DLG Peak with Alzheimer's disease posterior cingulate gyrus tissue male adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF408PXH ENCSR555DLG with Alzheimer's disease posterior cingulate gyrus tissue male adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF138DXQ ENCSR555DCD Peak ascending aorta tissue female adult 53 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF857NIC ENCSR555DCD ascending aorta tissue female adult 53 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF971MHI ENCSR554WUJ Peak renal pelvis tissue female embryo 103 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF581WFW ENCSR554WUJ renal pelvis tissue female embryo 103 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF007DZO ENCSR554WGQ Peak HG03280 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF785KEG ENCSR554WGQ HG03280 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF714IHD ENCSR554RQQ Peak body of pancreas tissue male adult 54 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF138VRG ENCSR554RQQ body of pancreas tissue male adult 54 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF497QFH ENCSR554KDG Peak type B pancreatic cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF370QKJ ENCSR554KDG type B pancreatic cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF206RAA ENCSR554HDT Peak middle frontal area 46 tissue male adult 84 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF646KVN ENCSR554HDT middle frontal area 46 tissue male adult 84 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF844RTO ENCSR553WJB Peak stimulated activated CD4-positive, alpha-beta T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 24 hours, 100 ng/mL Interleukin-2 for 24 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF310DYF ENCSR553WJB stimulated activated CD4-positive, alpha-beta T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 24 hours, 100 ng/mL Interleukin-2 for 24 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF225XIX ENCSR553QIO Peak CD8-positive, alpha-beta memory T cell male adult 30 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF938RJM ENCSR553QIO CD8-positive, alpha-beta memory T cell male adult 30 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF952MBN ENCSR553LAZ Peak adrenal gland tissue female child 16 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF593JPB ENCSR553LAZ adrenal gland tissue female child 16 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF675UOD ENCSR552XJI Peak placenta tissue embryo 56 days and embryo 59 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF349HNL ENCSR552XJI placenta tissue embryo 56 days and embryo 59 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF101JTK ENCSR552TPH Peak T-cell female adult 53 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF609DSZ ENCSR552TPH T-cell female adult 53 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF139USB ENCSR552RKI Peak placenta tissue embryo 102 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF551FMI ENCSR552RKI placenta tissue embryo 102 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF944MZI ENCSR552QUA Peak posterior vena cava tissue female adult 47 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF322GCT ENCSR552QUA posterior vena cava tissue female adult 47 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF041MHX ENCSR551QXE Peak substantia nigra tissue female adult 75 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF941YCV ENCSR551QXE substantia nigra tissue female adult 75 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF706NIP ENCSR551CSY Peak mesenteric fat pad tissue male adult 26 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF650BOQ ENCSR551CSY mesenteric fat pad tissue male adult 26 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF171SGM ENCSR550WUX Peak lung tissue male child 3 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF900HNB ENCSR550WUX lung tissue male child 3 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF686GEY ENCSR550UWM Peak renal cortex interstitium tissue male embryo 97 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF243WKL ENCSR550UWM renal cortex interstitium tissue male embryo 97 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF239MHA ENCSR549ZDH Peak with Alzheimer's disease middle frontal area 46 tissue female adult 88 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF336MIJ ENCSR549ZDH with Alzheimer's disease middle frontal area 46 tissue female adult 88 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF166PKA ENCSR549TXG Peak thoracic aorta tissue male adult 37 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF429ZQN ENCSR549TXG thoracic aorta tissue male adult 37 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF736LFP ENCSR549RQM Peak activated naive CD4-positive, alpha-beta T cell male adult 48 years treated with 50 U/mL Interleukin-2 for 72 hours, anti-CD3 and anti-CD28 coated beads for 72 hours H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF312YZU ENCSR549RQM activated naive CD4-positive, alpha-beta T cell male adult 48 years treated with 50 U/mL Interleukin-2 for 72 hours, anti-CD3 and anti-CD28 coated beads for 72 hours H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF410LCI ENCSR549NRK Peak thyroid gland tissue male adult 54 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF017LRG ENCSR549NRK thyroid gland tissue male adult 54 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF105WOU ENCSR549BWF Peak with Alzheimer's disease middle frontal area 46 tissue female adult 90 or above years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF319HQY ENCSR549BWF with Alzheimer's disease middle frontal area 46 tissue female adult 90 or above years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF074FMZ ENCSR549BTS Peak WTC11 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF857KTM ENCSR549BTS WTC11 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF337FQE ENCSR548QRE Peak with Alzheimer's disease middle frontal area 46 tissue female adult 81 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF889QTE ENCSR548QRE with Alzheimer's disease middle frontal area 46 tissue female adult 81 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF217BRO ENCSR548QCP Peak sigmoid colon tissue male adult 37 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF796DRU ENCSR548QCP sigmoid colon tissue male adult 37 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF759OFQ ENCSR548PZS Peak OCI-LY3 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF024WWN ENCSR548PZS OCI-LY3 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF834WAS ENCSR548MMD Peak EH DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF078BRY ENCSR548MMD EH DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF159QBK ENCSR548LZS Peak right cardiac atrium tissue male adult 34 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF722IPW ENCSR548LZS right cardiac atrium tissue male adult 34 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF383HYL ENCSR548KIL Peak adrenal gland tissue male adult 37 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF083NYF ENCSR548KIL adrenal gland tissue male adult 37 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF861ESJ ENCSR548GGF Peak K562 treated with 10 nM Panobinostat for 4 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF592IGD ENCSR548GGF K562 treated with 10 nM Panobinostat for 4 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF845YUT ENCSR548DDS Peak ovary tissue female adult 51 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF666MLU ENCSR548DDS ovary tissue female adult 51 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF820ZVE ENCSR546YQN Peak CD8-positive, alpha-beta memory T cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF334PSV ENCSR546YQN CD8-positive, alpha-beta memory T cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF349WKE ENCSR546SDM Peak CD4-positive, alpha-beta T cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF892JDN ENCSR546SDM CD4-positive, alpha-beta T cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF259KRO ENCSR545ZQT Peak with Alzheimer's disease middle frontal area 46 tissue female adult 85 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF862YHY ENCSR545ZQT with Alzheimer's disease middle frontal area 46 tissue female adult 85 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF086QEA ENCSR545UJP Peak stimulated activated CD8-positive, alpha-beta T cell nuclear fraction male adult 21 years treated with anti-CD3 and anti-CD28 coated beads, 10 ng/mL Interleukin-2 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF116IVX ENCSR545UJP stimulated activated CD8-positive, alpha-beta T cell nuclear fraction male adult 21 years treated with anti-CD3 and anti-CD28 coated beads, 10 ng/mL Interleukin-2 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF908BIW ENCSR545KQR Peak placenta tissue female embryo 105 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF954ZUR ENCSR545KQR placenta tissue female embryo 105 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF327KFZ ENCSR545ADK Peak uterus tissue female adult 59 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF739NWF ENCSR545ADK uterus tissue female adult 59 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF989YZG ENCSR544KDB Peak thymus tissue male embryo 113 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF101MRT ENCSR544KDB thymus tissue male embryo 113 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF185CKY ENCSR544APK Peak heart left ventricle tissue female adult 53 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF440RUS ENCSR544APK heart left ventricle tissue female adult 53 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF621YUV ENCSR543YPH Peak left kidney tissue male embryo 115 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF490DLI ENCSR543YPH left kidney tissue male embryo 115 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF923OLB ENCSR543CPW Peak small intestine tissue male adult 34 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF359DGK ENCSR543CPW small intestine tissue male adult 34 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF355EOZ ENCSR542UWN Peak HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens SMARCA5 treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF246BAU ENCSR542UWN HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens SMARCA5 treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF730GBE ENCSR542RNG Peak adrenal gland tissue male adult 26 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF413EZP ENCSR542RNG adrenal gland tissue male adult 26 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF878EHT ENCSR542GKI Peak T-helper 9 cell female adult 25 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF983OAW ENCSR542GKI T-helper 9 cell female adult 25 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF119WIF ENCSR541ZOU Peak activated CD4-positive, alpha-beta T cell male adult 42 years treated with anti-CD3 and anti-CD28 coated beads for 48 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF336XYP ENCSR541ZOU activated CD4-positive, alpha-beta T cell male adult 42 years treated with anti-CD3 and anti-CD28 coated beads for 48 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF594FDW ENCSR541UPY Peak thymus tissue female embryo 98 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF845WGL ENCSR541UPY thymus tissue female embryo 98 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF996KIC ENCSR541PUY Peak T-cell male adult 30 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF565PXG ENCSR541PUY T-cell male adult 30 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF699PQP ENCSR541PLO Peak with multiple sclerosis naive B cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF256LPT ENCSR541PLO with multiple sclerosis naive B cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF907VKX ENCSR541KFY Peak WTC11 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF056MYW ENCSR541KFY WTC11 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF188MFO ENCSR541JMK Peak adrenal gland tissue female adult 47 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF231WCT ENCSR541JMK adrenal gland tissue female adult 47 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF536YKD ENCSR541IET Peak endothelial cell DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF706PFS ENCSR541IET endothelial cell DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF575VDV ENCSR541AVF Peak left lung tissue female embryo 117 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF931RCZ ENCSR541AVF left lung tissue female embryo 117 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF575DMG ENCSR541AMF Peak SK-N-SH CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF850MLW ENCSR541AMF SK-N-SH CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF889RIE ENCSR540XNK Peak with multiple sclerosis CD4-positive, alpha-beta memory T cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF412CXE ENCSR540XNK with multiple sclerosis CD4-positive, alpha-beta memory T cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF681VDD ENCSR540VTN Peak T-cell male adult 40 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF451BTR ENCSR540VTN T-cell male adult 40 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF190NIZ ENCSR540PVZ Peak right renal pelvis tissue male embryo 120 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF924NHH ENCSR540PVZ right renal pelvis tissue male embryo 120 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF436OMS ENCSR540MGS Peak naive thymus-derived CD8-positive, alpha-beta T cell male adult 42 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF665JYB ENCSR540MGS naive thymus-derived CD8-positive, alpha-beta T cell male adult 42 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF332MQB ENCSR540KQC Peak from a donor with amyotrophic lateral sclerosis motor neuron H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF878HSW ENCSR540KQC from a donor with amyotrophic lateral sclerosis motor neuron H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF651PTY ENCSR540BML Peak subcutaneous adipose tissue tissue female adult 53 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF094EYJ ENCSR540BML subcutaneous adipose tissue tissue female adult 53 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF038UOB ENCSR540ADS Peak lung tissue female adult 30 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF155XCD ENCSR540ADS lung tissue female adult 30 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF620EOQ ENCSR539WBA Peak body of pancreas tissue male adult 37 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF087WEP ENCSR539WBA body of pancreas tissue male adult 37 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF919VZF ENCSR539TKY Peak KMS-11 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF477PME ENCSR539TKY KMS-11 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF056LOI ENCSR538URI Peak with multiple sclerosis IgD-negative memory B cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF263PCC ENCSR538URI with multiple sclerosis IgD-negative memory B cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF553GIB ENCSR538GXY Peak with Alzheimer's disease, Cognitive impairment middle frontal area 46 tissue female adult 87 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF523VVA ENCSR538GXY with Alzheimer's disease, Cognitive impairment middle frontal area 46 tissue female adult 87 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF178YHZ ENCSR537TXP Peak T-helper 17 cell male adult 50 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF797FHU ENCSR537TXP T-helper 17 cell male adult 50 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF464BHZ ENCSR537KJA Peak activated T-helper 1 cell male adult 35 years treated with 1 μg/mL Interleukin-4 antibody , 30 ng/mL Interleukin-12 subunit alpha , 30 ng/mL Interleukin-12 subunit beta , anti-CD3 and anti-CD28 coated beads H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF621UOH ENCSR537KJA activated T-helper 1 cell male adult 35 years treated with 1 μg/mL Interleukin-4 antibody , 30 ng/mL Interleukin-12 subunit alpha , 30 ng/mL Interleukin-12 subunit beta , anti-CD3 and anti-CD28 coated beads H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF844OLI ENCSR537BGX Peak lower lobe of left lung tissue female adult 61 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF162GDL ENCSR537BGX lower lobe of left lung tissue female adult 61 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF500OSY ENCSR536VAY Peak stimulated activated CD8-positive, alpha-beta memory T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 24 hours, 100 ng/mL Interleukin-12 subunit alpha for 24 hours, 100 ng/mL Interleukin-12 subunit beta for 24 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF841DAP ENCSR536VAY stimulated activated CD8-positive, alpha-beta memory T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 24 hours, 100 ng/mL Interleukin-12 subunit alpha for 24 hours, 100 ng/mL Interleukin-12 subunit beta for 24 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF046ZSZ ENCSR536NGW Peak heart tissue male embryo 96 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF362AGC ENCSR536NGW heart tissue male embryo 96 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF631YNB ENCSR535YYH Peak with multiple sclerosis CD8-positive, alpha-beta memory T cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF593NJY ENCSR535YYH with multiple sclerosis CD8-positive, alpha-beta memory T cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF641RPD ENCSR535XRY Peak angular gyrus tissue male adult 81 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF854IJU ENCSR535XRY angular gyrus tissue male adult 81 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF003MAY ENCSR535GFO Peak tibial artery tissue male adult 54 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF010WWO ENCSR535GFO tibial artery tissue male adult 54 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF456XVJ ENCSR534RXN Peak CD4-positive, CD25-positive, alpha-beta regulatory T cell female adult 21 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF774EDF ENCSR534RXN CD4-positive, CD25-positive, alpha-beta regulatory T cell female adult 21 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF444KFE ENCSR534OJE Peak activated CD8-positive, alpha-beta memory T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 4 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF243CAS ENCSR534OJE activated CD8-positive, alpha-beta memory T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 4 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF487FQC ENCSR533VAF Peak heart tissue female embryo 147 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF118HQX ENCSR533VAF heart tissue female embryo 147 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF448WZL ENCSR532STE Peak with mild cognitive impairment middle frontal area 46 tissue female adult 83 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF393NEJ ENCSR532STE with mild cognitive impairment middle frontal area 46 tissue female adult 83 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF704HBJ ENCSR532SRK Peak middle frontal area 46 tissue male adult 83 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF942YRH ENCSR532SRK middle frontal area 46 tissue male adult 83 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF428ICA ENCSR532FEO Peak stomach smooth muscle tissue female adult 84 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF579DHC ENCSR532FEO stomach smooth muscle tissue female adult 84 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF857IPJ ENCSR532DBH Peak with Cognitive impairment middle frontal area 46 tissue female adult 86 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF412TKS ENCSR532DBH with Cognitive impairment middle frontal area 46 tissue female adult 86 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF082MIF ENCSR532CRI Peak limb tissue embryo 58 days and embryo 59 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF036KGR ENCSR532CRI limb tissue embryo 58 days and embryo 59 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF972FAF ENCSR531VWS Peak with basal cell carcinoma skin epidermis tissue male adult 77 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF863ICS ENCSR531VWS with basal cell carcinoma skin epidermis tissue male adult 77 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF886KAX ENCSR531UVE Peak stimulated activated CD4-positive, alpha-beta T cell male adult 42 years treated with anti-CD3 and anti-CD28 coated beads for 1 hour, 100 ng/mL Interleukin-15 for 1 hour DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF627GLJ ENCSR531UVE stimulated activated CD4-positive, alpha-beta T cell male adult 42 years treated with anti-CD3 and anti-CD28 coated beads for 1 hour, 100 ng/mL Interleukin-15 for 1 hour DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF889WFC ENCSR531HPD Peak large intestine tissue male embryo 105 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF245XIJ ENCSR531HPD large intestine tissue male embryo 105 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF616LBZ ENCSR531AYV Peak naive thymus-derived CD4-positive, alpha-beta T cell male adult 24 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF275AAG ENCSR531AYV naive thymus-derived CD4-positive, alpha-beta T cell male adult 24 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF769RKF ENCSR530XBF Peak pancreas tissue female child 16 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF140GLW ENCSR530XBF pancreas tissue female child 16 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF549YHQ ENCSR530AVK Peak with multiple sclerosis naive B cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF623DFW ENCSR530AVK with multiple sclerosis naive B cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF905DVO ENCSR528YDD Peak HG03342 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF077IHT ENCSR528YDD HG03342 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF417NSC ENCSR528QDT Peak germinal matrix tissue male embryo 20 weeks H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF786QHF ENCSR528QDT germinal matrix tissue male embryo 20 weeks H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF550PCD ENCSR526TFD Peak CD4-positive, alpha-beta memory T cell DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF879QTR ENCSR526TFD CD4-positive, alpha-beta memory T cell DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF770ERL ENCSR526RGE Peak placental basal plate tissue female embryo 40 weeks H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF918JSW ENCSR526RGE placental basal plate tissue female embryo 40 weeks H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF784LWO ENCSR525VXD Peak middle frontal area 46 tissue female adult 90 or above years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF782LSR ENCSR525VXD middle frontal area 46 tissue female adult 90 or above years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF633LVU ENCSR525VCH Peak effector CD4-positive, alpha-beta T cell female adult 25 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF151NIC ENCSR525VCH effector CD4-positive, alpha-beta T cell female adult 25 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF467PXH ENCSR525MZF Peak natural killer cell female adult 41 years treated with 100 ng/mL Interleukin-18 for 72 hours, 100 ng/mL Interleukin-12 subunit beta for 72 hours, 100 ng/mL Interleukin-12 subunit alpha for 72 hours, 100 ng/mL Interleukin-15 for 72 hours H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF447DVQ ENCSR525MZF natural killer cell female adult 41 years treated with 100 ng/mL Interleukin-18 for 72 hours, 100 ng/mL Interleukin-12 subunit beta for 72 hours, 100 ng/mL Interleukin-12 subunit alpha for 72 hours, 100 ng/mL Interleukin-15 for 72 hours H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF805HLN ENCSR524ZSN Peak K562 treated with 2.5 μM Galeterone for 4 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF105KLZ ENCSR524ZSN K562 treated with 2.5 μM Galeterone for 4 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF446TCT ENCSR524QPZ Peak with mild cognitive impairment head of caudate nucleus tissue female adult 78 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF335GSN ENCSR524QPZ with mild cognitive impairment head of caudate nucleus tissue female adult 78 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF445QFI ENCSR524QBS Peak cardiac septum tissue female adult 41 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF279EDL ENCSR524QBS cardiac septum tissue female adult 41 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF862HUE ENCSR524MPL Peak with mild cognitive impairment middle frontal area 46 tissue female adult 90 or above years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF686LXM ENCSR524MPL with mild cognitive impairment middle frontal area 46 tissue female adult 90 or above years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF794SCF ENCSR524DWS Peak renal cortex interstitium tissue female embryo 120 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF743ZDV ENCSR524DWS renal cortex interstitium tissue female embryo 120 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF887SQY ENCSR524CPZ Peak HG02798 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF234SOC ENCSR524CPZ HG02798 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF058XEC ENCSR523IAZ Peak HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens POLR2A treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF921VVL ENCSR523IAZ HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens POLR2A treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF390UMK ENCSR522MTS Peak esophagus muscularis mucosa tissue male adult 37 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF322ZPK ENCSR522MTS esophagus muscularis mucosa tissue male adult 37 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF021YOJ ENCSR522FGI Peak heart right ventricle tissue male adult 43 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF442VFE ENCSR522FGI heart right ventricle tissue male adult 43 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF450GYJ ENCSR522FGG Peak stomach tissue male embryo 108 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF799VNT ENCSR522FGG stomach tissue male embryo 108 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF465REM ENCSR522ALT Peak K562 treated with 1 μM EED226 for 24 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF979NGT ENCSR522ALT K562 treated with 1 μM EED226 for 24 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF492XZV ENCSR520WTV Peak SJSA1 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF281VSR ENCSR520WTV SJSA1 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF111GPF ENCSR520QDR Peak with multiple sclerosis CD4-positive, CD25-positive, alpha-beta regulatory T cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF380KOQ ENCSR520QDR with multiple sclerosis CD4-positive, CD25-positive, alpha-beta regulatory T cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF069TSW ENCSR520KVD Peak middle frontal area 46 tissue female adult 90 or above years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF519CLG ENCSR520KVD middle frontal area 46 tissue female adult 90 or above years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF994XIF ENCSR520BUX Peak liver tissue male adult 78 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF962JEC ENCSR520BUX liver tissue male adult 78 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF287BIL ENCSR520BIM Peak body of pancreas tissue male adult 37 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF989SFZ ENCSR520BIM body of pancreas tissue male adult 37 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF397MBL ENCSR520BAD Peak gastrocnemius medialis tissue male adult 54 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF898XFY ENCSR520BAD gastrocnemius medialis tissue male adult 54 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF925GDM ENCSR519CFV Peak aorta tissue male adult 34 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF651QMY ENCSR519CFV aorta tissue male adult 34 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF708UVY ENCSR519AVF Peak nephron organoid female embryo 5 days, 49 days post differentiation H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF174GYF ENCSR519AVF nephron organoid female embryo 5 days, 49 days post differentiation H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF882KRB ENCSR518YYX Peak activated CD8-positive, naive alpha-beta T cell male adult 30 years treated with anti-CD3 and anti-CD28 coated beads DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF441IWW ENCSR518YYX activated CD8-positive, naive alpha-beta T cell male adult 30 years treated with anti-CD3 and anti-CD28 coated beads DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF400AMQ ENCSR518WRP Peak middle frontal area 46 tissue female adult 78 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF604AYM ENCSR518WRP middle frontal area 46 tissue female adult 78 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF895EER ENCSR518JGY Peak foreskin melanocyte male newborn DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF368SOB ENCSR518JGY foreskin melanocyte male newborn DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF973IWM ENCSR517NSQ Peak heart left ventricle tissue male adult 61 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF163DHS ENCSR517NSQ heart left ventricle tissue male adult 61 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF133MEQ ENCSR517NHP Peak muscle of arm tissue female embryo 105 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF681LTR ENCSR517NHP muscle of arm tissue female embryo 105 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF010UWZ ENCSR516YAD Peak from a donor with amyotrophic lateral sclerosis motor neuron ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF330ZVA ENCSR516YAD from a donor with amyotrophic lateral sclerosis motor neuron ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF902XWO ENCSR516RTV Peak with Cognitive impairment head of caudate nucleus tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF695YHT ENCSR516RTV with Cognitive impairment head of caudate nucleus tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF291TIF ENCSR516LZK Peak heart left ventricle tissue male adult 61 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF955DUI ENCSR516LZK heart left ventricle tissue male adult 61 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF511KBC ENCSR516LQO Peak tibial nerve tissue male adult 37 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF038BIZ ENCSR516LQO tibial nerve tissue male adult 37 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF833XRU ENCSR516JCM Peak activated CD4-positive, alpha-beta T cell female adult 37 years treated with 50 U/mL Interleukin-2 for 16 hours, anti-CD3 and anti-CD28 coated beads for 16 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF197MIF ENCSR516JCM activated CD4-positive, alpha-beta T cell female adult 37 years treated with 50 U/mL Interleukin-2 for 16 hours, anti-CD3 and anti-CD28 coated beads for 16 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF588WOT ENCSR516CPW Peak right lobe of liver tissue female adult 47 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF831BRS ENCSR516CPW right lobe of liver tissue female adult 47 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF949HWE ENCSR516CKJ Peak with multiple sclerosis CD8-positive, alpha-beta memory T cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF392GLN ENCSR516CKJ with multiple sclerosis CD8-positive, alpha-beta memory T cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF110SNH ENCSR515PKY Peak smooth muscle cell originated from H9 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF216WFR ENCSR515PKY smooth muscle cell originated from H9 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF854CDW ENCSR515PDV Peak activated naive CD4-positive, alpha-beta T cell male adult 50 years treated with 50 U/mL Interleukin-2 for 72 hours, anti-CD3 and anti-CD28 coated beads for 72 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF136ORD ENCSR515PDV activated naive CD4-positive, alpha-beta T cell male adult 50 years treated with 50 U/mL Interleukin-2 for 72 hours, anti-CD3 and anti-CD28 coated beads for 72 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF916QXW ENCSR515LRI Peak suprapubic skin tissue female adult 53 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF081ZME ENCSR515LRI suprapubic skin tissue female adult 53 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF562XUN ENCSR515EWI Peak Caki2 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF138DZK ENCSR515EWI Caki2 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF307UHG ENCSR515CDW Peak body of pancreas tissue female adult 53 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF328IAA ENCSR515CDW body of pancreas tissue female adult 53 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF913WEU ENCSR514QHN Peak muscle of leg tissue male embryo 105 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF135GKT ENCSR514QHN muscle of leg tissue male embryo 105 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF119CED ENCSR513EVP Peak naive thymus-derived CD8-positive, alpha-beta T cell male adult 42 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF486INQ ENCSR513EVP naive thymus-derived CD8-positive, alpha-beta T cell male adult 42 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF712PMG ENCSR512YXO Peak GM21381 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF062JUV ENCSR512YXO GM21381 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF027TRK ENCSR512FHU Peak GM19023 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF816XRV ENCSR512FHU GM19023 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF714GKQ ENCSR512CWR Peak umbilical cord tissue embryo 59 days and male embryo 76 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF588RPE ENCSR512CWR umbilical cord tissue embryo 59 days and male embryo 76 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF786AQQ ENCSR511PFY Peak with Alzheimer's disease head of caudate nucleus tissue male adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF687KZW ENCSR511PFY with Alzheimer's disease head of caudate nucleus tissue male adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF529HAV ENCSR511GQA Peak stomach tissue female embryo 108 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF803YVS ENCSR511GQA stomach tissue female embryo 108 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF117ZMF ENCSR510VXV Peak HFFc6 H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF426TLD ENCSR510VXV HFFc6 H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF212FTA ENCSR510RPC Peak left lung tissue female child 16 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF397ZHX ENCSR510RPC left lung tissue female child 16 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF067TCS ENCSR510NXV Peak gastroesophageal sphincter tissue female adult 53 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF216VFC ENCSR510NXV gastroesophageal sphincter tissue female adult 53 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF994BEK ENCSR510ITB Peak left lung tissue male embryo 91 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF100GJM ENCSR510ITB left lung tissue male embryo 91 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF197QAX ENCSR510GRY Peak posterior cingulate gyrus tissue male adult 83 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF459TMW ENCSR510GRY posterior cingulate gyrus tissue male adult 83 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF321HNK ENCSR510CNG Peak astrocyte H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF751GCN ENCSR510CNG astrocyte H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF758FJZ ENCSR509MYW Peak K562 treated with 1 μM ARS-853 for 48 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF861IVT ENCSR509MYW K562 treated with 1 μM ARS-853 for 48 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF599PNY ENCSR509JPT Peak GM21367 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF166IBK ENCSR509JPT GM21367 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF772TGW ENCSR508UPW Peak esophagus squamous epithelium tissue female adult 53 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF576GES ENCSR508UPW esophagus squamous epithelium tissue female adult 53 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF297RKZ ENCSR508LLL Peak K562 treated with DMSO for 12 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF460SPS ENCSR508LLL K562 treated with DMSO for 12 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF325BIK ENCSR508FVM Peak tibial nerve tissue male adult 54 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF798CZY ENCSR508FVM tibial nerve tissue male adult 54 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF993TQU ENCSR507XBY Peak T-cell male adult 19 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF571GCP ENCSR507XBY T-cell male adult 19 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF617BYL ENCSR507UDH Peak hepatocyte originated from H9 H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF347LDC ENCSR507UDH hepatocyte originated from H9 H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF253HOM ENCSR507SRD Peak trophoblast tissue female embryo 20 weeks H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF881NZD ENCSR507SRD trophoblast tissue female embryo 20 weeks H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF176TEA ENCSR507GFJ Peak brain tissue embryo 80 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF161HKZ ENCSR507GFJ brain tissue embryo 80 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF389AZP ENCSR507DQC Peak mucosa of descending colon tissue male adult 26 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF305IPH ENCSR507DQC mucosa of descending colon tissue male adult 26 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF748ZBI ENCSR507CIJ Peak naive thymus-derived CD4-positive, alpha-beta T cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF467TIK ENCSR507CIJ naive thymus-derived CD4-positive, alpha-beta T cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF717QCI ENCSR506QJJ Peak SJCRH30 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF110QOO ENCSR506QJJ SJCRH30 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF877DRR ENCSR505ZGX Peak thyroid gland tissue male adult 37 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF874CKO ENCSR505ZGX thyroid gland tissue male adult 37 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF675AFH ENCSR505YFA Peak upper lobe of left lung tissue male adult 37 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF607SXR ENCSR505YFA upper lobe of left lung tissue male adult 37 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF022KFI ENCSR505RTK Peak heart right ventricle tissue female adult 46 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF803TUM ENCSR505RTK heart right ventricle tissue female adult 46 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF664RFI ENCSR505OPZ Peak iPS DF 19.11 H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF236ILC ENCSR505OPZ iPS DF 19.11 H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF449FMS ENCSR505JQC Peak iPS-18a H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF064SWK ENCSR505JQC iPS-18a H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF143XVP ENCSR504OUW Peak CD4-positive, CD25-positive, alpha-beta regulatory T cell male adult 38 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF736UWT ENCSR504OUW CD4-positive, CD25-positive, alpha-beta regulatory T cell male adult 38 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF515CPH ENCSR504KZE Peak lung tissue embryo 67 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF530FHO ENCSR504KZE lung tissue embryo 67 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF008EKG ENCSR503UNA Peak nephron progenitor cell DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF148MYZ ENCSR503UNA nephron progenitor cell DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF586PFT ENCSR503UFM posterior cingulate gyrus tissue female adult 77 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF942CRH ENCSR503RWO Peak placenta tissue male embryo DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF798JNG ENCSR503RWO placenta tissue male embryo DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF672CVM ENCSR503HWR from a donor with amyotrophic lateral sclerosis motor neuron H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF497HHF ENCSR503HIB Peak cerebellar cortex tissue male adult 78 years and male adult 84 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF277PYT ENCSR503HIB cerebellar cortex tissue male adult 78 years and male adult 84 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF674EDQ ENCSR503EZG Peak K562 treated with 1 μM Crizotinib for 48 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF692AON ENCSR503EZG K562 treated with 1 μM Crizotinib for 48 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF845AYA ENCSR503BKX Peak T-cell male adult 42 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF906URN ENCSR503BKX T-cell male adult 42 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF876HIO ENCSR503BEM Peak LoVo DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF617KWP ENCSR503BEM LoVo DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF581ITV ENCSR502NDK Peak small intestine tissue female embryo 108 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF103DRL ENCSR502NDK small intestine tissue female embryo 108 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF426CYT ENCSR502GWQ Peak stimulated activated CD8-positive, alpha-beta memory T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 1 hour, 100 ng/mL Interleukin-2 for 1 hour DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF052TCE ENCSR502GWQ stimulated activated CD8-positive, alpha-beta memory T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 1 hour, 100 ng/mL Interleukin-2 for 1 hour DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF682CBF ENCSR502FPR Peak with mild cognitive impairment posterior cingulate gyrus tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF337VHH ENCSR502FPR with mild cognitive impairment posterior cingulate gyrus tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF428TYO ENCSR501JET Peak mesenchymal stem cell originated from H1 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF414WEV ENCSR501JET mesenchymal stem cell originated from H1 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF730JBF ENCSR501FWC Peak heart left ventricle tissue female embryo 136 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF099PUP ENCSR501FWC heart left ventricle tissue female embryo 136 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF534WXJ ENCSR501FTL Peak subcutaneous abdominal adipose tissue tissue nuclear fraction female adult 41 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF187IWC ENCSR501FTL subcutaneous abdominal adipose tissue tissue nuclear fraction female adult 41 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF807QDW ENCSR500YBS Peak thyroid gland tissue female adult 51 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF774RLX ENCSR500YBS thyroid gland tissue female adult 51 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF714OGX ENCSR500GXT Peak lung tissue male child 3 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF022TOZ ENCSR500GXT lung tissue male child 3 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF296LZG ENCSR499PZA Peak kidney tissue male embryo 105 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF871RSM ENCSR499PZA kidney tissue male embryo 105 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF063NAW ENCSR499IIR Peak chorion tissue female embryo 40 weeks H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF153ALM ENCSR499IIR chorion tissue female embryo 40 weeks H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF398EWQ ENCSR499IFY Peak placenta tissue embryo 53 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF021DHC ENCSR499IFY placenta tissue embryo 53 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF358CGT ENCSR499ASS Peak PC-3 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF124ZQJ ENCSR499ASS PC-3 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF386RTS ENCSR498ZRC Peak placenta tissue female embryo 113 days H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF217EWG ENCSR498ZRC placenta tissue female embryo 113 days H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF878VPA ENCSR498RLX Peak with mild cognitive impairment middle frontal area 46 tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF278VYR ENCSR498RLX with mild cognitive impairment middle frontal area 46 tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF444PYL ENCSR498NGT Peak with Alzheimer's disease middle frontal area 46 tissue female adult 85 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF194KAZ ENCSR498NGT with Alzheimer's disease middle frontal area 46 tissue female adult 85 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF627WER ENCSR498JAW Peak HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens MED14 treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF623IQZ ENCSR498JAW HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens MED14 treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF404PRS ENCSR498DCY Peak T-cell female adult 21 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF787PDH ENCSR498DCY T-cell female adult 21 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF677ZTZ ENCSR497URO Peak with mild cognitive impairment middle frontal area 46 tissue female adult 90 or above years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF971OSG ENCSR497URO with mild cognitive impairment middle frontal area 46 tissue female adult 90 or above years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF710HMA ENCSR497NLU Peak T-cell male adult 28 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF829JMH ENCSR497NLU T-cell male adult 28 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF774MSE ENCSR496UJY Peak with mild cognitive impairment head of caudate nucleus tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF476YVZ ENCSR496UJY with mild cognitive impairment head of caudate nucleus tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF753PTI ENCSR496UER T-cell male adult 33 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF357OOA ENCSR496PSH Peak with mild cognitive impairment head of caudate nucleus tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF294HEE ENCSR496PSH with mild cognitive impairment head of caudate nucleus tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF972ATK ENCSR496PPU Peak mucosa of descending colon tissue female adult 61 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF663HOS ENCSR496PPU mucosa of descending colon tissue female adult 61 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF116EKH ENCSR496LKR Peak with multiple sclerosis CD4-positive, CD25-positive, alpha-beta regulatory T cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF363TNK ENCSR496LKR with multiple sclerosis CD4-positive, CD25-positive, alpha-beta regulatory T cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF928RVU ENCSR495INQ Peak common myeloid progenitor, CD34-positive male adult 42 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF617GYK ENCSR495INQ common myeloid progenitor, CD34-positive male adult 42 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF135MSV ENCSR495HIT Peak middle frontal area 46 tissue male adult 71 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF242WZH ENCSR495HIT middle frontal area 46 tissue male adult 71 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF359YRD ENCSR494YVB Peak HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens SUPT16H H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF021HGF ENCSR494YVB HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens SUPT16H H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF339VLN ENCSR494WCX Peak left lung tissue male adult 40 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF441OEQ ENCSR494WCX left lung tissue male adult 40 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF101QGY ENCSR494QLL Peak heart right ventricle tissue female adult 56 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF446ELY ENCSR494QLL heart right ventricle tissue female adult 56 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF905RPO ENCSR494MDB Peak caudate nucleus tissue male adult 81 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF013OYT ENCSR494MDB caudate nucleus tissue male adult 81 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF534OZS ENCSR494LJG Peak SU-DHL-6 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF185LXV ENCSR494LJG SU-DHL-6 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF139CYD ENCSR494IWJ Peak stimulated activated CD4-positive, alpha-beta T cell male adult 42 years treated with anti-CD3 and anti-CD28 coated beads for 24 hours, 100 ng/mL TNF-alpha for 24 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF994FRW ENCSR494IWJ stimulated activated CD4-positive, alpha-beta T cell male adult 42 years treated with anti-CD3 and anti-CD28 coated beads for 24 hours, 100 ng/mL TNF-alpha for 24 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF618ZGU ENCSR493VDS Peak putamen tissue male adult 78 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF614XBI ENCSR493VDS putamen tissue male adult 78 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF851NIZ ENCSR493IQY Peak activated CD4-positive, alpha-beta T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 4 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF719PPB ENCSR493IQY activated CD4-positive, alpha-beta T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 4 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF104TEA ENCSR493IAY Peak hematopoietic multipotent progenitor cell treated with interleukin-3 for 18 days, kit ligand for 18 days, hydrocortisone succinate for 18 days, erythropoietin for 18 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF028ZFZ ENCSR493IAY hematopoietic multipotent progenitor cell treated with interleukin-3 for 18 days, kit ligand for 18 days, hydrocortisone succinate for 18 days, erythropoietin for 18 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF062XMG ENCSR493APD Peak ovary tissue female adult 53 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF971DUO ENCSR493APD ovary tissue female adult 53 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF631QRY ENCSR492ZIW Peak thyroid gland tissue male adult 54 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF510THG ENCSR492ZIW thyroid gland tissue male adult 54 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF613PGE ENCSR492PXH Peak endocrine pancreas tissue adult 59 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF314ZFV ENCSR492PXH endocrine pancreas tissue adult 59 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF055GHR ENCSR492FJO Peak GM18867 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF829IFA ENCSR492FJO GM18867 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF632SRQ ENCSR492BHN Peak stomach tissue female adult 51 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF283ZMI ENCSR492BHN stomach tissue female adult 51 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF316QSG ENCSR491VXJ Peak mucosa of descending colon tissue male adult 26 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF808LOI ENCSR491VXJ mucosa of descending colon tissue male adult 26 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF301PKA ENCSR490UQP Peak middle frontal area 46 tissue female adult 87 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF497CVA ENCSR490UQP middle frontal area 46 tissue female adult 87 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF654MXT ENCSR490MSG Peak ovary tissue female adult 53 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF644YMB ENCSR490MSG ovary tissue female adult 53 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF098IKI ENCSR489ZLL Peak stomach tissue female adult 53 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF641DNV ENCSR489ZLL stomach tissue female adult 53 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF816BTR ENCSR489QDF Peak excitatory neuron CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF536VOI ENCSR489QDF excitatory neuron CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF094VVT ENCSR489NAM Peak OCI-LY7 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF136RNO ENCSR489NAM OCI-LY7 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF625ZGA ENCSR489LNU Peak from a donor with amyotrophic lateral sclerosis motor neuron H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF985ZFD ENCSR489LNU from a donor with amyotrophic lateral sclerosis motor neuron H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF947HUR ENCSR488PHT Peak left lung tissue male embryo 113 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF636WJT ENCSR488PHT left lung tissue male embryo 113 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF543AIO ENCSR488FJP Peak activated T-helper 17 cell male adult 50 years treated with 50 U/mL Interleukin-2 for 72 hours, anti-CD3 and anti-CD28 coated beads for 72 hours H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF200AOX ENCSR488FJP activated T-helper 17 cell male adult 50 years treated with 50 U/mL Interleukin-2 for 72 hours, anti-CD3 and anti-CD28 coated beads for 72 hours H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF902NPJ ENCSR487SOP Peak HG03064 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF321AMD ENCSR487SOP HG03064 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF989SGA ENCSR487QSB Peak GM18907 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF570XGF ENCSR487QSB GM18907 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF606DIW ENCSR487INP Peak activated CD4-positive, alpha-beta T cell male adult 20 years treated with anti-CD3 and anti-CD28 coated beads H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF721IBM ENCSR487INP activated CD4-positive, alpha-beta T cell male adult 20 years treated with anti-CD3 and anti-CD28 coated beads H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF629KFL ENCSR487BEW Peak heart left ventricle tissue male adult 34 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF817RTJ ENCSR487BEW heart left ventricle tissue male adult 34 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF462OBC ENCSR486XJK Peak with multiple sclerosis CD4-positive, alpha-beta memory T cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF131HJZ ENCSR486XJK with multiple sclerosis CD4-positive, alpha-beta memory T cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF562KHN ENCSR486QMV Peak caudate nucleus tissue female adult 75 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF506IHN ENCSR486QMV caudate nucleus tissue female adult 75 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF923GWZ ENCSR486KKY Peak T follicular helper cell female adult 25 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF749YXO ENCSR486KKY T follicular helper cell female adult 25 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF995GQJ ENCSR486FMF Peak stimulated activated CD4-positive, alpha-beta T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 24 hours, 100 ng/mL Interleukin-4 for 24 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF811SHY ENCSR486FMF stimulated activated CD4-positive, alpha-beta T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 24 hours, 100 ng/mL Interleukin-4 for 24 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF266CTJ ENCSR485VQV Peak suprapubic skin tissue male adult 37 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF015NMW ENCSR485VQV suprapubic skin tissue male adult 37 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF862QVS ENCSR485UQY Peak right cardiac atrium tissue male adult 60 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF963TDP ENCSR485UQY right cardiac atrium tissue male adult 60 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF854SOO ENCSR485TLP Peak GM23338 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF378ZGI ENCSR485TLP GM23338 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF584VJP ENCSR484UAU Peak tibial nerve tissue male adult 37 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF644VHX ENCSR484UAU tibial nerve tissue male adult 37 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF881RGF ENCSR484DDO Peak body of pancreas tissue female adult 53 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF049EBZ ENCSR484DDO body of pancreas tissue female adult 53 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF006OFA ENCSR483RKN Peak K562 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF754EAC ENCSR483RKN K562 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF079OTX ENCSR483HUW Peak with Alzheimer's disease head of caudate nucleus tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF016KGC ENCSR483HUW with Alzheimer's disease head of caudate nucleus tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF617ZHH ENCSR482TGI Peak with multiple sclerosis CD4-positive, CD25-positive, alpha-beta regulatory T cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF307HLE ENCSR482TGI with multiple sclerosis CD4-positive, CD25-positive, alpha-beta regulatory T cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF077XIZ ENCSR482PMN Peak spleen tissue female adult 51 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF101RDN ENCSR482PMN spleen tissue female adult 51 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF600UDP ENCSR482HQE Peak lung tissue female embryo 108 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF754JLV ENCSR482HQE lung tissue female embryo 108 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF239RJB ENCSR481YGZ Peak foreskin melanocyte male newborn H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF168ZYA ENCSR481YGZ foreskin melanocyte male newborn H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF964JDC ENCSR480SNC Peak naive B cell male adult 40 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF207ATZ ENCSR480SNC naive B cell male adult 40 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF703PBV ENCSR479IAH Peak osteocyte H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF441MGU ENCSR479IAH osteocyte H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF264BLT ENCSR479HKJ Peak GM23248 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF036OWY ENCSR479HKJ GM23248 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF259KVC ENCSR478SWA Peak activated CD4 positive, naive alpha-beta T cell male adult 43 years treated with anti-CD3 and anti-CD28 coated beads DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF443UTC ENCSR478SWA activated CD4 positive, naive alpha-beta T cell male adult 43 years treated with anti-CD3 and anti-CD28 coated beads DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF009DEU ENCSR477YZA Peak HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens BRD4 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF106XHY ENCSR477YZA HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens BRD4 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF048WZD ENCSR477YSU Peak activated naive CD8-positive, alpha-beta T cell male adult 42 years treated with anti-CD3 and anti-CD28 coated beads for 24 hours, 50 U/mL Interleukin-2 for 24 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF610LQJ ENCSR477YSU activated naive CD8-positive, alpha-beta T cell male adult 42 years treated with anti-CD3 and anti-CD28 coated beads for 24 hours, 50 U/mL Interleukin-2 for 24 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF423QOA ENCSR477RTP Peak IMR-90 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF971HXR ENCSR477RTP IMR-90 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF529XHE ENCSR477IQW Peak HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens CTCF DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF696KWO ENCSR477IQW HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens CTCF DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF355TRA ENCSR477BHF Peak temporal lobe tissue female adult 75 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF290HDV ENCSR477BHF temporal lobe tissue female adult 75 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF202HFP ENCSR476WNA Peak ovary tissue female adult 47 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF567XSR ENCSR476WNA ovary tissue female adult 47 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF878JSH ENCSR476VJY Peak CD8-positive, alpha-beta T cell male adult 21 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF308HXP ENCSR476VJY CD8-positive, alpha-beta T cell male adult 21 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF084WSV ENCSR476SDZ Peak muscle of back tissue male embryo 108 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF123UWT ENCSR476SDZ muscle of back tissue male embryo 108 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF325YCY ENCSR476IPR Peak with multiple sclerosis CD8-positive, alpha-beta memory T cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF409QDV ENCSR476IPR with multiple sclerosis CD8-positive, alpha-beta memory T cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF610IYC ENCSR475VQD Peak brain tissue male embryo 72 days and male embryo 76 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF586GWE ENCSR475VQD brain tissue male embryo 72 days and male embryo 76 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF677LVV ENCSR474XFV Peak thyroid gland tissue male adult 54 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF974RPS ENCSR474XFV thyroid gland tissue male adult 54 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF976XOV ENCSR474PYR Peak with multiple sclerosis naive thymus-derived CD4-positive, alpha-beta T cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF621DMX ENCSR474PYR with multiple sclerosis naive thymus-derived CD4-positive, alpha-beta T cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF369RRS ENCSR474HQW Peak stimulated activated CD8-positive, alpha-beta memory T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 4 hours, 100 ng/mL Interleukin-15 for 4 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF017ULV ENCSR474HQW stimulated activated CD8-positive, alpha-beta memory T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 4 hours, 100 ng/mL Interleukin-15 for 4 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF426WBQ ENCSR474GZQ Peak retina tissue embryo 125 days and male embryo 103 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF064DIM ENCSR474GZQ retina tissue embryo 125 days and male embryo 103 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF182YQI ENCSR473VWE Peak activated CD8-positive, naive alpha-beta T cell male adult 42 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF377XTR ENCSR473VWE activated CD8-positive, naive alpha-beta T cell male adult 42 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF080FBH ENCSR473PNT Peak mesendoderm originated from H1 H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF052XMR ENCSR473PNT mesendoderm originated from H1 H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF819VFY ENCSR473LSX Peak T-cell male adult 38 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF505HUJ ENCSR473LSX T-cell male adult 38 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF163IJK ENCSR473DVS Peak heart right ventricle tissue male adult 40 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF170TDI ENCSR473DVS heart right ventricle tissue male adult 40 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF397BGC ENCSR472ZFJ Peak naive thymus-derived CD4-positive, alpha-beta T cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF095LZE ENCSR472ZFJ naive thymus-derived CD4-positive, alpha-beta T cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF975JNG ENCSR472BJI Peak activated CD4 positive, naive alpha-beta T cell male adult 42 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF888NJV ENCSR472BJI activated CD4 positive, naive alpha-beta T cell male adult 42 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF879RZE ENCSR471RHG Peak stimulated activated CD8-positive, alpha-beta memory T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 48 hours, 100 ng/mL Interleukin-2 for 48 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF704KAB ENCSR471RHG stimulated activated CD8-positive, alpha-beta memory T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 48 hours, 100 ng/mL Interleukin-2 for 48 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF558YZG ENCSR470ZNM Peak HG03060 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF337DQV ENCSR470ZNM HG03060 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF446LNW ENCSR469CFL Peak with multiple sclerosis immature natural killer cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF185BYZ ENCSR469CFL with multiple sclerosis immature natural killer cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF524DDE ENCSR468ZXN Peak common myeloid progenitor, CD34-positive female adult 33 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF850RIV ENCSR468ZXN common myeloid progenitor, CD34-positive female adult 33 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF290DSW ENCSR468OVW Peak left lung tissue female embryo 105 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF347LRJ ENCSR468OVW left lung tissue female embryo 105 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF701NYI ENCSR468AKF Peak B cell male adult 22 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF429CVH ENCSR468AKF B cell male adult 22 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF172ZJN ENCSR467UCT Peak stimulated activated CD4-positive, alpha-beta T cell male adult 20 years treated with 10 ng/mL Interleukin-2 , anti-CD3 and anti-CD28 coated beads H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF128WCS ENCSR467UCT stimulated activated CD4-positive, alpha-beta T cell male adult 20 years treated with 10 ng/mL Interleukin-2 , anti-CD3 and anti-CD28 coated beads H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF708QGT ENCSR467MSP Peak T-cell female adult 23 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF731MVA ENCSR467MSP T-cell female adult 23 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF483RLW ENCSR467LJT Peak stimulated activated CD4-positive, alpha-beta T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 1 hour, 100 ng/mL TNF-alpha for 1 hour DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF883CMH ENCSR467LJT stimulated activated CD4-positive, alpha-beta T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 1 hour, 100 ng/mL TNF-alpha for 1 hour DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF067KUH ENCSR467EQP Peak brain organoid female embryo 5 days, 90 days post differentiation CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF485XTX ENCSR467EQP brain organoid female embryo 5 days, 90 days post differentiation CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF139JDN ENCSR466TNQ Peak spleen tissue female adult 61 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF806GMH ENCSR466TNQ spleen tissue female adult 61 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF543WPX ENCSR466SUZ Peak activated T-cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 1 hour, 50 U/mL Interleukin-2 for 1 hour DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF913TXQ ENCSR466SUZ activated T-cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 1 hour, 50 U/mL Interleukin-2 for 1 hour DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF725UNB ENCSR466DZW Peak lung tissue female adult 30 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF050YYY ENCSR466DZW lung tissue female adult 30 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF587KWH ENCSR465IDZ Peak K562 treated with 10 nM Vorinostat for 12 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF859SSI ENCSR465IDZ K562 treated with 10 nM Vorinostat for 12 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF236NGQ ENCSR464TRM Peak tibial nerve tissue male adult 54 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF779PMH ENCSR464TRM tibial nerve tissue male adult 54 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF056WNR ENCSR464TKV Peak body of pancreas tissue male adult 54 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF649PLC ENCSR464TKV body of pancreas tissue male adult 54 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF359TVQ ENCSR464DKE Peak Loucy CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF699SOM ENCSR464DKE Loucy CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF654BFF ENCSR463XCZ Peak upper lobe of left lung tissue male adult 54 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF750ENA ENCSR463XCZ upper lobe of left lung tissue male adult 54 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF675EKQ ENCSR463NAD Peak esophagus squamous epithelium tissue male adult 54 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF628RBH ENCSR463NAD esophagus squamous epithelium tissue male adult 54 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF074PCI ENCSR462XTM Peak sigmoid colon tissue female adult 51 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF749HRV ENCSR462XTM sigmoid colon tissue female adult 51 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF558APA ENCSR461VHZ Peak astrocyte CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF569HGW ENCSR461VHZ astrocyte CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF464YKJ ENCSR461QMZ Peak with multiple sclerosis IgD-negative memory B cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF431VVA ENCSR461QMZ with multiple sclerosis IgD-negative memory B cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF018CKB ENCSR461GYN Peak middle frontal area 46 tissue female adult 78 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF014NIB ENCSR461GYN middle frontal area 46 tissue female adult 78 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF821XVN ENCSR460LGH Peak C4-2B CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF478SCD ENCSR460LGH C4-2B CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF826WEN ENCSR459PVP Peak from a donor with amyotrophic lateral sclerosis motor neuron ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF839JKY ENCSR459PVP from a donor with amyotrophic lateral sclerosis motor neuron ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF631AEF ENCSR458WIH Peak liver tissue male adult 31 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF053IVC ENCSR458WIH liver tissue male adult 31 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF338FZM ENCSR458TOW Peak with multiple sclerosis CD8-positive, alpha-beta memory T cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF311WDO ENCSR458TOW with multiple sclerosis CD8-positive, alpha-beta memory T cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF707CJN ENCSR458RRZ Peak with nonobstructive coronary artery disease liver tissue male adult 32 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF218ECO ENCSR458RRZ with nonobstructive coronary artery disease liver tissue male adult 32 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF910FNQ ENCSR458PYQ Peak type B pancreatic cell CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF973VNM ENCSR458PYQ type B pancreatic cell CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF039NLW ENCSR458LIB Peak MM.1S DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF735XLO ENCSR458LIB MM.1S DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF130MWX ENCSR458AOS Peak adrenal gland tissue male adult 54 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF316SZE ENCSR458AOS adrenal gland tissue male adult 54 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF522CHU ENCSR457RVC Peak T-cell male adult 28 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF814CKW ENCSR457RVC T-cell male adult 28 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF070BSO ENCSR457JOG Peak activated CD4-positive, alpha-beta T cell male adult 42 years treated with anti-CD3 and anti-CD28 coated beads for 48 hours, 50 U/mL Interleukin-2 for 48 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF635EBG ENCSR457JOG activated CD4-positive, alpha-beta T cell male adult 42 years treated with anti-CD3 and anti-CD28 coated beads for 48 hours, 50 U/mL Interleukin-2 for 48 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF394OQW ENCSR457ILW Peak small intestine tissue female embryo 91 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF894JGX ENCSR457ILW small intestine tissue female embryo 91 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF207PNH ENCSR457FQI Peak CD4-positive, alpha-beta memory T cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF975SNY ENCSR457FQI CD4-positive, alpha-beta memory T cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF661QWW ENCSR456KDF Peak left lung tissue female embryo 108 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF051QLC ENCSR456KDF left lung tissue female embryo 108 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF975YTX ENCSR455GUW Peak Peyer's patch tissue male adult 54 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF717OQE ENCSR455GUW Peyer's patch tissue male adult 54 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF611GCH ENCSR454VRA Peak small intestine tissue male child 3 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF494RFU ENCSR454VRA small intestine tissue male child 3 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF730YQE ENCSR454UTH Peak GM19452 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF095KQF ENCSR454UTH GM19452 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF561GIA ENCSR453RFW Peak T-helper 1 cell male adult 24 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF512RKL ENCSR453RFW T-helper 1 cell male adult 24 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF374ZNH ENCSR453MVF Peak stimulated activated naive CD8-positive, alpha-beta T cell male adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 72 hours, 100 ng/mL Interleukin-15 for 72 hours H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF191NJM ENCSR453MVF stimulated activated naive CD8-positive, alpha-beta T cell male adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 72 hours, 100 ng/mL Interleukin-15 for 72 hours H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF192EXF ENCSR453MUW Peak upper lobe of left lung tissue female adult 51 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF054VRQ ENCSR453MUW upper lobe of left lung tissue female adult 51 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF808WGR ENCSR453EVC Peak common myeloid progenitor, CD34-positive male adult 36 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF416AAY ENCSR453EVC common myeloid progenitor, CD34-positive male adult 36 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF753UDX ENCSR452RAX Peak CD4-positive, alpha-beta T cell female adult 37 years treated with Interleukin-6 for 8 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF956YKS ENCSR452RAX CD4-positive, alpha-beta T cell female adult 37 years treated with Interleukin-6 for 8 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF291GKP ENCSR452OSK Peak right cardiac atrium tissue male adult 40 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF866LTQ ENCSR452OSK right cardiac atrium tissue male adult 40 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF662EUG ENCSR452KYY Peak middle frontal area 46 tissue male adult 84 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF496PUD ENCSR452KYY middle frontal area 46 tissue male adult 84 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF849PTY ENCSR452EGE Peak muscle of arm tissue male embryo 120 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF575EKU ENCSR452EGE muscle of arm tissue male embryo 120 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF827ATS ENCSR452DCM Peak CD14-positive monocyte male adult 21 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF459WKU ENCSR452DCM CD14-positive monocyte male adult 21 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF102BHW ENCSR452COS Peak naive thymus-derived CD4-positive, alpha-beta T cell male adult 50 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF567YWL ENCSR452COS naive thymus-derived CD4-positive, alpha-beta T cell male adult 50 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF347NQA ENCSR450PWF Peak thyroid gland tissue female adult 51 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF379EHP ENCSR450PWF thyroid gland tissue female adult 51 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF037IYT ENCSR450FRI Peak esophagus squamous epithelium tissue male adult 54 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF529SUF ENCSR450FRI esophagus squamous epithelium tissue male adult 54 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF161KWY ENCSR450CSM Peak nephron progenitor cell, 8 days post differentiation H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF956JBC ENCSR450CSM nephron progenitor cell, 8 days post differentiation H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF886WNR ENCSR450BLH Peak adrenal gland tissue male adult 54 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF035TJC ENCSR450BLH adrenal gland tissue male adult 54 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF046SHF ENCSR449SEF Peak transverse colon tissue female adult 51 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF626YRZ ENCSR449SEF transverse colon tissue female adult 51 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF521CRS ENCSR449HOQ Peak right hindlimb tissue male embryo 81 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF207ZFW ENCSR449HOQ right hindlimb tissue male embryo 81 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF591PJW ENCSR449AXO Peak neural progenitor cell originated from H9 H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF618RAO ENCSR449AXO neural progenitor cell originated from H9 H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF679HCC ENCSR449AUD with Alzheimer's disease middle frontal area 46 tissue female adult 89 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF541ZET ENCSR448FZC Peak spleen tissue male child 3 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF735OIS ENCSR448FZC spleen tissue male child 3 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF469TNB ENCSR448CEK Peak stimulated activated naive CD4-positive, alpha-beta T cell male adult 43 years treated with 10 ng/mL Interleukin-2 , anti-CD3 and anti-CD28 coated beads H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF800EYR ENCSR448CEK stimulated activated naive CD4-positive, alpha-beta T cell male adult 43 years treated with 10 ng/mL Interleukin-2 , anti-CD3 and anti-CD28 coated beads H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF115HIB ENCSR447ZGY Peak OCI-LY7 H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF611XLA ENCSR447ZGY OCI-LY7 H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF774TRX ENCSR447OHF Peak mucosa of rectum tissue female adult 61 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF705FGY ENCSR447OHF mucosa of rectum tissue female adult 61 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF383OZM ENCSR447ANW Peak coronary artery tissue female adult 51 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF481WXK ENCSR447ANW coronary artery tissue female adult 51 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF107VKS ENCSR446ZCY Peak endodermal cell originated from HUES64 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF084BWL ENCSR446ZCY endodermal cell originated from HUES64 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF948FFU ENCSR446UJL Peak K562 treated with 1 μM NCT-503 for 48 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF518GXR ENCSR446UJL K562 treated with 1 μM NCT-503 for 48 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF013AUH ENCSR446PXV Peak naive thymus-derived CD8-positive, alpha-beta T cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF104SXO ENCSR446PXV naive thymus-derived CD8-positive, alpha-beta T cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF315QPH ENCSR445XYW Peak right lung tissue female embryo 98 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF785AVA ENCSR445XYW right lung tissue female embryo 98 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF247NIO ENCSR445VYQ Peak HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens POLR2A ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF758EEF ENCSR445VYQ HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens POLR2A ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF211USW ENCSR445QDZ Peak naive thymus-derived CD8-positive, alpha-beta T cell male adult 36 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF811VKO ENCSR445QDZ naive thymus-derived CD8-positive, alpha-beta T cell male adult 36 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF282ONV ENCSR445NJB Peak middle frontal area 46 tissue female adult 78 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF203LSD ENCSR445NJB middle frontal area 46 tissue female adult 78 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF623CEM ENCSR444VTC Peak large intestine tissue female embryo 105 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF700ODC ENCSR444VTC large intestine tissue female embryo 105 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF534NGE ENCSR443YJP Peak MG63 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF147AZB ENCSR443YJP MG63 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF210HPC ENCSR443UYU Peak coronary artery tissue female adult 53 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF130NUG ENCSR443UYU coronary artery tissue female adult 53 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF593QYK ENCSR443SLY Peak peripheral blood mononuclear cell male adult 27 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF755OEB ENCSR443SLY peripheral blood mononuclear cell male adult 27 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF277CZQ ENCSR443NWG Peak with mild cognitive impairment middle frontal area 46 tissue female adult 90 or above years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF548SBE ENCSR443NWG with mild cognitive impairment middle frontal area 46 tissue female adult 90 or above years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF876KGY ENCSR443JIO Peak with Alzheimer's disease middle frontal area 46 tissue female adult 86 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF220GPW ENCSR443JIO with Alzheimer's disease middle frontal area 46 tissue female adult 86 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF496GPO ENCSR442ZOI Peak hepatocyte originated from H9 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF137IUT ENCSR442ZOI hepatocyte originated from H9 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF788HTM ENCSR442OSV Peak immature natural killer cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF028QQB ENCSR442OSV immature natural killer cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF368TRF ENCSR442OAV Peak GM18517 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF549PEF ENCSR442OAV GM18517 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF561DSL ENCSR442GKD T-cell male adult 34 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF523ZSW ENCSR442DWQ Peak K562 treated with 0.5 μM MB-3 for 24 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF366IJY ENCSR442DWQ K562 treated with 0.5 μM MB-3 for 24 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF770PLG ENCSR441SAT Peak mesendoderm originated from H1 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF832ZCY ENCSR441SAT mesendoderm originated from H1 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF344YFU ENCSR441OGH left lung tissue male embryo 87 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF172RRR ENCSR441MMO Peak right lung tissue female embryo 110 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF520RDT ENCSR441MMO right lung tissue female embryo 110 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF478IQY ENCSR441JWF Peak PC-9 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF465MDM ENCSR441JWF PC-9 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF830CRR ENCSR441BDP HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens CDK7 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF098VRY ENCSR440ZMH Peak naive B cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF464STM ENCSR440ZMH naive B cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF472HIK ENCSR440QMR Peak iPS DF 19.7 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF727CHU ENCSR440QMR iPS DF 19.7 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF598NQN ENCSR440PMP Peak Peyer's patch tissue male adult 37 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF249ILQ ENCSR440PMP Peyer's patch tissue male adult 37 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF343GGW ENCSR440FZS Peak muscle of trunk tissue female embryo 113 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF959ITI ENCSR440FZS muscle of trunk tissue female embryo 113 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF049THN ENCSR440BPA Peak with Cognitive impairment, Alzheimer's disease head of caudate nucleus tissue female adult 87 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF999YON ENCSR440BPA with Cognitive impairment, Alzheimer's disease head of caudate nucleus tissue female adult 87 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF410XJD ENCSR439XYT Peak activated T-cell male adult 38 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF940OQY ENCSR439XYT activated T-cell male adult 38 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF238IKD ENCSR439TZT Peak heart right ventricle tissue male adult 66 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF808EZU ENCSR439TZT heart right ventricle tissue male adult 66 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF471DVK ENCSR438USP Peak stimulated activated CD4-positive, alpha-beta T cell male adult 42 years treated with anti-CD3 and anti-CD28 coated beads for 48 hours, 100 ng/mL TNF-alpha for 48 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF751MKF ENCSR438USP stimulated activated CD4-positive, alpha-beta T cell male adult 42 years treated with anti-CD3 and anti-CD28 coated beads for 48 hours, 100 ng/mL TNF-alpha for 48 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF567YTX ENCSR438TWI Peak muscle of back tissue male embryo 96 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF709VQA ENCSR438TWI muscle of back tissue male embryo 96 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF266MBV ENCSR438SPO Peak kidney tissue male adult 50 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF354FYC ENCSR438SPO kidney tissue male adult 50 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF628NZZ ENCSR438NCW Peak endocrine pancreas tissue male adult 46 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF264ASR ENCSR438NCW endocrine pancreas tissue male adult 46 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF195OAF ENCSR438LZG Peak stimulated activated naive B cell female adult 39 years treated with 10 μg/mL anti-IgM for 72 hours, 1 μg/mL anti-CD40 for 72 hours, 100 ng/mL Interleukin-4 for 72 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF086TUD ENCSR438LZG stimulated activated naive B cell female adult 39 years treated with 10 μg/mL anti-IgM for 72 hours, 1 μg/mL anti-CD40 for 72 hours, 100 ng/mL Interleukin-4 for 72 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF858XXS ENCSR438KQU Peak middle frontal area 46 tissue female adult 83 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF398ITJ ENCSR438KQU middle frontal area 46 tissue female adult 83 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF381ZYH ENCSR438DSO Peak common myeloid progenitor, CD34-positive male adult 36 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF939CFQ ENCSR438DSO common myeloid progenitor, CD34-positive male adult 36 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF428OFR ENCSR438BEX Peak mucosa of stomach tissue male adult 59 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF003GBT ENCSR438BEX mucosa of stomach tissue male adult 59 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF683JKD ENCSR437QMD Peak stomach tissue male child 3 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF916TLI ENCSR437QMD stomach tissue male child 3 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF700CNU ENCSR437PXY Peak with multiple sclerosis CD4-positive, alpha-beta memory T cell DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF894IKL ENCSR437PXY with multiple sclerosis CD4-positive, alpha-beta memory T cell DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF232HLL ENCSR437OOJ Peak heart right ventricle tissue female adult 59 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF355NHX ENCSR437OOJ heart right ventricle tissue female adult 59 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF913MOR ENCSR437KLY Peak kidney tissue female embryo 85 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF184QPT ENCSR437KLY kidney tissue female embryo 85 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF785UIC ENCSR437AYW Peak vagina tissue female adult 53 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF547JQK ENCSR437AYW vagina tissue female adult 53 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF240KIZ ENCSR436JRE Peak stimulated activated CD4-positive, alpha-beta T cell male adult 20 years treated with 10 ng/mL Interleukin-2 , anti-CD3 and anti-CD28 coated beads DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF663KDS ENCSR436JRE stimulated activated CD4-positive, alpha-beta T cell male adult 20 years treated with 10 ng/mL Interleukin-2 , anti-CD3 and anti-CD28 coated beads DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF285XJM ENCSR436JNB Peak spleen tissue female adult 61 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF438NSZ ENCSR436JNB spleen tissue female adult 61 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF145TXU ENCSR435NHO Peak embryonic facial prominence tissue embryo 53 days and embryo 58 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF565SPF ENCSR435NHO embryonic facial prominence tissue embryo 53 days and embryo 58 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF897MYW ENCSR435FGK Peak A673 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF958CFK ENCSR435FGK A673 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF857SLT ENCSR434XLP Peak tibial nerve tissue male adult 37 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF670BZH ENCSR434XLP tibial nerve tissue male adult 37 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF512XYE ENCSR434WEY Peak chondrocyte H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF466YVQ ENCSR434WEY chondrocyte H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF383WMO ENCSR434OBM Peak foreskin melanocyte male newborn DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF226ROM ENCSR434OBM foreskin melanocyte male newborn DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF353CRP ENCSR434AFF Peak neutrophil male H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF336XON ENCSR434AFF neutrophil male H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF635PVA ENCSR433WOV Peak activated T-helper 9 cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 16 hours, 50 U/mL Interleukin-2 for 16 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF760FTT ENCSR433WOV activated T-helper 9 cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 16 hours, 50 U/mL Interleukin-2 for 16 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF266SRM ENCSR433PUR Peak radial glial cell stably expressing HES5 originated from H9 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF986LEV ENCSR433PUR radial glial cell stably expressing HES5 originated from H9 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF060IBS ENCSR433NEX Peak with mild cognitive impairment posterior cingulate gyrus tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF126WHA ENCSR433NEX with mild cognitive impairment posterior cingulate gyrus tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF820UCJ ENCSR432QFU with Cognitive impairment, Alzheimer's disease head of caudate nucleus tissue male adult 73 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF456UJK ENCSR432LMR Peak mesothelial cell of epicardium H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF109WCV ENCSR432LMR mesothelial cell of epicardium H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF082RJS ENCSR432KIH Peak spleen tissue male adult 34 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF271FIA ENCSR432KIH spleen tissue male adult 34 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF310MNL ENCSR432GOP Peak lower leg skin tissue male adult 37 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF230VWV ENCSR432GOP lower leg skin tissue male adult 37 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF246SHS ENCSR432DPY Peak body of pancreas tissue female adult 51 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF853NJX ENCSR432DPY body of pancreas tissue female adult 51 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF155KPP ENCSR431UEM left hindlimb tissue male embryo 81 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF853JKX ENCSR430YRJ Peak KMS-11 CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF650WNL ENCSR430YRJ KMS-11 CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF085HVQ ENCSR430TEE Peak lower leg skin tissue female adult 53 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF206TKN ENCSR430TEE lower leg skin tissue female adult 53 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF485JLF ENCSR430RVP Peak amnion tissue male embryo 16 weeks H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF437CFO ENCSR430RVP amnion tissue male embryo 16 weeks H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF340OYR ENCSR429YAE Peak iPS-18a H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF071JJT ENCSR429YAE iPS-18a H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF262NUN ENCSR429VWL Peak upper lobe of left lung tissue female adult 51 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF282VQS ENCSR429VWL upper lobe of left lung tissue female adult 51 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF737LQI ENCSR429RHR Peak RKO DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF393TOX ENCSR429RHR RKO DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF973OZS ENCSR428ZCP with Cognitive impairment, Alzheimer's disease middle frontal area 46 tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF856YZS ENCSR428XAX Peak ovary tissue female embryo DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF519ESI ENCSR428XAX ovary tissue female embryo DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF410RHW ENCSR428BKN Peak gastrocnemius medialis tissue female adult 53 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF055HAN ENCSR428BKN gastrocnemius medialis tissue female adult 53 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF778XSL ENCSR426VHO Peak spleen tissue male adult 37 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF837LGD ENCSR426VHO spleen tissue male adult 37 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF768HQU ENCSR426TPQ Peak psoas muscle tissue male child 3 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF172AJV ENCSR426TPQ psoas muscle tissue male child 3 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF676RAT ENCSR426KLJ with Cognitive impairment, Alzheimer's disease middle frontal area 46 tissue female adult 87 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF963IKO ENCSR426IEA Peak KBM-7 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF331PBR ENCSR426IEA KBM-7 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF998XYN ENCSR425WQW GM19324 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF719DFT ENCSR425PQI Peak trophoblast cell originated from H1 H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF004BGC ENCSR425PQI trophoblast cell originated from H1 H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF835LMF ENCSR425NQT Peak adrenal gland tissue female adult 30 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF623WKE ENCSR425NQT adrenal gland tissue female adult 30 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF348NMA ENCSR425MRQ Peak CD4-positive, alpha-beta T cell male adult 37 years treated with 7.5 μg/kg G-CSF for 4 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF427BWF ENCSR425MRQ CD4-positive, alpha-beta T cell male adult 37 years treated with 7.5 μg/kg G-CSF for 4 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF309IDY ENCSR425FUS Peak from a donor with amyotrophic lateral sclerosis motor neuron H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF638FPK ENCSR425FUS from a donor with amyotrophic lateral sclerosis motor neuron H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF028MQN ENCSR424MWH Peak CD4-positive, alpha-beta T cell female adult 39 years treated with Interleukin-21 for 1 hour DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF909CMG ENCSR424MWH CD4-positive, alpha-beta T cell female adult 39 years treated with Interleukin-21 for 1 hour DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF426IWO ENCSR424KQH Peak GM21447 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF616HTW ENCSR424KQH GM21447 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF032TDV ENCSR424IJM Peak with Cognitive impairment middle frontal area 46 tissue female adult 90 or above years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF046NYM ENCSR424IJM with Cognitive impairment middle frontal area 46 tissue female adult 90 or above years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF595WAL ENCSR423ZUM Peak with mild cognitive impairment middle frontal area 46 tissue female adult 90 or above years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF111MOL ENCSR423ZUM with mild cognitive impairment middle frontal area 46 tissue female adult 90 or above years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF099ASU ENCSR423MQG Peak brain organoid male adult 53 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF065GAN ENCSR423MQG brain organoid male adult 53 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF061PEF ENCSR423AKG Peak foreskin melanocyte male newborn H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF846SFT ENCSR423AKG foreskin melanocyte male newborn H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF502RTI ENCSR422SUG Peak MCF-7 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF782BVX ENCSR422SUG MCF-7 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF963RXJ ENCSR422RPD Peak GM21717 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF146GHP ENCSR422RPD GM21717 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF575EXE ENCSR422PVL Peak left kidney tissue female embryo 147 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF799IDS ENCSR422PVL left kidney tissue female embryo 147 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF391DRG ENCSR422JNY Peak OCI-LY1 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF422ACL ENCSR422JNY OCI-LY1 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF837MGS ENCSR422IIZ Peak ascending aorta tissue female adult 51 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF707HLC ENCSR422IIZ ascending aorta tissue female adult 51 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF873LHX ENCSR421HUB Peak sigmoid colon tissue male adult 34 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF423YBA ENCSR421HUB sigmoid colon tissue male adult 34 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF820JEG ENCSR421GEN Peak heart left ventricle tissue female adult 59 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF614FJF ENCSR421GEN heart left ventricle tissue female adult 59 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF790QKJ ENCSR420RWU Peak brain tissue male embryo 105 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF798GHR ENCSR420RWU brain tissue male embryo 105 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF911BRT ENCSR420RVW Peak HG02870 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF684SCN ENCSR420RVW HG02870 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF152PRJ ENCSR420NOA Peak hematopoietic multipotent progenitor cell treated with interleukin-3 for 11 days, kit ligand for 11 days, hydrocortisone succinate for 11 days, erythropoietin for 11 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF746ODB ENCSR420NOA hematopoietic multipotent progenitor cell treated with interleukin-3 for 11 days, kit ligand for 11 days, hydrocortisone succinate for 11 days, erythropoietin for 11 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF534ZTN ENCSR420NIU Peak K562 treated with 10 nM Vorinostat for 48 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF600QCN ENCSR420NIU K562 treated with 10 nM Vorinostat for 48 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF006DXR ENCSR420IOA Peak amnion tissue male embryo 16 weeks H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF211RIL ENCSR420IOA amnion tissue male embryo 16 weeks H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF475KJF ENCSR419UYY GM19025 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF784JMV ENCSR419OAR Peak T-cell male adult 24 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF878FQR ENCSR419OAR T-cell male adult 24 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF051BCE ENCSR419MZH Peak adrenal gland tissue female embryo 108 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF438OIC ENCSR419MZH adrenal gland tissue female embryo 108 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF079DVR ENCSR419KXU Peak with Alzheimer's disease middle frontal area 46 tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF675NNX ENCSR419KXU with Alzheimer's disease middle frontal area 46 tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF166XXE ENCSR419CKG Peak stimulated activated CD4-positive, alpha-beta T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 1 hour, 100 ng/mL Interleukin-4 for 1 hour DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF369LDM ENCSR419CKG stimulated activated CD4-positive, alpha-beta T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 1 hour, 100 ng/mL Interleukin-4 for 1 hour DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF777OIW ENCSR419BNY Peak heart left ventricle tissue male adult 66 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF111KQW ENCSR419BNY heart left ventricle tissue male adult 66 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF955JMH ENCSR419BDT Peak placenta tissue female embryo 113 days H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF111SZU ENCSR419BDT placenta tissue female embryo 113 days H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF701KWW ENCSR419ANE Peak Peyer's patch tissue male adult 37 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF758HAD ENCSR419ANE Peyer's patch tissue male adult 37 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF507HNU ENCSR418JIS Peak layer of hippocampus tissue female adult 75 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF838MXD ENCSR418JIS layer of hippocampus tissue female adult 75 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF465VZE ENCSR417LPB Peak with Cognitive impairment head of caudate nucleus tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF706SQR ENCSR417LPB with Cognitive impairment head of caudate nucleus tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF636NTS ENCSR416AUW Peak breast epithelium tissue female adult 53 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF585QLC ENCSR416AUW breast epithelium tissue female adult 53 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF741KNQ ENCSR414ZUA Peak right kidney tissue male embryo 108 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF324HQU ENCSR414ZUA right kidney tissue male embryo 108 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF631VNA ENCSR414QLH Peak T-helper 2 cell male adult 35 years treated with 5 μg/mL Interferon-gamma antibody , 100 ng/mL Interleukin-4 H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF489NSZ ENCSR414QLH T-helper 2 cell male adult 35 years treated with 5 μg/mL Interferon-gamma antibody , 100 ng/mL Interleukin-4 H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF993PAU ENCSR414IHC Peak T-cell male adult 21 years treated with 7.5 μg/kg G-CSF for 4 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF738EYR ENCSR414IHC T-cell male adult 21 years treated with 7.5 μg/kg G-CSF for 4 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF099KMD ENCSR414DVK Peak adrenal gland tissue female adult 51 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF096NDM ENCSR414DVK adrenal gland tissue female adult 51 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF864GPE ENCSR413WJD Peak lung tissue embryo 101 days H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF939ELA ENCSR413WJD lung tissue embryo 101 days H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF853NOM ENCSR413QXO Peak large intestine tissue male embryo 108 days H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF839JMI ENCSR413QXO large intestine tissue male embryo 108 days H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF449BZQ ENCSR413QLR Peak suprapubic skin tissue male adult 37 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF634LYO ENCSR413QLR suprapubic skin tissue male adult 37 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF395NGH ENCSR412NMI Peak left cardiac atrium tissue female embryo 101 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF584XQY ENCSR412NMI left cardiac atrium tissue female embryo 101 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF693GXV ENCSR411NFB Peak activated T-cell female adult 33 years treated with 50 U/mL Interleukin-2 for 4 hours, anti-CD3 and anti-CD28 coated beads for 4 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF728DLQ ENCSR411NFB activated T-cell female adult 33 years treated with 50 U/mL Interleukin-2 for 4 hours, anti-CD3 and anti-CD28 coated beads for 4 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF324DLM ENCSR411MGY muscle of trunk tissue female embryo 121 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF333PRU ENCSR410MFU Peak with mild cognitive impairment head of caudate nucleus tissue female adult 88 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF308ARF ENCSR410MFU with mild cognitive impairment head of caudate nucleus tissue female adult 88 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF506YHJ ENCSR410IYF Peak T-cell male adult 28 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF319JVY ENCSR410IYF T-cell male adult 28 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF323KMY ENCSR410DWV Peak from a donor with amyotrophic lateral sclerosis motor neuron ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF345PTN ENCSR410DWV from a donor with amyotrophic lateral sclerosis motor neuron ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF884KXS ENCSR409ZBD Peak natural killer cell male adult 47 years treated with 100 ng/mL Interleukin-12 subunit alpha for 72 hours, 100 ng/mL Interleukin-15 for 72 hours, 100 ng/mL Interleukin-12 subunit beta for 72 hours, 100 ng/mL Interleukin-18 for 72 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF119DCK ENCSR409ZBD natural killer cell male adult 47 years treated with 100 ng/mL Interleukin-12 subunit alpha for 72 hours, 100 ng/mL Interleukin-15 for 72 hours, 100 ng/mL Interleukin-12 subunit beta for 72 hours, 100 ng/mL Interleukin-18 for 72 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF701KTT ENCSR409YCK Peak GM19043 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF575ZRJ ENCSR409YCK GM19043 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF798MEO ENCSR408XTO Peak body of pancreas tissue female adult 51 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF893BCC ENCSR408XTO body of pancreas tissue female adult 51 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF628NXP ENCSR408IVU Peak GM21526 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF903JQB ENCSR408IVU GM21526 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF907NNX ENCSR408GYQ Peak CD4-positive, alpha-beta T cell female adult 37 years treated with Interleukin-17A for 4 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF253YZY ENCSR408GYQ CD4-positive, alpha-beta T cell female adult 37 years treated with Interleukin-17A for 4 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF551MLS ENCSR408CSV Peak brain organoid female embryo 5 days, 30 days post differentiation H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF768ANE ENCSR408CSV brain organoid female embryo 5 days, 30 days post differentiation H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF169UNI ENCSR407WGG Peak natural killer cell female adult 41 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF342GNP ENCSR407WGG natural killer cell female adult 41 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF180DCG ENCSR407QDX Peak activated T-cell male adult 38 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF356ZKI ENCSR407QDX activated T-cell male adult 38 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF984OPI ENCSR406RTH Peak CD4-positive, CD25-positive, alpha-beta regulatory T cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF999RBA ENCSR406RTH CD4-positive, CD25-positive, alpha-beta regulatory T cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF040HXB ENCSR406DUQ Peak CD14-positive monocyte male adult 51 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF412XPV ENCSR406DUQ CD14-positive monocyte male adult 51 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF658FMU ENCSR406AJH Peak middle frontal area 46 tissue female adult 82 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF616FVZ ENCSR406AJH middle frontal area 46 tissue female adult 82 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF261FVF ENCSR405YLV Peak body of pancreas tissue female adult 51 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF225DKL ENCSR405YLV body of pancreas tissue female adult 51 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF925MHH ENCSR405TXU Peak adipocyte DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF776FME ENCSR405TXU adipocyte DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF300XQV ENCSR405FZE duodenal mucosa tissue male adult 59 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF545VRH ENCSR405ESP Peak adrenal gland tissue male adult 34 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF659XPV ENCSR405ESP adrenal gland tissue male adult 34 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF590QBX ENCSR404TSP Peak mucosa of descending colon tissue female adult 61 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF755FPE ENCSR404TSP mucosa of descending colon tissue female adult 61 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF838TQA ENCSR404OEO Peak HG02763 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF997MUT ENCSR404OEO HG02763 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF196BRS ENCSR404LLJ Peak transverse colon tissue female adult 53 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF033RPN ENCSR404LLJ transverse colon tissue female adult 53 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF726VPF ENCSR403PHS Peak with mild cognitive impairment middle frontal area 46 tissue male adult 90 or above years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF666VNK ENCSR403PHS with mild cognitive impairment middle frontal area 46 tissue male adult 90 or above years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF108JBO ENCSR403PEI Peak esophagus muscularis mucosa tissue female adult 51 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF061HFF ENCSR403PEI esophagus muscularis mucosa tissue female adult 51 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF735HKP ENCSR403KAA Peak fibroblast of breast female adult 17 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF244FXK ENCSR403KAA fibroblast of breast female adult 17 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF487WWX ENCSR402JWL Peak heart left ventricle tissue male adult 73 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF593RGX ENCSR402JWL heart left ventricle tissue male adult 73 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF869JMQ ENCSR402IDP Peak MM.1S CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF838OJW ENCSR402IDP MM.1S CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF092QWV ENCSR402HFW Peak pancreas tissue female adult 30 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF907EJV ENCSR402HFW pancreas tissue female adult 30 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF506EFM ENCSR401VZL Peak middle frontal area 46 tissue male adult 81 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF084JUK ENCSR401VZL middle frontal area 46 tissue male adult 81 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF893XHV ENCSR401UZL Peak middle frontal area 46 tissue male adult 78 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF284PMB ENCSR401UZL middle frontal area 46 tissue male adult 78 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF112KGV ENCSR401KZW Peak spleen tissue male adult 26 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF709HME ENCSR401KZW spleen tissue male adult 26 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF695UWH ENCSR401ESD Peak tibial nerve tissue female adult 51 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF639UGW ENCSR401ESD tibial nerve tissue female adult 51 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF907YBT ENCSR400YJR Peak naive thymus-derived CD8-positive, alpha-beta T cell DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF563KPE ENCSR400YJR naive thymus-derived CD8-positive, alpha-beta T cell DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF889EST ENCSR400MOP Peak with Alzheimer's disease head of caudate nucleus tissue male adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF873DKH ENCSR400MOP with Alzheimer's disease head of caudate nucleus tissue male adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF893XIF ENCSR400ISH Peak HG02571 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF008HZU ENCSR400ISH HG02571 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF784DTK ENCSR399OSE Peak heart left ventricle tissue female adult 47 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF016KCE ENCSR399OSE heart left ventricle tissue female adult 47 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF471YCZ ENCSR398RET Peak endodermal cell CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF976GAM ENCSR398RET endodermal cell CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF602KUC ENCSR398QLU Peak CD8-positive, alpha-beta memory T cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF310XQG ENCSR398QLU CD8-positive, alpha-beta memory T cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF890VKL ENCSR398JUP Peak ureter tissue female adult 47 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF770ONG ENCSR398JUP ureter tissue female adult 47 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF545DGR ENCSR398CXD Peak CD4-positive, CD25-positive, alpha-beta regulatory T cell male adult 24 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF408JGY ENCSR398CXD CD4-positive, CD25-positive, alpha-beta regulatory T cell male adult 24 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF924QWP ENCSR397NQK Peak with basal cell carcinoma skin epidermis tissue male adult 65 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF906LLL ENCSR397NQK with basal cell carcinoma skin epidermis tissue male adult 65 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF442DUZ ENCSR396ZIN Peak T-cell female adult 35 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF011IOW ENCSR396ZIN T-cell female adult 35 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF268UCI ENCSR396RXX Peak CD4-positive, alpha-beta T cell male adult 20 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF427RME ENCSR396RXX CD4-positive, alpha-beta T cell male adult 20 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF383WCH ENCSR396EWH Peak stimulated activated naive CD4-positive, alpha-beta T cell male adult 43 years treated with 10 ng/mL Interleukin-2 , anti-CD3 and anti-CD28 coated beads DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF229FLG ENCSR396EWH stimulated activated naive CD4-positive, alpha-beta T cell male adult 43 years treated with 10 ng/mL Interleukin-2 , anti-CD3 and anti-CD28 coated beads DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF604AFM ENCSR395YXN Peak T-cell male adult 37 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF540TKM ENCSR395YXN T-cell male adult 37 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF484GHQ ENCSR395HAE Peak heart left ventricle tissue female adult 59 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF414ADM ENCSR395HAE heart left ventricle tissue female adult 59 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF557PFX ENCSR395EZY Peak placenta tissue male embryo DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF556ECX ENCSR395EZY placenta tissue male embryo DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF307IFQ ENCSR394JFQ Peak immature natural killer cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF222VSV ENCSR394JFQ immature natural killer cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF637VWP ENCSR393SYU Peak neutrophil H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF685DZI ENCSR393SYU neutrophil H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF848BOT ENCSR392YGP Peak effector memory CD8-positive, alpha-beta T cell male adult 33 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF428KAK ENCSR392YGP effector memory CD8-positive, alpha-beta T cell male adult 33 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF117BJT ENCSR392UJM Peak ovary tissue female adult 61 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF187FSZ ENCSR392UJM ovary tissue female adult 61 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF525QAW ENCSR392GCE Peak heart tissue male embryo 120 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF238VZG ENCSR392GCE heart tissue male embryo 120 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF849HUG ENCSR391ZKN Peak Peyer's patch tissue female adult 51 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF715AGA ENCSR391ZKN Peyer's patch tissue female adult 51 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF444HXP ENCSR391YAV Peak sigmoid colon tissue male adult 54 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF028FLY ENCSR391YAV sigmoid colon tissue male adult 54 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF634VUA ENCSR391NPE Peak 22Rv1 H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF206VZR ENCSR391NPE 22Rv1 H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF938PPI ENCSR391EQV Peak natural killer cell male adult 37 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF608XPJ ENCSR391EQV natural killer cell male adult 37 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF837EJL ENCSR390UVH Peak K562 treated with 2.5 μM Galeterone for 12 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF628DWA ENCSR390UVH K562 treated with 2.5 μM Galeterone for 12 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF163NMR ENCSR390SLL Peak left cardiac atrium tissue female adult 42 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF834ZKF ENCSR390SLL left cardiac atrium tissue female adult 42 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF978HDZ ENCSR389WJO Peak HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens RAD21 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF322YJM ENCSR389WJO HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens RAD21 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF783BCZ ENCSR389IHS Peak T-cell male adult 24 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF789RFF ENCSR389IHS T-cell male adult 24 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF843OKX ENCSR388NOI Peak CD4-positive, alpha-beta T cell female adult 39 years treated with Interleukin-17A for 1 hour DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF181ZVA ENCSR388NOI CD4-positive, alpha-beta T cell female adult 39 years treated with Interleukin-17A for 1 hour DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF530GUP ENCSR388HWB Peak naive thymus-derived CD8-positive, alpha-beta T cell male adult 36 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF766SOD ENCSR388HWB naive thymus-derived CD8-positive, alpha-beta T cell male adult 36 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF904AUX ENCSR388DHS Peak psoas muscle tissue female adult 59 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF804POQ ENCSR388DHS psoas muscle tissue female adult 59 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF449TRL ENCSR387EYA Peak naive thymus-derived CD4-positive, alpha-beta T cell male adult 43 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF399QIW ENCSR387EYA naive thymus-derived CD4-positive, alpha-beta T cell male adult 43 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF153PKZ ENCSR386XPD Peak middle frontal area 46 tissue female adult 82 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF497DIH ENCSR386XPD middle frontal area 46 tissue female adult 82 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF337AWR ENCSR386KFO Peak with Alzheimer's disease middle frontal area 46 tissue female adult 89 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF914PSJ ENCSR386KFO with Alzheimer's disease middle frontal area 46 tissue female adult 89 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF759TEF ENCSR386HAZ Peak transverse colon tissue female adult 51 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF668GUI ENCSR386HAZ transverse colon tissue female adult 51 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF401VHL ENCSR386CKJ Peak skin epidermis tissue male adult 75 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF492ROW ENCSR386CKJ skin epidermis tissue male adult 75 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF516VCH ENCSR386BOX Peak activated CD4 positive, naive alpha-beta T cell male adult 48 years treated with 50 U/mL Interleukin-2 for 72 hours, anti-CD3 and anti-CD28 coated beads for 72 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF950TCX ENCSR386BOX activated CD4 positive, naive alpha-beta T cell male adult 48 years treated with 50 U/mL Interleukin-2 for 72 hours, anti-CD3 and anti-CD28 coated beads for 72 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF556HBF ENCSR385XHV Peak T-cell female adult 31 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF091ALI ENCSR385XHV T-cell female adult 31 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF956TSB ENCSR385SZQ Peak MCF 10A treated with 1 μM tamoxifen for 6 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF230JUW ENCSR385SZQ MCF 10A treated with 1 μM tamoxifen for 6 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF952KRU ENCSR385AMY Peak hindlimb muscle tissue male embryo 120 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF641EOS ENCSR385AMY hindlimb muscle tissue male embryo 120 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF678TFU ENCSR384MUF Peak tibial nerve tissue male adult 37 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF201UPO ENCSR384MUF tibial nerve tissue male adult 37 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF924OWK ENCSR384GGJ Peak T-helper 1 cell male adult 38 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF906SNG ENCSR384GGJ T-helper 1 cell male adult 38 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF283NFW ENCSR384AIT Peak naive thymus-derived CD4-positive, alpha-beta T cell male adult 43 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF436NYF ENCSR384AIT naive thymus-derived CD4-positive, alpha-beta T cell male adult 43 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF470TCA ENCSR383SNM Peak iPS DF 19.11 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF167NIE ENCSR383SNM iPS DF 19.11 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF875OKM ENCSR383RDZ Peak GM19328 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF580WZB ENCSR383RDZ GM19328 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF241XVV ENCSR383BLX Peak fibroblast of skin of right biceps male embryo 97 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF027NBT ENCSR383BLX fibroblast of skin of right biceps male embryo 97 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF239LAM ENCSR383AEO Peak layer of hippocampus tissue male adult 73 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF231KHQ ENCSR383AEO layer of hippocampus tissue male adult 73 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF273DIB ENCSR382LBS Peak NCI-H929 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF573SLV ENCSR382LBS NCI-H929 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF828UCX ENCSR382JUJ Peak superior temporal gyrus tissue male adult 84 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF239CTO ENCSR382JUJ superior temporal gyrus tissue male adult 84 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF079OIA ENCSR381PXW Peak B cell male adult 21 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF134KAD ENCSR381PXW B cell male adult 21 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF113TCR ENCSR381LJX Peak HG03039 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF690ERQ ENCSR381LJX HG03039 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF319RUN ENCSR380WJL Peak colonic mucosa tissue female adult 41 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF546ZNQ ENCSR380WJL colonic mucosa tissue female adult 41 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF796JNW ENCSR380TXB Peak stimulated activated CD8-positive, alpha-beta memory T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 24 hours, 100 ng/mL Interleukin-4 for 24 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF990VDF ENCSR380TXB stimulated activated CD8-positive, alpha-beta memory T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 24 hours, 100 ng/mL Interleukin-4 for 24 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF088YOL ENCSR380KOO Peak angular gyrus tissue male adult 81 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF721FMJ ENCSR380KOO angular gyrus tissue male adult 81 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF768LFO ENCSR379WXM Peak neurosphere embryo 15 weeks originated from ganglionic eminence H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF177VFG ENCSR379WXM neurosphere embryo 15 weeks originated from ganglionic eminence H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF107XEN ENCSR379NMT Peak stimulated activated naive B cell male adult 40 years treated with 1 μg/mL anti-CD40 for 72 hours, 10 μg/mL anti-IgM for 72 hours, 100 ng/mL Interleukin-4 for 72 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF934HGD ENCSR379NMT stimulated activated naive B cell male adult 40 years treated with 1 μg/mL anti-CD40 for 72 hours, 10 μg/mL anti-IgM for 72 hours, 100 ng/mL Interleukin-4 for 72 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF936JXA ENCSR379DNM Peak with mild cognitive impairment middle frontal area 46 tissue female adult 90 or above years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF280YLT ENCSR379DNM with mild cognitive impairment middle frontal area 46 tissue female adult 90 or above years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF041CKA ENCSR378KET Peak middle frontal area 46 tissue male adult 83 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF394BNS ENCSR378KET middle frontal area 46 tissue male adult 83 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF188BNI ENCSR378EPS Peak with multiple sclerosis CD14-positive monocyte H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF091GNW ENCSR378EPS with multiple sclerosis CD14-positive monocyte H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF696ASB ENCSR378BVM Peak with mild cognitive impairment middle frontal area 46 tissue female adult 87 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF888DOQ ENCSR378BVM with mild cognitive impairment middle frontal area 46 tissue female adult 87 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF321MCE ENCSR377KDN Peak heart left ventricle tissue male child 3 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF190UNW ENCSR377KDN heart left ventricle tissue male child 3 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF690JBP ENCSR377ILM Peak spleen tissue male adult 54 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF187WMV ENCSR377ILM spleen tissue male adult 54 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF070MFL ENCSR377CRU Peak stimulated activated CD8-positive, alpha-beta memory T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 4 hours, 100 ng/mL Interleukin-7 for 4 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF512INR ENCSR377CRU stimulated activated CD8-positive, alpha-beta memory T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 4 hours, 100 ng/mL Interleukin-7 for 4 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF790YUH ENCSR376YMU Peak HG03439 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF120TUR ENCSR376YMU HG03439 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF725NNJ ENCSR376EOW Peak heart right ventricle tissue male adult 66 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF430LIA ENCSR376EOW heart right ventricle tissue male adult 66 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF571LEJ ENCSR376DAE Peak CD4-positive, alpha-beta T cell male adult 20 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF753JMD ENCSR376DAE CD4-positive, alpha-beta T cell male adult 20 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF746TCR ENCSR375VXU Peak Peyer's patch tissue female adult 53 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF945PHV ENCSR375VXU Peyer's patch tissue female adult 53 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF603OCI ENCSR374VQC Peak right cardiac atrium tissue female adult 46 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF954QGZ ENCSR374VQC right cardiac atrium tissue female adult 46 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF046GNG ENCSR374PKX Peak middle frontal area 46 tissue male adult 83 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF280OBE ENCSR374PKX middle frontal area 46 tissue male adult 83 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF291ORY ENCSR373TLU Peak with Alzheimer's disease head of caudate nucleus tissue female adult 86 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF108VDE ENCSR373TLU with Alzheimer's disease head of caudate nucleus tissue female adult 86 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF981RSM ENCSR373TDL Peak right lobe of liver tissue female adult 53 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF614WHB ENCSR373TDL right lobe of liver tissue female adult 53 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF495FUG ENCSR373NFA Peak activated naive CD4-positive, alpha-beta T cell male adult 50 years treated with anti-CD3 and anti-CD28 coated beads for 72 hours, 50 U/mL Interleukin-2 for 72 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF093FUQ ENCSR373NFA activated naive CD4-positive, alpha-beta T cell male adult 50 years treated with anti-CD3 and anti-CD28 coated beads for 72 hours, 50 U/mL Interleukin-2 for 72 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF203FIU ENCSR373MTM Peak CD4-positive, alpha-beta memory T cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF868CTT ENCSR373MTM CD4-positive, alpha-beta memory T cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF169IJH ENCSR373GMM Peak natural killer cell male adult 33 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF466HAO ENCSR373GMM natural killer cell male adult 33 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF322ZQP ENCSR373BIX Peak CD1c-positive myeloid dendritic cell DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF389RQE ENCSR373BIX CD1c-positive myeloid dendritic cell DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF245PVD ENCSR372JWF Peak middle frontal area 46 tissue male adult 71 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF816YAI ENCSR372JWF middle frontal area 46 tissue male adult 71 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF308JQS ENCSR372IGW Peak GM19395 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF060JKX ENCSR372IGW GM19395 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF497XYX ENCSR372FFA Peak H9 H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF988WEQ ENCSR372FFA H9 H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF171JYV ENCSR371KRY Peak fibroblast of skin of left quadriceps male embryo 97 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF475BKV ENCSR371KRY fibroblast of skin of left quadriceps male embryo 97 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF315QVY ENCSR371CCL Peak suppressor macrophage male adult 21 years and male adult 40 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF703OAE ENCSR371CCL suppressor macrophage male adult 21 years and male adult 40 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF890OSD ENCSR370OQJ Peak heart right ventricle tissue male adult 40 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF378PDO ENCSR370OQJ heart right ventricle tissue male adult 40 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF805GMZ ENCSR370JJY Peak GM23338 H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF114QME ENCSR370JJY GM23338 H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF503XXP ENCSR369WMO Peak immature natural killer cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF934KNB ENCSR369WMO immature natural killer cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF433UFM ENCSR369RRE Peak with Alzheimer's disease middle frontal area 46 tissue female adult 74 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF326PAG ENCSR369RRE with Alzheimer's disease middle frontal area 46 tissue female adult 74 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF023FOB ENCSR368YPC Peak peripheral blood mononuclear cell male adult 32 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF677KJI ENCSR368YPC peripheral blood mononuclear cell male adult 32 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF584SYY ENCSR368FYV Peak HG02852 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF893KEJ ENCSR368FYV HG02852 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF093IEJ ENCSR368CYW Peak NCI-H929 H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF900UMO ENCSR368CYW NCI-H929 H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF127JRR ENCSR368BOE Peak lower lobe of left lung tissue male adult 60 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF032IZZ ENCSR368BOE lower lobe of left lung tissue male adult 60 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF123CUF ENCSR367WYJ Peak psoas muscle tissue male child 3 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF375UAV ENCSR367WYJ psoas muscle tissue male child 3 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF433HUG ENCSR367VRA Peak adipocyte originated from mesenchymal stem cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF968LWB ENCSR367VRA adipocyte originated from mesenchymal stem cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF801IGF ENCSR367EKE Peak CD8-positive, alpha-beta T cell male adult 21 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF507AEW ENCSR367EKE CD8-positive, alpha-beta T cell male adult 21 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF083NBI ENCSR366YTD Peak T-cell male adult 37 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF470NUO ENCSR366YTD T-cell male adult 37 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF199QQE ENCSR366NBE Peak Calu3 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF097WPE ENCSR366NBE Calu3 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF939GDE ENCSR366EQH Peak large intestine tissue male embryo 115 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF995LSG ENCSR366EQH large intestine tissue male embryo 115 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF047RIJ ENCSR366EGE Peak heart tissue embryo 101 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF567OUR ENCSR366EGE heart tissue embryo 101 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF727USP ENCSR366CEQ Peak K562 treated with 1 μM AR-42 for 4 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF239OWJ ENCSR366CEQ K562 treated with 1 μM AR-42 for 4 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF336CEG ENCSR365NDK Peak ovary tissue female adult 51 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF887BVC ENCSR365NDK ovary tissue female adult 51 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF827PQP ENCSR365FVU Peak posterior cingulate gyrus tissue male adult 78 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF148TKD ENCSR365FVU posterior cingulate gyrus tissue male adult 78 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF939GDD ENCSR365CUB Peak activated CD4-positive, alpha-beta T cell male adult 35 years treated with anti-CD3 and anti-CD28 coated beads DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF600IHC ENCSR365CUB activated CD4-positive, alpha-beta T cell male adult 35 years treated with anti-CD3 and anti-CD28 coated beads DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF578VIF ENCSR364TKL Peak renal pelvis tissue male embryo 97 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF159MCJ ENCSR364TKL renal pelvis tissue male embryo 97 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF619KVP ENCSR364OIK Peak with multiple sclerosis naive B cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF515AFJ ENCSR364OIK with multiple sclerosis naive B cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF435UYX ENCSR364MFN Peak hepatocyte originated from H9 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF902EEH ENCSR364MFN hepatocyte originated from H9 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF757CXO ENCSR363LUK Peak CD4-positive, alpha-beta T cell female adult 26 years treated with Interleukin-15 for 1 hour DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF869HAF ENCSR363LUK CD4-positive, alpha-beta T cell female adult 26 years treated with Interleukin-15 for 1 hour DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF737FYL ENCSR363BTB Peak CD8-positive, alpha-beta T cell male adult 21 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF641UWX ENCSR363BTB CD8-positive, alpha-beta T cell male adult 21 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF412KXN ENCSR362ZFC Peak type B pancreatic cell DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF647HDA ENCSR362ZFC type B pancreatic cell DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF197XAQ ENCSR362QYU Peak suprapubic skin tissue male adult 37 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF508OUM ENCSR362QYU suprapubic skin tissue male adult 37 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF989HPW ENCSR362JSZ Peak hematopoietic multipotent progenitor cell treated with interleukin-3 for 17 days, kit ligand for 17 days, hydrocortisone succinate for 17 days, erythropoietin for 17 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF841CYA ENCSR362JSZ hematopoietic multipotent progenitor cell treated with interleukin-3 for 17 days, kit ligand for 17 days, hydrocortisone succinate for 17 days, erythropoietin for 17 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF767CVC ENCSR361KVZ Peak stomach tissue female adult 51 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF919OEF ENCSR361KVZ stomach tissue female adult 51 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF970LMB ENCSR361FWQ MM.1S H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF226NMW ENCSR361DND Peak lower leg skin tissue male adult 37 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF241LIT ENCSR361DND lower leg skin tissue male adult 37 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF396EDI ENCSR360XNZ Peak activated CD4-positive, alpha-beta T cell male adult 35 years treated with anti-CD3 and anti-CD28 coated beads H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF151LJA ENCSR360XNZ activated CD4-positive, alpha-beta T cell male adult 35 years treated with anti-CD3 and anti-CD28 coated beads H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF256LWT ENCSR360XIS Peak ecto neural progenitor cell originated from H9 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF453BOK ENCSR360XIS ecto neural progenitor cell originated from H9 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF428TUM ENCSR360IRQ Peak CD4-positive, CD25-positive, alpha-beta regulatory T cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF329UOR ENCSR360IRQ CD4-positive, CD25-positive, alpha-beta regulatory T cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF487TUI ENCSR359LOD Peak PC-3 CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF756ESH ENCSR359LOD PC-3 CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF480BAH ENCSR359HFH Peak HG03095 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF966MMP ENCSR359HFH HG03095 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF265MYB ENCSR358RVW Peak heart tissue male embryo 91 days H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF513OZY ENCSR358RVW heart tissue male embryo 91 days H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF035KTO ENCSR358NBC Peak stimulated activated CD4-positive, alpha-beta memory T cell male adult 43 years treated with 10 ng/mL Interleukin-2 , anti-CD3 and anti-CD28 coated beads H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF556AWF ENCSR358NBC stimulated activated CD4-positive, alpha-beta memory T cell male adult 43 years treated with 10 ng/mL Interleukin-2 , anti-CD3 and anti-CD28 coated beads H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF091WME ENCSR357WQH Peak GM18508 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF879GGI ENCSR357WQH GM18508 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF691GSF ENCSR357RED Peak muscle of back tissue male embryo 105 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF839XJQ ENCSR357RED muscle of back tissue male embryo 105 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF936LTX ENCSR357PMV Peak muscle of arm tissue female embryo 120 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF346VKE ENCSR357PMV muscle of arm tissue female embryo 120 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF865PJD ENCSR357AWH Peak upper lobe of right lung tissue male adult 60 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF807ZJE ENCSR357AWH upper lobe of right lung tissue male adult 60 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF717JNO ENCSR356RNZ Peak heart right ventricle tissue female adult 46 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF270GCR ENCSR356RNZ heart right ventricle tissue female adult 46 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF604VRO ENCSR356QCD Peak muscle of arm tissue male embryo 101 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF677VFH ENCSR356QCD muscle of arm tissue male embryo 101 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF055NDP ENCSR356EWB Peak HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens RAD21 treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF917XEI ENCSR356EWB HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens RAD21 treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF205NIQ ENCSR355WAJ Peak left ventricle myocardium superior tissue male adult 60 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF909PMD ENCSR355WAJ left ventricle myocardium superior tissue male adult 60 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF697ULR ENCSR355UYP Peak cingulate gyrus tissue male adult 81 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF692LNN ENCSR355UYP cingulate gyrus tissue male adult 81 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF592INT ENCSR355SGJ Peak sigmoid colon tissue female adult 51 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF961XDO ENCSR355SGJ sigmoid colon tissue female adult 51 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF931NSL ENCSR355PNF with Alzheimer's disease head of caudate nucleus tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF505HGD ENCSR355PMV Peak heart left ventricle tissue male adult 40 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF843XSG ENCSR355PMV heart left ventricle tissue male adult 40 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF683HKV ENCSR355GNZ Peak coronary artery tissue female adult 51 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF476MBG ENCSR355GNZ coronary artery tissue female adult 51 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF495KXZ ENCSR355ARR Peak effector CD4-positive, alpha-beta T cell male adult 56 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF376LFQ ENCSR355ARR effector CD4-positive, alpha-beta T cell male adult 56 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF071DIF ENCSR355ALW Peak gastrocnemius medialis tissue female adult 51 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF643VTS ENCSR355ALW gastrocnemius medialis tissue female adult 51 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF020XRA ENCSR354ZUG Peak uterus tissue female adult 53 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF370WIV ENCSR354ZUG uterus tissue female adult 53 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF353LSK ENCSR354XWM Peak neuronal stem cell originated from H9 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF679ECN ENCSR354XWM neuronal stem cell originated from H9 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF920REI ENCSR354FBA Peak small intestine tissue male embryo 115 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF236NXW ENCSR354FBA small intestine tissue male embryo 115 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF544GAS ENCSR353DFU Peak esophagus muscularis mucosa tissue female adult 51 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF398DDY ENCSR353DFU esophagus muscularis mucosa tissue female adult 51 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF394MUG ENCSR351SWL Peak middle frontal area 46 tissue female adult 79 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF924IJQ ENCSR351SWL middle frontal area 46 tissue female adult 79 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF616JAE ENCSR351FWN Peak middle frontal area 46 tissue female adult 88 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF052CPA ENCSR351FWN middle frontal area 46 tissue female adult 88 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF718ZSS ENCSR350UKV Peak with multiple sclerosis CD4-positive, CD25-positive, alpha-beta regulatory T cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF979YMP ENCSR350UKV with multiple sclerosis CD4-positive, CD25-positive, alpha-beta regulatory T cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF244ZHV ENCSR350NBQ Peak heart left ventricle tissue male adult 54 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF797NQV ENCSR350NBQ heart left ventricle tissue male adult 54 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF188RSZ ENCSR350JZR Peak foreskin melanocyte male newborn H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF261DSX ENCSR350JZR foreskin melanocyte male newborn H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF796LGR ENCSR349VAW Peak SJSA1 H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF194JWL ENCSR349VAW SJSA1 H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF527PGO ENCSR349NAK Peak endodermal cell originated from H1 H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF466QNQ ENCSR349NAK endodermal cell originated from H1 H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF664APD ENCSR349GPJ Peak Peyer's patch tissue male adult 37 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF996ZNX ENCSR349GPJ Peyer's patch tissue male adult 37 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF158YHJ ENCSR348YRH Peak with multiple sclerosis naive thymus-derived CD8-positive, alpha-beta T cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF415QNO ENCSR348YRH with multiple sclerosis naive thymus-derived CD8-positive, alpha-beta T cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF128LEM ENCSR346UYQ Peak IgD-negative memory B cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF116HTK ENCSR346UYQ IgD-negative memory B cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF906KBR ENCSR346KKE Peak skeletal muscle tissue tissue male adult 54 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF288QMN ENCSR346KKE skeletal muscle tissue tissue male adult 54 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF814LKB ENCSR346JWH Peak A673 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF816IIS ENCSR346JWH A673 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF017VJJ ENCSR346IHH Peak Daoy DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF119HYJ ENCSR346IHH Daoy DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF672EGG ENCSR346FVK Peak vagina tissue female adult 51 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF092VQF ENCSR346FVK vagina tissue female adult 51 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF241CKK ENCSR345XUN Peak HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens SUPT16H ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF472DVQ ENCSR345XUN HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens SUPT16H ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF627HXF ENCSR345QKG Peak placental basal plate tissue male embryo 38 weeks H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF137PGF ENCSR345QKG placental basal plate tissue male embryo 38 weeks H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF110JJB ENCSR345NVR Peak HG03460 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF413WLZ ENCSR345NVR HG03460 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF719YRB ENCSR344ZTM Peak thoracic aorta tissue male adult 54 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF101QQB ENCSR344ZTM thoracic aorta tissue male adult 54 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF220KFL ENCSR344TLI Peak right lobe of liver tissue female adult 53 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF917LFF ENCSR344TLI right lobe of liver tissue female adult 53 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF183BLP ENCSR344PHP Peak middle frontal area 46 tissue female adult 88 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF371ZKC ENCSR344PHP middle frontal area 46 tissue female adult 88 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF644NQV ENCSR344FLH Peak brain tissue female embryo 109 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF055RCC ENCSR344FLH brain tissue female embryo 109 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF364GJA ENCSR343ZOV Peak coronary artery tissue female adult 53 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF811RQX ENCSR343ZOV coronary artery tissue female adult 53 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF005OCP ENCSR343TQX Peak K562 treated with 10 nM Bortezomib for 24 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF439VLY ENCSR343TQX K562 treated with 10 nM Bortezomib for 24 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF520HPZ ENCSR343RJH Peak spleen tissue male adult 37 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF688NHG ENCSR343RJH spleen tissue male adult 37 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF239FOF ENCSR343DFX Peak spleen tissue female adult 41 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF634AAL ENCSR343DFX spleen tissue female adult 41 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF299PGI ENCSR342OGI Peak T-cell male adult 27 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF300VIJ ENCSR342OGI T-cell male adult 27 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF040XSQ ENCSR342NCX Peak thymus tissue female embryo 113 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF203ACG ENCSR342NCX thymus tissue female embryo 113 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF960UGA ENCSR342KXD Peak heart right ventricle tissue male adult 43 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF982IVZ ENCSR342KXD heart right ventricle tissue male adult 43 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF523KNW ENCSR342GFK Peak K562 treated with 10 nM Vorinostat for 4 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF430YIV ENCSR342GFK K562 treated with 10 nM Vorinostat for 4 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF366JRK ENCSR342FPJ Peak tibial artery tissue male adult 54 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF571BDF ENCSR342FPJ tibial artery tissue male adult 54 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF556NIR ENCSR341QLC Peak with multiple sclerosis CD4-positive, alpha-beta memory T cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF202ADM ENCSR341QLC with multiple sclerosis CD4-positive, alpha-beta memory T cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF083WGK ENCSR340ZTB Peak skin epidermis tissue female adult 80 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF306MNM ENCSR340ZTB skin epidermis tissue female adult 80 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF281NSV ENCSR340XQX Peak with Alzheimer's disease middle frontal area 46 tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF032ITK ENCSR340XQX with Alzheimer's disease middle frontal area 46 tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF290FYV ENCSR340WQU Peak HeLa-S3 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF432PYK ENCSR340WQU HeLa-S3 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF971PDZ ENCSR340MRJ Peak transverse colon tissue male adult 54 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF405NTZ ENCSR340MRJ transverse colon tissue male adult 54 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF523JXA ENCSR340FUG Peak middle frontal area 46 tissue female adult 87 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF981HHV ENCSR340FUG middle frontal area 46 tissue female adult 87 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF199VOU ENCSR339XMR Peak with basal cell carcinoma skin epidermis tissue male adult 58 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF763SFH ENCSR339XMR with basal cell carcinoma skin epidermis tissue male adult 58 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF066NJO ENCSR339TVH Peak with mild cognitive impairment head of caudate nucleus tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF576ZEH ENCSR339TVH with mild cognitive impairment head of caudate nucleus tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF419ZAY ENCSR339TAQ Peak with Alzheimer's disease, Cognitive impairment middle frontal area 46 tissue male adult 87 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF745ELD ENCSR339TAQ with Alzheimer's disease, Cognitive impairment middle frontal area 46 tissue male adult 87 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF492GYB ENCSR338NEI Peak pancreas tissue female adult 41 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF330ZGD ENCSR338NEI pancreas tissue female adult 41 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF906PME ENCSR337UIU Peak stomach tissue female adult 53 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF868ZCL ENCSR337UIU stomach tissue female adult 53 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF713NGZ ENCSR337IRF Peak RCC DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF582QOS ENCSR337IRF RCC DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF419OAR ENCSR336RGT Peak placenta tissue male embryo DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF456JKS ENCSR336RGT placenta tissue male embryo DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF598KVU ENCSR336QAO Peak CD4-positive, alpha-beta T cell female adult 26 years treated with Interferon gamma for 1 hour DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF469QBP ENCSR336QAO CD4-positive, alpha-beta T cell female adult 26 years treated with Interferon gamma for 1 hour DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF173NJK ENCSR336PTS Peak parathyroid adenoma tissue male adult 65 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF289MJC ENCSR336PTS parathyroid adenoma tissue male adult 65 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF291AKW ENCSR335YEH Peak middle frontal area 46 tissue male adult 71 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF752DGV ENCSR335YEH middle frontal area 46 tissue male adult 71 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF941KRS ENCSR335XRZ Peak stimulated activated effector memory CD8-positive, alpha-beta T cell male adult 36 years treated with 100 ng/mL Interleukin-12 subunit alpha for 72 hours, 100 ng/mL Interleukin-12 subunit beta for 72 hours, anti-CD3 and anti-CD28 coated beads for 72 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF471TZT ENCSR335XRZ stimulated activated effector memory CD8-positive, alpha-beta T cell male adult 36 years treated with 100 ng/mL Interleukin-12 subunit alpha for 72 hours, 100 ng/mL Interleukin-12 subunit beta for 72 hours, anti-CD3 and anti-CD28 coated beads for 72 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF532EYR ENCSR335LOQ Peak stimulated activated CD8-positive, alpha-beta memory T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 48 hours, 100 ng/mL Interleukin-7 for 48 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF330JQQ ENCSR335LOQ stimulated activated CD8-positive, alpha-beta memory T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 48 hours, 100 ng/mL Interleukin-7 for 48 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF670PIL ENCSR335LHS stimulated activated effector memory CD8-positive, alpha-beta T cell male adult 33 years treated with 100 ng/mL Interleukin-12 subunit alpha for 72 hours, 100 ng/mL Interleukin-12 subunit beta for 72 hours, anti-CD3 and anti-CD28 coated beads for 72 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF476SPY ENCSR335JVB Peak GM19372 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF840DXB ENCSR335JVB GM19372 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF682EDG ENCSR335EYA Peak stimulated activated CD8-positive, alpha-beta memory T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 1 hour, 100 ng/mL Interleukin-12 subunit alpha for 1 hour, 100 ng/mL Interleukin-12 subunit beta for 1 hour DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF199TWN ENCSR335EYA stimulated activated CD8-positive, alpha-beta memory T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 1 hour, 100 ng/mL Interleukin-12 subunit alpha for 1 hour, 100 ng/mL Interleukin-12 subunit beta for 1 hour DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF103ZSA ENCSR334MDJ Peak with mild cognitive impairment head of caudate nucleus tissue female adult 89 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF193ZCX ENCSR334MDJ with mild cognitive impairment head of caudate nucleus tissue female adult 89 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF854YAV ENCSR334DRN Peak skin epidermis tissue male adult 67 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF974KMJ ENCSR334DRN skin epidermis tissue male adult 67 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF429DMJ ENCSR333BUP Peak with Cognitive impairment head of caudate nucleus tissue female adult 86 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF513HRB ENCSR333BUP with Cognitive impairment head of caudate nucleus tissue female adult 86 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF311KBD ENCSR332WTG Peak middle frontal area 46 tissue female adult 90 or above years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF554FTX ENCSR332WTG middle frontal area 46 tissue female adult 90 or above years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF199PSQ ENCSR332HAD Peak naive thymus-derived CD8-positive, alpha-beta T cell male adult 56 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF201XEO ENCSR332HAD naive thymus-derived CD8-positive, alpha-beta T cell male adult 56 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF869RPR ENCSR332BVN Peak stimulated activated naive B cell male adult 40 years treated with 1 μg/mL anti-CD40 for 72 hours, 100 ng/mL Interleukin-4 for 72 hours, 10 μg/mL anti-IgM for 72 hours H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF081XPP ENCSR332BVN stimulated activated naive B cell male adult 40 years treated with 1 μg/mL anti-CD40 for 72 hours, 100 ng/mL Interleukin-4 for 72 hours, 10 μg/mL anti-IgM for 72 hours H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF909OLY ENCSR332BSB Peak right kidney tissue male embryo 87 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF833OSP ENCSR332BSB right kidney tissue male embryo 87 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF782FOT ENCSR331WMS Peak with multiple sclerosis naive thymus-derived CD4-positive, alpha-beta T cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF958HFA ENCSR331WMS with multiple sclerosis naive thymus-derived CD4-positive, alpha-beta T cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF533AKS ENCSR331JFZ Peak HG03575 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF474BDV ENCSR331JFZ HG03575 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF982IVE ENCSR331GZV Peak HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens SMARCA5 treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF457FEX ENCSR331GZV HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens SMARCA5 treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF948EED ENCSR330ZBO Peak ovary tissue female adult 59 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF635IQN ENCSR330ZBO ovary tissue female adult 59 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF534WGH ENCSR330OUU Peak T-cell male adult 42 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF863YFO ENCSR330OUU T-cell male adult 42 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF138WQY ENCSR330LFP Peak posterior cingulate gyrus tissue female adult 82 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF394GBX ENCSR330LFP posterior cingulate gyrus tissue female adult 82 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF794MBT ENCSR330JXM Peak brain organoid male adult 53 years, 90 days post differentiation DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF157RLF ENCSR330JXM brain organoid male adult 53 years, 90 days post differentiation DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF267VHH ENCSR329KRE Peak middle frontal area 46 tissue female adult 89 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF450HJC ENCSR329KRE middle frontal area 46 tissue female adult 89 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF402DHH ENCSR329FXI Peak skeletal muscle tissue tissue female adult 72 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF962HWM ENCSR329FXI skeletal muscle tissue tissue female adult 72 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF297KPC ENCSR329FHR Peak with Cognitive impairment middle frontal area 46 tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF463EIN ENCSR329FHR with Cognitive impairment middle frontal area 46 tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF883QSX ENCSR329FAP Peak with Alzheimer's disease middle frontal area 46 tissue female adult 89 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF554VOU ENCSR329FAP with Alzheimer's disease middle frontal area 46 tissue female adult 89 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF895BCX ENCSR328UMC Peak hematopoietic multipotent progenitor cell DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF567PRD ENCSR328UMC hematopoietic multipotent progenitor cell DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF978XYZ ENCSR328JGW Peak HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens CTCF ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF129VSO ENCSR328JGW HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens CTCF ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF575VJE ENCSR327XTS Peak colonic mucosa tissue female adult 73 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF650EZM ENCSR327XTS colonic mucosa tissue female adult 73 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF084YLD ENCSR326YSR Peak natural killer cell female adult 41 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF029NUW ENCSR326YSR natural killer cell female adult 41 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF334JJX ENCSR326YRW Peak with mild cognitive impairment middle frontal area 46 tissue female adult 90 or above years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF750UAD ENCSR326YRW with mild cognitive impairment middle frontal area 46 tissue female adult 90 or above years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF048CEZ ENCSR326TID Peak naive B cell DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF580UOH ENCSR326TID naive B cell DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF295GSL ENCSR326JGI Peak natural killer cell male adult 47 years treated with 100 ng/mL Interleukin-18 for 72 hours, 100 ng/mL Interleukin-12 subunit beta for 72 hours, 100 ng/mL Interleukin-12 subunit alpha for 72 hours, 100 ng/mL Interleukin-15 for 72 hours H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF207RGC ENCSR326JGI natural killer cell male adult 47 years treated with 100 ng/mL Interleukin-18 for 72 hours, 100 ng/mL Interleukin-12 subunit beta for 72 hours, 100 ng/mL Interleukin-12 subunit alpha for 72 hours, 100 ng/mL Interleukin-15 for 72 hours H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF225RVB ENCSR326ESM Peak stimulated activated naive CD8-positive, alpha-beta T cell male adult 42 years treated with anti-CD3 and anti-CD28 coated beads for 24 hours, 50 U/mL Interleukin-2 for 24 hours, 100 ng/mL Interleukin-15 for 24 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF021KYU ENCSR326ESM stimulated activated naive CD8-positive, alpha-beta T cell male adult 42 years treated with anti-CD3 and anti-CD28 coated beads for 24 hours, 50 U/mL Interleukin-2 for 24 hours, 100 ng/mL Interleukin-15 for 24 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF164KZS ENCSR325FWM Peak adrenal gland tissue female adult 41 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF237KCK ENCSR325FWM adrenal gland tissue female adult 41 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF650VUB ENCSR324ZNP Peak HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens BRD4 H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF729LUC ENCSR324ZNP HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens BRD4 H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF218ZCB ENCSR324SGE Peak stimulated activated CD4-positive, alpha-beta T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 48 hours, 100 ng/mL Interleukin-15 for 48 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF765JZP ENCSR324SGE stimulated activated CD4-positive, alpha-beta T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 48 hours, 100 ng/mL Interleukin-15 for 48 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF216XCN ENCSR324OTS Peak CD4-positive, alpha-beta T cell female adult 39 years treated with 100 ng/mL Interleukin-2 for 4 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF813XWD ENCSR324OTS CD4-positive, alpha-beta T cell female adult 39 years treated with 100 ng/mL Interleukin-2 for 4 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF650NAP ENCSR324NVG Peak posterior vena cava tissue female adult 47 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF851OYI ENCSR324NVG posterior vena cava tissue female adult 47 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF278VHJ ENCSR324JDC Peak endocrine pancreas tissue male adult 45 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF237BCW ENCSR324JDC endocrine pancreas tissue male adult 45 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF635CUU ENCSR324IEM Peak naive thymus-derived CD4-positive, alpha-beta T cell male adult 42 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF116PKI ENCSR324IEM naive thymus-derived CD4-positive, alpha-beta T cell male adult 42 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF767XJQ ENCSR323ZAP Peak heart right ventricle tissue female adult 56 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF257ODJ ENCSR323ZAP heart right ventricle tissue female adult 56 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF134CXL ENCSR323XBZ Peak HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens RAD21 H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF225DSH ENCSR323XBZ HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens RAD21 H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF083YZE ENCSR323UTX Peak upper lobe of left lung tissue female adult 51 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF279ZNA ENCSR323UTX upper lobe of left lung tissue female adult 51 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF589XWQ ENCSR323TXQ Peak stimulated activated CD4-positive, alpha-beta T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 48 hours, 100 ng/mL Interleukin-23 for 48 hours, 100 ng/mL Interleukin-1b for 48 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF421EVN ENCSR323TXQ stimulated activated CD4-positive, alpha-beta T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 48 hours, 100 ng/mL Interleukin-23 for 48 hours, 100 ng/mL Interleukin-1b for 48 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF606UPM ENCSR323PWV Peak stimulated activated CD4-positive, alpha-beta T cell male adult 42 years treated with anti-CD3 and anti-CD28 coated beads for 48 hours, 100 ng/mL Interleukin-23 for 48 hours, 100 ng/mL Interleukin-1b for 48 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF410WKA ENCSR323PWV stimulated activated CD4-positive, alpha-beta T cell male adult 42 years treated with anti-CD3 and anti-CD28 coated beads for 48 hours, 100 ng/mL Interleukin-23 for 48 hours, 100 ng/mL Interleukin-1b for 48 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF131VSY ENCSR323LVJ Peak activated CD4-positive, alpha-beta T cell female adult 37 years treated with Interleukin-6 for 8 hours, 50 U/mL Interleukin-2 for 16 hours, anti-CD3 and anti-CD28 coated beads for 16 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF301LEA ENCSR323LVJ activated CD4-positive, alpha-beta T cell female adult 37 years treated with Interleukin-6 for 8 hours, 50 U/mL Interleukin-2 for 16 hours, anti-CD3 and anti-CD28 coated beads for 16 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF325ZAX ENCSR322VEH Peak IgD-negative memory B cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF617BRH ENCSR322VEH IgD-negative memory B cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF286VNR ENCSR322TJD Peak aorta tissue female adult 30 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF126LKO ENCSR322TJD aorta tissue female adult 30 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF872INX ENCSR322SBN Peak HG03457 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF477DEN ENCSR322SBN HG03457 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF135NTE ENCSR322MTA Peak with multiple sclerosis CD4-positive, CD25-positive, alpha-beta regulatory T cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF937IOV ENCSR322MTA with multiple sclerosis CD4-positive, CD25-positive, alpha-beta regulatory T cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF458LAZ ENCSR322FGP Peak colonic mucosa tissue female adult 56 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF349BGH ENCSR322FGP colonic mucosa tissue female adult 56 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF033FWY ENCSR322BYN Peak activated CD4-positive, alpha-beta T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 1 hour, 50 U/mL Interleukin-2 for 1 hour DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF180JWH ENCSR322BYN activated CD4-positive, alpha-beta T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 1 hour, 50 U/mL Interleukin-2 for 1 hour DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF026PHZ ENCSR321SZE Peak sigmoid colon tissue male child 3 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF379NYQ ENCSR321SZE sigmoid colon tissue male child 3 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF206CGM ENCSR321LKT Peak layer of hippocampus tissue male adult 73 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF095QCF ENCSR321LKT layer of hippocampus tissue male adult 73 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF843KQV ENCSR321KUC Peak CD8-positive, alpha-beta T cell male adult 38 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF492QZP ENCSR321KUC CD8-positive, alpha-beta T cell male adult 38 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF345FCE ENCSR321KDV Peak with squamous cell carcinoma skin epidermis tissue female adult 71 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF554KFX ENCSR321KDV with squamous cell carcinoma skin epidermis tissue female adult 71 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF876DXM ENCSR320TUJ Peak common myeloid progenitor, CD34-positive female adult 50 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF891WPM ENCSR320TUJ common myeloid progenitor, CD34-positive female adult 50 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF052CHH ENCSR320SVK Peak left renal pelvis tissue male embryo 120 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF155NBN ENCSR320SVK left renal pelvis tissue male embryo 120 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF957ECI ENCSR320PGJ Peak heart tissue male embryo 105 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF524ELS ENCSR320PGJ heart tissue male embryo 105 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF530WMZ ENCSR320MYR Peak chorionic villus tissue male embryo 38 weeks H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF020YCR ENCSR320MYR chorionic villus tissue male embryo 38 weeks H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF962YYB ENCSR319HLH Peak CD14-positive monocyte H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF839BEU ENCSR319HLH CD14-positive monocyte H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF971JXQ ENCSR318WOD Peak lung tissue male embryo 103 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF804QDI ENCSR318WOD lung tissue male embryo 103 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF651YHW ENCSR318PRQ Peak middle frontal gyrus tissue male adult 78 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF874PJM ENCSR318PRQ middle frontal gyrus tissue male adult 78 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF766FRG ENCSR318JAA Peak left renal pelvis tissue male embryo 105 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF459MYY ENCSR318JAA left renal pelvis tissue male embryo 105 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF266HGY ENCSR318HUC Peak thoracic aorta tissue male adult 54 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF265UKI ENCSR318HUC thoracic aorta tissue male adult 54 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF435NLV ENCSR317SIH Peak muscle of back tissue male embryo 91 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF655ADL ENCSR317SIH muscle of back tissue male embryo 91 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF547KLA ENCSR317QET Peak naive thymus-derived CD4-positive, alpha-beta T cell male adult 38 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF816CVK ENCSR317QET naive thymus-derived CD4-positive, alpha-beta T cell male adult 38 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF191OBU ENCSR316UDN Peak CD8-positive, alpha-beta T cell male adult 37 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF938MFJ ENCSR316UDN CD8-positive, alpha-beta T cell male adult 37 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF019OAH ENCSR316LNO Peak gastroesophageal sphincter tissue female adult 51 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF073BDL ENCSR316LNO gastroesophageal sphincter tissue female adult 51 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF814NQJ ENCSR315WAC Peak stimulated activated CD4-positive, alpha-beta T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 48 hours, 100 ng/mL Interleukin-4 for 48 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF789HOF ENCSR315WAC stimulated activated CD4-positive, alpha-beta T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 48 hours, 100 ng/mL Interleukin-4 for 48 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF133DZB ENCSR315UUP Peak with Alzheimer's disease middle frontal area 46 tissue female adult 90 or above years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF969AJT ENCSR315UUP with Alzheimer's disease middle frontal area 46 tissue female adult 90 or above years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF968SDY ENCSR315QWI Peak GM21737 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF261VHL ENCSR315QWI GM21737 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF223HIG ENCSR315NAC Peak LNCAP CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF857BSR ENCSR315NAC LNCAP CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF931WNQ ENCSR315LPR Peak pancreas tissue female adult 30 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF036WJV ENCSR315LPR pancreas tissue female adult 30 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF123AEM ENCSR315IRO Peak HUES6 H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF392JWG ENCSR315IRO HUES6 H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF651JWM ENCSR315EZG Peak transverse colon tissue female adult 51 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF487CTD ENCSR315EZG transverse colon tissue female adult 51 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF621CLM ENCSR314WYC Peak neuron originated from H9 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF684OYD ENCSR314WYC neuron originated from H9 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF115JCH ENCSR314SPW Peak tibial nerve tissue female adult 53 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF400NQI ENCSR314SPW tibial nerve tissue female adult 53 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF958DWA ENCSR314KSZ Peak middle frontal area 46 tissue female adult 90 or above years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF353SJI ENCSR314KSZ middle frontal area 46 tissue female adult 90 or above years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF052TQG ENCSR314IOV Peak CD4-positive, alpha-beta T cell female adult 26 years and female adult 39 years, treated with Interleukin-1 beta for 1 hour DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF807MRC ENCSR314IOV CD4-positive, alpha-beta T cell female adult 26 years and female adult 39 years, treated with Interleukin-1 beta for 1 hour DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF110CHF ENCSR314IBN Peak stimulated activated CD8-positive, alpha-beta memory T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 1 hour, 100 ng/mL Interleukin-7 for 1 hour DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF278LCZ ENCSR314IBN stimulated activated CD8-positive, alpha-beta memory T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 1 hour, 100 ng/mL Interleukin-7 for 1 hour DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF876WSX ENCSR314EZY Peak L1-S8 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF448WTR ENCSR314EZY L1-S8 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF184KIU ENCSR314EDO Peak K562 treated with 10 nM Panobinostat for 24 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF786XOK ENCSR314EDO K562 treated with 10 nM Panobinostat for 24 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF263TBG ENCSR314BEX Peak CD4-positive, alpha-beta memory T cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF373LYP ENCSR314BEX CD4-positive, alpha-beta memory T cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF813GBK ENCSR313SEO Peak chorionic villus tissue embryo 16 weeks H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF899GWP ENCSR313SEO chorionic villus tissue embryo 16 weeks H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF466VOJ ENCSR313IJX Peak with mild cognitive impairment middle frontal area 46 tissue female adult 88 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF018QTQ ENCSR313IJX with mild cognitive impairment middle frontal area 46 tissue female adult 88 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF011IHJ ENCSR313CEH Peak lower lobe of left lung tissue female adult 59 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF375YPQ ENCSR313CEH lower lobe of left lung tissue female adult 59 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF580BDS ENCSR312UCH Peak GM18519 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF099HUE ENCSR312UCH GM18519 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF456YIH ENCSR312INU Peak activated T-cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 48 hours, 50 U/mL Interleukin-2 for 48 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF142QXQ ENCSR312INU activated T-cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 48 hours, 50 U/mL Interleukin-2 for 48 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF835LKG ENCSR312HLG Peak from a donor with amyotrophic lateral sclerosis motor neuron H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF579WQH ENCSR312HLG from a donor with amyotrophic lateral sclerosis motor neuron H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF544SJN ENCSR311LLZ Peak heart tissue male embryo 110 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF429LHD ENCSR311LLZ heart tissue male embryo 110 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF870HPB ENCSR311EEL Peak with mild cognitive impairment head of caudate nucleus tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF013QGD ENCSR311EEL with mild cognitive impairment head of caudate nucleus tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF881BBV ENCSR310ZGQ Peak T-cell male adult 26 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF647HQN ENCSR310ZGQ T-cell male adult 26 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF836SLB ENCSR310UDW Peak left cardiac atrium tissue male adult 40 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF618FTE ENCSR310UDW left cardiac atrium tissue male adult 40 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF035COG ENCSR310RJN Peak heart left ventricle tissue male adult 43 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF875SZE ENCSR310RJN heart left ventricle tissue male adult 43 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF909GFE ENCSR309YDN Peak muscle of arm tissue female embryo 85 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF547CPF ENCSR309YDN muscle of arm tissue female embryo 85 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF816GWG ENCSR309UVT Peak thyroid gland tissue female adult 51 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF321LZL ENCSR309UVT thyroid gland tissue female adult 51 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF484QGB ENCSR309FOO Peak brain tissue female embryo 117 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF109KHT ENCSR309FOO brain tissue female embryo 117 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF584GIH ENCSR308ZMD Peak thymus tissue female embryo 110 days H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF604OZO ENCSR308ZMD thymus tissue female embryo 110 days H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF482YBU ENCSR308HPZ Peak gastrocnemius medialis tissue male adult 54 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF163JWV ENCSR308HPZ gastrocnemius medialis tissue male adult 54 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF916WMY ENCSR307DQT Peak SU-DHL-6 H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF135ZDR ENCSR307DQT SU-DHL-6 H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF185NYD ENCSR306WYL Peak endothelial cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF543KTX ENCSR306WYL endothelial cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF265XIN ENCSR306LNA Peak with Alzheimer's disease, Cognitive impairment middle frontal area 46 tissue male adult 73 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF737EDS ENCSR306LNA with Alzheimer's disease, Cognitive impairment middle frontal area 46 tissue male adult 73 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF144TAZ ENCSR306BHE Peak RWPE2 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF060GSU ENCSR306BHE RWPE2 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF398GVK ENCSR305XRF Peak HG03175 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF101BDO ENCSR305XRF HG03175 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF081JVF ENCSR305WLF Peak T-cell male adult 25 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF118VBY ENCSR305WLF T-cell male adult 25 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF607XYU ENCSR305WAA Peak with mild cognitive impairment head of caudate nucleus tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF172WCN ENCSR305WAA with mild cognitive impairment head of caudate nucleus tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF496DLM ENCSR305UJX Peak heart tissue male child 3 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF750JAY ENCSR305UJX heart tissue male child 3 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF971HZL ENCSR305QTE Peak natural killer cell male adult 47 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF194EMK ENCSR305QTE natural killer cell male adult 47 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF769DTP ENCSR305ISQ Peak mucosa of rectum tissue female adult 50 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF907XXC ENCSR305ISQ mucosa of rectum tissue female adult 50 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF380QAC ENCSR304ZDQ Peak GM18873 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF430JWO ENCSR304ZDQ GM18873 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF277RMX ENCSR304XUZ Peak breast epithelium tissue female adult 53 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF249SYO ENCSR304XUZ breast epithelium tissue female adult 53 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF046GHC ENCSR304UWR Peak K562 treated with 100 nM GSK J4 for 12 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF649HKC ENCSR304UWR K562 treated with 100 nM GSK J4 for 12 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF696SFA ENCSR304CXS Peak naive thymus-derived CD4-positive, alpha-beta T cell DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF731DST ENCSR304CXS naive thymus-derived CD4-positive, alpha-beta T cell DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF319BLQ ENCSR303YII Peak muscle of arm tissue male embryo 96 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF552OOR ENCSR303YII muscle of arm tissue male embryo 96 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF302RSQ ENCSR303PWB Peak esophagus mucosa tissue female adult 47 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF477VDG ENCSR303PWB esophagus mucosa tissue female adult 47 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF641WRL ENCSR303NUP Peak K562 treated with 5 μM C646 for 12 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF566JBM ENCSR303NUP K562 treated with 5 μM C646 for 12 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF471TMU ENCSR303JDG Peak activated T-cell female adult 21 years treated with 50 U/mL Interleukin-2 for 72 hours, anti-CD3 and anti-CD28 coated beads for 72 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF997BFO ENCSR303JDG activated T-cell female adult 21 years treated with 50 U/mL Interleukin-2 for 72 hours, anti-CD3 and anti-CD28 coated beads for 72 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF588OHL ENCSR303IKJ Peak thymus tissue male child 3 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF294TTY ENCSR303IKJ thymus tissue male child 3 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF200GQF ENCSR303GFI Peak RWPE1 CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF388NXU ENCSR303GFI RWPE1 CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF441AGS ENCSR302RKX Peak CD8-positive, alpha-beta memory T cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF431SOK ENCSR302RKX CD8-positive, alpha-beta memory T cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF413XRG ENCSR302PTB Peak stimulated activated memory B cell male adult 40 years treated with 10 μg/mL anti-IgM for 72 hours, 1 μg/mL anti-CD40 for 72 hours, 100 ng/mL Interleukin-4 for 72 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF216VWI ENCSR302PTB stimulated activated memory B cell male adult 40 years treated with 10 μg/mL anti-IgM for 72 hours, 1 μg/mL anti-CD40 for 72 hours, 100 ng/mL Interleukin-4 for 72 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF273JGL ENCSR302NVX Peak HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens SMARCA5 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF432RYK ENCSR302NVX HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens SMARCA5 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF649RLC ENCSR302MYX Peak naive thymus-derived CD4-positive, alpha-beta T cell DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF886OZI ENCSR302MYX naive thymus-derived CD4-positive, alpha-beta T cell DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF597TFL ENCSR301RCD Peak renal pelvis tissue male embryo 127 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF672MMS ENCSR301RCD renal pelvis tissue male embryo 127 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF005CDR ENCSR301OGM Peak NAMALWA treated with Sendai virus for 2 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF066TDJ ENCSR301OGM NAMALWA treated with Sendai virus for 2 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF749FBO ENCSR300WOR Peak with Alzheimer's disease, Cognitive impairment middle frontal area 46 tissue female adult 90 or above years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF303MTI ENCSR300WOR with Alzheimer's disease, Cognitive impairment middle frontal area 46 tissue female adult 90 or above years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF929FPD ENCSR300DWM Peak osteocyte CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF897TLT ENCSR300DWM osteocyte CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF091HGP ENCSR299XIC Peak CD4-positive, CD25-positive, alpha-beta regulatory T cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF811QOJ ENCSR299XIC CD4-positive, CD25-positive, alpha-beta regulatory T cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF047XAF ENCSR299QGI Peak heart left ventricle tissue male adult 43 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF380ELC ENCSR299QGI heart left ventricle tissue male adult 43 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF561MTN ENCSR299LSN Peak T-cell male adult 42 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF364GFY ENCSR299LSN T-cell male adult 42 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF058AZR ENCSR299INS Peak right lung tissue female embryo 105 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF753QJC ENCSR299INS right lung tissue female embryo 105 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF541XPH ENCSR299EQJ Peak with Alzheimer's disease middle frontal area 46 tissue female adult 81 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF480FCW ENCSR299EQJ with Alzheimer's disease middle frontal area 46 tissue female adult 81 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF527XWY ENCSR299BQG T-cell female adult 22 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF607YRA ENCSR298ZPF Peak gastroesophageal sphincter tissue female adult 51 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF378JMP ENCSR298ZPF gastroesophageal sphincter tissue female adult 51 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF264EVT ENCSR298SDT Peak thoracic aorta tissue male adult 37 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF156LUX ENCSR298SDT thoracic aorta tissue male adult 37 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF248KZV ENCSR298OIK Peak heart right ventricle tissue male adult 43 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF847FPR ENCSR298OIK heart right ventricle tissue male adult 43 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF089RAD ENCSR298KVO Peak CD8-positive, alpha-beta memory T cell male adult 30 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF341PJV ENCSR298KVO CD8-positive, alpha-beta memory T cell male adult 30 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF211TKE ENCSR297WRG Peak head of caudate nucleus tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF905SCU ENCSR297WRG head of caudate nucleus tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF643PJV ENCSR297ORG Peak muscle of leg tissue male embryo 96 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF483VJJ ENCSR297ORG muscle of leg tissue male embryo 96 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF222BGB ENCSR297ONS Peak RWPE2 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF744OPP ENCSR297ONS RWPE2 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF744SRS ENCSR297FIU Peak CD14-positive monocyte H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF572CMJ ENCSR297FIU CD14-positive monocyte H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF460WHI ENCSR296YAS Peak K562 treated with 10 nM Chaetocin for 4 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF756GOW ENCSR296YAS K562 treated with 10 nM Chaetocin for 4 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF470HLI ENCSR296TFH Peak naive thymus-derived CD8-positive, alpha-beta T cell male adult 24 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF907EIG ENCSR296TFH naive thymus-derived CD8-positive, alpha-beta T cell male adult 24 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF354HOQ ENCSR296JFK Peak heart left ventricle tissue male adult 43 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF915AST ENCSR296JFK heart left ventricle tissue male adult 43 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF918OIS ENCSR295UXT Peak CD8-positive, alpha-beta memory T cell DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF606BET ENCSR295UXT CD8-positive, alpha-beta memory T cell DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF619QCJ ENCSR295QZX Peak with multiple sclerosis IgD-negative memory B cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF819LAM ENCSR295QZX with multiple sclerosis IgD-negative memory B cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF864DAT ENCSR295ELC Peak muscle of back tissue male embryo 97 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF149XYF ENCSR295ELC muscle of back tissue male embryo 97 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF309EGT ENCSR295DUI Peak left kidney tissue female embryo 87 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF966VNH ENCSR295DUI left kidney tissue female embryo 87 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF067UNG ENCSR294YEJ Peak activated CD8-positive, alpha-beta T cell male adult 21 years treated with anti-CD3 and anti-CD28 coated beads DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF602LTQ ENCSR294YEJ activated CD8-positive, alpha-beta T cell male adult 21 years treated with anti-CD3 and anti-CD28 coated beads DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF644TXU ENCSR294QCR Peak muscle of leg tissue male embryo 97 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF653PWS ENCSR294QCR muscle of leg tissue male embryo 97 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF573NPT ENCSR294PQF Peak subcutaneous abdominal adipose tissue tissue nuclear fraction female adult 81 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF238MHL ENCSR294PQF subcutaneous abdominal adipose tissue tissue nuclear fraction female adult 81 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF343LUQ ENCSR294DND Peak stimulated activated CD8-positive, alpha-beta memory T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 48 hours, 100 ng/mL Interleukin-4 for 48 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF596NYW ENCSR294DND stimulated activated CD8-positive, alpha-beta memory T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 48 hours, 100 ng/mL Interleukin-4 for 48 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF417PFZ ENCSR293MTQ Peak neurosphere embryo 15 weeks originated from ganglionic eminence H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF357DWL ENCSR293MTQ neurosphere embryo 15 weeks originated from ganglionic eminence H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF111PQK ENCSR293IGW Peak stimulated activated naive CD8-positive, alpha-beta T cell male adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 72 hours, 100 ng/mL Interleukin-15 for 72 hours H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF665FQE ENCSR293IGW stimulated activated naive CD8-positive, alpha-beta T cell male adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 72 hours, 100 ng/mL Interleukin-15 for 72 hours H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF664JKL ENCSR293ESL Peak brain organoid female embryo 5 days, 90 days post differentiation H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF751GGW ENCSR293ESL brain organoid female embryo 5 days, 90 days post differentiation H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF910FPB ENCSR291QUA Peak MCF 10A H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF121TKD ENCSR291QUA MCF 10A H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF599DDZ ENCSR291PVS Peak with squamous cell carcinoma skin epidermis tissue male adult 78 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF670CVB ENCSR291PVS with squamous cell carcinoma skin epidermis tissue male adult 78 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF533QGD ENCSR291KBJ Peak effector memory CD4-positive, alpha-beta T cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF032HUK ENCSR291KBJ effector memory CD4-positive, alpha-beta T cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF803ZDH ENCSR290NGL Peak T-cell female adult 32 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF888RPS ENCSR290NGL T-cell female adult 32 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF936YSV ENCSR287YDU Peak myoepithelial cell of mammary gland female adult 36 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF609VLF ENCSR287YDU myoepithelial cell of mammary gland female adult 36 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF781WIJ ENCSR287XHR Peak HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens MED14 treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF209JIH ENCSR287XHR HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens MED14 treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF805CQG ENCSR287GYT Peak stimulated activated CD4-positive, alpha-beta T cell male adult 42 years treated with anti-CD3 and anti-CD28 coated beads for 4 hours, 100 ng/mL TNF-alpha for 4 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF860DNN ENCSR287GYT stimulated activated CD4-positive, alpha-beta T cell male adult 42 years treated with anti-CD3 and anti-CD28 coated beads for 4 hours, 100 ng/mL TNF-alpha for 4 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF895QPR ENCSR286WIA muscle of leg tissue female embryo 105 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF239LME ENCSR286STX Peak heart left ventricle tissue male adult 66 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF169GLM ENCSR286STX heart left ventricle tissue male adult 66 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF348OBX ENCSR284VNJ Peak stimulated activated CD8-positive, alpha-beta memory T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 24 hours, 100 ng/mL Interleukin-15 for 24 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF685XGL ENCSR284VNJ stimulated activated CD8-positive, alpha-beta memory T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 24 hours, 100 ng/mL Interleukin-15 for 24 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF141HUS ENCSR284GAG Peak stimulated activated CD4-positive, alpha-beta T cell male adult 42 years treated with anti-CD3 and anti-CD28 coated beads for 4 hours, 100 ng/mL Interleukin-4 for 4 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF378RZS ENCSR284GAG stimulated activated CD4-positive, alpha-beta T cell male adult 42 years treated with anti-CD3 and anti-CD28 coated beads for 4 hours, 100 ng/mL Interleukin-4 for 4 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF534BNE ENCSR283TME Peak naive thymus-derived CD8-positive, alpha-beta T cell male adult 30 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF864EOB ENCSR283TME naive thymus-derived CD8-positive, alpha-beta T cell male adult 30 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF798PTC ENCSR283SJF Peak nephron organoid female embryo 5 days, 35 days post differentiation H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF099ERT ENCSR283SJF nephron organoid female embryo 5 days, 35 days post differentiation H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF623XDV ENCSR283MZJ Peak T-cell female adult 33 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF635ZUA ENCSR283MZJ T-cell female adult 33 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF347OAU ENCSR283LPH Peak naive thymus-derived CD8-positive, alpha-beta T cell nuclear fraction male adult 30 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF995WDO ENCSR283LPH naive thymus-derived CD8-positive, alpha-beta T cell nuclear fraction male adult 30 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF509PZC ENCSR282QFE Peak stomach tissue female embryo 121 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF358UVV ENCSR282QFE stomach tissue female embryo 121 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF248QDG ENCSR281LEY Peak K562 treated with 10 nM Panobinostat for 48 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF319BIE ENCSR281LEY K562 treated with 10 nM Panobinostat for 48 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF657CBM ENCSR281HBB Peak common myeloid progenitor, CD34-positive male adult 49 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF857XDF ENCSR281HBB common myeloid progenitor, CD34-positive male adult 49 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF395RAW ENCSR280DQH Peak HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens POLR2A H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF064VUP ENCSR280DQH HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens POLR2A H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF551XMX ENCSR279SXQ Peak left colon tissue female adult 46 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF452PQB ENCSR279SXQ left colon tissue female adult 46 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF443EQH ENCSR279KIX Peak C4-2B H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF226UYQ ENCSR279KIX C4-2B H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF383NCP ENCSR278SKG Peak right atrium auricular region tissue female adult 51 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF679FKQ ENCSR278SKG right atrium auricular region tissue female adult 51 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF403IRO ENCSR278QHR Peak with multiple sclerosis naive thymus-derived CD8-positive, alpha-beta T cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF926DTJ ENCSR278QHR with multiple sclerosis naive thymus-derived CD8-positive, alpha-beta T cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF934GTJ ENCSR278JWM Peak HG03558 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF890LTR ENCSR278JWM HG03558 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF649XXC ENCSR278JAH Peak middle frontal area 46 tissue female adult 79 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF909JLH ENCSR278JAH middle frontal area 46 tissue female adult 79 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF854YJS ENCSR278FVO Peak neuronal stem cell originated from H1 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF287XRW ENCSR278FVO neuronal stem cell originated from H1 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF635YIG ENCSR278FHC Peak testis tissue male embryo DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF366YAV ENCSR278FHC testis tissue male embryo DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF669ENF ENCSR277ZHX Peak CD14-positive monocyte male adult 21 years and male adult 40 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF881YUR ENCSR277ZHX CD14-positive monocyte male adult 21 years and male adult 40 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF397ITG ENCSR277KRY Peak adrenal gland tissue male adult 37 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF801REE ENCSR277KRY adrenal gland tissue male adult 37 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF328UFE ENCSR276MDV Peak head of caudate nucleus tissue male adult 87 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF941ZIR ENCSR276MDV head of caudate nucleus tissue male adult 87 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF054QVM ENCSR276ITP Peak sigmoid colon tissue female adult 53 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF299OOV ENCSR276ITP sigmoid colon tissue female adult 53 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF466VVJ ENCSR276BXF Peak mucosa of rectum tissue female adult 50 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF120TOC ENCSR276BXF mucosa of rectum tissue female adult 50 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF076OSQ ENCSR275NCH Peak PC-3 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF319OET ENCSR275NCH PC-3 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF576ZVM ENCSR275LCF Peak GM21786 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF472UIU ENCSR275LCF GM21786 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF411XAQ ENCSR275EAG Peak peripheral blood mononuclear cell male adult 39 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF986YFL ENCSR275EAG peripheral blood mononuclear cell male adult 39 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF871AMJ ENCSR274XTS Peak activated CD8-positive, alpha-beta memory T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 48 hours, 50 U/mL Interleukin-2 for 48 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF762HKP ENCSR274XTS activated CD8-positive, alpha-beta memory T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 48 hours, 50 U/mL Interleukin-2 for 48 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF996CQM ENCSR274VSS Peak CD8-positive, alpha-beta memory T cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF376ATD ENCSR274VSS CD8-positive, alpha-beta memory T cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF337FUH ENCSR274SDO Peak right forelimb tissue male embryo 81 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF879GMI ENCSR274SDO right forelimb tissue male embryo 81 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF791OFW ENCSR274HDQ Peak middle frontal area 46 tissue female adult 90 or above years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF679AWS ENCSR274HDQ middle frontal area 46 tissue female adult 90 or above years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF571GBW ENCSR274FZD Peak with Cognitive impairment, Alzheimer's disease head of caudate nucleus tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF431VJE ENCSR274FZD with Cognitive impairment, Alzheimer's disease head of caudate nucleus tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF081PRY ENCSR273USD Peak activated CD4-positive, alpha-beta T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 24 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF073UAS ENCSR273USD activated CD4-positive, alpha-beta T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 24 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF358AVR ENCSR273GCF Peak activated T-cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 4 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF851EQR ENCSR273GCF activated T-cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 4 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF480SWD ENCSR272VRX Peak activated CD4-positive, alpha-beta T cell male adult 35 years treated with anti-CD3 and anti-CD28 coated beads H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF546IYU ENCSR272VRX activated CD4-positive, alpha-beta T cell male adult 35 years treated with anti-CD3 and anti-CD28 coated beads H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF403QJU ENCSR272RQX Peak muscle of leg tissue female embryo 113 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF835ERC ENCSR272RQX muscle of leg tissue female embryo 113 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF703QQR ENCSR272QSF Peak HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens CTCF H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF503BFJ ENCSR272QSF HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens CTCF H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF913CNI ENCSR271QSV Peak common myeloid progenitor, CD34-positive male adult DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF411LUQ ENCSR271QSV common myeloid progenitor, CD34-positive male adult DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF148BQA ENCSR271QID Peak with mild cognitive impairment head of caudate nucleus tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF580HLW ENCSR271QID with mild cognitive impairment head of caudate nucleus tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF625UAL ENCSR270LZE Peak muscle of arm tissue male embryo 113 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF935RUX ENCSR270LZE muscle of arm tissue male embryo 113 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF235CPK ENCSR270KFY Peak with Cognitive impairment middle frontal area 46 tissue female adult 90 or above years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF258OMT ENCSR270KFY with Cognitive impairment middle frontal area 46 tissue female adult 90 or above years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF366WFI ENCSR270JQK Peak T-cell female adult 40 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF370PCW ENCSR270JQK T-cell female adult 40 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF154CNA ENCSR269SIA Peak G401 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF364UAO ENCSR269SIA G401 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF819AJG ENCSR269OVV Peak B cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF682CXH ENCSR269OVV B cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF420QNT ENCSR268ZCF Peak sigmoid colon tissue female adult 53 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF111DLN ENCSR268ZCF sigmoid colon tissue female adult 53 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF864FOZ ENCSR268QCH Peak right renal cortex interstitium tissue male embryo 105 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF729PEV ENCSR268QCH right renal cortex interstitium tissue male embryo 105 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF023MAH ENCSR268JQE Peak ovary tissue female adult 30 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF083NUK ENCSR268JQE ovary tissue female adult 30 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF274YMU ENCSR268GBM Peak with mild cognitive impairment head of caudate nucleus tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF938OBZ ENCSR268GBM with mild cognitive impairment head of caudate nucleus tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF750FOL ENCSR267YXV Peak neutrophil H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF311TAY ENCSR267YXV neutrophil H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF022ZKX ENCSR267UFM placenta tissue embryo DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF160EDG ENCSR267NWZ Peak with multiple sclerosis CD14-positive monocyte H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF790FMB ENCSR267NWZ with multiple sclerosis CD14-positive monocyte H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF411ACD ENCSR266ZUX Peak nephron organoid female embryo 5 days, 35 days post differentiation CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF947KDR ENCSR266ZUX nephron organoid female embryo 5 days, 35 days post differentiation CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF681NLB ENCSR266NDC Peak stimulated activated CD4-positive, alpha-beta T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 1 hour, 100 ng/mL TNF-alpha for 1 hour DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF016SWR ENCSR266NDC stimulated activated CD4-positive, alpha-beta T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 1 hour, 100 ng/mL TNF-alpha for 1 hour DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF825QXK ENCSR266CJT Peak spleen tissue female adult 59 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF161AWO ENCSR266CJT spleen tissue female adult 59 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF194WPR ENCSR265TEK Peak NCI-H226 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF304BKH ENCSR265TEK NCI-H226 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF967FJM ENCSR265SCJ Peak HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens CTCF H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF065MMS ENCSR265SCJ HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens CTCF H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF269EDN ENCSR265PFQ Peak body of pancreas tissue male adult 54 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF078UTK ENCSR265PFQ body of pancreas tissue male adult 54 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF858YQT ENCSR265ARE Peak VCaP CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF328ACZ ENCSR265ARE VCaP CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF663ZVU ENCSR264ZTG Peak brain organoid male adult 53 years, 90 days post differentiation H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF878PYH ENCSR264ZTG brain organoid male adult 53 years, 90 days post differentiation H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF781BNB ENCSR264APD Peak muscle layer of duodenum tissue male adult 59 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF910MXI ENCSR264APD muscle layer of duodenum tissue male adult 59 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF977WRL ENCSR263WLD Peak CD4-positive, alpha-beta T cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF296NOR ENCSR263WLD CD4-positive, alpha-beta T cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF958FJI ENCSR263IGU Peak right lung tissue female embryo 91 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF962DKE ENCSR263IGU right lung tissue female embryo 91 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF587PWA ENCSR263ELQ Peak iPS DF 6.9 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF368YTZ ENCSR263ELQ iPS DF 6.9 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF302OMG ENCSR262QJC Peak kidney tissue male embryo 87 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF793ZSS ENCSR262QJC kidney tissue male embryo 87 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF656FBT ENCSR261VAS Peak smooth muscle cell originated from H9 CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF475BOH ENCSR261VAS smooth muscle cell originated from H9 CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF717CYU ENCSR261SMF Peak iPS DF 6.9 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF646IDT ENCSR261SMF iPS DF 6.9 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF654SYH ENCSR261RWJ Peak Peyer's patch tissue female adult 51 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF241BCT ENCSR261RWJ Peyer's patch tissue female adult 51 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF125CSV ENCSR261PWP Peak activated CD4-positive, CD25-positive, alpha-beta regulatory T cell male adult 42 years treated with anti-CD3 and anti-CD28 coated beads for 24 hours, 50 U/mL Interleukin-2 for 24 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF546IOZ ENCSR261PWP activated CD4-positive, CD25-positive, alpha-beta regulatory T cell male adult 42 years treated with anti-CD3 and anti-CD28 coated beads for 24 hours, 50 U/mL Interleukin-2 for 24 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF832WUJ ENCSR260ZIV Peak gastroesophageal sphincter tissue female adult 51 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF234HJK ENCSR260ZIV gastroesophageal sphincter tissue female adult 51 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF465BDC ENCSR260UJJ Peak T-helper 1 cell male adult 42 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF043TCU ENCSR260UJJ T-helper 1 cell male adult 42 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF267OCY ENCSR260SWI Peak HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens CTCF treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF243DOC ENCSR260SWI HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens CTCF treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF581WPG ENCSR260FAS Peak neural progenitor cell CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF900FBY ENCSR260FAS neural progenitor cell CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF733GAY ENCSR260CRI Peak with multiple sclerosis naive B cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF780NTN ENCSR260CRI with multiple sclerosis naive B cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF878SHN ENCSR259VGN Peak neural progenitor cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF034NYB ENCSR259VGN neural progenitor cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF476NBQ ENCSR259PNW Peak with Alzheimer's disease middle frontal area 46 tissue female adult 88 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF302UYV ENCSR259PNW with Alzheimer's disease middle frontal area 46 tissue female adult 88 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF668LTU ENCSR259HTB Peak K562 treated with 1 μM AR-42 for 24 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF285XBD ENCSR259HTB K562 treated with 1 μM AR-42 for 24 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF210NGP ENCSR259GYP Peak adrenal gland tissue female adult 51 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF693WYZ ENCSR259GYP adrenal gland tissue female adult 51 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF619VWJ ENCSR259FEJ Peak naive thymus-derived CD4-positive, alpha-beta T cell male adult 38 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF639YOF ENCSR259FEJ naive thymus-derived CD4-positive, alpha-beta T cell male adult 38 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF780QRK ENCSR259EBS Peak IgD-negative memory B cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF514MWD ENCSR259EBS IgD-negative memory B cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF231REB ENCSR258UUX Peak vagina tissue female adult 53 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF379GSJ ENCSR258UUX vagina tissue female adult 53 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF642JYQ ENCSR258RXP Peak T-cell male adult 38 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF896VDJ ENCSR258RXP T-cell male adult 38 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF464HRU ENCSR258RSH Peak T-cell male adult 38 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF677BPI ENCSR258RSH T-cell male adult 38 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF153IWJ ENCSR258POP Peak with mild cognitive impairment posterior cingulate gyrus tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF681IJJ ENCSR258POP with mild cognitive impairment posterior cingulate gyrus tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF276MUO ENCSR258JCL Peak gastrocnemius medialis tissue male adult 37 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF703MFP ENCSR258JCL gastrocnemius medialis tissue male adult 37 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF122ZUY ENCSR258IBL Peak left renal pelvis tissue male embryo 105 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF466OTS ENCSR258IBL left renal pelvis tissue male embryo 105 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF203MMM ENCSR257VEO Peak middle frontal area 46 tissue male adult 82 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF546VCE ENCSR257VEO middle frontal area 46 tissue male adult 82 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF570GWB ENCSR257CIZ Peak kidney tubule cell female adult 80 years treated with 5 μM cisplatin DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF445HCH ENCSR257CIZ kidney tubule cell female adult 80 years treated with 5 μM cisplatin DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF312WCI ENCSR257BGZ Peak ACHN DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF783EDL ENCSR257BGZ ACHN DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF620MAT ENCSR255SQR Peak left lung tissue male adult 40 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF002ZEZ ENCSR255SQR left lung tissue male adult 40 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF895ERR ENCSR254YRM Peak liver tissue female child 6 years and with nonobstructive coronary artery disease liver tissue male adult 32 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF725LBV ENCSR254YRM liver tissue female child 6 years and with nonobstructive coronary artery disease liver tissue male adult 32 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF246KVB ENCSR254AGA Peak renal cortex interstitium tissue male embryo 91 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF308HSD ENCSR254AGA renal cortex interstitium tissue male embryo 91 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF299CLD ENCSR253QLW Peak GM18511 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF990WXU ENCSR253QLW GM18511 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF372XNU ENCSR253ALG Peak pancreas tissue female adult 61 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF232BMJ ENCSR253ALG pancreas tissue female adult 61 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF055ALO ENCSR252XWG Peak lower leg skin tissue male adult 54 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF881OCE ENCSR252XWG lower leg skin tissue male adult 54 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF263BLJ ENCSR252QYR Peak hepatocyte originated from H9 CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF491FMJ ENCSR252QYR hepatocyte originated from H9 CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF582UJI ENCSR252NVI Peak activated CD4-positive, alpha-beta T cell female adult 37 years treated with Interleukin-10 for 8 hours, 50 U/mL Interleukin-2 for 16 hours, anti-CD3 and anti-CD28 coated beads for 16 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF032VQN ENCSR252NVI activated CD4-positive, alpha-beta T cell female adult 37 years treated with Interleukin-10 for 8 hours, 50 U/mL Interleukin-2 for 16 hours, anti-CD3 and anti-CD28 coated beads for 16 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF839UMC ENCSR251UPG Peak foreskin fibroblast male newborn DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF261OJD ENCSR251UPG foreskin fibroblast male newborn DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF404IOA ENCSR251PPB Peak with mild cognitive impairment middle frontal area 46 tissue female adult 90 or above years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF701XQB ENCSR251PPB with mild cognitive impairment middle frontal area 46 tissue female adult 90 or above years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF512DHS ENCSR251POP Peak pancreas tissue female adult 61 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF863PLK ENCSR251POP pancreas tissue female adult 61 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF176KVK ENCSR251INE Peak T-cell female adult 24 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF667QSN ENCSR251INE T-cell female adult 24 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF673RMM ENCSR251IKC Peak activated T-cell female adult 21 years treated with 50 U/mL Interleukin-2 for 72 hours, anti-CD3 and anti-CD28 coated beads for 72 hours H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF597DCN ENCSR251IKC activated T-cell female adult 21 years treated with 50 U/mL Interleukin-2 for 72 hours, anti-CD3 and anti-CD28 coated beads for 72 hours H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF896AZK ENCSR251BHU Peak middle frontal area 46 tissue female adult 82 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF417AGZ ENCSR251BHU middle frontal area 46 tissue female adult 82 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF730UDT ENCSR250NHD Peak psoas muscle tissue female adult 30 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF912BEJ ENCSR250NHD psoas muscle tissue female adult 30 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF067BEF ENCSR250GDW Peak CD4-positive, alpha-beta T cell female adult 26 years and female adult 39 years, treated with Interleukin-4 for 1 hour DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF288CFM ENCSR250GDW CD4-positive, alpha-beta T cell female adult 26 years and female adult 39 years, treated with Interleukin-4 for 1 hour DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF871HAS ENCSR249RFY Peak with Alzheimer's disease posterior cingulate gyrus tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF994MAI ENCSR249RFY with Alzheimer's disease posterior cingulate gyrus tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF264MGR ENCSR249INE Peak uterus tissue female adult 53 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF154QOP ENCSR249INE uterus tissue female adult 53 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF266IBZ ENCSR249IKQ Peak Peyer's patch tissue female adult 51 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF525KQP ENCSR249IKQ Peyer's patch tissue female adult 51 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF974NLK ENCSR249FXU Peak HG03045 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF519OXO ENCSR249FXU HG03045 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF367WGQ ENCSR248ZAC Peak T-helper 17 cell male adult 42 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF060YOU ENCSR248ZAC T-helper 17 cell male adult 42 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF702IAN ENCSR247IUJ Peak B cell male adult 37 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF993MFJ ENCSR247IUJ B cell male adult 37 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF723PIZ ENCSR246VSO Peak heart right ventricle tissue female adult 56 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF118JST ENCSR246VSO heart right ventricle tissue female adult 56 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF570EYF ENCSR246TTM Peak with multiple sclerosis immature natural killer cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF689NDO ENCSR246TTM with multiple sclerosis immature natural killer cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF464TWK ENCSR246PXX Peak stomach tissue male child 3 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF557HYB ENCSR246PXX stomach tissue male child 3 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF185UPI ENCSR246IBU Peak brain organoid male adult 53 years, 180 days post differentiation H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF325DXX ENCSR246IBU brain organoid male adult 53 years, 180 days post differentiation H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF492OBS ENCSR245YME Peak CD14-positive monocyte H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF414KJQ ENCSR245YME CD14-positive monocyte H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF104OLX ENCSR245HFY Peak CD4-positive, alpha-beta memory T cell male adult 43 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF702OCF ENCSR245HFY CD4-positive, alpha-beta memory T cell male adult 43 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF022OQM ENCSR245GEV Peak pancreas tissue female adult 61 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF948MEI ENCSR245GEV pancreas tissue female adult 61 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF211POS ENCSR245BEV Peak psoas muscle tissue male child 3 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF520CVN ENCSR245BEV psoas muscle tissue male child 3 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF808GKL ENCSR245AXW Peak stimulated activated CD4-positive, alpha-beta T cell male adult 42 years treated with anti-CD3 and anti-CD28 coated beads for 24 hours, 100 ng/mL Interleukin-2 for 24 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF959XPY ENCSR245AXW stimulated activated CD4-positive, alpha-beta T cell male adult 42 years treated with anti-CD3 and anti-CD28 coated beads for 24 hours, 100 ng/mL Interleukin-2 for 24 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF354RKX ENCSR244KEW Peak with mild cognitive impairment middle frontal area 46 tissue female adult 88 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF072ETP ENCSR244KEW with mild cognitive impairment middle frontal area 46 tissue female adult 88 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF539ULB ENCSR243INX Peak PC-9 CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF936QRH ENCSR243INX PC-9 CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF942YMO ENCSR243BXK Peak K562 treated with 5 μM JQ1 for 24 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF177WRC ENCSR243BXK K562 treated with 5 μM JQ1 for 24 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF553KCH ENCSR242RPQ Peak pancreas tissue female child 16 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF349ZMO ENCSR242RPQ pancreas tissue female child 16 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF937BNU ENCSR242CLA Peak activated regulatory T cell female adult 21 years treated with 50 U/mL Interleukin-2 for 72 hours, anti-CD3 and anti-CD28 coated beads for 72 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF594BXK ENCSR242CLA activated regulatory T cell female adult 21 years treated with 50 U/mL Interleukin-2 for 72 hours, anti-CD3 and anti-CD28 coated beads for 72 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF893IGA ENCSR242AHB Peak ovary tissue female adult 51 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF920RTP ENCSR242AHB ovary tissue female adult 51 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF529QLX ENCSR241VGH Peak GM18502 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF241EBE ENCSR241VGH GM18502 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF351HBR ENCSR241OBO Peak adrenal gland tissue female adult 59 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF404IAG ENCSR241OBO adrenal gland tissue female adult 59 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF429YGJ ENCSR241BNZ Peak CD14-positive monocyte male adult 30 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF334MJA ENCSR241BNZ CD14-positive monocyte male adult 30 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF579RBC ENCSR240TPI Peak ELR DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF231PXF ENCSR240TPI ELR DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF094RUY ENCSR240GDT Peak heart right ventricle tissue female adult 46 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF406YGS ENCSR240GDT heart right ventricle tissue female adult 46 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF204VOA ENCSR239XNU Peak CD4-positive, alpha-beta memory T cell male adult 43 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF520YEZ ENCSR239XNU CD4-positive, alpha-beta memory T cell male adult 43 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF953QDG ENCSR239MQN Peak head of caudate nucleus tissue female adult 82 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF298BKQ ENCSR239MQN head of caudate nucleus tissue female adult 82 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF098LZT ENCSR238VHV Peak fallopian tube tissue female adult 46 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF509BSA ENCSR238LEG Peak skeletal muscle tissue tissue H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF038ZQI ENCSR238LEG skeletal muscle tissue tissue H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF528LMX ENCSR238FMP Peak heart right ventricle tissue male adult 40 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF407UXA ENCSR238FMP heart right ventricle tissue male adult 40 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF205HHB ENCSR237QFJ Peak small intestine tissue male embryo 108 days H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF978EHV ENCSR237QFJ small intestine tissue male embryo 108 days H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF677SUG ENCSR237BTA Peak with Alzheimer's disease middle frontal area 46 tissue female adult 81 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF796CNP ENCSR237BTA with Alzheimer's disease middle frontal area 46 tissue female adult 81 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF502FSS ENCSR237BOF Peak naive thymus-derived CD8-positive, alpha-beta T cell male adult 30 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF617ISJ ENCSR237BOF naive thymus-derived CD8-positive, alpha-beta T cell male adult 30 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF951GMD ENCSR236XRR Peak iPS-15b H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF316EML ENCSR236XRR iPS-15b H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF732RVZ ENCSR236OFL Peak activated CD4 positive, naive alpha-beta T cell male adult 42 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF147IYE ENCSR236OFL activated CD4 positive, naive alpha-beta T cell male adult 42 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF068NNQ ENCSR236KPK Peak pancreas tissue female adult 47 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF707LYV ENCSR236KPK pancreas tissue female adult 47 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF334WCE ENCSR236KOX Peak heart right ventricle tissue male adult 40 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF119FKH ENCSR236KOX heart right ventricle tissue male adult 40 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF383NOB ENCSR235ZBF Peak spleen tissue male adult 34 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF859PGH ENCSR235ZBF spleen tissue male adult 34 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF434ZYY ENCSR235WEI Peak naive thymus-derived CD4-positive, alpha-beta T cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF766SYL ENCSR235WEI naive thymus-derived CD4-positive, alpha-beta T cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF971VKM ENCSR235OZX Peak CD8-positive, alpha-beta T cell female adult 33 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF991DNH ENCSR235OZX CD8-positive, alpha-beta T cell female adult 33 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF615GQA ENCSR235KRX Peak with squamous cell carcinoma skin epidermis tissue male adult 75 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF830XDO ENCSR235KRX with squamous cell carcinoma skin epidermis tissue male adult 75 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF430RZK ENCSR235BES Peak with Alzheimer's disease middle frontal area 46 tissue female adult 88 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF563YFA ENCSR235BES with Alzheimer's disease middle frontal area 46 tissue female adult 88 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF446TXW ENCSR234YIU Peak adrenal gland tissue male adult 34 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF928LBS ENCSR234YIU adrenal gland tissue male adult 34 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF784CUV ENCSR234VLI Peak head of caudate nucleus tissue male adult 87 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF289FQY ENCSR234VLI head of caudate nucleus tissue male adult 87 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF871UJJ ENCSR234BAD Peak with multiple sclerosis immature natural killer cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF254QZL ENCSR234BAD with multiple sclerosis immature natural killer cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF755YHN ENCSR233RWF Peak with Cognitive impairment middle frontal area 46 tissue female adult 90 or above years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF028IBW ENCSR233RWF with Cognitive impairment middle frontal area 46 tissue female adult 90 or above years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF365VHF ENCSR233HSC Peak GM21723 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF353OEE ENCSR233HSC GM21723 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF926PVJ ENCSR233DFT Peak head of caudate nucleus tissue male adult 83 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF775TPT ENCSR233DFT head of caudate nucleus tissue male adult 83 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF016UGD ENCSR232VZV Peak stimulated activated CD4-positive, alpha-beta memory T cell male adult 43 years treated with 10 ng/mL Interleukin-2 , anti-CD3 and anti-CD28 coated beads H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF868GED ENCSR232VZV stimulated activated CD4-positive, alpha-beta memory T cell male adult 43 years treated with 10 ng/mL Interleukin-2 , anti-CD3 and anti-CD28 coated beads H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF696NTN ENCSR232OFD Peak right atrium auricular region tissue female adult 51 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF872ERK ENCSR232OFD right atrium auricular region tissue female adult 51 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF892MPE ENCSR232NLA Peak naive thymus-derived CD4-positive, alpha-beta T cell male adult 35 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF472RBD ENCSR232NLA naive thymus-derived CD4-positive, alpha-beta T cell male adult 35 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF089YTS ENCSR232FAS Peak effector memory CD8-positive, alpha-beta T cell male adult 33 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF057LCQ ENCSR232FAS effector memory CD8-positive, alpha-beta T cell male adult 33 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF069DCH ENCSR231ZZH Peak with multiple sclerosis CD8-positive, alpha-beta memory T cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF240SXY ENCSR231ZZH with multiple sclerosis CD8-positive, alpha-beta memory T cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF747LGJ ENCSR231FDF Peak CD8-positive, alpha-beta T cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF892ETR ENCSR231FDF CD8-positive, alpha-beta T cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF443ZDG ENCSR231BZU Peak GM19351 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF023VMB ENCSR231BZU GM19351 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF230SFD ENCSR230RQK Peak with Alzheimer's disease middle frontal area 46 tissue female adult 90 or above years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF800TZW ENCSR230RQK with Alzheimer's disease middle frontal area 46 tissue female adult 90 or above years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF275OLK ENCSR230IMS liver tissue male adult 31 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF499ZEJ ENCSR230BWN kidney tissue male adult 67 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF138QCD ENCSR229BGG Peak memory B cell male adult 40 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF500QFS ENCSR229BGG memory B cell male adult 40 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF994QJQ ENCSR228VNQ Peak mammary epithelial cell female adult 18 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF251BVR ENCSR228VNQ mammary epithelial cell female adult 18 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF477HIS ENCSR228BOM Peak right lung tissue male embryo 115 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF330KCN ENCSR228BOM right lung tissue male embryo 115 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF081IJF ENCSR227FYJ Peak foreskin melanocyte male newborn H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF337BET ENCSR227FYJ foreskin melanocyte male newborn H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF813JTC ENCSR227FVE Peak ovary tissue female adult 59 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF912UZC ENCSR227FVE ovary tissue female adult 59 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF527AIX ENCSR226LVB Peak stimulated activated CD4-positive, alpha-beta T cell male adult 42 years treated with anti-CD3 and anti-CD28 coated beads for 48 hours, 100 ng/mL Interleukin-4 for 48 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF950JCQ ENCSR226LVB stimulated activated CD4-positive, alpha-beta T cell male adult 42 years treated with anti-CD3 and anti-CD28 coated beads for 48 hours, 100 ng/mL Interleukin-4 for 48 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF942ANS ENCSR226JLK Peak inflammatory macrophage male adult 21 years treated with lipopolysaccharide for 4 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF866KDT ENCSR226JLK inflammatory macrophage male adult 21 years treated with lipopolysaccharide for 4 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF461YDT ENCSR225OKX Peak omental fat pad tissue female adult 51 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF501ILD ENCSR225OKX omental fat pad tissue female adult 51 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF163BBN ENCSR225KOS Peak brain organoid female embryo 5 days, 180 days post differentiation CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF192VBR ENCSR225KOS brain organoid female embryo 5 days, 180 days post differentiation CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF170ORD ENCSR224WWI Peak upper lobe of left lung tissue female adult 53 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF543MYI ENCSR224WWI upper lobe of left lung tissue female adult 53 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF284HNQ ENCSR224STY Peak breast epithelium tissue male adult 37 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF720WSA ENCSR224STY breast epithelium tissue male adult 37 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF432KFY ENCSR224IYD Peak medulla oblongata tissue male adult 78 years and male adult 84 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF804IBP ENCSR224IYD medulla oblongata tissue male adult 78 years and male adult 84 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF374LAA ENCSR224FOA Peak islet precursor cell DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF080RXM ENCSR224FOA islet precursor cell DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF570RHT ENCSR223XND Peak T-helper 2 cell male adult 35 years treated with 5 μg/mL Interferon-gamma antibody , 100 ng/mL Interleukin-4 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF502EWY ENCSR223XND T-helper 2 cell male adult 35 years treated with 5 μg/mL Interferon-gamma antibody , 100 ng/mL Interleukin-4 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF585LYP ENCSR223UPC Peak HUES48 H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF923EZY ENCSR223UPC HUES48 H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF051AVT ENCSR223KKX Peak activated T-cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 24 hours, 50 U/mL Interleukin-2 for 24 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF724QAK ENCSR223KKX activated T-cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 24 hours, 50 U/mL Interleukin-2 for 24 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF222SUZ ENCSR223APP Peak CD4-positive, alpha-beta memory T cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF158WCY ENCSR223APP CD4-positive, alpha-beta memory T cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF048LWE ENCSR222QLW Peak T-cell male adult 37 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF643EGV ENCSR222QLW T-cell male adult 37 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF405EMV ENCSR222CLC Peak heart left ventricle tissue male adult 69 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF254NBU ENCSR222CLC heart left ventricle tissue male adult 69 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF753DPM ENCSR221ROM middle frontal area 46 tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF342LPC ENCSR220TRW Peak middle frontal area 46 tissue female adult 89 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF986LOD ENCSR220TRW middle frontal area 46 tissue female adult 89 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF112GCH ENCSR219QSM Peak gastroesophageal sphincter tissue male adult 54 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF051GOU ENCSR219QSM gastroesophageal sphincter tissue male adult 54 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF958EMA ENCSR219KTW Peak activated T-cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 48 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF147PAF ENCSR219KTW activated T-cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 48 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF182LWK ENCSR218MVT Peak neural crest cell CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF192FOK ENCSR218MVT neural crest cell CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF993TPM ENCSR218FSP Peak WERI-Rb-1 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF291DQP ENCSR218FSP WERI-Rb-1 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF045DXF ENCSR218FJD Peak T-cell male adult 30 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF162UOX ENCSR218FJD T-cell male adult 30 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF035GGV ENCSR217YRJ Peak muscle of trunk tissue female embryo 120 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF941XTI ENCSR217YRJ muscle of trunk tissue female embryo 120 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF962DYY ENCSR217TAW Peak GM23248 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF291LQB ENCSR217TAW GM23248 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF181YJP ENCSR217SET Peak SW480 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF123CER ENCSR217SET SW480 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF891AUN ENCSR217RVH Peak fibroblast of skin of right quadriceps male embryo 97 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF390NQU ENCSR217RVH fibroblast of skin of right quadriceps male embryo 97 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF582TKS ENCSR217QAB Peak K562 treated with 10 nM Bortezomib for 4 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF911CJZ ENCSR217QAB K562 treated with 10 nM Bortezomib for 4 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF979ZVU ENCSR217PZP Peak T-cell male adult 26 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF950WGH ENCSR217PZP T-cell male adult 26 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF984NBX ENCSR217OHA Peak head of caudate nucleus tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF023UNU ENCSR217OHA head of caudate nucleus tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF048BHP ENCSR217AJC Peak brain organoid female embryo 5 days, 180 days post differentiation H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF143NJI ENCSR217AJC brain organoid female embryo 5 days, 180 days post differentiation H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF644BOA ENCSR216YPQ Peak heart right ventricle tissue male adult 73 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF566UBC ENCSR216YPQ heart right ventricle tissue male adult 73 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF727TTT ENCSR215QQE Peak with Cognitive impairment middle frontal area 46 tissue female adult 90 or above years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF005KPT ENCSR215QQE with Cognitive impairment middle frontal area 46 tissue female adult 90 or above years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF200UEF ENCSR215EFA Peak chorion tissue male embryo 16 weeks H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF976KIV ENCSR215EFA chorion tissue male embryo 16 weeks H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF314XPI ENCSR215DXT Peak with Cognitive impairment middle frontal area 46 tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF305XCA ENCSR215DXT with Cognitive impairment middle frontal area 46 tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF701KMG ENCSR214XJO Peak lung tissue female embryo 120 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF411YZS ENCSR214XJO lung tissue female embryo 120 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF437IBY ENCSR214UZE Peak skin epidermis tissue female adult 71 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF529BXA ENCSR214UZE skin epidermis tissue female adult 71 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF773KAP ENCSR214SFA Peak K562 treated with 1 μM AR-42 for 12 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF754GEP ENCSR214SFA K562 treated with 1 μM AR-42 for 12 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF184MUO ENCSR214QZO Peak K562 treated with 1 μM Crizotinib for 4 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF477ATH ENCSR214QZO K562 treated with 1 μM Crizotinib for 4 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF841BWZ ENCSR214QEO Peak large intestine tissue female embryo 91 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF276JCL ENCSR214QEO large intestine tissue female embryo 91 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF112WEE ENCSR214NMO Peak SJSA1 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF152TPG ENCSR214NMO SJSA1 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF860REB ENCSR214NLQ Peak heart right ventricle tissue male adult 69 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF315VTA ENCSR214NLQ heart right ventricle tissue male adult 69 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF287DNM ENCSR214EIV Peak GM21619 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF524PBI ENCSR214EIV GM21619 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF150IPQ ENCSR213YPO right cardiac atrium tissue male adult 60 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF900TBX ENCSR213WNV Peak T-cell male adult 38 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF751PBQ ENCSR213WNV T-cell male adult 38 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF561OXZ ENCSR213SMK Peak sigmoid colon tissue male child 3 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF007ZXP ENCSR213SMK sigmoid colon tissue male child 3 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF243JLW ENCSR212VEN Peak placenta tissue male embryo DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF690TSD ENCSR212VEN placenta tissue male embryo DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF492LVZ ENCSR212LYK Peak heart right ventricle tissue female adult 46 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF490QPE ENCSR212LYK heart right ventricle tissue female adult 46 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF186NOO ENCSR211SUT Peak heart right ventricle tissue male adult 55 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF824TGQ ENCSR211SUT heart right ventricle tissue male adult 55 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF847BAO ENCSR211SBE Peak pancreas tissue female adult 61 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF682UWZ ENCSR211SBE pancreas tissue female adult 61 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF280LAI ENCSR211MKD Peak neural progenitor cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF630UZH ENCSR211MKD neural progenitor cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF767LNC ENCSR211AFA Peak with mild cognitive impairment middle frontal area 46 tissue female adult 90 or above years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF409LLA ENCSR211AFA with mild cognitive impairment middle frontal area 46 tissue female adult 90 or above years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF270QYQ ENCSR210ZPC Peak smooth muscle cell originated from H9 H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF118JRY ENCSR210ZPC smooth muscle cell originated from H9 H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF332BRB ENCSR210UDG Peak effector memory CD8-positive, alpha-beta T cell male adult 36 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF044NRE ENCSR210UDG effector memory CD8-positive, alpha-beta T cell male adult 36 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF123QEO ENCSR210NKB Peak testis tissue male adult 37 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF962MQX ENCSR210NKB testis tissue male adult 37 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF324HZG ENCSR210JVF Peak stimulated activated CD8-positive, alpha-beta memory T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 1 hour, 100 ng/mL Interleukin-4 for 1 hour DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF413ADP ENCSR210JVF stimulated activated CD8-positive, alpha-beta memory T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 1 hour, 100 ng/mL Interleukin-4 for 1 hour DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF648BWU ENCSR210ESN Peak with Alzheimer's disease middle frontal area 46 tissue female adult 74 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF492WAE ENCSR210ESN with Alzheimer's disease middle frontal area 46 tissue female adult 74 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF809NXV ENCSR209QGZ Peak spinal cord tissue female embryo 108 days H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF116TJK ENCSR209QGZ spinal cord tissue female embryo 108 days H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF398RLC ENCSR209ECO Peak middle frontal area 46 tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF715WQG ENCSR209ECO middle frontal area 46 tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF283ECY ENCSR208YDK Peak stimulated activated naive CD8-positive, alpha-beta T cell male adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 72 hours, 100 ng/mL Interleukin-15 for 72 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF886SZK ENCSR208YDK stimulated activated naive CD8-positive, alpha-beta T cell male adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 72 hours, 100 ng/mL Interleukin-15 for 72 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF387CWY ENCSR208WDY Peak upper lobe of left lung tissue female adult 53 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF372LSW ENCSR208WDY upper lobe of left lung tissue female adult 53 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF808LEY ENCSR208QRN Peak transverse colon tissue female adult 53 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF318ECM ENCSR208QRN transverse colon tissue female adult 53 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF851MGE ENCSR208HAP Peak HG02981 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF401VCL ENCSR208HAP HG02981 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF588WYP ENCSR208DMX Peak stomach tissue female embryo 98 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF555JIC ENCSR208DMX stomach tissue female embryo 98 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF708OGX ENCSR207TUX Peak amniotic stem cell male embryo 15 weeks DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF435BEW ENCSR207TUX amniotic stem cell male embryo 15 weeks DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF975EBU ENCSR207FYD Peak with mild cognitive impairment middle frontal area 46 tissue female adult 90 or above years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF484YUA ENCSR207FYD with mild cognitive impairment middle frontal area 46 tissue female adult 90 or above years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF168JOU ENCSR207CQH Peak stimulated activated CD4-positive, alpha-beta T cell male adult 42 years treated with anti-CD3 and anti-CD28 coated beads for 48 hours, 100 ng/mL Interleukin-12 subunit alpha for 48 hours, 100 ng/mL Interleukin-12 subunit beta for 48 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF176HTM ENCSR207CQH stimulated activated CD4-positive, alpha-beta T cell male adult 42 years treated with anti-CD3 and anti-CD28 coated beads for 48 hours, 100 ng/mL Interleukin-12 subunit alpha for 48 hours, 100 ng/mL Interleukin-12 subunit beta for 48 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF314OVQ ENCSR207ABA Peak with basal cell carcinoma skin epidermis tissue male adult 67 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF032EHZ ENCSR207ABA with basal cell carcinoma skin epidermis tissue male adult 67 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF546HJP ENCSR206STN Peak gastrocnemius medialis tissue male adult 37 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF431FFY ENCSR206STN gastrocnemius medialis tissue male adult 37 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF763YHH ENCSR206OJJ Peak kidney tissue female adult 47 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF485CJZ ENCSR206OJJ kidney tissue female adult 47 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF593GTW ENCSR206JRX Peak peripheral blood mononuclear cell female adult 28 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF588KRS ENCSR206JRX peripheral blood mononuclear cell female adult 28 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF546QIK ENCSR206ETG Peak gastroesophageal sphincter tissue female adult 53 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF733RSG ENCSR206ETG gastroesophageal sphincter tissue female adult 53 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF075IFM ENCSR205ECC Peak stimulated activated CD8-positive, alpha-beta memory T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 48 hours, 100 ng/mL Interleukin-15 for 48 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF117UBS ENCSR205ECC stimulated activated CD8-positive, alpha-beta memory T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 48 hours, 100 ng/mL Interleukin-15 for 48 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF329HJH ENCSR204TAU Peak esophagus squamous epithelium tissue female adult 51 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF261VFS ENCSR204TAU esophagus squamous epithelium tissue female adult 51 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF472QAR ENCSR204SMO Peak heart right ventricle tissue male adult 46 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF573VRY ENCSR204SMO heart right ventricle tissue male adult 46 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF977LBD ENCSR204OJS Peak stomach tissue male adult 54 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF493RLF ENCSR204OJS stomach tissue male adult 54 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF056JQX ENCSR203QEB Peak Panc1 CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF004ITE ENCSR203QEB Panc1 CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF034AVF ENCSR203KEU Peak RWPE1 H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF644HJX ENCSR203KEU RWPE1 H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF898TZZ ENCSR203KCB Peak thyroid gland tissue male adult 54 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF573DJV ENCSR203KCB thyroid gland tissue male adult 54 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF324STE ENCSR202RXT Peak stomach tissue female embryo 98 days H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF538GPP ENCSR202RXT stomach tissue female embryo 98 days H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF413XCR ENCSR201FIW Peak thyroid gland tissue female adult 51 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF747TGQ ENCSR201FIW thyroid gland tissue female adult 51 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF739ICB ENCSR200SSJ Peak with multiple sclerosis CD4-positive, alpha-beta memory T cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF893MAP ENCSR200SSJ with multiple sclerosis CD4-positive, alpha-beta memory T cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF423EBL ENCSR200OML Peak IMR-90 nuclear fraction and unspecified fraction ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF282RNO ENCSR200OML IMR-90 nuclear fraction and unspecified fraction ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF404SAH ENCSR200JVJ Peak with mild cognitive impairment middle frontal area 46 tissue male adult 89 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF137KZR ENCSR200JVJ with mild cognitive impairment middle frontal area 46 tissue male adult 89 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF903GQD ENCSR200ETW Peak endodermal cell originated from HUES64 H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF156YLW ENCSR200ETW endodermal cell originated from HUES64 H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF985ONU ENCSR200BNM Peak head of caudate nucleus tissue male adult 71 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF520QRU ENCSR200BNM head of caudate nucleus tissue male adult 71 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF529JHG ENCSR198UKY Peak T-cell male adult 47 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF156UHI ENCSR198UKY T-cell male adult 47 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF550AZV ENCSR198JXW Peak muscle of leg tissue female embryo 85 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF478TKF ENCSR198JXW muscle of leg tissue female embryo 85 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF275QFN ENCSR197ZNW Peak T-helper 2 cell male adult 24 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF566TQY ENCSR197ZNW T-helper 2 cell male adult 24 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF025EPO ENCSR197UDN Peak CD14-positive monocyte male adult 51 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF171ZHJ ENCSR197UDN CD14-positive monocyte male adult 51 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF598AMS ENCSR197QDK Peak spleen tissue female adult 53 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF387XJD ENCSR197QDK spleen tissue female adult 53 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF962UBR ENCSR197PUB Peak HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens SUPT16H treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF370MPF ENCSR197PUB HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens SUPT16H treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF464LMM ENCSR197GOQ Peak K562 treated with 100 nM GSK J4 for 24 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF869XBZ ENCSR197GOQ K562 treated with 100 nM GSK J4 for 24 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF870FAI ENCSR197BFD Peak mesenteric fat pad tissue female adult 59 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF170YYM ENCSR197BFD mesenteric fat pad tissue female adult 59 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF086GTI ENCSR196HOM Peak epithelial cell of prostate male CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF354RCZ ENCSR196HOM epithelial cell of prostate male CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF906NCV ENCSR195POA Peak lower lobe of left lung tissue male adult 60 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF812ODW ENCSR195POA lower lobe of left lung tissue male adult 60 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF715WTH ENCSR195ONB Peak thyroid gland tissue female adult 53 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF047YGB ENCSR195ONB thyroid gland tissue female adult 53 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF203FXR ENCSR195JWZ Peak gastroesophageal sphincter tissue male adult 54 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF284NUP ENCSR195JWZ gastroesophageal sphincter tissue male adult 54 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF023FME ENCSR195GUK Peak posterior cingulate gyrus tissue male adult 82 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF287RNZ ENCSR195GUK posterior cingulate gyrus tissue male adult 82 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF150WIK ENCSR195CFR Peak middle frontal area 46 tissue male adult 81 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF256VRG ENCSR195CFR middle frontal area 46 tissue male adult 81 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF972IQB ENCSR194WQV Peak nephron organoid female embryo 5 days, 49 days post differentiation CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF923LDW ENCSR194WQV nephron organoid female embryo 5 days, 49 days post differentiation CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF601VLR ENCSR194MJA Peak placental basal plate tissue female embryo 40 weeks H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF174HPH ENCSR194MJA placental basal plate tissue female embryo 40 weeks H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF403GEI ENCSR194LMK Peak with Cognitive impairment middle frontal area 46 tissue female adult 81 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF419XND ENCSR194LMK with Cognitive impairment middle frontal area 46 tissue female adult 81 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF846BTG ENCSR194KGO Peak skin epidermis tissue female adult 66 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF926ENP ENCSR194KGO skin epidermis tissue female adult 66 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF306DTP ENCSR193VOB Peak endodermal cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF504UNY ENCSR193VOB endodermal cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF232KSI ENCSR193LYA Peak muscle of back tissue female embryo 85 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF779FPU ENCSR193LYA muscle of back tissue female embryo 85 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF473HLK ENCSR192GUR Peak common myeloid progenitor, CD34-positive male adult 42 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF588MYC ENCSR192GUR common myeloid progenitor, CD34-positive male adult 42 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF780GLY ENCSR191ZQT Peak B cell male adult 37 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF089VAB ENCSR191ZQT B cell male adult 37 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF904KOG ENCSR191YDG Peak with multiple sclerosis CD14-positive monocyte H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF716ZMD ENCSR191YDG with multiple sclerosis CD14-positive monocyte H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF803UKZ ENCSR191ULN Peak HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens BRD4 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF190GZS ENCSR191ULN HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens BRD4 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF034SJN ENCSR191EII Peak common myeloid progenitor, CD34-positive female DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF526CFK ENCSR191EII common myeloid progenitor, CD34-positive female DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF134ORZ ENCSR190BZA Peak chondrocyte CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF044ORH ENCSR190BZA chondrocyte CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF221YOA ENCSR189YJQ Peak heart tissue female embryo 110 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF925KAJ ENCSR189YJQ heart tissue female embryo 110 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF072FPR ENCSR189VFC Peak HG02588 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF612JSH ENCSR189VFC HG02588 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF113RVP ENCSR189QAD Peak adrenal gland tissue female adult 53 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF235TYQ ENCSR189QAD adrenal gland tissue female adult 53 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF025GPL ENCSR189JIH Peak uterus tissue female adult 51 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF477FDT ENCSR189JIH uterus tissue female adult 51 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF257AUK ENCSR188XCX Peak adrenal gland tissue female adult 41 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF796PZW ENCSR188XCX adrenal gland tissue female adult 41 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF972NUR ENCSR188JLO Peak small intestine tissue male embryo 105 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF875PHD ENCSR188JLO small intestine tissue male embryo 105 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF665PQV ENCSR187VKR Peak excitatory neuron genetically modified insertion using TALEN inserting M. musculus Neurog2 originated from WTC11 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF874BUI ENCSR187VKR excitatory neuron genetically modified insertion using TALEN inserting M. musculus Neurog2 originated from WTC11 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF184GEV ENCSR187PYY Peak brain tissue female embryo 142 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF062GSU ENCSR187PYY brain tissue female embryo 142 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF162OKK ENCSR187MVB Peak immature natural killer cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF101AWQ ENCSR187MVB immature natural killer cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF918KPI ENCSR186NVR Peak gastroesophageal sphincter tissue male adult 37 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF517ABA ENCSR186NVR gastroesophageal sphincter tissue male adult 37 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF145XAL ENCSR186NTL Peak T-cell female adult 43 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF743OIJ ENCSR186NTL T-cell female adult 43 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF638KDL ENCSR185TFI Peak naive thymus-derived CD4-positive, alpha-beta T cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF932GWQ ENCSR185TFI naive thymus-derived CD4-positive, alpha-beta T cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF918GTC ENCSR185CCV Peak stomach tissue female adult 53 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF807KJZ ENCSR185CCV stomach tissue female adult 53 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF628AHX ENCSR184TUE Peak naive B cell DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF342IAV ENCSR184TUE naive B cell DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF783KAK ENCSR184LMY Peak fibroblast of skin of back male embryo 97 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF779UTQ ENCSR184LMY fibroblast of skin of back male embryo 97 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF407CDU ENCSR184DFF Peak left kidney tissue male embryo 96 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF821MFF ENCSR184DFF left kidney tissue male embryo 96 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF260HDA ENCSR183IQU Peak CD4-positive, alpha-beta memory T cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF267TXG ENCSR183IQU CD4-positive, alpha-beta memory T cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF274EPZ ENCSR182JAI Peak HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens POLR2A treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF430RJE ENCSR182JAI HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens POLR2A treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF649PQC ENCSR182EZJ Peak SK-N-SH treated with 6 μM all-trans-retinoic acid for 48 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF938ZLY ENCSR182EZJ SK-N-SH treated with 6 μM all-trans-retinoic acid for 48 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF838MCR ENCSR181OHF Peak with Alzheimer's disease middle frontal area 46 tissue female adult 90 or above years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF798XFR ENCSR181OHF with Alzheimer's disease middle frontal area 46 tissue female adult 90 or above years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF979MID ENCSR181OGW Peak with multiple sclerosis naive thymus-derived CD4-positive, alpha-beta T cell DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF176YTF ENCSR181OGW with multiple sclerosis naive thymus-derived CD4-positive, alpha-beta T cell DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF304IZE ENCSR181ATL Peak heart left ventricle tissue female adult 51 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF720HFS ENCSR181ATL heart left ventricle tissue female adult 51 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF693PTF ENCSR180NCM Peak with multiple sclerosis naive thymus-derived CD4-positive, alpha-beta T cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF291NFC ENCSR180NCM with multiple sclerosis naive thymus-derived CD4-positive, alpha-beta T cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF104LYA ENCSR180KMR Peak activated CD4-positive, alpha-beta T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 4 hours, 50 U/mL Interleukin-2 for 4 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF848AKF ENCSR180KMR activated CD4-positive, alpha-beta T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 4 hours, 50 U/mL Interleukin-2 for 4 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF345ZWX ENCSR180IJO Peak K562 treated with 1 μM AR-42 for 48 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF414GDD ENCSR180IJO K562 treated with 1 μM AR-42 for 48 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF575VHJ ENCSR180HEL Peak HG02678 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF809SRH ENCSR180HEL HG02678 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF351NMS ENCSR179IAC Peak K562 treated with 5 μM JQ1 for 48 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF706FMW ENCSR179IAC K562 treated with 5 μM JQ1 for 48 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF326WIA ENCSR179CDH Peak trophoblast cell originated from H1 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF843JKM ENCSR179CDH trophoblast cell originated from H1 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF494GBK ENCSR178NOK Peak activated CD8-positive, naive alpha-beta T cell male adult 42 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF746DNB ENCSR178NOK activated CD8-positive, naive alpha-beta T cell male adult 42 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF002TBW ENCSR178KWE Peak heart right ventricle tissue male adult 43 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF454ERF ENCSR178KWE heart right ventricle tissue male adult 43 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF182YJD ENCSR178JBL Peak pancreas tissue male adult 34 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF459FAM ENCSR178JBL pancreas tissue male adult 34 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF124CPB ENCSR177QXA myoepithelial cell of mammary gland female adult 33 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF489LNG ENCSR177QFY Peak adrenal gland tissue male adult 54 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF144JOJ ENCSR177QFY adrenal gland tissue male adult 54 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF148GWQ ENCSR177NIJ Peak stomach tissue male adult 37 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF017QTW ENCSR177NIJ stomach tissue male adult 37 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF340FNF ENCSR177JWR Peak right cardiac atrium tissue female adult 59 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF905HWA ENCSR177JWR right cardiac atrium tissue female adult 59 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF131GJA ENCSR177GYC Peak stimulated activated CD8-positive, alpha-beta memory T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 1 hour, 100 ng/mL Interleukin-2 for 1 hour DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF544VJL ENCSR177GYC stimulated activated CD8-positive, alpha-beta memory T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 1 hour, 100 ng/mL Interleukin-2 for 1 hour DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF853CPL ENCSR176KYD Peak fibroblast of skin of abdomen male embryo 97 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF113OUE ENCSR176KYD fibroblast of skin of abdomen male embryo 97 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF534NJY ENCSR176BPJ Peak with mild cognitive impairment head of caudate nucleus tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF803KNZ ENCSR176BPJ with mild cognitive impairment head of caudate nucleus tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF330IDS ENCSR176ABZ Peak HUES6 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF340BGV ENCSR176ABZ HUES6 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF896WEY ENCSR175XPY Peak colonic mucosa tissue female adult 56 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF220ZKF ENCSR175XPY colonic mucosa tissue female adult 56 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF368YGV ENCSR175TRD Peak HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens RAD21 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF082LOG ENCSR175TRD HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens RAD21 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF068VDA ENCSR175OHT Peak activated CD8-positive, alpha-beta memory T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 24 hours, 50 U/mL Interleukin-2 for 24 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF162YDK ENCSR175OHT activated CD8-positive, alpha-beta memory T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 24 hours, 50 U/mL Interleukin-2 for 24 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF784QFM ENCSR175IWT Peak kidney tubule cell female adult 80 years and male adult 62 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF995SHL ENCSR175IWT kidney tubule cell female adult 80 years and male adult 62 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF558YEL ENCSR175IGC Peak CD4-positive, alpha-beta memory T cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF165YML ENCSR175IGC CD4-positive, alpha-beta memory T cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF483TFF ENCSR175FLL Peak coronary artery tissue female adult 53 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF341RAH ENCSR175FLL coronary artery tissue female adult 53 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF481UED ENCSR174SUM Peak activated naive CD4-positive, alpha-beta T cell male adult 48 years treated with anti-CD3 and anti-CD28 coated beads for 72 hours, 50 U/mL Interleukin-2 for 72 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF343VRK ENCSR174SUM activated naive CD4-positive, alpha-beta T cell male adult 48 years treated with anti-CD3 and anti-CD28 coated beads for 72 hours, 50 U/mL Interleukin-2 for 72 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF563SUY ENCSR174JMM Peak heart tissue female embryo 117 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF673FBL ENCSR174JMM heart tissue female embryo 117 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF918HIO ENCSR174GXG Peak muscle of back tissue male embryo 101 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF997ASP ENCSR174GXG muscle of back tissue male embryo 101 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF756DKI ENCSR174GMQ Peak heart right ventricle tissue male adult 69 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF346GTT ENCSR174GMQ heart right ventricle tissue male adult 69 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF917ZCZ ENCSR174DBN Peak activated CD8-positive, alpha-beta T cell male adult 21 years treated with anti-CD3 and anti-CD28 coated beads H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF135PTF ENCSR174DBN activated CD8-positive, alpha-beta T cell male adult 21 years treated with anti-CD3 and anti-CD28 coated beads H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF747BWW ENCSR173YSO Peak middle frontal area 46 tissue female adult 79 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF179VUT ENCSR173YSO middle frontal area 46 tissue female adult 79 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF513FTJ ENCSR173NHL Peak head of caudate nucleus tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF011RNN ENCSR173NHL head of caudate nucleus tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF879NDO ENCSR173HPQ Peak activated CD4-positive, alpha-beta T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 1 hour DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF159JDQ ENCSR173HPQ activated CD4-positive, alpha-beta T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 1 hour DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF649UCH ENCSR173BJC Peak activated effector memory CD4-positive, alpha-beta T cell male adult 42 years treated with 50 U/mL Interleukin-2 for 16 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF380MCL ENCSR173BJC activated effector memory CD4-positive, alpha-beta T cell male adult 42 years treated with 50 U/mL Interleukin-2 for 16 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF854ACL ENCSR172PVJ Peak stomach tissue male embryo 91 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF657FRL ENCSR172PVJ stomach tissue male embryo 91 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF668DFB ENCSR172LVU Peak sigmoid colon tissue male adult 54 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF886LUE ENCSR172LVU sigmoid colon tissue male adult 54 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF240NFH ENCSR172FMH Peak foreskin keratinocyte male newborn H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF675CBC ENCSR172FMH foreskin keratinocyte male newborn H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF352UGS ENCSR171APM Peak activated CD8-positive, alpha-beta memory T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 48 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF424FVD ENCSR171APM activated CD8-positive, alpha-beta memory T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 48 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF688HPU ENCSR170VSJ Peak muscle layer of colon tissue female adult 56 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF631LYE ENCSR170VSJ muscle layer of colon tissue female adult 56 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF646HRG ENCSR170MAJ Peak spleen tissue male child 3 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF897ARW ENCSR170MAJ spleen tissue male child 3 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF431LDT ENCSR169KNO Peak progenitor cell of endocrine pancreas DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF865UWE ENCSR169KNO progenitor cell of endocrine pancreas DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF680PVX ENCSR169CRN Peak with Alzheimer's disease, Cognitive impairment middle frontal area 46 tissue female adult 90 or above years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF888YYK ENCSR169CRN with Alzheimer's disease, Cognitive impairment middle frontal area 46 tissue female adult 90 or above years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF421XSZ ENCSR168WMQ Peak activated CD8-positive, naive alpha-beta T cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF594SKK ENCSR168WMQ activated CD8-positive, naive alpha-beta T cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF912EFL ENCSR168PQI Peak stomach smooth muscle tissue male adult 59 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF112MIS ENCSR168PQI stomach smooth muscle tissue male adult 59 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF377YBQ ENCSR168KQC Peak middle frontal area 46 tissue female adult 84 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF741DPN ENCSR168KQC middle frontal area 46 tissue female adult 84 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF478DIO ENCSR167XSQ Peak muscle of leg tissue male embryo 101 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF191QGK ENCSR167XSQ muscle of leg tissue male embryo 101 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF722EJH ENCSR167VIP Peak activated CD8-positive, alpha-beta memory T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 1 hour DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF211IRR ENCSR167VIP activated CD8-positive, alpha-beta memory T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 1 hour DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF877NRR ENCSR167JFX Peak CD4-positive, alpha-beta T cell male adult 37 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF980OLF ENCSR167JFX CD4-positive, alpha-beta T cell male adult 37 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF432YYK ENCSR166ZZZ Peak CD8-positive, alpha-beta T cell male adult 28 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF690UGP ENCSR166ZZZ CD8-positive, alpha-beta T cell male adult 28 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF906AYS ENCSR166TEE Peak forelimb muscle tissue female embryo 108 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF400XKV ENCSR166TEE forelimb muscle tissue female embryo 108 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF695WYA ENCSR166KPV Peak endodermal cell DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF909KVS ENCSR166KPV endodermal cell DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF378YLB ENCSR165JXS Peak K562 treated with 5 μM JQ1 for 4 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF543VXW ENCSR165JXS K562 treated with 5 μM JQ1 for 4 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF379AUI ENCSR165CDY Peak left ventricle myocardium inferior tissue male adult 60 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF960KLD ENCSR165CDY left ventricle myocardium inferior tissue male adult 60 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF136UOV ENCSR164TBP Peak right lobe of liver tissue female adult 47 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF634BMR ENCSR164TBP right lobe of liver tissue female adult 47 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF980EWE ENCSR164PQJ Peak thymus tissue male embryo 127 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF563TJP ENCSR164PQJ thymus tissue male embryo 127 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF561WZX ENCSR163VQD Peak K562 treated with 1 μM Crizotinib for 24 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF148HQB ENCSR163VQD K562 treated with 1 μM Crizotinib for 24 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF005CJI ENCSR163ULN Peak HFFc6 CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF406SZM ENCSR163ULN HFFc6 CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF664JAX ENCSR163PKT Peak stomach tissue male adult 54 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF164EEU ENCSR163PKT stomach tissue male adult 54 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF122WCP ENCSR163KRG Peak HG03469 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF536RCF ENCSR163KRG HG03469 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF789JRL ENCSR163KCQ Peak HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens BRD4 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF559HJK ENCSR163KCQ HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens BRD4 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF156IEC ENCSR163GMC Peak with Cognitive impairment, Alzheimer's disease head of caudate nucleus tissue male adult 84 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF831JZM ENCSR163GMC with Cognitive impairment, Alzheimer's disease head of caudate nucleus tissue male adult 84 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF224NEK ENCSR163BSC Peak with mild cognitive impairment head of caudate nucleus tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF754QDS ENCSR163BSC with mild cognitive impairment head of caudate nucleus tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF805JQR ENCSR163ALM Peak common myeloid progenitor, CD34-positive male adult H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF057OQQ ENCSR163ALM common myeloid progenitor, CD34-positive male adult H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF541URG ENCSR161ZGA Peak with Cognitive impairment, Alzheimer's disease head of caudate nucleus tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF287GSL ENCSR161ZGA with Cognitive impairment, Alzheimer's disease head of caudate nucleus tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF101NUL ENCSR161XBV Peak naive thymus-derived CD4-positive, alpha-beta T cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF078XQO ENCSR161XBV naive thymus-derived CD4-positive, alpha-beta T cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF945WMR ENCSR160VHJ Peak central memory CD8-positive, alpha-beta T cell male adult 36 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF023ZYD ENCSR160VHJ central memory CD8-positive, alpha-beta T cell male adult 36 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF892CAB ENCSR159GFS Peak CD4-positive, CD25-positive, alpha-beta regulatory T cell male adult 42 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF426GUD ENCSR159GFS CD4-positive, CD25-positive, alpha-beta regulatory T cell male adult 42 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF066LFU ENCSR158YXM Peak liver tissue embryo 59 days and embryo 80 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF749WFL ENCSR158YXM liver tissue embryo 59 days and embryo 80 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF993OUH ENCSR158UEK Peak CD4-positive, CD25-positive, alpha-beta regulatory T cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF612AIR ENCSR158UEK CD4-positive, CD25-positive, alpha-beta regulatory T cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF883JCD ENCSR157WAJ Peak stimulated activated memory B cell male adult 40 years treated with 1 μg/mL anti-CD40 for 72 hours, 100 ng/mL Interleukin-4 for 72 hours, 10 μg/mL anti-IgM for 72 hours H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF115FLM ENCSR157WAJ stimulated activated memory B cell male adult 40 years treated with 1 μg/mL anti-CD40 for 72 hours, 100 ng/mL Interleukin-4 for 72 hours, 10 μg/mL anti-IgM for 72 hours H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF249IVZ ENCSR157OSO Peak heart right ventricle tissue female adult 47 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF460UKZ ENCSR157OSO heart right ventricle tissue female adult 47 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF916WSX ENCSR157EML Peak middle frontal area 46 tissue female adult 75 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF576TRI ENCSR157EML middle frontal area 46 tissue female adult 75 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF549XDV ENCSR156XNC Peak peripheral blood mononuclear cell female adult 28 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF518PSI ENCSR156XNC peripheral blood mononuclear cell female adult 28 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF504DNA ENCSR156MYA Peak skin epidermis tissue male adult 65 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF778DIW ENCSR156MYA skin epidermis tissue male adult 65 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF237KCS ENCSR156CLC Peak brain tissue female embryo 96 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF363XWV ENCSR156CLC brain tissue female embryo 96 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF760GDC ENCSR155NPL Peak renal cortex interstitium tissue male embryo 113 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF321QIH ENCSR155NPL renal cortex interstitium tissue male embryo 113 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF368ZMU ENCSR154ZNQ Peak heart tissue female embryo 105 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF966NUA ENCSR154ZNQ heart tissue female embryo 105 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF656TJR ENCSR154YPL Peak large intestine tissue female embryo 110 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF480NTP ENCSR154YPL large intestine tissue female embryo 110 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF585EVR ENCSR154UWN Peak psoas muscle tissue female child 16 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF718EPV ENCSR154UWN psoas muscle tissue female child 16 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF004VGG ENCSR154OUQ Peak omental fat pad tissue female adult 53 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF724SLN ENCSR154OUQ omental fat pad tissue female adult 53 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF929NDJ ENCSR154NYM Peak stimulated activated naive CD8-positive, alpha-beta T cell male adult 36 years treated with anti-CD3 and anti-CD28 coated beads for 72 hours, 100 ng/mL Interleukin-15 for 72 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF710XDE ENCSR154NYM stimulated activated naive CD8-positive, alpha-beta T cell male adult 36 years treated with anti-CD3 and anti-CD28 coated beads for 72 hours, 100 ng/mL Interleukin-15 for 72 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF545KGE ENCSR154NOT Peak activated CD4-positive, alpha-beta T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 24 hours, 50 U/mL Interleukin-2 for 24 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF510AEM ENCSR154NOT activated CD4-positive, alpha-beta T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 24 hours, 50 U/mL Interleukin-2 for 24 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF169QRU ENCSR153SGD Peak HUES48 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF052KDI ENCSR153SGD HUES48 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF703SYA ENCSR153NDQ Peak prostate gland tissue male adult 37 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF761PKU ENCSR153NDQ prostate gland tissue male adult 37 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF074OMY ENCSR153LHP Peak foreskin fibroblast male newborn DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF329FKR ENCSR153LHP foreskin fibroblast male newborn DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF385EPA ENCSR153IUB Peak mucosa of urinary bladder tissue male adult 26 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF617ESX ENCSR153IUB mucosa of urinary bladder tissue male adult 26 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF113RLQ ENCSR152PSA Peak body of pancreas tissue male adult 37 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF482HSM ENCSR152PSA body of pancreas tissue male adult 37 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF327TYG ENCSR152MAZ Peak with Alzheimer's disease middle frontal area 46 tissue female adult 86 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF685BLE ENCSR152MAZ with Alzheimer's disease middle frontal area 46 tissue female adult 86 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF858QQT ENCSR152FWD Peak CD4-positive, alpha-beta T cell female adult 39 years treated with Interleukin-15 for 4 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF369FTG ENCSR152FWD CD4-positive, alpha-beta T cell female adult 39 years treated with Interleukin-15 for 4 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF908MZD ENCSR152AVY Peak stimulated activated CD4-positive, alpha-beta T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 1 hour, 100 ng/mL Interleukin-23 for 1 hour, 100 ng/mL Interleukin-1b for 1 hour DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF203AEJ ENCSR152AVY stimulated activated CD4-positive, alpha-beta T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 1 hour, 100 ng/mL Interleukin-23 for 1 hour, 100 ng/mL Interleukin-1b for 1 hour DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF602BBS ENCSR150QXE Peak heart left ventricle tissue male adult 34 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF430ZYJ ENCSR150QXE heart left ventricle tissue male adult 34 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF150FJC ENCSR149XIL Peak HepG2 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF546MZK ENCSR149XIL HepG2 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF790QOG ENCSR149XIH Peak duodenal mucosa tissue male adult 76 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF425FMW ENCSR149XIH duodenal mucosa tissue male adult 76 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF618JIP ENCSR148VUP Peak hematopoietic multipotent progenitor cell treated with interleukin-3 for 4 days, kit ligand for 4 days, hydrocortisone succinate for 4 days, erythropoietin for 4 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF644AXQ ENCSR148VUP hematopoietic multipotent progenitor cell treated with interleukin-3 for 4 days, kit ligand for 4 days, hydrocortisone succinate for 4 days, erythropoietin for 4 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF744XRM ENCSR148MFM Peak spinal cord tissue male embryo 105 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF518HMA ENCSR148MFM spinal cord tissue male embryo 105 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF166UUO ENCSR147VUC Peak with mild cognitive impairment middle frontal area 46 tissue female adult 90 or above years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF867WWB ENCSR147VUC with mild cognitive impairment middle frontal area 46 tissue female adult 90 or above years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF833FRQ ENCSR147QLU Peak stimulated activated CD4-positive, alpha-beta T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 24 hours, 100 ng/mL TNF-alpha for 24 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF745JTE ENCSR147QLU stimulated activated CD4-positive, alpha-beta T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 24 hours, 100 ng/mL TNF-alpha for 24 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF760SNA ENCSR146KFX Peak astrocyte DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF926MIK ENCSR146KFX astrocyte DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF508TDL ENCSR146DPQ Peak WTC11 H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF306ZMK ENCSR146DPQ WTC11 H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF193XEM ENCSR146DAL Peak mucosa of rectum tissue female adult 61 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF370MEL ENCSR146DAL mucosa of rectum tissue female adult 61 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF929ILE ENCSR144ZXR Peak HG02759 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF880QAL ENCSR144ZXR HG02759 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF710QRZ ENCSR144ABJ Peak naive thymus-derived CD8-positive, alpha-beta T cell male adult 42 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF088GSF ENCSR144ABJ naive thymus-derived CD8-positive, alpha-beta T cell male adult 42 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF135EUR ENCSR143XNJ Peak esophagus squamous epithelium tissue male adult 37 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF037TME ENCSR143XNJ esophagus squamous epithelium tissue male adult 37 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF309IEH ENCSR143MZL Peak brain tissue male embryo 122 days H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF884KHZ ENCSR143MZL brain tissue male embryo 122 days H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF256NMP ENCSR142VGG Peak naive thymus-derived CD4-positive, alpha-beta T cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF170RKK ENCSR142VGG naive thymus-derived CD4-positive, alpha-beta T cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF139PVH ENCSR141VGA Peak lung tissue female embryo 85 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF659ZRM ENCSR141VGA lung tissue female embryo 85 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF109TOJ ENCSR141RSN Peak stimulated activated CD8-positive, alpha-beta memory T cell male adult 30 years treated with 10 ng/mL Interleukin-2 , anti-CD3 and anti-CD28 coated beads DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF034DRR ENCSR141RSN stimulated activated CD8-positive, alpha-beta memory T cell male adult 30 years treated with 10 ng/mL Interleukin-2 , anti-CD3 and anti-CD28 coated beads DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF362YMV ENCSR141NSQ Peak muscle of back tissue male embryo 104 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF537KVD ENCSR141NSQ muscle of back tissue male embryo 104 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF479YZV ENCSR141MKN Peak naive B cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF202XZK ENCSR141MKN naive B cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF603HKS ENCSR141IUS Peak lung tissue female embryo 76 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF445GCD ENCSR141IUS lung tissue female embryo 76 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF313PXW ENCSR141EDV Peak middle frontal area 46 tissue male adult 87 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF732JQY ENCSR141EDV middle frontal area 46 tissue male adult 87 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF710LTR ENCSR141DMX Peak renal pelvis tissue female embryo 96 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF951RTD ENCSR141DMX renal pelvis tissue female embryo 96 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF379IBF ENCSR141CRA Peak T-helper 2 cell male adult 35 years treated with 5 μg/mL Interferon-gamma antibody, 100 ng/mL Interleukin-4 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF151ZGR ENCSR141CRA T-helper 2 cell male adult 35 years treated with 5 μg/mL Interferon-gamma antibody, 100 ng/mL Interleukin-4 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF561BCX ENCSR139UDI Peak natural killer cell male adult 33 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF070QLD ENCSR139UDI natural killer cell male adult 33 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF629HBE ENCSR139TLA Peak ovary tissue female adult 30 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF942ORX ENCSR139TLA ovary tissue female adult 30 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF853KRA ENCSR138UGH Peak ovary tissue female adult 61 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF792AMR ENCSR138UGH ovary tissue female adult 61 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF881WAS ENCSR138TQF Peak middle frontal area 46 tissue female adult 90 or above years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF694XDN ENCSR138TQF middle frontal area 46 tissue female adult 90 or above years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF873YHP ENCSR138ITT Peak HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens SMARCA5 treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF742ERW ENCSR138ITT HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens SMARCA5 treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF853AWB ENCSR138DOM Peak CD4-positive, alpha-beta T cell treated with phorbol 13-acetate 12-myristate , ionomycin H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF694IFY ENCSR138DOM CD4-positive, alpha-beta T cell treated with phorbol 13-acetate 12-myristate , ionomycin H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF610TIX ENCSR137ZID Peak pancreas tissue female adult 41 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF859IVY ENCSR137ZID pancreas tissue female adult 41 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF479ZUR ENCSR137UJW Peak activated T-cell male adult 42 years treated with 50 U/mL Interleukin-2 for 4 hours, anti-CD3 and anti-CD28 coated beads for 4 hours H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF356TWG ENCSR137UJW activated T-cell male adult 42 years treated with 50 U/mL Interleukin-2 for 4 hours, anti-CD3 and anti-CD28 coated beads for 4 hours H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF435FTH ENCSR137FWW Peak head of caudate nucleus tissue male adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF302EVI ENCSR137FWW head of caudate nucleus tissue male adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF279AYQ ENCSR136ZQZ Peak testis tissue male adult 37 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF487SXN ENCSR136ZQZ testis tissue male adult 37 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF362ZNP ENCSR136QKZ Peak common myeloid progenitor, CD34-positive female adult 33 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF156DEQ ENCSR136QKZ common myeloid progenitor, CD34-positive female adult 33 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF986PCC ENCSR136KIM Peak with mild cognitive impairment middle frontal area 46 tissue male adult 90 or above years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF419XHK ENCSR136KIM with mild cognitive impairment middle frontal area 46 tissue male adult 90 or above years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF106RJB ENCSR136KEL Peak kidney glomerular epithelial cell male adult 43 years and male adult 62 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF203ZGZ ENCSR136KEL kidney glomerular epithelial cell male adult 43 years and male adult 62 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF909YIZ ENCSR135XMY Peak stimulated activated CD8-positive, alpha-beta memory T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 4 hours, 100 ng/mL Interleukin-12 subunit alpha for 4 hours, 100 ng/mL Interleukin-12 subunit beta for 4 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF948OGL ENCSR135XMY stimulated activated CD8-positive, alpha-beta memory T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 4 hours, 100 ng/mL Interleukin-12 subunit alpha for 4 hours, 100 ng/mL Interleukin-12 subunit beta for 4 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF541OPJ ENCSR135OML Peak HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens RAD21 treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF734KNW ENCSR135OML HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens RAD21 treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF303ZZB ENCSR135GZX Peak heart left ventricle tissue male adult 43 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF155GED ENCSR135GZX heart left ventricle tissue male adult 43 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF541HHW ENCSR135AYC Peak with Alzheimer's disease middle frontal area 46 tissue female adult 90 or above years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF543PRC ENCSR135AYC with Alzheimer's disease middle frontal area 46 tissue female adult 90 or above years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF595DFE ENCSR134OSR Peak GM19438 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF946NPR ENCSR134OSR GM19438 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF363BJF ENCSR134IUJ Peak with Alzheimer's disease head of caudate nucleus tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF357PGY ENCSR134IUJ with Alzheimer's disease head of caudate nucleus tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF640KDD ENCSR134CIY Peak activated CD8-positive, alpha-beta memory T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 48 hours, 50 U/mL Interleukin-2 for 48 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF166XFX ENCSR134CIY activated CD8-positive, alpha-beta memory T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 48 hours, 50 U/mL Interleukin-2 for 48 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF915ERB ENCSR133WJY Peak left ventricle myocardium superior tissue male adult 60 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF225VDO ENCSR133WJY left ventricle myocardium superior tissue male adult 60 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF836WEE ENCSR133SPH Peak large intestine tissue female embryo 120 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF079LOE ENCSR133SPH large intestine tissue female embryo 120 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF162BMY ENCSR133QMT Peak neural crest cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF979QRM ENCSR133QIE Peak stimulated activated effector memory CD8-positive, alpha-beta T cell male adult 33 years treated with 100 ng/mL Interleukin-12 subunit alpha for 72 hours, anti-CD3 and anti-CD28 coated beads for 72 hours, 100 ng/mL Interleukin-12 subunit beta for 72 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF028LAC ENCSR133QIE stimulated activated effector memory CD8-positive, alpha-beta T cell male adult 33 years treated with 100 ng/mL Interleukin-12 subunit alpha for 72 hours, anti-CD3 and anti-CD28 coated beads for 72 hours, 100 ng/mL Interleukin-12 subunit beta for 72 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF803CSX ENCSR133OSO Peak activated regulatory T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 16 hours, 50 U/mL Interleukin-2 for 16 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF836VOQ ENCSR133OSO activated regulatory T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 16 hours, 50 U/mL Interleukin-2 for 16 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF225PPI ENCSR133NBJ stomach tissue female adult 53 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF006ONN ENCSR133KBX Peak small intestine tissue female embryo 107 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF954WCZ ENCSR133KBX small intestine tissue female embryo 107 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF743QND ENCSR133CMC Peak heart right ventricle tissue male adult 69 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF190EVO ENCSR133CMC heart right ventricle tissue male adult 69 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF150FXW ENCSR133AFF Peak lower lobe of left lung tissue female adult 59 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF033FEG ENCSR133AFF lower lobe of left lung tissue female adult 59 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF084YOE ENCSR131ZVC Peak naive thymus-derived CD8-positive, alpha-beta T cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF373EXM ENCSR131ZVC naive thymus-derived CD8-positive, alpha-beta T cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF808HCP ENCSR131MFE Peak with Cognitive impairment middle frontal area 46 tissue female adult 86 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF066MLC ENCSR131MFE with Cognitive impairment middle frontal area 46 tissue female adult 86 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF850VWU ENCSR131HOY Peak from a donor with amyotrophic lateral sclerosis motor neuron ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF632QIA ENCSR131HOY from a donor with amyotrophic lateral sclerosis motor neuron ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF331KGO ENCSR131DVD Peak HAP-1 H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF730PAV ENCSR131DVD HAP-1 H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF169IQC ENCSR130PLZ Peak neurosphere female embryo 17 weeks originated from ganglionic eminence H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF736MMN ENCSR130PLZ neurosphere female embryo 17 weeks originated from ganglionic eminence H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF542NQV ENCSR130LEE Peak naive B cell male adult 40 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF067FAK ENCSR130LEE naive B cell male adult 40 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF237JYA ENCSR130HIE Peak stimulated activated CD8-positive, alpha-beta memory T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 24 hours, 100 ng/mL Interleukin-7 for 24 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF773HCD ENCSR130HIE stimulated activated CD8-positive, alpha-beta memory T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 24 hours, 100 ng/mL Interleukin-7 for 24 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF686BJE ENCSR129TSG Peak placenta tissue female embryo 108 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF471IFY ENCSR129TSG placenta tissue female embryo 108 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF039SDG ENCSR129NCV Peak stomach tissue male adult 34 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF664UKA ENCSR129NCV stomach tissue male adult 34 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF298QLW ENCSR129KIV Peak renal cortex interstitium tissue male embryo 108 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF162BFA ENCSR129KIV renal cortex interstitium tissue male embryo 108 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF552DKW ENCSR129HDK Peak CD8-positive, alpha-beta T cell male adult 42 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF371TES ENCSR129HDK CD8-positive, alpha-beta T cell male adult 42 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF622WXI ENCSR129BZE Peak uterus tissue female adult 53 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF609VNS ENCSR129BZE uterus tissue female adult 53 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF551PCH ENCSR128YOH Peak middle frontal area 46 tissue female adult 79 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF711EZK ENCSR128YOH middle frontal area 46 tissue female adult 79 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF994BQK ENCSR128QKM Peak muscle of leg tissue female embryo 110 days H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF320PWH ENCSR128QKM muscle of leg tissue female embryo 110 days H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF066DZO ENCSR128HUJ Peak T-helper 1 cell male adult 35 years treated with 1 μg/mL Interleukin-4 antibody , 30 ng/mL Interleukin-12 subunit alpha , 30 ng/mL Interleukin-12 subunit beta H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF503ZDS ENCSR128HUJ T-helper 1 cell male adult 35 years treated with 1 μg/mL Interleukin-4 antibody , 30 ng/mL Interleukin-12 subunit alpha , 30 ng/mL Interleukin-12 subunit beta H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF526LZC ENCSR128GBN Peak spleen tissue female adult 53 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF162OQB ENCSR128GBN spleen tissue female adult 53 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF228WTY ENCSR127PWK Peak eye tissue female embryo 76 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF356OQE ENCSR127PWK eye tissue female embryo 76 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF790UVS ENCSR126EVX Peak CD4-positive, alpha-beta T cell female adult 33 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF839IEW ENCSR126EVX CD4-positive, alpha-beta T cell female adult 33 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF108YIQ ENCSR126EVK Peak placenta tissue female embryo DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF405IWE ENCSR126EVK placenta tissue female embryo DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF537HTG ENCSR125OEJ naive thymus-derived CD4-positive, alpha-beta T cell male adult 50 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF420RBO ENCSR125NBL Peak neural progenitor cell originated from H9 CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF700SCP ENCSR125NBL neural progenitor cell originated from H9 CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF116KKR ENCSR125DKL Peak SU-DHL-6 CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF350HLL ENCSR125DKL SU-DHL-6 CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF460BWT ENCSR124VOE Peak neural cell originated from H1 H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF192ADT ENCSR124VOE neural cell originated from H1 H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF459UUF ENCSR124PXN Peak activated CD4-positive, alpha-beta T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 4 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF196VNL ENCSR124PXN activated CD4-positive, alpha-beta T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 4 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF411MPQ ENCSR124IMM Peak with Alzheimer's disease middle frontal area 46 tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF767BTZ ENCSR124IMM with Alzheimer's disease middle frontal area 46 tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF764DVS ENCSR123ZAT Peak stimulated activated CD8-positive, alpha-beta memory T cell male adult 30 years treated with 10 ng/mL Interleukin-2 , anti-CD3 and anti-CD28 coated beads H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF417TJV ENCSR123ZAT stimulated activated CD8-positive, alpha-beta memory T cell male adult 30 years treated with 10 ng/mL Interleukin-2 , anti-CD3 and anti-CD28 coated beads H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF939YQP ENCSR123WME Peak HG02943 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF485EKM ENCSR123WME HG02943 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF610SNJ ENCSR123OMJ Peak heart left ventricle tissue male adult 66 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF688GJM ENCSR123OMJ heart left ventricle tissue male adult 66 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF951GFL ENCSR123HEE Peak layer of hippocampus tissue female adult 75 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF955MQX ENCSR123HEE layer of hippocampus tissue female adult 75 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF308VSB ENCSR122VUW Peak common myeloid progenitor, CD34-positive female adult 27 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF861NNR ENCSR122VUW common myeloid progenitor, CD34-positive female adult 27 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF088LDH ENCSR122NRV Peak head of caudate nucleus tissue female adult 78 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF436OUJ ENCSR122NRV head of caudate nucleus tissue female adult 78 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF621VGP ENCSR122NDR GM21576 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF168MSK ENCSR122MPC Peak spleen tissue female adult 59 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF842QQE ENCSR122MPC spleen tissue female adult 59 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF511MCV ENCSR122LOZ Peak ascending aorta tissue female adult 53 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF132YWJ ENCSR122LOZ ascending aorta tissue female adult 53 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF115PXH ENCSR122IJJ Peak foreskin fibroblast male newborn H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF908RLV ENCSR122IJJ foreskin fibroblast male newborn H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF672HZL ENCSR121ZSL Peak trophoblast cell embryo 21 weeks DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF962MQB ENCSR121ZSL trophoblast cell embryo 21 weeks DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF185JEY ENCSR121GEL Peak K562 treated with 1 μM Crizotinib for 12 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF488VIA ENCSR121GEL K562 treated with 1 μM Crizotinib for 12 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF782NIM ENCSR120ZZJ Peak placenta tissue embryo 16 weeks H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF954NRC ENCSR120ZZJ placenta tissue embryo 16 weeks H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF423DAA ENCSR120WKZ Peak naive thymus-derived CD4-positive, alpha-beta T cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF599VAD ENCSR120WKZ naive thymus-derived CD4-positive, alpha-beta T cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF177FIT ENCSR120MOY Peak sciatic nerve tissue male adult 26 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF726GTH ENCSR120MOY sciatic nerve tissue male adult 26 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF067ZSA ENCSR120LVW Peak left kidney tissue female embryo 98 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF956ZRT ENCSR120LVW left kidney tissue female embryo 98 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF608LQV ENCSR119HXE Peak stomach tissue female embryo 105 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF338HPK ENCSR119HXE stomach tissue female embryo 105 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF543KAS ENCSR118WIQ Peak brain tissue embryo 112 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF828DSX ENCSR118WIQ brain tissue embryo 112 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF678DPJ ENCSR117PYB Peak heart left ventricle tissue female adult 51 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF065BYP ENCSR117PYB heart left ventricle tissue female adult 51 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF005XUQ ENCSR116WWW Peak small intestine tissue female embryo 120 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF820HMC ENCSR116WWW small intestine tissue female embryo 120 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF550QZW ENCSR116UQH Peak head of caudate nucleus tissue female adult 89 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF936VRA ENCSR116UQH head of caudate nucleus tissue female adult 89 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF548ZVE ENCSR116MKX Peak with mild cognitive impairment middle frontal area 46 tissue female adult 88 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF461GFM ENCSR116MKX with mild cognitive impairment middle frontal area 46 tissue female adult 88 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF009QXX ENCSR115YPI Peak hematopoietic multipotent progenitor cell treated with erythropoietin for 20 days, hydrocortisone succinate for 20 days, kit ligand for 20 days, interleukin-3 for 20 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF338HAQ ENCSR115YPI hematopoietic multipotent progenitor cell treated with erythropoietin for 20 days, hydrocortisone succinate for 20 days, kit ligand for 20 days, interleukin-3 for 20 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF083NIU ENCSR115OIV Peak activated T-helper 17 cell male adult 50 years treated with anti-CD3 and anti-CD28 coated beads for 72 hours, 50 U/mL Interleukin-2 for 72 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF141ATK ENCSR115OIV activated T-helper 17 cell male adult 50 years treated with anti-CD3 and anti-CD28 coated beads for 72 hours, 50 U/mL Interleukin-2 for 72 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF470OGV ENCSR115FGJ Peak naive B cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF692PQC ENCSR115FGJ naive B cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF610OPJ ENCSR114XWV Peak stimulated activated naive CD8-positive, alpha-beta T cell male adult 42 years treated with anti-CD3 and anti-CD28 coated beads for 24 hours, 50 U/mL Interleukin-2 for 24 hours, 100 ng/mL Interleukin-15 for 24 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF485ZYC ENCSR114XWV stimulated activated naive CD8-positive, alpha-beta T cell male adult 42 years treated with anti-CD3 and anti-CD28 coated beads for 24 hours, 50 U/mL Interleukin-2 for 24 hours, 100 ng/mL Interleukin-15 for 24 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF724EWH ENCSR113MBR Peak adrenal gland tissue male adult 54 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF469CYE ENCSR113MBR adrenal gland tissue male adult 54 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF920FUB ENCSR113DHB Peak with mild cognitive impairment head of caudate nucleus tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF394XCQ ENCSR113DHB with mild cognitive impairment head of caudate nucleus tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF245KEE ENCSR113COJ Peak pancreas tissue female adult 59 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF297EQI ENCSR113COJ pancreas tissue female adult 59 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF483VMR ENCSR112AKE Peak with mild cognitive impairment posterior cingulate gyrus tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF656WBC ENCSR112AKE with mild cognitive impairment posterior cingulate gyrus tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF500TSF ENCSR111WTE Peak CD4-positive, alpha-beta T cell female adult 26 years and female adult 39 years, treated with Interferon alpha-2 for 1 hour DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF905PYG ENCSR111WTE CD4-positive, alpha-beta T cell female adult 26 years and female adult 39 years, treated with Interferon alpha-2 for 1 hour DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF231XEV ENCSR111QCU Peak brain microvascular endothelial cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF575FKS ENCSR111QCU brain microvascular endothelial cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF402ODR ENCSR111LTT Peak T-cell male adult 55 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF372KSU ENCSR111LTT T-cell male adult 55 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF521ZBJ ENCSR109RIQ Peak excitatory neuron DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF269VAY ENCSR109RIQ excitatory neuron DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF438WQB ENCSR109DTU Peak activated B cell male adult 22 years treated with 0.5 μM CpG ODN for 24 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF230LAU ENCSR109DTU activated B cell male adult 22 years treated with 0.5 μM CpG ODN for 24 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF918ZUC ENCSR108SYM Peak psoas muscle tissue female adult 61 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF750LPX ENCSR108SYM psoas muscle tissue female adult 61 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF232HSD ENCSR108PUO Peak GM23338 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF241UWA ENCSR108PUO GM23338 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF871URW ENCSR108NVQ Peak foreskin fibroblast male newborn H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF352ESC ENCSR108NVQ foreskin fibroblast male newborn H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF610VHE ENCSR108CCH Peak HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens SMARCA5 H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF008HLE ENCSR108CCH HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens SMARCA5 H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF982TNJ ENCSR107XZC Peak stimulated activated CD4-positive, alpha-beta T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 4 hours, 100 ng/mL Interleukin-4 for 4 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF473DSI ENCSR107XZC stimulated activated CD4-positive, alpha-beta T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 4 hours, 100 ng/mL Interleukin-4 for 4 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF588YKB ENCSR107RDP Peak heart right ventricle tissue male child 3 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF778FFI ENCSR107RDP heart right ventricle tissue male child 3 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF662ONK ENCSR106RBR Peak muscle of back tissue female embryo 115 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF954LCL ENCSR106RBR muscle of back tissue female embryo 115 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF931YIL ENCSR106OKX Peak kidney tissue female embryo 120 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF782MNA ENCSR106OKX kidney tissue female embryo 120 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF639LEO ENCSR105SCQ Peak GM21360 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF200SFT ENCSR105SCQ GM21360 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF474NNZ ENCSR105REF Peak naive thymus-derived CD8-positive, alpha-beta T cell male adult 30 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF730FHG ENCSR105REF naive thymus-derived CD8-positive, alpha-beta T cell male adult 30 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF513STR ENCSR105EMQ Peak peripheral blood mononuclear cell male adult 39 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF646TTB ENCSR105EMQ peripheral blood mononuclear cell male adult 39 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF594YDH ENCSR104QUE Peak activated gamma-delta T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 16 hours, 50 U/mL Interleukin-2 for 16 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF671XRX ENCSR104QUE activated gamma-delta T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 16 hours, 50 U/mL Interleukin-2 for 16 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF735WNA ENCSR103HMP Peak neurosphere embryo 15 weeks originated from ganglionic eminence H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF191YWL ENCSR103HMP neurosphere embryo 15 weeks originated from ganglionic eminence H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF188CIA ENCSR102RXG Peak T-cell female adult 33 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF845DQD ENCSR102RXG T-cell female adult 33 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF951BKP ENCSR102RSU Peak tibial artery tissue male adult 37 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF013UBZ ENCSR102RSU tibial artery tissue male adult 37 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF954IFZ ENCSR101QXF Peak suprapubic skin tissue female adult 53 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF548VEV ENCSR101QXF suprapubic skin tissue female adult 53 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF593OEC ENCSR101HFF Peak with Alzheimer's disease head of caudate nucleus tissue female adult 81 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF502BRQ ENCSR101HFF with Alzheimer's disease head of caudate nucleus tissue female adult 81 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF044FCM ENCSR100OZR Peak kidney tissue male adult 50 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF929KNV ENCSR100OZR kidney tissue male adult 50 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF390VYV ENCSR100OSB Peak activated CD4 positive, naive alpha-beta T cell male adult 42 years treated with 50 U/mL Interleukin-2 for 16 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF238HIW ENCSR100OSB activated CD4 positive, naive alpha-beta T cell male adult 42 years treated with 50 U/mL Interleukin-2 for 16 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF854NVA ENCSR100CMZ Peak stimulated activated naive CD4-positive, alpha-beta T cell male adult 43 years treated with 10 ng/mL Interleukin-2 , anti-CD3 and anti-CD28 coated beads H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF692UGR ENCSR100CMZ stimulated activated naive CD4-positive, alpha-beta T cell male adult 43 years treated with 10 ng/mL Interleukin-2 , anti-CD3 and anti-CD28 coated beads H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF010FVW ENCSR098PTC Peak hematopoietic multipotent progenitor cell DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF648LHT ENCSR098PTC hematopoietic multipotent progenitor cell DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF038QHN ENCSR098OLN Peak gastrocnemius medialis tissue female adult 51 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF707BCP ENCSR098OLN gastrocnemius medialis tissue female adult 51 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF659QPY ENCSR098ISE Peak with Alzheimer's disease posterior cingulate gyrus tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF859RCJ ENCSR098ISE with Alzheimer's disease posterior cingulate gyrus tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF442TUL ENCSR098CPV Peak HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens CTCF treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF442UOG ENCSR098CPV HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens CTCF treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF575WCK ENCSR098ALO Peak naive thymus-derived CD4-positive, alpha-beta T cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF134OLO ENCSR098ALO naive thymus-derived CD4-positive, alpha-beta T cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF512UZQ ENCSR097WJR Peak naive thymus-derived CD4-positive, alpha-beta T cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF691SRQ ENCSR097WJR naive thymus-derived CD4-positive, alpha-beta T cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF971FXU ENCSR097PJQ Peak chorionic villus tissue male embryo 16 weeks H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF015MOG ENCSR097PJQ chorionic villus tissue male embryo 16 weeks H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF796KHF ENCSR097BWW Peak left kidney tissue female embryo 59 days and male embryo 91 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF887RAR ENCSR097BWW left kidney tissue female embryo 59 days and male embryo 91 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF630WCJ ENCSR096VEO Peak HG03135 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF293YLU ENCSR096VEO HG03135 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF355KKM ENCSR096HVF Peak K562 treated with 10 nM Bortezomib for 48 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF765UED ENCSR096HVF K562 treated with 10 nM Bortezomib for 48 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF500AUF ENCSR096EZX Peak kidney tissue female embryo 120 days H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF486AVO ENCSR096EZX kidney tissue female embryo 120 days H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF465PPB ENCSR096BPX Peak esophagus squamous epithelium tissue female adult 51 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF784PPX ENCSR096BPX esophagus squamous epithelium tissue female adult 51 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF386WPQ ENCSR095YMD Peak esophagus muscularis mucosa tissue female adult 53 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF395YPE ENCSR095YMD esophagus muscularis mucosa tissue female adult 53 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF013HLW ENCSR095QNB Peak GM12878 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF487LOB ENCSR095QNB GM12878 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF478RBT ENCSR095GWE Peak stomach tissue male embryo 58 days and male embryo 76 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF656SOX ENCSR095GWE stomach tissue male embryo 58 days and male embryo 76 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF294HVT ENCSR094VJC Peak adrenal gland tissue male adult 37 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF860MMV ENCSR094VJC adrenal gland tissue male adult 37 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF639CTR ENCSR094QFZ Peak activated CD4-positive, CD25-positive, alpha-beta regulatory T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 24 hours, 50 U/mL Interleukin-2 for 24 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF881SZZ ENCSR094QFZ activated CD4-positive, CD25-positive, alpha-beta regulatory T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 24 hours, 50 U/mL Interleukin-2 for 24 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF628TCI ENCSR094PSL Peak middle frontal area 46 tissue female adult 88 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF294XWZ ENCSR094PSL middle frontal area 46 tissue female adult 88 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF133GNY ENCSR092WMD Peak left renal cortex interstitium tissue male embryo 105 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF004BYH ENCSR092WMD left renal cortex interstitium tissue male embryo 105 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF257LSY ENCSR092VKJ Peak with Alzheimer's disease middle frontal area 46 tissue female adult 90 or above years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF891CZD ENCSR092VKJ with Alzheimer's disease middle frontal area 46 tissue female adult 90 or above years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF386MFG ENCSR092SRS Peak activated T-cell male adult 42 years treated with 50 U/mL Interleukin-2 for 4 hours, anti-CD3 and anti-CD28 coated beads for 4 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF438AFY ENCSR092SRS activated T-cell male adult 42 years treated with 50 U/mL Interleukin-2 for 4 hours, anti-CD3 and anti-CD28 coated beads for 4 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF115YMO ENCSR092OFK Peak skin of body tissue female embryo 82 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF530QBT ENCSR092OFK skin of body tissue female embryo 82 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF577XTW ENCSR091YVK Peak K562 treated with 1 μM EED226 for 48 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF868SQN ENCSR091YVK K562 treated with 1 μM EED226 for 48 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF393OTE ENCSR091KXI Peak tibial nerve tissue male adult 54 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF758AQR ENCSR091KXI tibial nerve tissue male adult 54 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF244EDE ENCSR090SMP Peak NCI-H929 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF146ZBO ENCSR090SMP NCI-H929 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF557YVG ENCSR090IDV Peak tibial artery tissue male adult 54 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF586KKK ENCSR090IDV tibial artery tissue male adult 54 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF979TCT ENCSR089NBS Peak heart right ventricle tissue male adult 73 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF688KIH ENCSR089NBS heart right ventricle tissue male adult 73 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF943XWV ENCSR089KIJ Peak WTC11 genetically modified insertion using TALEN inserting M. musculus Neurog2 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF443JTH ENCSR089KIJ WTC11 genetically modified insertion using TALEN inserting M. musculus Neurog2 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF735VKJ ENCSR089DTY Peak omental fat pad tissue male adult 37 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF264NFG ENCSR089DTY omental fat pad tissue male adult 37 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF613KJU ENCSR088ZGM Peak HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens SUPT16H H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF412MYA ENCSR088ZGM HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens SUPT16H H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF494AEZ ENCSR087PFU Peak IMR-90 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF376ZIM ENCSR087PFU IMR-90 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF052CAL ENCSR086XCT Peak spleen tissue female adult 30 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF805HXL ENCSR086XCT spleen tissue female adult 30 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF295HAZ ENCSR086QZY Peak adrenal gland tissue female adult 51 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF355RRY ENCSR086QZY adrenal gland tissue female adult 51 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF541ZIE ENCSR086PIL Peak with Alzheimer's disease posterior cingulate gyrus tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF302RER ENCSR086PIL with Alzheimer's disease posterior cingulate gyrus tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF287UHP ENCSR086OGH Peak sigmoid colon tissue male adult 54 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF049WJI ENCSR086OGH sigmoid colon tissue male adult 54 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF992JNM ENCSR085XKS Peak with Cognitive impairment, Alzheimer's disease head of caudate nucleus tissue male adult 80 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF648TRC ENCSR085XKS with Cognitive impairment, Alzheimer's disease head of caudate nucleus tissue male adult 80 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF069JZF ENCSR085MZL Peak Right ventricle myocardium inferior tissue male adult 60 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF153OJC ENCSR085MZL Right ventricle myocardium inferior tissue male adult 60 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF637WNW ENCSR084RDK Peak DOHH2 CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF766DBY ENCSR084RDK DOHH2 CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF565FZZ ENCSR084FHK Peak GM18505 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF934MOB ENCSR084FHK GM18505 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF464ATY ENCSR083HYP Peak posterior cingulate gyrus tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF713MFZ ENCSR083HYP posterior cingulate gyrus tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF590BQK ENCSR083FBK Peak small intestine tissue female embryo 110 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF282LNU ENCSR083FBK small intestine tissue female embryo 110 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF898STF ENCSR082XEU Peak stomach tissue female embryo 107 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF636CRI ENCSR082XEU stomach tissue female embryo 107 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF742CUG ENCSR082SHT Peak adipose tissue tissue male adult 34 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF922YMQ ENCSR082SHT adipose tissue tissue male adult 34 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF055EER ENCSR082PDJ Peak psoas muscle tissue female child 16 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF468XFE ENCSR082PDJ psoas muscle tissue female child 16 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF018QUH ENCSR082NQB Peak NCI-H929 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF684UUJ ENCSR082NQB NCI-H929 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF168VGN ENCSR082JCE Peak kidney tissue female embryo 121 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF996ZCU ENCSR082JCE kidney tissue female embryo 121 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF044RVY ENCSR082DLA Peak naive thymus-derived CD4-positive, alpha-beta T cell male adult 50 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF757ACV ENCSR082DLA naive thymus-derived CD4-positive, alpha-beta T cell male adult 50 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF018KNF ENCSR081OTO Peak breast epithelium tissue female adult 51 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF085IYD ENCSR081OTO breast epithelium tissue female adult 51 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF727KXQ ENCSR080SNF Peak RWPE2 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF047EBV ENCSR080SNF RWPE2 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF787JOF ENCSR080PZL Peak adrenal gland tissue male embryo 101 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF967PSY ENCSR080PZL adrenal gland tissue male embryo 101 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF792RUV ENCSR080ISA Peak tibial artery tissue female adult 53 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF787EAS ENCSR080ISA tibial artery tissue female adult 53 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF545RHA ENCSR079ZQI Peak foreskin fibroblast male newborn H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF388QVC ENCSR079ZQI foreskin fibroblast male newborn H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF279CMY ENCSR079YAP Peak tibial artery tissue male adult 37 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF500RDL ENCSR079YAP tibial artery tissue male adult 37 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF615JYX ENCSR079EXG Peak T-helper 17 cell male adult 50 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF411UVN ENCSR079EXG T-helper 17 cell male adult 50 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF403FUG ENCSR078LIZ Peak colonic mucosa tissue female adult 41 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF004SRJ ENCSR078LIZ colonic mucosa tissue female adult 41 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF032IHF ENCSR078EBD Peak spleen tissue female adult 51 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF869NXS ENCSR078EBD spleen tissue female adult 51 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF828CER ENCSR078ATS Peak with multiple sclerosis naive thymus-derived CD8-positive, alpha-beta T cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF006ULZ ENCSR078ATS with multiple sclerosis naive thymus-derived CD8-positive, alpha-beta T cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF399OSA ENCSR077YUA Peak B cell male adult 22 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF573FQS ENCSR077YUA B cell male adult 22 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF184MRW ENCSR077HGR Peak esophagus muscularis mucosa tissue male adult 54 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF645DEG ENCSR077HGR esophagus muscularis mucosa tissue male adult 54 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF276RTI ENCSR077FZT Peak CD4-positive, alpha-beta memory T cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF175MGD ENCSR077FZT CD4-positive, alpha-beta memory T cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF949AWA ENCSR077ETS Peak CD14-positive monocyte male adult 30 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF127TFL ENCSR077ETS CD14-positive monocyte male adult 30 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF170RHP ENCSR076YBB Peak lung tissue male embryo 108 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF669POI ENCSR076YBB lung tissue male embryo 108 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF260OFS ENCSR075PTL Peak muscle layer of duodenum tissue male adult 73 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF639IIQ ENCSR075PTL muscle layer of duodenum tissue male adult 73 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF698QIJ ENCSR075OQB Peak foreskin keratinocyte male newborn H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF487DOQ ENCSR075OQB foreskin keratinocyte male newborn H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF281NWM ENCSR075MQZ Peak stimulated activated CD4-positive, alpha-beta T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 24 hours, 100 ng/mL Interleukin-12 subunit alpha for 24 hours, 100 ng/mL Interleukin-12 subunit beta for 24 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF369VAF ENCSR075MQZ stimulated activated CD4-positive, alpha-beta T cell male adult 38 years treated with anti-CD3 and anti-CD28 coated beads for 24 hours, 100 ng/mL Interleukin-12 subunit alpha for 24 hours, 100 ng/mL Interleukin-12 subunit beta for 24 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF804WCL ENCSR074WMH Peak Right ventricle myocardium superior tissue male adult 60 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF104OXF ENCSR074WMH Right ventricle myocardium superior tissue male adult 60 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF152CCC ENCSR074WIB Peak upper lobe of left lung tissue male adult 37 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF996QZC ENCSR074WIB upper lobe of left lung tissue male adult 37 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF182PYY ENCSR074SFL Peak esophagus muscularis mucosa tissue female adult 53 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF534LXF ENCSR074SFL esophagus muscularis mucosa tissue female adult 53 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF589XMK ENCSR074FPH Peak placenta tissue male embryo 16 weeks H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF120CVA ENCSR074FPH placenta tissue male embryo 16 weeks H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF162OQJ ENCSR074ECR Peak right cardiac atrium tissue male adult 34 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF980FUE ENCSR074ECR right cardiac atrium tissue male adult 34 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF547WGL ENCSR074BEW Peak with basal cell carcinoma skin epidermis tissue male adult 67 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF219ZRA ENCSR074BEW with basal cell carcinoma skin epidermis tissue male adult 67 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF534UGM ENCSR073TPC Peak esophagus muscularis mucosa tissue male adult 54 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF648LZP ENCSR073TPC esophagus muscularis mucosa tissue male adult 54 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF682KYB ENCSR073ORI Peak T-cell female adult 21 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF560YNU ENCSR073ORI T-cell female adult 21 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF851XUX ENCSR073BPG Peak with mild cognitive impairment middle frontal area 46 tissue female adult 83 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF884MZR ENCSR073BPG with mild cognitive impairment middle frontal area 46 tissue female adult 83 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF892DCS ENCSR072UYN Peak sciatic nerve tissue female child 16 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF737OOY ENCSR072UYN sciatic nerve tissue female child 16 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF794NJE ENCSR072ORU Peak stimulated activated effector memory CD8-positive, alpha-beta T cell male adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 72 hours, 100 ng/mL Interleukin-12 subunit beta for 72 hours, 100 ng/mL Interleukin-12 subunit alpha for 72 hours H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF320MFJ ENCSR072ORU stimulated activated effector memory CD8-positive, alpha-beta T cell male adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 72 hours, 100 ng/mL Interleukin-12 subunit beta for 72 hours, 100 ng/mL Interleukin-12 subunit alpha for 72 hours H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF146XSY ENCSR072NBR Peak muscle of back tissue female embryo 98 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF188VFM ENCSR072NBR muscle of back tissue female embryo 98 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF455ESK ENCSR072EUE Peak OCI-LY1 CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF231ZBE ENCSR072EUE OCI-LY1 CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF171KEL ENCSR071SPR Peak nephron organoid female embryo 5 days, 21 days post differentiation originated from H9 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF550VYP ENCSR071SPR nephron organoid female embryo 5 days, 21 days post differentiation originated from H9 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF982UYZ ENCSR070CMW Peak heart left ventricle tissue female adult 53 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF417JSF ENCSR070CMW heart left ventricle tissue female adult 53 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF955CBD ENCSR070AET Peak naive thymus-derived CD8-positive, alpha-beta T cell male adult 33 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF274VIH ENCSR070AET naive thymus-derived CD8-positive, alpha-beta T cell male adult 33 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF064ILN ENCSR069UMW Peak ascending aorta tissue female adult 53 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF118EKX ENCSR069UMW ascending aorta tissue female adult 53 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF347SRC ENCSR069KMA Peak CD4-positive, CD25-positive, alpha-beta regulatory T cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF440EMT ENCSR069KMA CD4-positive, CD25-positive, alpha-beta regulatory T cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF217XUC ENCSR069ICJ Peak suppressor macrophage male adult 21 years treated with lipopolysaccharide for 4 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF255BJE ENCSR069ICJ suppressor macrophage male adult 21 years treated with lipopolysaccharide for 4 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF987VHI ENCSR069EGE Peak transverse colon tissue male adult 54 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF427MZX ENCSR069EGE transverse colon tissue male adult 54 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF644KUV ENCSR068ZVD Peak GM23338 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF494ASH ENCSR068ZVD GM23338 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF065ORX ENCSR068KDQ Peak with multiple sclerosis naive thymus-derived CD8-positive, alpha-beta T cell DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF086RNS ENCSR068KDQ with multiple sclerosis naive thymus-derived CD8-positive, alpha-beta T cell DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF161DPW ENCSR068HEE Peak left ventricle myocardium inferior tissue male adult 60 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF829QZW ENCSR068HEE left ventricle myocardium inferior tissue male adult 60 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF258PHG ENCSR068DJS Peak with mild cognitive impairment middle frontal area 46 tissue male adult 90 or above years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF457ZFQ ENCSR068DJS with mild cognitive impairment middle frontal area 46 tissue male adult 90 or above years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF468MEH ENCSR067KOO Peak natural killer cell male adult 33 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF802MJK ENCSR067KOO natural killer cell male adult 33 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF517RQC ENCSR067BGS Peak with Alzheimer's disease, Cognitive impairment middle frontal area 46 tissue male adult 87 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF365ANP ENCSR067BGS with Alzheimer's disease, Cognitive impairment middle frontal area 46 tissue male adult 87 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF111WOP ENCSR066WZJ Peak kidney tissue embryo 80 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF694ESB ENCSR066WZJ kidney tissue embryo 80 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF657NDP ENCSR066GUY Peak placental basal plate tissue male embryo 38 weeks H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF072GBE ENCSR066GUY placental basal plate tissue male embryo 38 weeks H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF690LBT ENCSR066GBX Peak right atrium auricular region tissue female adult 53 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF886TBW ENCSR066GBX right atrium auricular region tissue female adult 53 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF741STA ENCSR065QAA Peak naive thymus-derived CD8-positive, alpha-beta T cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF447SLB ENCSR065QAA naive thymus-derived CD8-positive, alpha-beta T cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF790YWY ENCSR065CER Peak from a donor with amyotrophic lateral sclerosis motor neuron ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF450FBH ENCSR065CER from a donor with amyotrophic lateral sclerosis motor neuron ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF715URT ENCSR064GBK Peak heart tissue female embryo 91 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF411RQS ENCSR064GBK heart tissue female embryo 91 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF177ZIO ENCSR063UNG Peak HG03196 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF059MRU ENCSR063UNG HG03196 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF502IJF ENCSR063HOI Peak stomach tissue male adult 54 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF391KDD ENCSR063HOI stomach tissue male adult 54 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF616WMY ENCSR062SVK Peak right atrium auricular region tissue female adult 51 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF003PQX ENCSR062SVK right atrium auricular region tissue female adult 51 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF974AQC ENCSR062JAC Peak with mild cognitive impairment middle frontal area 46 tissue female adult 90 or above years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF968SXQ ENCSR062JAC with mild cognitive impairment middle frontal area 46 tissue female adult 90 or above years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF754NXW ENCSR062DXC Peak muscle of arm tissue female embryo 115 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF636XBE ENCSR062DXC muscle of arm tissue female embryo 115 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF337VWV ENCSR062DUU Peak stomach tissue female embryo 105 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF310NVD ENCSR062DUU stomach tissue female embryo 105 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF416JTN ENCSR061PIA Peak central memory CD8-positive, alpha-beta T cell male adult 36 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF644QSV ENCSR061PIA central memory CD8-positive, alpha-beta T cell male adult 36 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF424YRZ ENCSR060UPU Peak with Alzheimer's disease posterior cingulate gyrus tissue female adult 89 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF282SYR ENCSR060UPU with Alzheimer's disease posterior cingulate gyrus tissue female adult 89 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF334EBB ENCSR060TTR Peak stimulated activated CD8-positive, alpha-beta memory T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 48 hours, 100 ng/mL Interleukin-7 for 48 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF301BBT ENCSR060TTR stimulated activated CD8-positive, alpha-beta memory T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 48 hours, 100 ng/mL Interleukin-7 for 48 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF642RSJ ENCSR060MJY Peak with mild cognitive impairment middle frontal area 46 tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF592RWK ENCSR060MJY with mild cognitive impairment middle frontal area 46 tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF944QAD ENCSR060MAU Peak with mild cognitive impairment middle frontal area 46 tissue female adult 90 or above years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF499ALA ENCSR060MAU with mild cognitive impairment middle frontal area 46 tissue female adult 90 or above years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF377GUL ENCSR060HPL Peak coronary artery tissue female adult 53 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF383WYK ENCSR060HPL coronary artery tissue female adult 53 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF594EOB ENCSR060BFU Peak adrenal gland tissue embryo 96 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF098BSH ENCSR060BFU adrenal gland tissue embryo 96 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF569LUF ENCSR059NIN Peak with mild cognitive impairment middle frontal area 46 tissue male adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF397SMJ ENCSR059NIN with mild cognitive impairment middle frontal area 46 tissue male adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF462YSN ENCSR059MVB Peak ACC112 H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF527UAI ENCSR059MVB ACC112 H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF927ROL ENCSR059LXL Peak muscle of leg tissue male embryo 96 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF639FLQ ENCSR059LXL muscle of leg tissue male embryo 96 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF631JNO ENCSR059KXR Peak with Alzheimer's disease, Cognitive impairment middle frontal area 46 tissue female adult 87 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF937OHJ ENCSR059KXR with Alzheimer's disease, Cognitive impairment middle frontal area 46 tissue female adult 87 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF609FQX ENCSR059ETS Peak posterior cingulate gyrus tissue female adult 85 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF900YTP ENCSR059ETS posterior cingulate gyrus tissue female adult 85 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF114GFZ ENCSR059BAR Peak HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens SMARCA5 treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF240XXE ENCSR059BAR HCT116 genetically modified insertion using CRISPR inserting O. sativa LOC4335696, insertion using CRISPR targeting H. sapiens SMARCA5 treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF086EOS ENCSR058VBM Peak upper lobe of left lung tissue male adult 37 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF674RXU ENCSR058VBM upper lobe of left lung tissue male adult 37 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF728QMM ENCSR058ELM Peak T-helper 1 cell male adult 30 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF771ULB ENCSR058ELM T-helper 1 cell male adult 30 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF225SPV ENCSR057RET Peak angular gyrus tissue female adult 75 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF081IBY ENCSR057RET angular gyrus tissue female adult 75 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF803SGV ENCSR057GPV Peak with mild cognitive impairment head of caudate nucleus tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF232XXP ENCSR057GPV with mild cognitive impairment head of caudate nucleus tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF659FVE ENCSR056PFI Peak pancreas tissue male adult 26 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF771UVC ENCSR056PFI pancreas tissue male adult 26 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF723PEK ENCSR055TVU Peak effector memory CD8-positive, alpha-beta T cell male adult 33 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF810PFO ENCSR055TVU effector memory CD8-positive, alpha-beta T cell male adult 33 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF057UBN ENCSR054BKO Peak urinary bladder tissue male adult 34 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF039NIU ENCSR054BKO urinary bladder tissue male adult 34 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF347HHX ENCSR053ZKP Peak adrenal gland tissue female adult 53 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF518SGA ENCSR053ZKP adrenal gland tissue female adult 53 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF118ENX ENCSR053SGP Peak heart right ventricle tissue male adult 54 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF288BEC ENCSR053SGP heart right ventricle tissue male adult 54 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF766GGI ENCSR052WRV Peak DOHH2 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF398AIV ENCSR052WRV DOHH2 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF288BEN ENCSR052KGC Peak naive thymus-derived CD8-positive, alpha-beta T cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF797TAU ENCSR052KGC naive thymus-derived CD8-positive, alpha-beta T cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF765VOP ENCSR052AWE Peak PC-3 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF599UKS ENCSR052AWE PC-3 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF887OJR ENCSR051QLZ Peak with Cognitive impairment middle frontal area 46 tissue female adult 81 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF224LYA ENCSR051QLZ with Cognitive impairment middle frontal area 46 tissue female adult 81 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF233XBE ENCSR051CYH Peak T-cell male adult 42 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF506DVU ENCSR051CYH T-cell male adult 42 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF917QTZ ENCSR050VTC Peak stimulated activated CD4-positive, alpha-beta T cell male adult 42 years treated with anti-CD3 and anti-CD28 coated beads for 24 hours, 100 ng/mL Interleukin-23 for 24 hours, 100 ng/mL Interleukin-1b for 24 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF074ZSQ ENCSR050VTC stimulated activated CD4-positive, alpha-beta T cell male adult 42 years treated with anti-CD3 and anti-CD28 coated beads for 24 hours, 100 ng/mL Interleukin-23 for 24 hours, 100 ng/mL Interleukin-1b for 24 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF322RXX ENCSR049SVH Peak brain organoid male adult 53 years, 180 days post differentiation DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF110ZAI ENCSR049SVH brain organoid male adult 53 years, 180 days post differentiation DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF812KXM ENCSR049KUR Peak with mild cognitive impairment middle frontal area 46 tissue female adult 90 or above years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF878BKX ENCSR049KUR with mild cognitive impairment middle frontal area 46 tissue female adult 90 or above years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF471RWN ENCSR048ARD Peak CD4-positive, alpha-beta memory T cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF715NMW ENCSR048ARD CD4-positive, alpha-beta memory T cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF325UHI ENCSR047WCC Peak dendritic cell male adult 51 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF300TPQ ENCSR047WCC dendritic cell male adult 51 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF611TJJ ENCSR047FNH Peak large intestine tissue male embryo 113 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF678ZGR ENCSR047FNH large intestine tissue male embryo 113 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF830OBZ ENCSR046DRK Peak stimulated activated CD4-positive, alpha-beta T cell male adult 20 years treated with 10 ng/mL Interleukin-2 , anti-CD3 and anti-CD28 coated beads H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF383YEO ENCSR046DRK stimulated activated CD4-positive, alpha-beta T cell male adult 20 years treated with 10 ng/mL Interleukin-2 , anti-CD3 and anti-CD28 coated beads H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF029GVR ENCSR045QJH Peak common myeloid progenitor, CD34-positive H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF581ADV ENCSR045QJH common myeloid progenitor, CD34-positive H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF022KBV ENCSR044JIR Peak activated CD8-positive, naive alpha-beta T cell male adult 42 years treated with anti-CD3 and anti-CD28 coated beads for 16 hours, 50 U/mL Interleukin-2 for 16 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF050YCQ ENCSR044JIR activated CD8-positive, naive alpha-beta T cell male adult 42 years treated with anti-CD3 and anti-CD28 coated beads for 16 hours, 50 U/mL Interleukin-2 for 16 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF529XGS ENCSR044ATC Peak natural killer cell female adult 41 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF496GXT ENCSR044ATC natural killer cell female adult 41 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF057QLZ ENCSR042WQA Peak CD4-positive, CD25-positive, alpha-beta regulatory T cell male adult 56 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF042RAY ENCSR042WQA CD4-positive, CD25-positive, alpha-beta regulatory T cell male adult 56 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF587HTJ ENCSR042ITN Peak cerebellum tissue male adult 53 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF504XAW ENCSR042ITN cerebellum tissue male adult 53 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF978OBK ENCSR042DVU with Alzheimer's disease head of caudate nucleus tissue female adult 74 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF906NBO ENCSR042AWH Peak HepG2 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF664EJT ENCSR042AWH HepG2 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF633VXF ENCSR041YWB Peak CD4-positive, alpha-beta memory T cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF101SNA ENCSR041YWB CD4-positive, alpha-beta memory T cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF197UBY ENCSR041UZZ Peak T-helper 17 cell treated with phorbol 13-acetate 12-myristate , ionomycin H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF209NJW ENCSR041UZZ T-helper 17 cell treated with phorbol 13-acetate 12-myristate , ionomycin H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF680QKA ENCSR040ZML Peak naive B cell female adult 39 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF926THG ENCSR040ZML naive B cell female adult 39 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF814SDZ ENCSR040TXN Peak central memory CD8-positive, alpha-beta T cell male adult 36 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF191JSX ENCSR040TXN central memory CD8-positive, alpha-beta T cell male adult 36 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF584RGS ENCSR040PBN Peak HG03066 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF427UQD ENCSR040PBN HG03066 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF297RNG ENCSR040DJK Peak psoas muscle tissue female adult 59 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF490PBK ENCSR040DJK psoas muscle tissue female adult 59 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF125PBQ ENCSR040DGJ Peak T-cell DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF477BAL ENCSR040DGJ T-cell DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF101AZH ENCSR039ZVQ Peak left renal cortex interstitium tissue male embryo 120 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF335CQE ENCSR039ZVQ left renal cortex interstitium tissue male embryo 120 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF981GXF ENCSR038XTK Peak HCEC 1CT DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF394WTE ENCSR038XTK HCEC 1CT DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF981ZEG ENCSR038WVV Peak HG02973 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF518WFH ENCSR038WVV HG02973 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF478SWS ENCSR038VWU Peak mucosa of descending colon tissue male adult 40 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF890UWL ENCSR038VWU mucosa of descending colon tissue male adult 40 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF830ELX ENCSR038NSJ Peak naive thymus-derived CD4-positive, alpha-beta T cell male adult 35 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF689AWS ENCSR038NSJ naive thymus-derived CD4-positive, alpha-beta T cell male adult 35 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF370ILR ENCSR038FOS Peak suprapubic skin tissue male adult 54 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF848HOS ENCSR038FOS suprapubic skin tissue male adult 54 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF278VHG ENCSR037PIU Peak with Cognitive impairment, Alzheimer's disease posterior cingulate gyrus tissue male adult 80 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF437SND ENCSR037PIU with Cognitive impairment, Alzheimer's disease posterior cingulate gyrus tissue male adult 80 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF459KMA ENCSR037PGI Peak RCC 7860 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF452YZP ENCSR037PGI RCC 7860 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF034PJC ENCSR037GKL stomach tissue male adult 54 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF443VWX ENCSR037GFN Peak gastroesophageal sphincter tissue male adult 37 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF512IEA ENCSR037GFN gastroesophageal sphincter tissue male adult 37 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF477ILF ENCSR036VRV Peak right kidney tissue female embryo 107 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF190UQR ENCSR036VRV right kidney tissue female embryo 107 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF828LGP ENCSR036HAT Peak spinal cord tissue female embryo 113 days H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF569FQL ENCSR036HAT spinal cord tissue female embryo 113 days H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF589ZDX ENCSR036DBU Peak activated naive CD8-positive, alpha-beta T cell male adult 30 years treated with anti-CD3 and anti-CD28 coated beads H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF483GED ENCSR036DBU activated naive CD8-positive, alpha-beta T cell male adult 30 years treated with anti-CD3 and anti-CD28 coated beads H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF434AXT ENCSR035SZE Peak T-helper 1 cell male adult 56 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF863OLH ENCSR035SZE T-helper 1 cell male adult 56 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF343KHW ENCSR035RVH Peak foreskin keratinocyte male newborn DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF910KFI ENCSR035RVH foreskin keratinocyte male newborn DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF746VWS ENCSR035QHH Peak placenta tissue female embryo 113 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF436GJG ENCSR035QHH placenta tissue female embryo 113 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF189UBB ENCSR034ZKE Peak breast epithelium tissue female adult 53 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF800QBA ENCSR034ZKE breast epithelium tissue female adult 53 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF074OYX ENCSR034RQV Peak parathyroid adenoma tissue male adult 65 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF386EOX ENCSR034RQV parathyroid adenoma tissue male adult 65 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF590NGR ENCSR033WMA Peak stimulated activated naive CD8-positive, alpha-beta T cell male adult 36 years treated with anti-CD3 and anti-CD28 coated beads for 72 hours, 100 ng/mL Interleukin-15 for 72 hours H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF169ABO ENCSR033WMA stimulated activated naive CD8-positive, alpha-beta T cell male adult 36 years treated with anti-CD3 and anti-CD28 coated beads for 72 hours, 100 ng/mL Interleukin-15 for 72 hours H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF996PRE ENCSR033STL Peak muscle of back tissue female embryo 105 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF619PMY ENCSR033STL muscle of back tissue female embryo 105 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF435ASB ENCSR033OKS Peak parathyroid adenoma tissue male adult 62 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF673DXP ENCSR033OKS parathyroid adenoma tissue male adult 62 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF356HNJ ENCSR033DQS Peak muscle of leg tissue male embryo 97 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF082AUZ ENCSR033DQS muscle of leg tissue male embryo 97 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF808YMI ENCSR032RGS Peak A549 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF872SDF ENCSR032RGS A549 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF609PEN ENCSR032NNU Peak left cardiac atrium tissue female adult 59 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF217MSL ENCSR032NNU left cardiac atrium tissue female adult 59 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF787GFA ENCSR032BMQ Peak cingulate gyrus tissue male adult 81 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF438QTX ENCSR032BMQ cingulate gyrus tissue male adult 81 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF663LIE ENCSR031PXV Peak endothelial cell CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF084YDG ENCSR031PXV endothelial cell CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF833PPE ENCSR030HFV Peak Caco-2 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF978IHV ENCSR030HFV Caco-2 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF380GMC ENCSR029SIG Peak pancreas tissue female child 16 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF827CBM ENCSR029SIG pancreas tissue female child 16 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF878IYR ENCSR028YEV Peak spleen tissue male adult 54 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF295PXU ENCSR028YEV spleen tissue male adult 54 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF374NVI ENCSR028QEA Peak placenta tissue embryo 16 weeks H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF888PXY ENCSR028QEA placenta tissue embryo 16 weeks H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF849WPJ ENCSR028NXO Peak heart right ventricle tissue male child 3 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF006WQG ENCSR028NXO heart right ventricle tissue male child 3 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF086AXQ ENCSR027HML Peak OCI-LY7 CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF975BGM ENCSR027HML OCI-LY7 CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF277NLT ENCSR027FSZ Peak upper lobe of left lung tissue male adult 37 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF862ZOO ENCSR027FSZ upper lobe of left lung tissue male adult 37 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF676PJP ENCSR026EOM Peak brain tissue female embryo 85 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF703BCO ENCSR026EOM brain tissue female embryo 85 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF986FBJ ENCSR025MEO Peak HG03354 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF727GJN ENCSR025MEO HG03354 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF050GXO ENCSR025KPY Peak middle frontal area 46 tissue male adult 78 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF973ZFT ENCSR025KPY middle frontal area 46 tissue male adult 78 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF390ZHA ENCSR025EYJ Peak T-cell male adult 48 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF540HZY ENCSR025EYJ T-cell male adult 48 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF615MWF ENCSR025BWH Peak CD8-positive, alpha-beta memory T cell male adult 24 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF887FZH ENCSR025BWH CD8-positive, alpha-beta memory T cell male adult 24 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF742MAQ ENCSR024WOD Peak GM21390 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF298GXE ENCSR024WOD GM21390 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF448BWW ENCSR024BXN Peak head of caudate nucleus tissue female adult 82 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF153ZPN ENCSR024BXN head of caudate nucleus tissue female adult 82 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF499HKV ENCSR022UVL Peak with mild cognitive impairment middle frontal area 46 tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF632MSC ENCSR022UVL with mild cognitive impairment middle frontal area 46 tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF144KTX ENCSR022SNQ Peak activated T-cell male adult 43 years treated with 50 U/mL Interleukin-2 for 72 hours, anti-CD3 and anti-CD28 coated beads for 72 hours H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF060VND ENCSR022SNQ activated T-cell male adult 43 years treated with 50 U/mL Interleukin-2 for 72 hours, anti-CD3 and anti-CD28 coated beads for 72 hours H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF701FBE ENCSR022FAQ Peak middle frontal area 46 tissue female adult 78 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF298AQY ENCSR022FAQ middle frontal area 46 tissue female adult 78 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF414UAH ENCSR022ECC Peak renal cortex interstitium tissue female embryo 96 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF926QWS ENCSR022ECC renal cortex interstitium tissue female embryo 96 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF785GOG ENCSR021YFW Peak activated CD4-positive, alpha-beta memory T cell male adult 43 years treated with anti-CD3 and anti-CD28 coated beads DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF843VVV ENCSR021YFW activated CD4-positive, alpha-beta memory T cell male adult 43 years treated with anti-CD3 and anti-CD28 coated beads DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF751HDH ENCSR021GTX Peak K562 treated with 1 μM SGC-CBP30 for 48 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF911FTX ENCSR021GTX K562 treated with 1 μM SGC-CBP30 for 48 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF856ULU ENCSR020LUD Peak CD8-positive, alpha-beta T cell male adult 21 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF800AIM ENCSR020LUD CD8-positive, alpha-beta T cell male adult 21 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF611BIT ENCSR020LAQ Peak astrocyte H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF153BJG ENCSR020LAQ astrocyte H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF698MKN ENCSR019OML Peak naive thymus-derived CD4-positive, alpha-beta T cell male adult 43 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF219MXS ENCSR019OML naive thymus-derived CD4-positive, alpha-beta T cell male adult 43 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF348YJC ENCSR019MZH Peak stimulated activated CD4-positive, alpha-beta T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 24 hours, 100 ng/mL Interleukin-2 for 24 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF784UWL ENCSR019MZH stimulated activated CD4-positive, alpha-beta T cell female adult 33 years treated with anti-CD3 and anti-CD28 coated beads for 24 hours, 100 ng/mL Interleukin-2 for 24 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF798KCG ENCSR019JDO Peak Karpas-422 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF500AGZ ENCSR019JDO Karpas-422 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF620NAG ENCSR019BOC Peak brain organoid female embryo 5 days, 30 days post differentiation H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF476WON ENCSR019BOC brain organoid female embryo 5 days, 30 days post differentiation H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF739ZLW ENCSR017TFH Peak right kidney tissue female embryo 87 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF916VEF ENCSR017TFH right kidney tissue female embryo 87 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF743XFJ ENCSR017SBI Peak with multiple sclerosis naive B cell DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF483CTC ENCSR017SBI with multiple sclerosis naive B cell DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF378BUT ENCSR017RQC Peak Peyer's patch tissue female adult 53 years ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF293YWI ENCSR017RQC Peyer's patch tissue female adult 53 years ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF386ECF ENCSR017OZH Peak H9 S1 phase stably expressing CDT1, stably expressing GMNN DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF782DDL ENCSR017OZH H9 S1 phase stably expressing CDT1, stably expressing GMNN DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF418DMM ENCSR017LGQ Peak K562 treated with DMSO for 48 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF360VIU ENCSR017LGQ K562 treated with DMSO for 48 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF186MDZ ENCSR016XBE Peak middle frontal area 46 tissue female adult 75 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF950IOX ENCSR016XBE middle frontal area 46 tissue female adult 75 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF547NOA ENCSR016THC Peak left renal pelvis tissue male embryo 105 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF644LZM ENCSR016THC left renal pelvis tissue male embryo 105 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF505ZSZ ENCSR015GFK Peak thoracic aorta tissue male adult 37 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF762YWL ENCSR015GFK thoracic aorta tissue male adult 37 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF468VKU ENCSR015BGH Peak caudate nucleus tissue male adult 78 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF230MPP ENCSR015BGH caudate nucleus tissue male adult 78 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF355QKC ENCSR014VAC Peak right renal cortex interstitium tissue male embryo 105 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF071MVX ENCSR014VAC right renal cortex interstitium tissue male embryo 105 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF154SNM ENCSR014TDK Peak temporal lobe tissue male adult 81 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF762XSC ENCSR014TDK temporal lobe tissue male adult 81 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF295WPC ENCSR014GTH Peak with Alzheimer's disease middle frontal area 46 tissue female adult 81 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF541ZVM ENCSR014GTH with Alzheimer's disease middle frontal area 46 tissue female adult 81 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF282ZUL ENCSR014GSQ Peak adrenal gland tissue female adult 51 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF673UYG ENCSR014GSQ adrenal gland tissue female adult 51 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF924VKT ENCSR014FPY Peak iPS DF 4.7 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF246UXS ENCSR014FPY iPS DF 4.7 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF651HCX ENCSR013KEC Peak mesenchymal stem cell originated from H1 H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF160ZUW ENCSR013KEC mesenchymal stem cell originated from H1 H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF227ZSE ENCSR012RCX Peak immature natural killer cell DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF022MAM ENCSR012RCX immature natural killer cell DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF300JJI ENCSR012PII Peak CD14-positive monocyte male adult 21 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF116NCG ENCSR012PII CD14-positive monocyte male adult 21 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF618KZS ENCSR012KZW Peak esophagus squamous epithelium tissue male adult 54 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF719ORU ENCSR012KZW esophagus squamous epithelium tissue male adult 54 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF719DSW ENCSR011VJK Peak suppressor macrophage male adult 21 years and male adult 24 years and male adult 40 years, treated with lipopolysaccharide for 1 hour DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF400WNU ENCSR011VJK suppressor macrophage male adult 21 years and male adult 24 years and male adult 40 years, treated with lipopolysaccharide for 1 hour DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF914CAS ENCSR011VHK Peak with multiple sclerosis naive B cell DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF957XPY ENCSR011VHK with multiple sclerosis naive B cell DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF852BFC ENCSR011SAG Peak mucosa of gallbladder tissue female child 16 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF040OJC ENCSR011SAG mucosa of gallbladder tissue female child 16 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF262LQV ENCSR011NJP Peak GM18858 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF636KMV ENCSR011NJP GM18858 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF341LQU ENCSR011MGQ Peak subcutaneous abdominal adipose tissue tissue nuclear fraction female adult 49 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF608YXU ENCSR011MGQ subcutaneous abdominal adipose tissue tissue nuclear fraction female adult 49 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF424SSW ENCSR011KBS Peak with squamous cell carcinoma skin epidermis tissue male adult 84 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF921NZD ENCSR011KBS with squamous cell carcinoma skin epidermis tissue male adult 84 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF398JFP ENCSR011BHU Peak middle frontal area 46 tissue female adult 84 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF156GJU ENCSR011BHU middle frontal area 46 tissue female adult 84 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF889QPF ENCSR010ZMK Peak muscle of back tissue female embryo 113 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF489HQO ENCSR010ZMK muscle of back tissue female embryo 113 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF225NNA ENCSR010TMX Peak stimulated activated CD4-positive, alpha-beta T cell male adult 42 years treated with anti-CD3 and anti-CD28 coated beads for 48 hours, 100 ng/mL Interleukin-2 for 48 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF968KNN ENCSR010TMX stimulated activated CD4-positive, alpha-beta T cell male adult 42 years treated with anti-CD3 and anti-CD28 coated beads for 48 hours, 100 ng/mL Interleukin-2 for 48 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF051RPA ENCSR010SZN Peak with Alzheimer's disease head of caudate nucleus tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF441JLG ENCSR010SZN with Alzheimer's disease head of caudate nucleus tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF826VDY ENCSR009MDC Peak stimulated activated naive CD8-positive, alpha-beta T cell male adult 30 years treated with anti-CD3 and anti-CD28 coated beads , 10 ng/mL Interleukin-2 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF040POR ENCSR009MDC stimulated activated naive CD8-positive, alpha-beta T cell male adult 30 years treated with anti-CD3 and anti-CD28 coated beads , 10 ng/mL Interleukin-2 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF560SPI ENCSR009KWQ Peak BE2C DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF721VIJ ENCSR009KWQ BE2C DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF686IRX ENCSR007ZSS Peak nephron organoid female embryo 5 days, 21 days post differentiation originated from H9 H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF804XRL ENCSR007ZSS nephron organoid female embryo 5 days, 21 days post differentiation originated from H9 H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF612YDG ENCSR007YOT Peak GM23248 H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF558IWG ENCSR007YOT GM23248 H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF844RCX ENCSR007HLH Peak CD8-positive, alpha-beta T cell male adult 21 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF966FLQ ENCSR007HLH CD8-positive, alpha-beta T cell male adult 21 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF897RCI ENCSR006XFA Peak posterior cingulate gyrus tissue female adult 82 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF372RPI ENCSR006XFA posterior cingulate gyrus tissue female adult 82 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF225FTY ENCSR006XED Peak left lung tissue female embryo 98 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF453XFY ENCSR006XED left lung tissue female embryo 98 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF274OLY ENCSR006TUH Peak adrenal gland tissue female adult 51 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF672KET ENCSR006TUH adrenal gland tissue female adult 51 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF184APG ENCSR006QLV Peak activated T-cell male adult 43 years treated with 50 U/mL Interleukin-2 for 72 hours, anti-CD3 and anti-CD28 coated beads for 72 hours H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF233LPC ENCSR006QLV activated T-cell male adult 43 years treated with 50 U/mL Interleukin-2 for 72 hours, anti-CD3 and anti-CD28 coated beads for 72 hours H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF076LCZ ENCSR006MAW Peak middle frontal area 46 tissue male adult 83 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF163NDW ENCSR006MAW middle frontal area 46 tissue male adult 83 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF782IKL ENCSR006IMH Peak stomach tissue female adult 53 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF493HHP ENCSR006IMH stomach tissue female adult 53 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF851AWF ENCSR006IJP Peak lung tissue embryo 112 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF631RJC ENCSR006IJP lung tissue embryo 112 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF658LFY ENCSR006DKF Peak brain microvascular endothelial cell DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF472WAW ENCSR006DKF brain microvascular endothelial cell DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF029MCE ENCSR005SXO Peak OCI-LY7 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF630BQS ENCSR005SXO OCI-LY7 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF622JAI ENCSR005LPI Peak omental fat pad tissue male adult 54 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF610NJT ENCSR005LPI omental fat pad tissue male adult 54 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF934SVJ ENCSR005BVE Peak K562 treated with 1 μM SGC-CBP30 for 24 hours ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF722CFX ENCSR005BVE K562 treated with 1 μM SGC-CBP30 for 24 hours ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF952LNQ ENCSR005BTU Peak naive thymus-derived CD8-positive, alpha-beta T cell H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF724WVZ ENCSR005BTU naive thymus-derived CD8-positive, alpha-beta T cell H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF537REO ENCSR004YQD Peak middle frontal area 46 tissue female adult 87 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF489BZS ENCSR004YQD middle frontal area 46 tissue female adult 87 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF825SBK ENCSR004SUL Peak GM23338 originated from GM23248 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF766CUM ENCSR004SUL GM23338 originated from GM23248 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF289VOQ ENCSR004HIE Peak middle frontal area 46 tissue female adult 90 or above years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF649LLS ENCSR004HIE middle frontal area 46 tissue female adult 90 or above years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF948IMX ENCSR004EKY Peak muscle layer of colon tissue female adult 56 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF870HKK ENCSR004EKY muscle layer of colon tissue female adult 56 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF734SXR ENCSR004AKD Peak mesenchymal stem cell female adult and female adult 41 years and female adult 59 years, originated from adipose tissue H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF611HLU ENCSR004AKD mesenchymal stem cell female adult and female adult 41 years and female adult 59 years, originated from adipose tissue H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF571ODZ ENCSR003SZZ Peak esophagus squamous epithelium tissue female adult 51 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF890GCO ENCSR003SZZ esophagus squamous epithelium tissue female adult 51 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF739LIP ENCSR003SWN Peak activated CD4-positive, alpha-beta memory T cell male adult 43 years treated with anti-CD3 and anti-CD28 coated beads H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF289NXD ENCSR003SWN activated CD4-positive, alpha-beta memory T cell male adult 43 years treated with anti-CD3 and anti-CD28 coated beads H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF305SRT ENCSR002YRE Peak IMR-90 H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF699OAR ENCSR002YRE IMR-90 H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF562QQJ ENCSR002RFV Peak activated T-helper 2 cell male adult 35 years treated with 5 μg/mL Interferon-gamma antibody , 100 ng/mL Interleukin-4 , anti-CD3 and anti-CD28 coated beads H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF496HBZ ENCSR002RFV activated T-helper 2 cell male adult 35 years treated with 5 μg/mL Interferon-gamma antibody , 100 ng/mL Interleukin-4 , anti-CD3 and anti-CD28 coated beads H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF222XNK ENCSR002IHL Peak head of caudate nucleus tissue male adult 83 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF505HNJ ENCSR002IHL head of caudate nucleus tissue male adult 83 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF541IKF ENCSR001SHB Peak stomach tissue male adult 34 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF950NLS ENCSR001SHB stomach tissue male adult 34 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF919VNL ENCSR001QTZ Peak with mild cognitive impairment middle frontal area 46 tissue female adult 90 or above years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF084QJF ENCSR001QTZ with mild cognitive impairment middle frontal area 46 tissue female adult 90 or above years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF399UDR ENCSR000RBT Peak HG03571 ATAC peak Experimental 
wgEncodeReg4Epigenetics_ENCFF739XMW ENCSR000RBT HG03571 ATAC signal Experimental 
wgEncodeReg4Epigenetics_ENCFF238SWW ENCSR000NPF Peak cardiac muscle cell originated from RUES2 H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF485DKZ ENCSR000NPF cardiac muscle cell originated from RUES2 H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF606FJE ENCSR000FJL Peak SK-N-DZ treated with dimethyl sulfoxide for 72 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF450AHB ENCSR000FJL SK-N-DZ treated with dimethyl sulfoxide for 72 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF226LGM ENCSR000FJH Peak NCI-H460 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF227KZN ENCSR000FJH NCI-H460 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF124YLW ENCSR000FEK Peak SK-MEL-5 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF627WEJ ENCSR000FEK SK-MEL-5 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF220CPE ENCSR000FDI Peak HT1080 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF416NBF ENCSR000FDI HT1080 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF685CLU ENCSR000FCS Peak SK-N-SH H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF651WOM ENCSR000FCS SK-N-SH H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF907BDL ENCSR000FCL Peak GM08714 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF725VLT ENCSR000FCL GM08714 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF081NLO ENCSR000FCH Peak HEK293 H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF885SUR ENCSR000FCH HEK293 H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF018FRN ENCSR000EXT Peak mononuclear cell male H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF175KKW ENCSR000EXT mononuclear cell male H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF587YOV ENCSR000EXK Peak Panc1 H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF493AZX ENCSR000EXK Panc1 H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF399PQW ENCSR000EXI Peak Panc1 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF756NMQ ENCSR000EXI Panc1 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF847JXO ENCSR000EXD Peak NT2/D1 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF303ECD ENCSR000EXD NT2/D1 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF963OMK ENCSR000EWA Peak K562 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF806YEZ ENCSR000EWA K562 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF172PMU ENCSR000EQN Peak WI38 stably expressing RAF1 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF545LWE ENCSR000EQN WI38 stably expressing RAF1 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF445ZFX ENCSR000EQM Peak WI38 stably expressing RAF1 treated with 20 nM afimoxifene for 72 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF682AUG ENCSR000EQM WI38 stably expressing RAF1 treated with 20 nM afimoxifene for 72 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF067AQL ENCSR000EQK Peak CD4-positive, CD25-positive, alpha-beta regulatory T cell male adult 28 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF308FQH ENCSR000EQK CD4-positive, CD25-positive, alpha-beta regulatory T cell male adult 28 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF231KEA ENCSR000EQJ Peak CD4-positive, CD25-positive, alpha-beta regulatory T cell female adult 35 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF806NHY ENCSR000EQJ CD4-positive, CD25-positive, alpha-beta regulatory T cell female adult 35 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF549MER ENCSR000EQI Peak T-helper 2 cell male adult 33 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF069CDV ENCSR000EQI T-helper 2 cell male adult 33 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF625PRN ENCSR000EQH Peak T-helper 2 cell female adult 26 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF572PBN ENCSR000EQH T-helper 2 cell female adult 26 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF748QKC ENCSR000EQG Peak T-helper 2 cell DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF561ETS ENCSR000EQG T-helper 2 cell DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF305YJL ENCSR000EQF Peak T-helper 17 cell DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF554LFC ENCSR000EQF T-helper 17 cell DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF162PVO ENCSR000EQE Peak T-helper 1 cell male adult 33 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF863TXC ENCSR000EQE T-helper 1 cell male adult 33 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF011GNV ENCSR000EQD Peak T-helper 1 cell female adult 26 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF156FHK ENCSR000EQD T-helper 1 cell female adult 26 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF271FDS ENCSR000EQC Peak T-helper 1 cell DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF387DGS ENCSR000EQC T-helper 1 cell DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF206QYG ENCSR000EQB Peak T47D DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF085GPE ENCSR000EQB T47D DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF753UVL ENCSR000EQA Peak skeletal muscle cell DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF534KRC ENCSR000EQA skeletal muscle cell DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF423ZMB ENCSR000EPZ Peak SK-N-SH treated with 6 μM all-trans-retinoic acid for 48 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF327CJX ENCSR000EPZ SK-N-SH treated with 6 μM all-trans-retinoic acid for 48 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF454VGD ENCSR000EPY Peak SK-N-MC DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF296DEO ENCSR000EPY SK-N-MC DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF411NTD ENCSR000EPX Peak bronchial epithelial cell DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF514SPT ENCSR000EPX bronchial epithelial cell DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF338UJK ENCSR000EPW Peak epithelial cell of proximal tubule DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF836MHB ENCSR000EPW epithelial cell of proximal tubule DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF231SHJ ENCSR000EPV Peak RPMI7951 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF158FWS ENCSR000EPV RPMI7951 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF091SYM ENCSR000EPU Peak epithelial cell of prostate DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF127HBC ENCSR000EPU epithelial cell of prostate DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF528QPM ENCSR000EPT Peak Panc1 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF857RXA ENCSR000EPT Panc1 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF406DSH ENCSR000EPS Peak NT2/D1 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF701NPD ENCSR000EPS NT2/D1 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF469ITT ENCSR000EPR Peak fibroblast of lung male adult 45 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF813HTP ENCSR000EPR fibroblast of lung male adult 45 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF287ONE ENCSR000EPQ Peak keratinocyte female DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF494IGD ENCSR000EPQ keratinocyte female DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF354KVZ ENCSR000EPP Peak foreskin fibroblast male newborn DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF927PNR ENCSR000EPP foreskin fibroblast male newborn DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF053GZF ENCSR000EPO Peak fibroblast of dermis female adult DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF361BTT ENCSR000EPO fibroblast of dermis female adult DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF952RCR ENCSR000EPN Peak bronchial epithelial cell female treated with 6 μM retinoic acid for 48 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF638VPH ENCSR000EPN bronchial epithelial cell female treated with 6 μM retinoic acid for 48 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF478ZHH ENCSR000EPM Peak astrocyte DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF963PFR ENCSR000EPM astrocyte DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF046YFJ ENCSR000EPL Peak NB4 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF238IRI ENCSR000EPL NB4 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF195VNB ENCSR000EPK Peak CD14-positive monocyte female DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF389PZY ENCSR000EPK CD14-positive monocyte female DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF041VYA ENCSR000EPI Peak MCF-7 treated with 100 nM estradiol for 1 hour DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF722WLB ENCSR000EPI MCF-7 treated with 100 nM estradiol for 1 hour DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF742DKA ENCSR000EPG Peak M059J DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF064TAE ENCSR000EPG M059J DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF052FBR ENCSR000EPE Peak LHCN-M2 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF381NXB ENCSR000EPE LHCN-M2 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF468UGD ENCSR000EPD Peak myocyte originated from LHCN-M2 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF932RDX ENCSR000EPD myocyte originated from LHCN-M2 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF327DFG ENCSR000EOT Peak K562 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF414OGC ENCSR000EOT K562 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF511HWR ENCSR000EOS Peak Jurkat, Clone E6-1 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF794WMH ENCSR000EOS Jurkat, Clone E6-1 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF399MCK ENCSR000EOR Peak fibroblast of villous mesenchyme DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF168WLU ENCSR000EOR fibroblast of villous mesenchyme DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF532QMO ENCSR000EOP Peak myotube originated from skeletal muscle myoblast DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF594BSS ENCSR000EOP myotube originated from skeletal muscle myoblast DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF278OKC ENCSR000EOO Peak skeletal muscle myoblast DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF149ERN ENCSR000EOO skeletal muscle myoblast DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF908XKP ENCSR000EON Peak retinal pigment epithelial cell DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF972BYK ENCSR000EON retinal pigment epithelial cell DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF084QBI ENCSR000EOM Peak glomerular endothelial cell DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF529OOQ ENCSR000EOM glomerular endothelial cell DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF550STW ENCSR000EOL Peak kidney epithelial cell DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF236NPL ENCSR000EOL kidney epithelial cell DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF477PRH ENCSR000EOK Peak renal cortical epithelial cell DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF874JLE ENCSR000EOK renal cortical epithelial cell DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF484SUR ENCSR000EOJ Peak fibroblast of lung DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF640TAP ENCSR000EOJ fibroblast of lung DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF600SFJ ENCSR000EOI Peak fibroblast of peridontal ligament male DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF748IRR ENCSR000EOI fibroblast of peridontal ligament male DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF605PMF ENCSR000EOH Peak fibroblast of pulmonary artery DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF070KKO ENCSR000EOH fibroblast of pulmonary artery DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF768GYH ENCSR000EOG Peak pulmonary artery endothelial cell female DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF019DLM ENCSR000EOG pulmonary artery endothelial cell female DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF790UKP ENCSR000EOF Peak non-pigmented ciliary epithelial cell DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF431XMC ENCSR000EOF non-pigmented ciliary epithelial cell DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF984DGA ENCSR000EOE Peak lung microvascular endothelial cell female DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF902EBP ENCSR000EOE lung microvascular endothelial cell female DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF398HPO ENCSR000EOD Peak lung microvascular endothelial cell female DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF561TJC ENCSR000EOD lung microvascular endothelial cell female DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF882DYG ENCSR000EOC Peak dermis blood vessel endothelial cell male newborn DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF532TGN ENCSR000EOC dermis blood vessel endothelial cell male newborn DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF686JWJ ENCSR000EOB Peak dermis microvascular lymphatic vessel endothelial cell male DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF543IKD ENCSR000EOB dermis microvascular lymphatic vessel endothelial cell male DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF335UNH ENCSR000EOA Peak dermis microvascular lymphatic vessel endothelial cell female DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF871HUQ ENCSR000EOA dermis microvascular lymphatic vessel endothelial cell female DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF901CVE ENCSR000ENZ Peak dermis blood vessel endothelial cell male newborn DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF241BAF ENCSR000ENZ dermis blood vessel endothelial cell male newborn DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF148ELK ENCSR000ENY Peak dermis blood vessel endothelial cell female adult DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF300EKW ENCSR000ENY dermis blood vessel endothelial cell female adult DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF291PET ENCSR000ENX Peak dermis blood vessel endothelial cell female adult DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF728MWG ENCSR000ENX dermis blood vessel endothelial cell female adult DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF473KAY ENCSR000ENW Peak fibroblast of mammary gland female DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF355GLM ENCSR000ENW fibroblast of mammary gland female DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF182YGK ENCSR000ENV Peak mammary epithelial cell female DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF889GXK ENCSR000ENV mammary epithelial cell female DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF689FPA ENCSR000ENT Peak iris pigment epithelial cell DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF329KZI ENCSR000ENT iris pigment epithelial cell DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF719OHA ENCSR000ENS Peak fibroblast of gingiva DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF352VPU ENCSR000ENS fibroblast of gingiva DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF864GOL ENCSR000ENR Peak HFF-Myc originated from foreskin fibroblast DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF484WUK ENCSR000ENR HFF-Myc originated from foreskin fibroblast DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF257LTI ENCSR000ENQ Peak foreskin fibroblast male newborn DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF022BVH ENCSR000ENQ foreskin fibroblast male newborn DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF506NRS ENCSR000ENO Peak HeLa-S3 G1b phase DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF194NJI ENCSR000ENO HeLa-S3 G1b phase DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF450ENP ENCSR000ENN Peak epithelial cell of esophagus DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF915KQY ENCSR000ENN epithelial cell of esophagus DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF290TAZ ENCSR000ENM Peak HCT116 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF431JDU ENCSR000ENM HCT116 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF675JDL ENCSR000ENL Peak choroid plexus epithelial cell DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF237KVM ENCSR000ENL choroid plexus epithelial cell DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF976GWC ENCSR000ENK Peak fibroblast of the conjunctiva DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF927IVP ENCSR000ENK fibroblast of the conjunctiva DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF724UXE ENCSR000ENJ cardiac muscle cell DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF215WHT ENCSR000ENI Peak cardiac fibroblast female adult DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF258OVM ENCSR000ENI cardiac fibroblast female adult DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF548MKL ENCSR000ENH Peak cardiac fibroblast DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF424KBD ENCSR000ENH cardiac fibroblast DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF436COT ENCSR000ENG Peak smooth muscle cell of the brain vasculature female DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF770JQW ENCSR000ENG smooth muscle cell of the brain vasculature female DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF862HDS ENCSR000ENF Peak brain pericyte DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF866JBL ENCSR000ENF brain pericyte DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF011DYC ENCSR000END Peak amniotic epithelial cell DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF720ZBZ ENCSR000END amniotic epithelial cell DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF945CET ENCSR000ENC Peak astrocyte of the cerebellum DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF713HCD ENCSR000ENC astrocyte of the cerebellum DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF858YJD ENCSR000ENB astrocyte of the spinal cord DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF707ZYZ ENCSR000ENA Peak astrocyte of the hippocampus DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF947PKH ENCSR000ENA astrocyte of the hippocampus DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF662MIT ENCSR000EMZ Peak H7 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF631PJY ENCSR000EMZ H7 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF041APQ ENCSR000EMY Peak cardiac muscle cell originated from H7 treated with 5 ng/mL Fibroblast growth factor 2 for 14 days, 10 ng/mL Bone morphogenetic protein 4 for 14 days, 6 ng/mL Activin A for 14 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF146ETF ENCSR000EMY cardiac muscle cell originated from H7 treated with 5 ng/mL Fibroblast growth factor 2 for 14 days, 10 ng/mL Bone morphogenetic protein 4 for 14 days, 6 ng/mL Activin A for 14 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF729EKZ ENCSR000EMX Peak mesodermal cell originated from H7 treated with 5 ng/mL Fibroblast growth factor 2 for 2 days, 6 ng/mL Activin A for 2 days, 10 ng/mL Bone morphogenetic protein 4 for 2 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF220VQO ENCSR000EMX mesodermal cell originated from H7 treated with 5 ng/mL Fibroblast growth factor 2 for 2 days, 6 ng/mL Activin A for 2 days, 10 ng/mL Bone morphogenetic protein 4 for 2 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF215CRS ENCSR000EMW Peak cardiovascular progenitor cell originated from H7 treated with 5 ng/mL Fibroblast growth factor 2 for 5 days, 10 ng/mL Bone morphogenetic protein 4 for 5 days, 6 ng/mL Activin A for 5 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF516JHB ENCSR000EMW cardiovascular progenitor cell originated from H7 treated with 5 ng/mL Fibroblast growth factor 2 for 5 days, 10 ng/mL Bone morphogenetic protein 4 for 5 days, 6 ng/mL Activin A for 5 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF396HTD ENCSR000EMV Peak cardiac myoblast originated from H7 treated with 10 ng/mL Bone morphogenetic protein 4 for 9 days, 5 ng/mL Fibroblast growth factor 2 for 9 days, 6 ng/mL Activin A for 9 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF285XVJ ENCSR000EMV cardiac myoblast originated from H7 treated with 10 ng/mL Bone morphogenetic protein 4 for 9 days, 5 ng/mL Fibroblast growth factor 2 for 9 days, 6 ng/mL Activin A for 9 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF757KQY ENCSR000EMU Peak H1 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF573NKX ENCSR000EMU H1 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF412PRG ENCSR000EMT Peak GM12878 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF428XFI ENCSR000EMT GM12878 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF830BXD ENCSR000EMS GM12865 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF036UND ENCSR000EMR Peak GM12864 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF218CLQ ENCSR000EMR GM12864 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF977HWX ENCSR000EMQ Peak GM06990 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF691MRD ENCSR000EMQ GM06990 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF343LJX ENCSR000EMP Peak GM04504 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF990JCB ENCSR000EMP GM04504 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF810BOE ENCSR000EMO Peak GM04503 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF207SYF ENCSR000EMO GM04503 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF104RKX ENCSR000EMN Peak CMK DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF926VDN ENCSR000EMN CMK DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF648YTI ENCSR000EMM Peak naive thymus-derived CD4-positive, alpha-beta T cell female adult 35 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF110YMH ENCSR000EMM naive thymus-derived CD4-positive, alpha-beta T cell female adult 35 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF874PSL ENCSR000EML Peak naive thymus-derived CD4-positive, alpha-beta T cell male adult 26 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF683LUG ENCSR000EML naive thymus-derived CD4-positive, alpha-beta T cell male adult 26 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF508ANN ENCSR000EMK Peak hematopoietic multipotent progenitor cell DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF624CCK ENCSR000EMK hematopoietic multipotent progenitor cell DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF044LWB ENCSR000EMJ Peak B cell female adult 43 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF452URQ ENCSR000EMJ B cell female adult 43 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF027OUR ENCSR000EMH Peak stromal cell of bone marrow male DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF106CGJ ENCSR000EMH stromal cell of bone marrow male DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF523TVO ENCSR000EMG Peak HS-5 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF740KQG ENCSR000EMG HS-5 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF259EOL ENCSR000EMF Peak HS-27A DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF734KTZ ENCSR000EMF HS-27A DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF624XNX ENCSR000EME Peak BJ DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF768KOM ENCSR000EME BJ DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF769IJX ENCSR000EMC Peak fibroblast of the aortic adventitia female DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF758YZS ENCSR000EMC fibroblast of the aortic adventitia female DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF227FAL ENCSR000EMB Peak AG10803 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF825CEN ENCSR000EMB AG10803 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF255FAJ ENCSR000EMA Peak AG09319 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF015PVH ENCSR000EMA AG09319 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF559GMJ ENCSR000ELZ Peak AG09309 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF786SQQ ENCSR000ELZ AG09309 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF912GAK ENCSR000ELY Peak AG04450 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF153DHV ENCSR000ELY AG04450 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF612ULV ENCSR000ELX Peak AG04449 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF733AUS ENCSR000ELX AG04449 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF807KKL ENCSR000ELW Peak A549 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF985FHV ENCSR000ELW A549 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF948EFE ENCSR000ELV Peak urothelium cell line DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF937YXE ENCSR000ELV urothelium cell line DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF914JKF ENCSR000ELU Peak urothelium cell line treated with UT189 for 1 hour DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF692BTV ENCSR000ELU urothelium cell line treated with UT189 for 1 hour DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF669QEC ENCSR000ELS Peak T47D treated with 10 nM 17β-estradiol for 30 minutes DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF555CJR ENCSR000ELS T47D treated with 10 nM 17β-estradiol for 30 minutes DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF722KHY ENCSR000ELR Peak hepatic stellate cell female adult 59 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF679SRM ENCSR000ELR hepatic stellate cell female adult 59 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF211DYP ENCSR000ELQ Peak SK-N-SH DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF280RMA ENCSR000ELQ SK-N-SH DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF015OVK ENCSR000ELP Peak RWPE1 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF666AUK ENCSR000ELP RWPE1 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF707ETN ENCSR000ELO Peak psoas muscle tissue male adult 27 years and male adult 35 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF961NBX ENCSR000ELO psoas muscle tissue male adult 27 years and male adult 35 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF732TAG ENCSR000ELJ Peak osteoblast DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF418OBI ENCSR000ELJ osteoblast DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF478PMN ENCSR000ELI Peak C803 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF382IJE ENCSR000ELI C803 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF922LSG ENCSR000ELH Peak keratinocyte female DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF839EGC ENCSR000ELH keratinocyte female DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF539GKA ENCSR000ELG Peak naive B cell DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF466KLK ENCSR000ELG naive B cell DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF919XIX ENCSR000ELE Peak CD14-positive monocyte female DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF608PTO ENCSR000ELE CD14-positive monocyte female DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF243DNR ENCSR000ELD Peak epidermal melanocyte DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF321TEC ENCSR000ELD epidermal melanocyte DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF811NWJ ENCSR000ELB Peak D341Med DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF003AZB ENCSR000ELB D341Med DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF561STD ENCSR000ELA Peak D721Med DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF715SIC ENCSR000ELA D721Med DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF391NEE ENCSR000EKY Peak MCF-7 treated with 10 mM lactate for 24 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF799DOV ENCSR000EKY MCF-7 treated with 10 mM lactate for 24 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF010FNU ENCSR000EKW Peak MCF-7 expressing RNAi DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF637NSW ENCSR000EKW MCF-7 expressing RNAi DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF519VZU ENCSR000EKV Peak MCF-7 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF270ENA ENCSR000EKV MCF-7 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF548XZO ENCSR000EKU Peak LNCaP clone FGC treated with 1 nM 17β-hydroxy-17-methylestra-4,9,11-trien-3-one for 12 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF348HVC ENCSR000EKU LNCaP clone FGC treated with 1 nM 17β-hydroxy-17-methylestra-4,9,11-trien-3-one for 12 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF762IMP ENCSR000EKT Peak LNCaP clone FGC DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF086MWH ENCSR000EKT LNCaP clone FGC DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF509WBC ENCSR000EKR Peak K562 treated with 500 μM sodium butyrate for 72 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF625OEG ENCSR000EKR K562 treated with 500 μM sodium butyrate for 72 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF556VNL ENCSR000EKQ Peak K562 G1 phase DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF503WXT ENCSR000EKQ K562 G1 phase DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF336FHU ENCSR000EKP Peak K562 G2 phase DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF334FEV ENCSR000EKP K562 G2 phase DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF058MMD ENCSR000EKO Peak K562 treated with 0.05% dimethyl sulfoxide for 72 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF132BMD ENCSR000EKO K562 treated with 0.05% dimethyl sulfoxide for 72 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF374SGQ ENCSR000EKN Peak K562 treated with 1 μM vorinostat for 72 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF929ROI ENCSR000EKN K562 treated with 1 μM vorinostat for 72 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF305PAK ENCSR000EKL Peak Ishikawa treated with 100 nM  4-hydroxy-tamoxifen for 30 minutes DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF251BFP ENCSR000EKL Ishikawa treated with 100 nM  4-hydroxy-tamoxifen for 30 minutes DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF903UGT ENCSR000EKK Peak iPS-NIHi7 originated from AG08395 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF281YXX ENCSR000EKK iPS-NIHi7 originated from AG08395 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF197AFZ ENCSR000EKJ Peak iPS-NIHi11 originated from AG20443 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF975WFY ENCSR000EKJ iPS-NIHi11 originated from AG20443 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF325LRG ENCSR000EKI Peak CWRU1 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF084MCZ ENCSR000EKI CWRU1 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF970CEM ENCSR000EKF Peak endothelial cell of umbilical vein newborn DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF671RMS ENCSR000EKF endothelial cell of umbilical vein newborn DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF345HIF ENCSR000EKE Peak HuH-7.5 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF693PZG ENCSR000EKE HuH-7.5 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF729CLK ENCSR000EKD Peak HuH-7 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF578WNN ENCSR000EKD HuH-7 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF989VAP ENCSR000EKC Peak HTR-8/SVneo DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF230UGR ENCSR000EKC HTR-8/SVneo DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF045EMU ENCSR000EJX Peak HPDE6-E6E7 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF614ARK ENCSR000EJX HPDE6-E6E7 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF581SHD ENCSR000EJU Peak hepatocyte DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF826YPV ENCSR000EJU hepatocyte DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF834KSD ENCSR000EJS Peak HeLa-S3 treated with interferon alpha for 4 hours DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF400TSB ENCSR000EJS HeLa-S3 treated with interferon alpha for 4 hours DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF631ZCQ ENCSR000EJR Peak HEK293T DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF529BOG ENCSR000EJR HEK293T DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF843MOS ENCSR000EJQ Peak heart tissue male adult 27 years and male adult 35 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF826AJD ENCSR000EJQ heart tissue male adult 27 years and male adult 35 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF365DIG ENCSR000EJM Peak GM20000 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF506KKF ENCSR000EJM GM20000 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF056UWU ENCSR000EJL Peak GM19240 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF949XIH ENCSR000EJL GM19240 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF980QXP ENCSR000EJK Peak GM19239 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF807IGB ENCSR000EJK GM19239 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF572FZH ENCSR000EJJ Peak GM19238 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF985KOZ ENCSR000EJJ GM19238 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF238KGC ENCSR000EJI Peak GM18507 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF103RZR ENCSR000EJI GM18507 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF517TOE ENCSR000EJH Peak GM13977 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF947FNR ENCSR000EJH GM13977 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF827NFL ENCSR000EJG Peak GM13976 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF239XXV ENCSR000EJG GM13976 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF544PBF ENCSR000EJF Peak GM12892 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF341HKW ENCSR000EJF GM12892 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF345UUR ENCSR000EJE Peak GM12891 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF933EUW ENCSR000EJE GM12891 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF509WJE ENCSR000EJC Peak GM10266 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF894JCY ENCSR000EJC GM10266 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF619DUW ENCSR000EJB Peak GM10248 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF034LUU ENCSR000EJB GM10248 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF700UCP ENCSR000EJA Peak H54 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF336OBG ENCSR000EJA H54 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF399LEY ENCSR000EIZ Peak germinal center tissue DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF435JDA ENCSR000EIZ germinal center tissue DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF587XYK ENCSR000EIY Peak frontal cortex tissue female adult 67 years and female adult 80 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF643OFE ENCSR000EIY frontal cortex tissue female adult 67 years and female adult 80 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF917XMQ ENCSR000EIX Peak AG20443 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF617JIT ENCSR000EIX AG20443 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF282IJN ENCSR000EIW Peak AG08396 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF111TCY ENCSR000EIW AG08396 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF455IBB ENCSR000EIV Peak AG08395 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF979FLI ENCSR000EIV AG08395 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF488FOI ENCSR000EIT Peak GM03348 genetically modified insertion using transduction targeting H. sapiens MYOD1 treated with 3 μg/mL doxycycline for 10 days DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF423VAI ENCSR000EIT GM03348 genetically modified insertion using transduction targeting H. sapiens MYOD1 treated with 3 μg/mL doxycycline for 10 days DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF457NVO ENCSR000EIS Peak GM03348 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF544AIZ ENCSR000EIS GM03348 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF559GZG ENCSR000EIR Peak GM03348 genetically modified insertion using transduction targeting H. sapiens MYOD1 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF591TDF ENCSR000EIR GM03348 genetically modified insertion using transduction targeting H. sapiens MYOD1 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF832OEQ ENCSR000EIP Peak Ishikawa treated with 0.02% dimethyl sulfoxide for 1 hour DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF926OUY ENCSR000EIP Ishikawa treated with 0.02% dimethyl sulfoxide for 1 hour DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF774PHC ENCSR000EIO Peak Ishikawa treated with 10 nM 17β-estradiol for 30 minutes DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF178MHG ENCSR000EIO Ishikawa treated with 10 nM 17β-estradiol for 30 minutes DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF415GNC ENCSR000EIN Peak COLO829 DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF404EVT ENCSR000EIN COLO829 DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF666QMR ENCSR000EIL Peak chorion tissue DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF631YPY ENCSR000EIL chorion tissue DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF825PLH ENCSR000EIK Peak frontal cortex tissue male adult 27 years and male adult 35 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF599TLO ENCSR000EIK frontal cortex tissue male adult 27 years and male adult 35 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF378LCB ENCSR000EIJ Peak cerebellum tissue male adult 27 years and male adult 35 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF520MAO ENCSR000EIJ cerebellum tissue male adult 27 years and male adult 35 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF700SDZ ENCSR000EII Peak B cell female adult 27 years DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF832BVB ENCSR000EII B cell female adult 27 years DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF465CGT ENCSR000EIG Peak T-helper 1 cell DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF683GNU ENCSR000EIG T-helper 1 cell DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF627ZBL ENCSR000EIF Peak naive thymus-derived CD4-positive, alpha-beta T cell DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF790XQN ENCSR000EIF naive thymus-derived CD4-positive, alpha-beta T cell DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF269MOF ENCSR000EID Peak 8988T DNase peak Experimental 
wgEncodeReg4Epigenetics_ENCFF140GVM ENCSR000EID 8988T DNase signal Experimental 
wgEncodeReg4Epigenetics_ENCFF887MRH ENCSR000EFI Peak IMR-90 CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF105FHL ENCSR000EFI IMR-90 CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF841AXJ ENCSR000DYB Peak WI38 CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF902IOE ENCSR000DYB WI38 CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF756GJW ENCSR000DXZ Peak WI38 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF237RRL ENCSR000DXZ WI38 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF344CXQ ENCSR000DXY Peak WI38 stably expressing RAF1 treated with 20 nM afimoxifene for 72 hours H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF791BNP ENCSR000DXY WI38 stably expressing RAF1 treated with 20 nM afimoxifene for 72 hours H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF349QKF ENCSR000DXW Peak WERI-Rb-1 CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF181ESK ENCSR000DXW WERI-Rb-1 CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF183CHX ENCSR000DXU Peak WERI-Rb-1 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF879CSG ENCSR000DXU WERI-Rb-1 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF940OSJ ENCSR000DXT Peak skeletal muscle cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF895ZZX ENCSR000DXT skeletal muscle cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF942DLB ENCSR000DXR Peak SK-N-SH treated with 6 μM all-trans-retinoic acid for 48 hours H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF153GVR ENCSR000DXR SK-N-SH treated with 6 μM all-trans-retinoic acid for 48 hours H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF812MNO ENCSR000DXQ Peak SK-N-SH treated with 6 μM all-trans-retinoic acid for 48 hours CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF109BWI ENCSR000DXQ SK-N-SH treated with 6 μM all-trans-retinoic acid for 48 hours CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF853ZXY ENCSR000DXL Peak SK-N-MC H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF521JLW ENCSR000DXL SK-N-MC H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF864GWD ENCSR000DXJ Peak bronchial epithelial cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF167ZCR ENCSR000DXJ bronchial epithelial cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF500SEA ENCSR000DXI Peak bronchial epithelial cell CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF365EIN ENCSR000DXI bronchial epithelial cell CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF675TZV ENCSR000DXF Peak epithelial cell of proximal tubule H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF223PYO ENCSR000DXF epithelial cell of proximal tubule H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF763ZKS ENCSR000DXD Peak epithelial cell of proximal tubule CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF874ELT ENCSR000DXD epithelial cell of proximal tubule CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF659AZR ENCSR000DWZ Peak fibroblast of lung male adult 45 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF654UDL ENCSR000DWZ fibroblast of lung male adult 45 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF084DUH ENCSR000DWY Peak fibroblast of lung male adult 45 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF141GXC ENCSR000DWY fibroblast of lung male adult 45 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF327LLZ ENCSR000DWV Peak keratinocyte female H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF719EBT ENCSR000DWV keratinocyte female H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF800YOT ENCSR000DWS Peak foreskin fibroblast male newborn H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF752EUQ ENCSR000DWS foreskin fibroblast male newborn H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF671HLG ENCSR000DWQ Peak foreskin fibroblast male newborn CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF076GOF ENCSR000DWQ foreskin fibroblast male newborn CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF775TXQ ENCSR000DWP Peak NB4 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF228XER ENCSR000DWP NB4 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF155DNY ENCSR000DWN Peak NB4 CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF740SMV ENCSR000DWN NB4 CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF249YJG ENCSR000DWJ Peak MCF-7 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF935BFQ ENCSR000DWJ MCF-7 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF139NQI ENCSR000DWH Peak MCF-7 CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF662LGI ENCSR000DWH MCF-7 CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF063RHJ ENCSR000DWF Peak LNCaP clone FGC H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF099XXL ENCSR000DWF LNCaP clone FGC H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF926AUV ENCSR000DVU Peak Jurkat, Clone E6-1 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF094QHV ENCSR000DVU Jurkat, Clone E6-1 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF291CKT ENCSR000DVS Peak fibroblast of villous mesenchyme H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF053DKP ENCSR000DVS fibroblast of villous mesenchyme H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF345VQO ENCSR000DVQ Peak fibroblast of villous mesenchyme CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF666CXN ENCSR000DVQ fibroblast of villous mesenchyme CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF677IZD ENCSR000DVP Peak endothelial cell of umbilical vein male newborn CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF105ZMP ENCSR000DVP endothelial cell of umbilical vein male newborn CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF437SZK ENCSR000DVN Peak endothelial cell of umbilical vein male newborn H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF033TJS ENCSR000DVN endothelial cell of umbilical vein male newborn H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF763JFI ENCSR000DVK Peak retinal pigment epithelial cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF748JVS ENCSR000DVK retinal pigment epithelial cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF810AAG ENCSR000DVI Peak retinal pigment epithelial cell CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF313KFS ENCSR000DVI retinal pigment epithelial cell CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF173LWY ENCSR000DVH Peak kidney epithelial cell CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF518OZL ENCSR000DVH kidney epithelial cell CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF364UIB ENCSR000DVG Peak kidney epithelial cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF786SRS ENCSR000DVG kidney epithelial cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF165MGS ENCSR000DVC Peak fibroblast of lung H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF847AMK ENCSR000DVC fibroblast of lung H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF505HVQ ENCSR000DVA Peak fibroblast of lung CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF004BWD ENCSR000DVA fibroblast of lung CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF364WSS ENCSR000DUZ Peak fibroblast of pulmonary artery H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF288WIX ENCSR000DUZ fibroblast of pulmonary artery H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF742RSV ENCSR000DUX Peak fibroblast of pulmonary artery CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF240OTM ENCSR000DUX fibroblast of pulmonary artery CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF469VPI ENCSR000DUW Peak fibroblast of mammary gland female H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF083EZT ENCSR000DUW fibroblast of mammary gland female H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF109AZU ENCSR000DUU Peak fibroblast of mammary gland female CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF506VAR ENCSR000DUU fibroblast of mammary gland female CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF164SPU ENCSR000DUS Peak mammary epithelial cell female CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF715XOZ ENCSR000DUS mammary epithelial cell female CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF079SQD ENCSR000DUQ Peak mammary epithelial cell female H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF083ONY ENCSR000DUQ mammary epithelial cell female H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF833OFP ENCSR000DUP Peak HL-60 CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF244CXJ ENCSR000DUP HL-60 CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF942MXV ENCSR000DUO Peak HL-60 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF695YII ENCSR000DUO HL-60 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF680WYR ENCSR000DUM Peak HFF-Myc originated from foreskin fibroblast CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF449WXS ENCSR000DUM HFF-Myc originated from foreskin fibroblast CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF638UXD ENCSR000DUK Peak HFF-Myc originated from foreskin fibroblast H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF237UYF ENCSR000DUK HFF-Myc originated from foreskin fibroblast H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF439MGL ENCSR000DUJ Peak foreskin fibroblast male newborn H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF944PFM ENCSR000DUJ foreskin fibroblast male newborn H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF219EBQ ENCSR000DUH Peak foreskin fibroblast male newborn CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF047ISZ ENCSR000DUH foreskin fibroblast male newborn CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF410JFY ENCSR000DUF Peak HepG2 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF732PJK ENCSR000DUF HepG2 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF626XQK ENCSR000DUB Peak HeLa-S3 G1b phase CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF599XVV ENCSR000DUB HeLa-S3 G1b phase CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF002LNC ENCSR000DUA Peak HeLa-S3 G1b phase H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF728IVS ENCSR000DUA HeLa-S3 G1b phase H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF498RMM ENCSR000DTW Peak HEK293 CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF128UTY ENCSR000DTW HEK293 CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF904SKZ ENCSR000DTU Peak HEK293 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF439DDQ ENCSR000DTU HEK293 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF713TIE ENCSR000DTT Peak epithelial cell of esophagus H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF541YOS ENCSR000DTT epithelial cell of esophagus H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF946GGT ENCSR000DTR Peak epithelial cell of esophagus CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF906XOP ENCSR000DTR epithelial cell of esophagus CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF003SZD ENCSR000DTQ Peak HCT116 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF964OOU ENCSR000DTQ HCT116 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF209YMI ENCSR000DTO Peak HCT116 CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF388PVO ENCSR000DTO HCT116 CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF295PWT ENCSR000DTN Peak choroid plexus epithelial cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF738STL ENCSR000DTN choroid plexus epithelial cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF407YNR ENCSR000DTL Peak choroid plexus epithelial cell CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF438ZPS ENCSR000DTL choroid plexus epithelial cell CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF214RBF ENCSR000DTK Peak cardiac muscle cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF045KEG ENCSR000DTK cardiac muscle cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF728JSA ENCSR000DTI Peak cardiac muscle cell CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF193CJN ENCSR000DTI cardiac muscle cell CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF215TVV ENCSR000DTH Peak cardiac fibroblast female adult H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF453DCX ENCSR000DTH cardiac fibroblast female adult H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF326EDY ENCSR000DTF Peak cardiac fibroblast female adult CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF330JYE ENCSR000DTF cardiac fibroblast female adult CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF203YYG ENCSR000DTE Peak cardiac fibroblast H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF945XTN ENCSR000DTE cardiac fibroblast H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF760ODA ENCSR000DTC Peak brain microvascular endothelial cell H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF559ALK ENCSR000DTC brain microvascular endothelial cell H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF176ELT ENCSR000DTA brain microvascular endothelial cell CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF511OCS ENCSR000DSZ Peak astrocyte of the cerebellum CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF812BUV ENCSR000DSZ astrocyte of the cerebellum CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF821EWT ENCSR000DSY Peak astrocyte of the cerebellum H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF630TBW ENCSR000DSY astrocyte of the cerebellum H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF117VZZ ENCSR000DSW Peak astrocyte of the spinal cord H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF684KJG ENCSR000DSW astrocyte of the spinal cord H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF213GKL ENCSR000DSU Peak astrocyte of the spinal cord CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF387GYF ENCSR000DSU astrocyte of the spinal cord CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF338GGK ENCSR000DSR Peak H7 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF309NNB ENCSR000DSR H7 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF750VOF ENCSR000DSP Peak cardiac muscle cell originated from H7 treated with 5 ng/mL Fibroblast growth factor 2 for 14 days, 10 ng/mL Bone morphogenetic protein 4 for 14 days, 6 ng/mL Activin A for 14 days H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF178RJC ENCSR000DSP cardiac muscle cell originated from H7 treated with 5 ng/mL Fibroblast growth factor 2 for 14 days, 10 ng/mL Bone morphogenetic protein 4 for 14 days, 6 ng/mL Activin A for 14 days H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF615AIM ENCSR000DSO Peak cardiovascular progenitor cell originated from H7 treated with 5 ng/mL Fibroblast growth factor 2 for 5 days, 10 ng/mL Bone morphogenetic protein 4 for 5 days, 6 ng/mL Activin A for 5 days H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF337QRM ENCSR000DSO cardiovascular progenitor cell originated from H7 treated with 5 ng/mL Fibroblast growth factor 2 for 5 days, 10 ng/mL Bone morphogenetic protein 4 for 5 days, 6 ng/mL Activin A for 5 days H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF421HVO ENCSR000DSE Peak mesodermal cell originated from H7 treated with 5 ng/mL Fibroblast growth factor 2 for 2 days, 6 ng/mL Activin A for 2 days, 10 ng/mL Bone morphogenetic protein 4 for 2 days H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF394XIU ENCSR000DSE mesodermal cell originated from H7 treated with 5 ng/mL Fibroblast growth factor 2 for 2 days, 6 ng/mL Activin A for 2 days, 10 ng/mL Bone morphogenetic protein 4 for 2 days H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF509POC ENCSR000DSD Peak cardiac myoblast originated from H7 treated with 10 ng/mL Bone morphogenetic protein 4 for 9 days, 5 ng/mL Fibroblast growth factor 2 for 9 days, 6 ng/mL Activin A for 9 days H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF877TVP ENCSR000DSD cardiac myoblast originated from H7 treated with 10 ng/mL Bone morphogenetic protein 4 for 9 days, 5 ng/mL Fibroblast growth factor 2 for 9 days, 6 ng/mL Activin A for 9 days H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF485TGR ENCSR000DRZ Peak GM12878 CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF644EEX ENCSR000DRZ GM12878 CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF501HRQ ENCSR000DRY Peak GM12878 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF280PUF ENCSR000DRY GM12878 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF081UCQ ENCSR000DRU Peak GM12875 CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF872JBW ENCSR000DRU GM12875 CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF930OTV ENCSR000DRS Peak GM12875 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF016QKQ ENCSR000DRS GM12875 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF942MTD ENCSR000DRR Peak GM12874 CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF112WLO ENCSR000DRR GM12874 CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF711LOS ENCSR000DRP Peak GM12873 CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF668LUY ENCSR000DRP GM12873 CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF697BYI ENCSR000DRN Peak GM12872 CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF709YNV ENCSR000DRN GM12872 CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF067GFI ENCSR000DRE Peak GM12865 CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF452NQO ENCSR000DRE GM12865 CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF379ONN ENCSR000DRC Peak GM12865 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF835KIQ ENCSR000DRC GM12865 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF357DQE ENCSR000DRB Peak GM12864 CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF070FTG ENCSR000DRB GM12864 CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF178DVZ ENCSR000DQZ Peak GM12864 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF012JLQ ENCSR000DQZ GM12864 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF258NJQ ENCSR000DQY Peak GM12801 CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF172GQZ ENCSR000DQY GM12801 CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF471OQT ENCSR000DQW Peak GM06990 CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF564FON ENCSR000DQW GM06990 CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF121AXM ENCSR000DQV Peak GM06990 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF578UKA ENCSR000DQV GM06990 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF488VFY ENCSR000DQR Peak B cell female adult 27 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF350OLM ENCSR000DQR B cell female adult 27 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF934QYS ENCSR000DQN Peak Caco-2 CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF227NGR ENCSR000DQN Caco-2 CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF434HEC ENCSR000DQI Peak BJ CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF573RGJ ENCSR000DQI BJ CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF274MOR ENCSR000DQH Peak BJ H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF631GKD ENCSR000DQH BJ H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF757SRF ENCSR000DQD Peak BE2C CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF434PKZ ENCSR000DQD BE2C CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF527BOF ENCSR000DQB Peak BE2C H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF178RNN ENCSR000DQB BE2C H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF852POF ENCSR000DQA Peak fibroblast of the aortic adventitia female H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF979EBB ENCSR000DQA fibroblast of the aortic adventitia female H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF639DMR ENCSR000DPY Peak fibroblast of the aortic adventitia female CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF674AZI ENCSR000DPY fibroblast of the aortic adventitia female CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF901HAK ENCSR000DPX Peak AG10803 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF387KUV ENCSR000DPX AG10803 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF549AQK ENCSR000DPV Peak AG10803 CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF080HIA ENCSR000DPV AG10803 CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF917FEY ENCSR000DPU AG09319 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF401ZTN ENCSR000DPS Peak AG09319 CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF683EOM ENCSR000DPS AG09319 CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF121FCK ENCSR000DPR Peak AG09309 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF836LQZ ENCSR000DPR AG09309 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF478XPS ENCSR000DPP Peak AG09309 CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF233THH ENCSR000DPP AG09309 CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF037XYL ENCSR000DPO Peak AG04450 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF573ZFG ENCSR000DPO AG04450 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF116DJL ENCSR000DPM Peak AG04450 CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF766VDL ENCSR000DPM AG04450 CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF603QJQ ENCSR000DPL Peak AG04450 H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF389RGR ENCSR000DPL AG04450 H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF121QSM ENCSR000DPI Peak AG04449 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF986AGK ENCSR000DPI AG04449 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF248MBD ENCSR000DPG Peak AG04449 CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF526IVK ENCSR000DPG AG04449 CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF034FVO ENCSR000DPF Peak A549 CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF840GOE ENCSR000DPF A549 CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF595QEI ENCSR000DPD Peak A549 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF343IDC ENCSR000DPD A549 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF678RAG ENCSR000DNI Peak spleen tissue female adult 20 years and female adult 30 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF659YSR ENCSR000DNI spleen tissue female adult 20 years and female adult 30 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF101CZV ENCSR000DND Peak pancreas tissue male adult 54 years and male adult 60 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF876OHV ENCSR000DND pancreas tissue male adult 54 years and male adult 60 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF513FYD ENCSR000DMY Peak D721Med CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF312UWU ENCSR000DMY D721Med CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF379HST ENCSR000DMS Peak MCF-7 treated with 100 nM 17β-estradiol for 45 minutes CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF552YOG ENCSR000DMS MCF-7 treated with 100 nM 17β-estradiol for 45 minutes CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF782RBX ENCSR000DMH Peak lung tissue male adult 27 years and male adult 35 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF827WDQ ENCSR000DMH lung tissue male adult 27 years and male adult 35 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF519YVI ENCSR000DMF Peak LNCaP clone FGC CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF076NHL ENCSR000DMF LNCaP clone FGC CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF855VBR ENCSR000DME Peak LNCaP clone FGC treated with 1 nM 17β-hydroxy-17-methylestra-4,9,11-trien-3-one for 12 hours CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF486AVY ENCSR000DME LNCaP clone FGC treated with 1 nM 17β-hydroxy-17-methylestra-4,9,11-trien-3-one for 12 hours CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF335EKK ENCSR000DMC Peak kidney tissue male adult 22 years and male adult 27 years and male adult 35 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF446TPO ENCSR000DMC kidney tissue male adult 22 years and male adult 27 years and male adult 35 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF455OQM ENCSR000DLW Peak endothelial cell of umbilical vein newborn CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF047DPU ENCSR000DLW endothelial cell of umbilical vein newborn CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF217HWJ ENCSR000DLG Peak GM20000 CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF795QXM ENCSR000DLG GM20000 CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF528ESQ ENCSR000DLB Peak GM13977 CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF233CKI ENCSR000DLB GM13977 CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF896BYT ENCSR000DKZ Peak GM13976 CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF199JKB ENCSR000DKZ GM13976 CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF241YYF ENCSR000DKR Peak GM10266 CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF156BQJ ENCSR000DKR GM10266 CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF083HVS ENCSR000DKP Peak GM10248 CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF775HGO ENCSR000DKP GM10248 CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF255TVO ENCSR000DKN Peak H54 CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF930UCG ENCSR000DKN H54 CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF516BSM ENCSR000BQE Peak Ishikawa treated with 0.02% dimethyl sulfoxide for 1 hour CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF809XXE ENCSR000BQE Ishikawa treated with 0.02% dimethyl sulfoxide for 1 hour CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF111MGE ENCSR000BPJ Peak K562 CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF736UDR ENCSR000BPJ K562 CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF063ZXA ENCSR000BNO Peak T47D treated with 0.02% dimethyl sulfoxide for 1 hour CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF931VND ENCSR000BNO T47D treated with 0.02% dimethyl sulfoxide for 1 hour CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF679ZFJ ENCSR000BHV Peak A549 treated with 100 nM dexamethasone agonist for 1 hour CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF951ZXL ENCSR000BHV A549 treated with 100 nM dexamethasone agonist for 1 hour CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF097JHH ENCSR000AVF Peak A549 treated with 100 nM dexamethasone agonist for 1 hour H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF017BOZ ENCSR000AVF A549 treated with 100 nM dexamethasone agonist for 1 hour H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF506FKC ENCSR000AUV Peak B cell female adult 27 years and female adult 43 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF035DJL ENCSR000AUV B cell female adult 27 years and female adult 43 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF460UYR ENCSR000AUP Peak B cell female adult 27 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF781ZDY ENCSR000AUP B cell female adult 27 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF331IIY ENCSR000AUI Peak A549 treated with 0.02% ethanol for 1 hour H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF367MFD ENCSR000AUI A549 treated with 0.02% ethanol for 1 hour H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF439TSJ ENCSR000AUF Peak A549 treated with 0.02% ethanol for 1 hour CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF334OFY ENCSR000AUF A549 treated with 0.02% ethanol for 1 hour CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF590KQU ENCSR000ATN Peak CD14-positive monocyte female CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF496PSJ ENCSR000ATN CD14-positive monocyte female CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF751QHO ENCSR000ATH Peak osteoblast H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF837VDG ENCSR000ATH osteoblast H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF003LWU ENCSR000AST Peak A549 treated with 100 nM dexamethasone agonist for 1 hour H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF187ZQM ENCSR000AST A549 treated with 100 nM dexamethasone agonist for 1 hour H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF947JHS ENCSR000ASN Peak CD14-positive monocyte female H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF587XGD ENCSR000ASN CD14-positive monocyte female H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF013PCD ENCSR000ASJ Peak CD14-positive monocyte female H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF184NWF ENCSR000ASJ CD14-positive monocyte female H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF964XMB ENCSR000ASH Peak A549 treated with 0.02% ethanol for 1 hour H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF068LDW ENCSR000ASH A549 treated with 0.02% ethanol for 1 hour H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF171FCA ENCSR000ARA Peak DND-41 H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF308GJB ENCSR000ARA DND-41 H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF638RIL ENCSR000AQW Peak DND-41 H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF341LLL ENCSR000AQW DND-41 H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF913MRA ENCSR000AQU Peak DND-41 CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF398MEO ENCSR000AQU DND-41 CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF577HZA ENCSR000APR Peak fibroblast of dermis NONE and female adult H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF125WTJ ENCSR000APR fibroblast of dermis NONE and female adult H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF722VPL ENCSR000APN Peak fibroblast of dermis H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF500IPG ENCSR000APN fibroblast of dermis H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF986DNJ ENCSR000APM Peak fibroblast of dermis CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF720GFK ENCSR000APM fibroblast of dermis CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF989KNN ENCSR000APH Peak osteoblast H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF103MXT ENCSR000APH osteoblast H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF491ZJZ ENCSR000APF Peak osteoblast CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF185GGC ENCSR000APF osteoblast CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF038TDR ENCSR000AOU Peak astrocyte H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF577BWJ ENCSR000AOU astrocyte H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF373KHZ ENCSR000AOQ Peak astrocyte H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF643ZMC ENCSR000AOQ astrocyte H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF042YJV ENCSR000AOO Peak astrocyte CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF714NPP ENCSR000AOO astrocyte CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF831LMP ENCSR000AOC Peak HeLa-S3 H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF658XKZ ENCSR000AOC HeLa-S3 H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF255ASZ ENCSR000AOA Peak HeLa-S3 CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF179RSE ENCSR000AOA HeLa-S3 CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF241ABG ENCSR000ANZ Peak myotube originated from skeletal muscle myoblast H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF127SRZ ENCSR000ANZ myotube originated from skeletal muscle myoblast H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF642LTS ENCSR000ANV Peak myotube originated from skeletal muscle myoblast H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF532FVC ENCSR000ANV myotube originated from skeletal muscle myoblast H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF981UHL ENCSR000ANS Peak myotube originated from skeletal muscle myoblast CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF450CWJ ENCSR000ANS myotube originated from skeletal muscle myoblast CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF383SZU ENCSR000ANP Peak H1 H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF919FBG ENCSR000ANP H1 H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF356FDN ENCSR000ANO Peak fibroblast of lung female child 11 years and male adult 45 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF616VTY ENCSR000ANO fibroblast of lung female child 11 years and male adult 45 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF195IXA ENCSR000ANK Peak skeletal muscle myoblast male adult 22 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF577LEK ENCSR000ANK skeletal muscle myoblast male adult 22 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF963BYY ENCSR000ANF Peak skeletal muscle myoblast male adult 22 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF203CVC ENCSR000ANF skeletal muscle myoblast male adult 22 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF813BQI ENCSR000ANE Peak skeletal muscle myoblast male adult 22 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF755CPB ENCSR000ANE skeletal muscle myoblast male adult 22 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF883BDY ENCSR000AMW fibroblast of lung female child 11 years and male adult 45 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF390IOE ENCSR000AMR Peak fibroblast of lung female child 11 years and male adult 45 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF734YQE ENCSR000AMR fibroblast of lung female child 11 years and male adult 45 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF705YRV ENCSR000AMO Peak HepG2 H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF795ONN ENCSR000AMO HepG2 H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF021AUI ENCSR000AML Peak mammary epithelial cell female adult 50 years H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF009GAZ ENCSR000AML mammary epithelial cell female adult 50 years H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF764RHO ENCSR000AMF Peak H1 CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF332TNJ ENCSR000AMF H1 CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF194VBQ ENCSR000AMA Peak HepG2 CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF357NFO ENCSR000AMA HepG2 CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF165POJ ENCSR000ALW Peak mammary epithelial cell female adult 50 years H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF425YUM ENCSR000ALW mammary epithelial cell female adult 50 years H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF873ERE ENCSR000ALV Peak mammary epithelial cell female adult 50 years CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF804LBC ENCSR000ALV mammary epithelial cell female adult 50 years CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF235NEN ENCSR000ALK Peak keratinocyte female H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF443TJZ ENCSR000ALK keratinocyte female H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF805QIE ENCSR000ALJ Peak keratinocyte female CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF638DZB ENCSR000ALJ keratinocyte female CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF194WGG ENCSR000ALB Peak endothelial cell of umbilical vein male newborn H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF955PAU ENCSR000ALB endothelial cell of umbilical vein male newborn H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF947JAB ENCSR000ALA Peak endothelial cell of umbilical vein male newborn CTCF peak Experimental 
wgEncodeReg4Epigenetics_ENCFF334OZC ENCSR000ALA endothelial cell of umbilical vein male newborn CTCF signal Experimental 
wgEncodeReg4Epigenetics_ENCFF082RJM ENCSR000AKP Peak K562 H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF849TDM ENCSR000AKP K562 H3K27ac signal Experimental 
wgEncodeReg4Epigenetics_ENCFF869RJX ENCSR000AKN Peak endothelial cell of umbilical vein male newborn H3K4me3 peak Experimental 
wgEncodeReg4Epigenetics_ENCFF399KTR ENCSR000AKN endothelial cell of umbilical vein male newborn H3K4me3 signal Experimental 
wgEncodeReg4Epigenetics_ENCFF876YLP ENCSR000AKC Peak GM12878 H3K27ac peak Experimental 
wgEncodeReg4Epigenetics_ENCFF469WVA ENCSR000AKC GM12878 H3K27ac signal Experimental 
knownGeneV46 GENCODE V46 GENCODE V46 Genes and Gene Predictions Description The GENCODE Genes track (version 46, May 2024) shows high-quality manual annotations merged with evidence-based automated annotations across the entire human genome generated by the GENCODE project. By default, only the basic gene set is displayed, which is a subset of the comprehensive gene set. The basic set represents transcripts that GENCODE believes will be useful to the majority of users. The track includes protein-coding genes, non-coding RNA genes, and pseudo-genes, though pseudo-genes are not displayed by default. It contains annotations on the reference chromosomes as well as assembly patches and alternative loci (haplotypes). The v46 release was derived from the GTF file that contains annotations only on the main chromosomes. Statistics for this build and information on how they were generated can be found on the GENCODE site. For more information on the different gene tracks, see our Genes FAQ. Display Conventions and Configuration By default, this track displays only the basic GENCODE set, splice variants, and non-coding genes. It includes options to display the entire GENCODE set and pseudogenes. To customize these options, the respective boxes can be checked or unchecked at the top of this description page. This track also includes a variety of labels which identify the transcripts when visibility is set to &quot;full&quot; or &quot;pack&quot;. Gene symbols (e.g. NIPA1) are displayed by default, but additional options include GENCODE Transcript ID (ENST00000561183.5), UCSC Known Gene ID (uc001yve.4), UniProt Display ID (Q7RTP0). Additional information about gene and transcript names can be found in our FAQ. This track, in general, follows the display conventions for gene prediction tracks. The exons for putative non-coding genes and untranslated regions are represented by relatively thin blocks, while those for coding open reading frames are thicker. Coloring for the gene annotations is mostly based on the annotation type: MANE: MANE Select Plus Clinical transcripts. For non-MANE transcripts, the following conventions apply. coding: protein coding transcripts, including polymorphic pseudogenes non-coding: non-protein coding transcripts pseudogene: pseudogene transcript annotations problem: problem transcripts (Biotypes of retained_intron, TEC, or disrupted_domain) This track contains an optional codon coloring feature that allows users to quickly validate and compare gene predictions. There is also an option to display the data as a density graph, which can be helpful for visualizing the distribution of items over a region. Squishy-pack Display Within a gene using the pack display mode, transcripts below a specified rank will be condensed into a view similar to squish mode. The transcript ranking approach is preliminary and will change in future releases. The transcripts rankings are defined by the following criteria for protein-coding and non-coding genes: Protein_coding genes MANE or Ensembl canonical 1st: MANE Select / Ensembl canonical 2nd: MANE Plus Clinical Coding biotypes 1st: protein_coding and protein_coding_LoF 2nd: NMDs and NSDs 3rd: retained intron and protein_coding_CDS_not_defined Completeness 1st: full length 2nd: CDS start/end not found CARS score (only for coding transcripts) Transcript genomic span and length (only for non-coding transcripts) Non-coding genes Transcript biotype 1st: transcript biotype identical to gene biotype Ensembl canonical GENCODE basic Transcript genomic span Transcript length Methods The GENCODE v46 track was built from the GENCODE downloads file gencode.v46.chr_patch_hapl_scaff.annotation.gff3.gz. Data from other sources were correlated with the GENCODE data to build association tables. Related Data The GENCODE Genes transcripts are annotated in numerous tables, each of which is also available as a downloadable file. One can see a full list of the associated tables in the Table Browser by selecting GENCODE Genes from the track menu; this list is then available on the table menu. Data access GENCODE Genes and its associated tables can be explored interactively using the REST API, the Table Browser or the Data Integrator. The genePred format files for hg38 are available from our downloads directory or in our GTF download directory. All the tables can also be queried directly from our public MySQL servers, with more information available on our help page as well as on our blog. Credits The GENCODE Genes track was produced at UCSC from the GENCODE comprehensive gene set using a computational pipeline developed by Jim Kent and Brian Raney. This version of the track was generated by Jonathan Casper. References Frankish A, Carbonell-Sala S, Diekhans M, Jungreis I, Loveland JE, Mudge JM, Sisu C, Wright JC, Arnan C, Barnes I et al. GENCODE: reference annotation for the human and mouse genomes in 2023. Nucleic Acids Res. 2023 Jan 6;51(D1):D942-D949. PMID: 36420896; PMC: PMC9825462 A full list of GENCODE publications is available at The GENCODE Project web site. Data Release Policy GENCODE data are available for use without restrictions. 
highlyReproducible Highly Reproducible Regions Highly Reproducible genomic regions for sequencing Mapping and Sequencing Description This container track helps call out sections of the genome that often cause problems or confusion when working with the genome. The hg19 genome has a track with the same name, but with more subtracks, as the GeT-RM and Genome-in-a-Bottle artifact variants do not exist for hg38. Problematic Regions The Problematic Regions track contains the following subtracks: The UCSC Unusual Regions subtrack contains annotations collected at UCSC, put together from other tracks, our experiences and support email list requests over the years. For example, it contains the most well-known gene clusters (IGH, IGL, PAR1/2, TCRA, TCRB, etc) and annotations for the GRC fixed sequences, alternate haplotypes, unplaced contigs, pseudo-autosomal regions, and mitochondria. These loci can yield alignments with low-quality mapping scores and discordant read pairs, especially for short-read sequencing data. The data set was manually curated, based on the Genome Browser's assembly description, the FAQs about assembly, and the NCBI RefSeq &quot;other&quot; annotations track data. The ENCODE Blacklist subtrack contains a comprehensive set of regions which are troublesome for high-throughput Next-Generation Sequencing (NGS) aligners. These regions tend to have a very high ratio of multi-mapping to unique mapping reads and high variance in mappability due to repetitive elements such as satellite, centromeric and telomeric repeats. The GRC Exclusions subtrack contains a set of regions that have been flagged by the GRC to contain false duplications or contamination sequences. The GRC has now removed these sequences from the files that it uses to generate the reference assembly, however, removing the sequences from the GRCh38/hg38 assembly would trigger the next major release of the human assembly. In order to help users recognize these regions and avoid them in their analyses, the GRC have produced a masking file to be used as a companion to GRCh38, and the BED file is available from the GenBank FTP site. Highly Reproducible Regions (HighRepro) The Highly Reproducible Regions track highlights regions and variants from eight samples that can be used to assess variant detection pipelines. The &quot;Highly Reproducible Regions&quot; subtrack comprises the intersection of the reproducible regions across all eight samples, while the &quot;Variants&quot; subtracks contain the reproducible variants from each assayed sample. Both tracks contain data from the following samples: a Chinese Quartet, samples CQ-5, CQ-6, CQ-7, CQ-8 a HapMap Trio, samples NA10385, NA12248, NA12249 a Genome in a Bottle sample, NA12878s Please refer to the Pan et al reference for more information on how these regions were defined. GIAB Problematic Regions The Genome in a Bottle (GIAB) Problematic Regions tracks provide stratifications of the genome to evaluate variant calls in complex regions. It is designed for use with Global Alliance for Genomic Health (GA4GH) benchmarking tools like hap.py and includes regions with low complexity, segmental duplications, functional regions, and difficult-to-sequence areas. Developed in collaboration with GA4GH, the Genome in a Bottle (GIAB) consortium, and the Telomere-to-Telomere Consortium (T2T), the dataset aims to standardize the analysis of genetic variation by offering pre-defined BED files for stratifying true and false positives in genomic studies, facilitating accurate assessments in complex areas of the genome. The creation of the GIAB Problematic Regions tracks involves using a pipeline and configuration to generate stratification BED files that categorize genomic regions based on specific challenges, such as low complexity or difficult mapping, to facilitate accurate benchmarking of variant calls. For more information on the pipeline and configuration used, please visit the following webpage: https://ftp-trace.ncbi.nlm.nih.gov/ReferenceSamples/giab/release/genome-stratifications/v3.5/README.md. If you have questions or comments, please write to Justin Zook (jzook@nist.gov). Panmask Easy 151b Regions The Panmask Easy 151b Regions subtrack contains a set of sample-agnostic easy regions where short-read variant calling reaches high accuracy. Easy regions are derived for variant filtration agnostic to individual samples. They are genomic intervals where general variant callers achieve high accuracy without sophisticated filtering. A set of easy regions for ancient DNA variant filtering was generated by selecting 35-mers that could not be mapped elsewhere within one mismatch or gap. Read alignments from multiple samples were inspected to exclude regions with excessively high or low coverage or those enriched with low mapping quality alignments. The easy regions generated through this k-mer uniqueness procedure are referred to as pm151:lenient, where &quot;pm&quot; stands for panmask. In addition, low complexity regions identified by SDUST were removed. The pm151 regions are used to filter spurious variant calls in centromeres, long repeats, and other genomic regions where short-read mapping is often problematic. They cover 88.2% of hg38, 92.2% of coding regions, and 96.3% of ClinVar pathogenic variants. The track can be used to filter variant calls for clinical or research human samples. Like the HighRepro track in this container (see above), it shows regions that are easy to sequence, not those that are problematic. The data was derived from the HPRC assemblies, and this track presents the 151b-easy panmask set. Display Conventions and Configuration Each track contains a set of regions of varying length with no special configuration options. The UCSC Unusual Regions track has a mouse-over description, all other tracks have at most a name field, which can be shown in pack mode. The tracks are usually kept in dense mode. The Hide empty subtracks control hides subtracks with no data in the browser window. Changing the browser window by zooming or scrolling may result in the display of a different selection of tracks. Data access The raw data can be explored interactively with the Table Browser or the Data Integrator. For automated download and analysis, the genome annotation is stored in bigBed files that can be downloaded from our download server. Individual regions or the whole genome annotation can be obtained using our tool bigBedToBed which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tool can also be used to obtain only features within a given range, e.g. bigBedToBed http://hgdownload.soe.ucsc.edu/gbdb/hg38/problematic/comments.bb -chrom=chr21 -start=0 -end=100000000 stdout Methods Files were downloaded from the respective databases and converted to bigBed format. The procedure is documented in our hg38 makeDoc file. Credits Thanks to Anna Benet-Pag&egrave;s, Max Haeussler, Angie Hinrichs, Daniel Schmelter, and Jairo Navarro at the UCSC Genome Browser for planning, building, and testing these tracks. The underlying data comes from the ENCODE Blacklist and some parts were copied manually from the HGNC and NCBI RefSeq tracks. References Amemiya HM, Kundaje A, Boyle AP. The ENCODE Blacklist: Identification of Problematic Regions of the Genome. Sci Rep. 2019 Jun 27;9(1):9354. PMID: 31249361; PMC: PMC6597582 Dwarshuis N, Kalra D, McDaniel J, Sanio P, Alvarez Jerez P, Jadhav B, Huang WE, Mondal R, Busby B, Olson ND et al. The GIAB genomic stratifications resource for human reference genomes. Nat Commun. 2024 Oct 19;15(1):9029. PMID: 39424793; PMC: PMC11489684 Krusche P, Trigg L, Boutros PC, Mason CE, De La Vega FM, Moore BL, Gonzalez-Porta M, Eberle MA, Tezak Z, Lababidi S et al. Best practices for benchmarking germline small-variant calls in human genomes. Nat Biotechnol. 2019 May;37(5):555-560. PMID: 30858580; PMC: PMC6699627 Li H. Finding easy regions for short-read variant calling from pangenome data. ArXiv. 2025 Aug 8;. PMID: 40799803; PMC: PMC12340882 Pan B, Ren L, Onuchic V, Guan M, Kusko R, Bruinsma S, Trigg L, Scherer A, Ning B, Zhang C et al. Assessing reproducibility of inherited variants detected with short-read whole genome sequencing. Genome Biol. 2022 Jan 3;23(1):2. PMID: 34980216; PMC: PMC8722114 
highReproVcfs Highly Reproducible Variants Highly Reproducible Variants Mapping and Sequencing 
hr_na12878Vcf HR_NA12878 Variants HR_NA12878 Variants Mapping and Sequencing 
hr_na12249Vcf HR_NA12249 Variants HR_NA12249 Variants Mapping and Sequencing 
hr_na12248Vcf HR_NA12248 Variants HR_NA12248 Variants Mapping and Sequencing 
hr_na10835Vcf HR_NA10835 Variants HR_NA10835 Variants Mapping and Sequencing 
cq8Vcf CQ-8 Variants CQ-8 Variants Mapping and Sequencing 
cq7Vcf CQ-7 Variants CQ-7 Variants Mapping and Sequencing 
cq56Vcf CQ-56 Variants CQ-56 Variants Mapping and Sequencing 
highReproBeds Highly Reproducible Regions Highly Reproducible Regions Mapping and Sequencing 
highReproRegions Highly Reproducible Regions Highly Reproducible Regions Mapping and Sequencing 
hmc HMC HMC - Homologous Missense Constraint Score on PFAM domains Phenotypes, Variants, and Literature Description The "Constraint scores" container track includes several subtracks showing the results of constraint prediction algorithms. These try to find regions of negative selection, where variations likely have functional impact. The algorithms do not use multi-species alignments to derive evolutionary constraint, but use primarily human variation, usually from variants collected by gnomAD (see the gnomAD V2 or V3 tracks on hg19 and hg38) or TOPMED (contained in our dbSNP tracks and available as a filter). One of the subtracks is based on UK Biobank variants, which are not available publicly, so we have no track with the raw data. The number of human genomes that are used as the input for these scores are 76k, 53k and 110k for gnomAD, TOPMED and UK Biobank, respectively. Note that another important constraint score, gnomAD constraint, is not part of this container track but can be found in the hg38 gnomAD track. The algorithms included in this track are: JARVIS - "Junk" Annotation genome-wide Residual Variation Intolerance Score: JARVIS scores were created by first scanning the entire genome with a sliding-window approach (using a 1-nucleotide step), recording the number of all TOPMED variants and common variants, irrespective of their predicted effect, within each window, to eventually calculate a single-nucleotide resolution genome-wide residual variation intolerance score (gwRVIS). That score, gwRVIS was then combined with primary genomic sequence context, and additional genomic annotations with a multi-module deep learning framework to infer pathogenicity of noncoding regions that still remains naive to existing phylogenetic conservation metrics. The higher the score, the more deleterious the prediction. This score covers the entire genome, except the gaps. HMC - Homologous Missense Constraint: Homologous Missense Constraint (HMC) is a amino acid level measure of genetic intolerance of missense variants within human populations. For all assessable amino-acid positions in Pfam domains, the number of missense substitutions directly observed in gnomAD (Observed) was counted and compared to the expected value under a neutral evolution model (Expected). The upper limit of a 95% confidence interval for the Observed/Expected ratio is defined as the HMC score. Missense variants disrupting the amino-acid positions with HMC&lt;0.8 are predicted to be likely deleterious. This score only covers PFAM domains within coding regions. MetaDome - Tolerance Landscape Score (hg19 only): MetaDome Tolerance Landscape scores are computed as a missense over synonymous variant count ratio, which is calculated in a sliding window (with a size of 21 codons/residues) to provide a per-position indication of regional tolerance to missense variation. The variant database was gnomAD and the score corrected for codon composition. Scores &lt;0.7 are considered intolerant. This score covers only coding regions. MTR - Missense Tolerance Ratio (hg19 only): Missense Tolerance Ratio (MTR) scores aim to quantify the amount of purifying selection acting specifically on missense variants in a given window of protein-coding sequence. It is estimated across sliding windows of 31 codons (default) and uses observed standing variation data from the WES component of gnomAD version 2.0. Scores were computed using Ensembl v95 release. The number of gnomAD 2 exomes used here is higher than the number of gnomAD 3 samples (125 exoms versus 76k full genomes), and this score only covers coding regions so gnomAD 2 was more appropriate. LINSIGHT (hg19 only): LINSIGHT is a statistical model for estimating negative selection on noncoding sequences in the human genome. The LINSIGHT score measures the probability of negative selection on non-coding sites which can be used to prioritize SNVs associated with genetic diseases or quantify evolutionary constraint on regulatory sequences, e.g., enhancers or promoters. More specifically, if a non-coding site is under negative selection, it will be less likely to have a substitution or SNV in the human lineage. In addition, even if we see a SNV at the site, it will tend to segregate at low frequency because of selection. See (Huang et al, Nat Genet 2017). UK Biobank depletion rank score (hg38 only): Halldorsson et al. tabulated the number of UK Biobank variants in each 500bp window of the genome and compared this number to an expected number given the heptamer nucleotide composition of the window and the fraction of heptamers with a sequence variant across the genome and their mutational classes. A variant depletion score was computed for every overlapping set of 500-bp windows in the genome with a 50-bp step size. They then assigned a rank (depletion rank (DR)) from 0 (most depletion) to 100 (least depletion) for each 500-bp window. Since the windows are overlapping, we plot the value only in the central 50bp of the 500bp window, following advice from the author of the score, Hakon Jonsson, deCODE Genetics. He suggested that the value of the central window, rather than the worst possible score of all overlapping windows, is the most informative for a position. This score covers almost the entire genome, only very few regions were excluded, where the genome sequence had too many gap characters. Display Conventions and Configuration JARVIS JARVIS scores are shown as a signal ("wiggle") track, with one score per genome position. Mousing over the bars displays the exact values. The scores were downloaded and converted to a single bigWig file. Move the mouse over the bars to display the exact values. A horizontal line is shown at the 0.733 value which signifies the 90th percentile. See hg19 makeDoc and hg38 makeDoc. Interpretation: The authors offer a suggested guideline of > 0.9998 for identifying higher confidence calls and minimizing false positives. In addition to that strict threshold, the following two more relaxed cutoffs can be used to explore additional hits. Note that these thresholds are offered as guidelines and are not necessarily representative of pathogenicity. PercentileJARVIS score threshold 99th0.9998 95th0.9826 90th0.7338 HMC HMC scores are displayed as a signal ("wiggle") track, with one score per genome position. Mousing over the bars displays the exact values. The highly-constrained cutoff of 0.8 is indicated with a line. Interpretation: A protein residue with HMC score &lt;1 indicates that missense variants affecting the homologous residues are significantly under negative selection (P-value &lt; 0.05) and likely to be deleterious. A more stringent score threshold of HMC&lt;0.8 is recommended to prioritize predicted disease-associated variants. MetaDome MetaDome data can be found on two tracks, MetaDome and MetaDome All Data. The MetaDome track should be used by default for data exploration. In this track the raw data containing the MetaDome tolerance scores were converted into a signal ("wiggle") track. Since this data was computed on the proteome, there was a small amount of coordinate overlap, roughly 0.42%. In these regions the lowest possible score was chosen for display in the track to maintain sensitivity. For this reason, if a protein variant is being evaluated, the MetaDome All Data track can be used to validate the score. More information on this data can be found in the MetaDome FAQ. Interpretation: The authors suggest the following guidelines for evaluating intolerance. By default, the MetaDome track displays a horizontal line at 0.7 which signifies the first intolerant bin. For more information see the MetaDome publication. ClassificationMetaDome Tolerance Score Highly intolerant&le; 0.175 Intolerant&le; 0.525 Slightly intolerant&le; 0.7 MTR MTR data can be found on two tracks, MTR All data and MTR Scores. In the MTR Scores track the data has been converted into 4 separate signal tracks representing each base pair mutation, with the lowest possible score shown when multiple transcripts overlap at a position. Overlaps can happen since this score is derived from transcripts and multiple transcripts can overlap. A horizontal line is drawn on the 0.8 score line to roughly represent the 25th percentile, meaning the items below may be of particular interest. It is recommended that the data be explored using this version of the track, as it condenses the information substantially while retaining the magnitude of the data. Any specific point mutations of interest can then be researched in the MTR All data track. This track contains all of the information from MTRV2 including more than 3 possible scores per base when transcripts overlap. A mouse-over on this track shows the ref and alt allele, as well as the MTR score and the MTR score percentile. Filters are available for MTR score, False Discovery Rate (FDR), MTR percentile, and variant consequence. By default, only items in the bottom 25 percentile are shown. Items in the track are colored according to their MTR percentile: Green items MTR percentiles over 75 Black items MTR percentiles between 25 and 75 Red items MTR percentiles below 25 Blue items No MTR score Interpretation: Regions with low MTR scores were seen to be enriched with pathogenic variants. For example, ClinVar pathogenic variants were seen to have an average score of 0.77 whereas ClinVar benign variants had an average score of 0.92. Further validation using the FATHMM cancer-associated training dataset saw that scores less than 0.5 contained 8.6% of the pathogenic variants while only containing 0.9% of neutral variants. In summary, lower scores are more likely to represent pathogenic variants whereas higher scores could be pathogenic, but have a higher chance to be a false positive. For more information see the MTR-Viewer publication. Methods JARVIS Scores were downloaded and converted to a single bigWig file. See the hg19 makeDoc and the hg38 makeDoc for more info. HMC Scores were downloaded and converted to .bedGraph files with a custom Python script. The bedGraph files were then converted to bigWig files, as documented in our makeDoc hg19 build log. MetaDome The authors provided a bed file containing codon coordinates along with the scores. This file was parsed with a python script to create the two tracks. For the first track the scores were aggregated for each coordinate, then the lowest score chosen for any overlaps and the result written out to bedGraph format. The file was then converted to bigWig with the bedGraphToBigWig utility. For the second track the file was reorganized into a bed 4+3 and conveted to bigBed with the bedToBigBed utility. See the hg19 makeDoc for details including the build script. The raw MetaDome data can also be accessed via their Zenodo handle. MTR V2 file was downloaded and columns were reshuffled as well as itemRgb added for the MTR All data track. For the MTR Scores track the file was parsed with a python script to pull out the highest possible MTR score for each of the 3 possible mutations at each base pair and 4 tracks built out of these values representing each mutation. See the hg19 makeDoc entry on MTR for more info. Data Access The raw data can be explored interactively with the Table Browser, or the Data Integrator. For automated access, this track, like all others, is available via our API. However, for bulk processing, it is recommended to download the dataset. For automated download and analysis, the genome annotation is stored at UCSC in bigWig and bigBed files that can be downloaded from our download server. Individual regions or the whole genome annotation can be obtained using our tools bigWigToWig or bigBedToBed which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tools can also be used to obtain features confined to a given range, e.g., bigWigToBedGraph -chrom=chr1 -start=100000 -end=100500 http://hgdownload.soe.ucsc.edu/gbdb/hg38/hmc/hmc.bw stdout Please refer to our Data Access FAQ for more information. Credits Thanks to Jean-Madeleine Desainteagathe (APHP Paris, France) for suggesting the JARVIS, MTR, HMC tracks. Thanks to Xialei Zhang for providing the HMC data file and to Dimitrios Vitsios and Slave Petrovski for helping clean up the hg38 JARVIS files for providing guidance on interpretation. Additional thanks to Laurens van de Wiel for providing the MetaDome data as well as guidance on the track development and interpretation. References Vitsios D, Dhindsa RS, Middleton L, Gussow AB, Petrovski S. Prioritizing non-coding regions based on human genomic constraint and sequence context with deep learning. Nat Commun. 2021 Mar 8;12(1):1504. PMID: 33686085; PMC: PMC7940646 Xiaolei Zhang, Pantazis I. Theotokis, Nicholas Li, the SHaRe Investigators, Caroline F. Wright, Kaitlin E. Samocha, Nicola Whiffin, James S. Ware Genetic constraint at single amino acid resolution improves missense variant prioritisation and gene discovery. Medrxiv 2022.02.16.22271023 Wiel L, Baakman C, Gilissen D, Veltman JA, Vriend G, Gilissen C. MetaDome: Pathogenicity analysis of genetic variants through aggregation of homologous human protein domains. Hum Mutat. 2019 Aug;40(8):1030-1038. PMID: 31116477; PMC: PMC6772141 Silk M, Petrovski S, Ascher DB. MTR-Viewer: identifying regions within genes under purifying selection. Nucleic Acids Res. 2019 Jul 2;47(W1):W121-W126. PMID: 31170280; PMC: PMC6602522 Halldorsson BV, Eggertsson HP, Moore KHS, Hauswedell H, Eiriksson O, Ulfarsson MO, Palsson G, Hardarson MT, Oddsson A, Jensson BO et al. The sequences of 150,119 genomes in the UK Biobank. Nature. 2022 Jul;607(7920):732-740. PMID: 35859178; PMC: PMC9329122 Huang YF, Gulko B, Siepel A. Fast, scalable prediction of deleterious noncoding variants from functional and population genomic data. Nat Genet. 2017 Apr;49(4):618-624. PMID: 28288115; PMC: PMC5395419 
hgdp Human Genome Diversity Project, 1k WGS Phased Variants: Human Genome Diversity Project (HGDP) - 1043 samples, isolated populations Variation Description This tracks contains variants of individual genotypes, usually phased, from the projects Human Diversity Genome Project, Simons Genome Diversity Project, gnomad's HGDP+1000 Genomes callset, and the Mexico Biobank. The original release of 1000 Genomes has its own, separate track. Projects where the released variants are not phased can be found in the container track "Variant Frequencies". Available on hg19 and hg38: Mexico Biobank (MXB): This track displays phased alleles from the Mexico Biobank Project (MXB), based on array genotyping of 6,011 individuals sampled across all 32 states of Mexico during the 2000 National Health Survey (ENSA 2000) conducted by the National Institute of Public Health (INSP). Frequencies can be plotted onto a map on MexVar. The hg38 track was lifted from hg19. Simons Genome Diversity Project (SGDP): Funded by the Simons Foundation, the Simons Genome Diversity Project is a large-scale effort that sequenced high-coverage genomes from 300 individuals (279 in this track) representing 142 diverse and often indigenous populations worldwide. Its goal was to capture the full range of human genetic diversity to better understand population history, migration, and adaptation. It is sampling populations in a way that represents as much anthropological, linguistic and cultural diversity as possible, and thus includes many deeply divergent human populations that are not well represented in other datasets. SGDP emphasizes breadth of global representation and population history, whereas HGDP emphasizes continuity and comparability across major population groups. Not all iits data is public, so this track contains only 279 genomes. For details, see (Mallick et al, Nature 2016). The hg38 track was lifted from hg19. Available only on hg38: Human Genome Diversity Project (HGDP): 929 high-coverage genome sequences from 54 diverse human populations, 26 of which are physically phased using linked-read sequencing. The Human Genome Diversity Project (HGDP) was launched in the early 1990s to study the genetic variation and evolutionary history of modern humans across global populations. Its goal was to document the full spectrum of human genetic diversity, particularly in indigenous and geographically isolated groups, to better understand population structure, migration, adaptation, and disease susceptibility.The project collected samples from ~1,000 individuals representing over 50 populations worldwide, including groups from Africa, Europe, Asia, Oceania, and the Americas. These data have become a foundational reference for population genetics and human evolution studies. Data can be downloaded from the Sanger Website. For details, see (Bergstr&ouml;m et al, Science 2020). gnomAD HGDP and 1000 Genomes callset: A reprocessed version by the gnomAD project for the 1000 Genomes and Human Genome Diversity Project (HGDP) data, with 4094 genomes from 80 populations. We already have separate, older tracks for 1000 Genomes on the main hg38 browser and for HGDP, just above. This track combines both datasets, with harmonized data quality. For details, see (Koenig et al, 2024). Display Conventions Full haplotype display: In &quot;pack&quot; mode, this track sorts the haplotypes. This can be useful for determining the similarity between the samples and inferring inheritance at a particular locus. Each sample's phased and/or homozygous genotypes are split into haplotypes, clustered by similarity around a central variant (in pink), and sorted for display by their position in the clustering tree. Click a variant to center on it. The tree (as space allows) is drawn in the label area next to the track image. Leaf clusters, in which all haplotypes are identical (at least for the variants used in clustering), are colored purple. For a full description of how the display works, please see our Haplotype Display help page. Data Access MXB: Allele frequencies by geographical state and ancestry are available via the MexVar platform. Raw genotype data are available under controlled access at the EGA (Study: EGAS00001005797; Dataset: EGAD00010002361). For the VCFs, email andres.moreno@cinvestav.mx. Methods SGDP: The version used was https://sharehost.hms.harvard.edu/genetics/reich_lab/sgdp/vcf_variants/, merged with bcftools and lifted to hg38 with CrossMap. Credits MXB: We thank the Center for Research and Advanced Studies (Cinvestav) of Mexico for generating and providing the frequency data, the National Institute of Medical Sciences and Nutrition (INCMNSZ) for DNA extraction, and the Ministry of Health together with the National Institute of Public Health (INSP) for the design and implementation of the National Health Survey 2000 (ENSA 2000). We also thank the ENSA-Genomics Consortium for their contributions to sample collection and data processing that made possible the construction of the MXB genomic resource. SGDP: This project was funded by the Simons Foundation. Thanks to David Reich and Swapan Mallick for help with importing the data. References Barberena-Jonas C, Medina-Mu&ntilde;oz SG, Cedillo-Castel&aacute;n V, Sep&uacute;lveda-Morales T, Gonzaga-J&aacute;uregui C, ENSA Genomics Consortium, Garc&iacute;a-Garc&iacute;a L, Ioannidis AG, Moreno-Estrada A. Clinical genetic variation across Hispanic populations in the Mexican Biobank. Nat Med. 2026 Jan 21;. DOI: 10.1038/s41591-025-04100-z; PMID: 41566040 Sohail M, Moreno-Estrada A. The Mexican Biobank Project promotes genetic discovery, inclusive science and local capacity building. Dis Model Mech. 2024 Jan 1;17(1). PMID: 38299665; PMC: PMC10855211 Sohail M, Palma-Mart&iacute;nez MJ, Chong AY, Quinto-Cor&eacute;s CD, Barberena-Jonas C, Medina-Mu&ntilde;oz SG, Ragsdale A, Delgado-S&aacute;nchez G, Cruz-Hervert LP, Ferreyra-Reyes L et al. Mexican Biobank advances population and medical genomics of diverse ancestries. Nature. 2023 Oct;622(7984):775-783. PMID: 37821706; PMC: PMC10600006 Bergstr&ouml;m A, McCarthy SA, Hui R, Almarri MA, Ayub Q, Danecek P, Chen Y, Felkel S, Hallast P, Kamm J et al. Insights into human genetic variation and population history from 929 diverse genomes. Science. 2020 Mar 20;367(6484). PMID: 32193295; PMC: PMC7115999 Koenig Z, Yohannes MT, Nkambule LL, Zhao X, Goodrich JK, Kim HA, Wilson MW, Tiao G, Hao SP, Sahakian N et al. A harmonized public resource of deeply sequenced diverse human genomes. Genome Res. 2024 Jun 25;34(5):796-809. PMID: 38749656; PMC: PMC11216312 Mallick S, Li H, Lipson M, Mathieson I, Gymrek M, Racimo F, Zhao M, Chennagiri N, Nordenfelt S, Tandon A et al. The Simons Genome Diversity Project: 300 genomes from 142 diverse populations. Nature. 2016 Oct 13;538(7624):201-206. PMID: 27654912; PMC: PMC5161557 
humanMethylationAtlasSignals Human Methylation Atlas Signals Human Methylation Atlas WGBS cell type signals Regulation Description The Human Methylation Atlas tracks display genome-wide DNA methylation profiles from deep whole-genome bisulfite sequencing (WGBS) of 39 primary human cell types sorted from 205 healthy tissue samples. This comprehensive resource enables fragment-level analysis across thousands of unique markers, providing a detailed reference for cell-type-specific methylation patterns. The 205 samples from 39 cell type groups are organized into two data types: Merged tracks display the combined methylation signal across all biological replicates for a given cell type, providing one representative track per cell type. Replicate tracks display the methylation signal for each individual sample and are available for detailed analysis. DNA methylation patterns are highly reproducible across individuals of the same cell type (&gt;99.5% identical), reflecting the robustness of cell identity programs. Display Conventions and Configuration Signal tracks display methylation beta values on a 0-1 scale, where 0 indicates fully unmethylated CpGs and 1 indicates fully methylated CpGs. A value of -1 indicates missing data. For optimal comparison across cell types, set the vertical viewing range to 0-1 with auto-scale off. Track Colors Tracks are colored by tissue/cell type category as follows: ColorCell Type(s) &nbsp;Neurons &nbsp;Oligodendrocytes &nbsp;Thyroid Epithelium &nbsp;Prostate Epithelium &nbsp;Bladder Epithelium &nbsp;Heart Cardiomyocytes &nbsp;Smooth Muscle &nbsp;Heart Fibroblasts &nbsp;Skeletal Muscle &nbsp;Erythrocyte Progenitors &nbsp;Blood Granulocytes &nbsp;Blood Monocytes/Macrophages &nbsp;Blood T Cells &nbsp;Blood B Cells &nbsp;Blood NK Cells &nbsp;Pancreas Beta Cells &nbsp;Pancreas Alpha Cells &nbsp;Pancreas Delta Cells &nbsp;Pancreas Duct Cells &nbsp;Pancreas Acinar Cells &nbsp;Colon Epithelium &nbsp;Colon Fibroblasts &nbsp;Small Intestine Epithelium &nbsp;Gastric Epithelium &nbsp;Gallbladder &nbsp;Liver Hepatocytes &nbsp;Lung Bronchus Epithelium &nbsp;Lung Alveolar Epithelium &nbsp;Kidney Epithelium &nbsp;Endothelial &nbsp;Breast Basal Epithelium &nbsp;Breast Luminal Epithelium &nbsp;Fallopian Epithelium &nbsp;Ovary Epithelium &nbsp;Adipocytes &nbsp;Epidermal Keratinocytes &nbsp;Dermal Fibroblasts &nbsp;Bone Osteoblasts &nbsp;Head Neck Epithelium Methods Sample Collection and Sequencing Primary human cells were isolated from freshly dissociated adult healthy tissues using fluorescence-activated cell sorting (FACS), yielding high-purity preparations across major cell lineages. A total of 205 samples representing 77 primary cell types were collected from 137 consenting donors and merged into 39 cell type groups based on methylation similarity. Average sample purity exceeded 90% as determined by flow cytometry, gene expression, and DNA methylation analysis. Some cell types showed lower purity, including colon fibroblasts (78%), smooth muscle cells (82%), endothelial cells (86%), and adipocytes (87%). Several cell types are absent from the atlas, typically due to limited availability of primary material. These include osteoblasts, cholangiocytes, cells of the adrenal gland, urethral epithelium, and haematopoietic stem cells. Subpopulations of interest, such as distinct neuronal or lymphocyte subtypes, were also not resolved separately. Whole-genome bisulfite sequencing was performed using 150 bp paired-end reads at an average sequencing depth of 30&times; (minimum 6.62&times;). Libraries were prepared using the Accel-NGS Methyl-Seq DNA library preparation kit and sequenced on the Illumina NovaSeq 6000 platform. Processing and Analysis Reads were mapped to the human genome (hg38) using bwa-meth, deduplicated with Sambamba, and processed into per-CpG methylation calls. The genome was segmented into 7.1 million non-overlapping methylation blocks using a multi-channel dynamic programming algorithm that identifies regions of homogeneous methylation across samples. Cell-type-specific differentially methylated regions were identified using a one-versus-all comparison approach. Regions uniquely unmethylated in specific cell types were found to be enriched for transcriptional enhancers and tissue-specific transcription factor binding motifs. Data processing was performed using wgbstools, an open-source computational suite for DNA methylation sequencing data representation, visualization, and analysis. Data Access The raw data for these tracks can be explored interactively using the Table Browser or the Data Integrator. For automated analysis, the data may also be queried from our REST API. The complete dataset, including all WGBS data files and processed methylation calls, is available from GEO accession GSE186458. For questions regarding the data, please contact Prof. Tommy Kaplan at the Hebrew University of Jerusalem. Credits Data generation and analysis were performed at the Hebrew University of Jerusalem by the Dor, Kaplan, and Glaser laboratories and collaborators. Sample collection involved collaboration with Hadassah Medical Center, Oregon Health &amp; Science University, Karolinska Institute, and University of Alberta. References Loyfer N, Magenheim J, Peretz A, Cann G, Bredno J, Klochendler A, Fox-Fisher I, Shabi-Porat S, Hecht M, Pelet T et al. A DNA methylation atlas of normal human cell types. Nature. 2023 Jan;613(7943):355-364. PMID: 36599988 Loyfer N, Rosenski J, Kaplan T. wgbstools: a computational suite for DNA methylation sequencing data analysis. Life Sci Alliance. 2026 Apr;9(4):e202503514. PMID: 41611450 
boneOsteob42Z Bone - Osteoblasts - Z0000042Z Methylation Atlas: Bone - Osteoblasts - Z0000042Z Regulation 
boneOsteobMerged Bone Osteoblasts Merged Methylation Atlas: Bone Osteoblasts Merged Samples Regulation 
thyroidEp42U Thyroid - Epithelial - Z0000042U Methylation Atlas: Thyroid - Epithelial - Z0000042U Regulation 
thyroidEp42T Thyroid - Epithelial - Z0000042T Methylation Atlas: Thyroid - Epithelial - Z0000042T Regulation 
thyroidEp42S Thyroid - Epithelial - Z0000042S Methylation Atlas: Thyroid - Epithelial - Z0000042S Regulation 
thyroidEpMerged Thyroid Epithelium Merged Methylation Atlas: Thyroid Epithelium Merged Samples Regulation 
colonFibro42C Colon - Fibroblasts - Z0000042C Methylation Atlas: Colon - Fibroblasts - Z0000042C Regulation 
colonFibro42A Colon - Fibroblasts - Z0000042A Methylation Atlas: Colon - Fibroblasts - Z0000042A Regulation 
colonFibroMerged Colon Fibroblasts Merged Methylation Atlas: Colon Fibroblasts Merged Samples Regulation 
gallbladEp432 Gallbladder - Epithelial - Z00000432 Methylation Atlas: Gallbladder - Epithelial - Z00000432 Regulation 
gallbladderMerged Gallbladder Merged Methylation Atlas: Gallbladder Merged Samples Regulation 
epidKerat424 Epidermal - Keratinocytes - Z00000424 Methylation Atlas: Epidermal - Keratinocytes - Z00000424 Regulation 
epidKeratMerged Epidermal Keratinocytes Merged Methylation Atlas: Epidermal Keratinocytes Merged Samples Regulation 
dermFibro423 Dermal - Fibroblasts - Z00000423 Methylation Atlas: Dermal - Fibroblasts - Z00000423 Regulation 
dermalFibroMerged Dermal Fibroblasts Merged Methylation Atlas: Dermal Fibroblasts Merged Samples Regulation 
ovaryEp0QT Ovary - Epithelial - Z000000QT Methylation Atlas: Ovary - Epithelial - Z000000QT Regulation 
endomEp43S Endometrium - Epithelial - Z0000043S Methylation Atlas: Endometrium - Epithelial - Z0000043S Regulation 
endomEp435 Endometrium - Epithelial - Z00000435 Methylation Atlas: Endometrium - Epithelial - Z00000435 Regulation 
endomEp434 Endometrium - Epithelial - Z00000434 Methylation Atlas: Endometrium - Epithelial - Z00000434 Regulation 
ovaryEpMerged Ovary Epithelium Merged Methylation Atlas: Ovary Epithelium Merged Samples Regulation 
fallopEp0UV Fallopian - Epithelial - Z000000UV Methylation Atlas: Fallopian - Epithelial - Z000000UV Regulation 
fallopEp0S9 Fallopian - Epithelial - Z000000S9 Methylation Atlas: Fallopian - Epithelial - Z000000S9 Regulation 
fallopEp0Q7 Fallopian - Epithelial - Z000000Q7 Methylation Atlas: Fallopian - Epithelial - Z000000Q7 Regulation 
fallopianEpMerged Fallopian Epithelium Merged Methylation Atlas: Fallopian Epithelium Merged Samples Regulation 
prostEp45G Prostate - Epithelial - Z0000045G Methylation Atlas: Prostate - Epithelial - Z0000045G Regulation 
prostEp45F Prostate - Epithelial - Z0000045F Methylation Atlas: Prostate - Epithelial - Z0000045F Regulation 
prostEp0S3 Prostate - Epithelial - Z000000S3 Methylation Atlas: Prostate - Epithelial - Z000000S3 Regulation 
prostEp0RV Prostate - Epithelial - Z000000RV Methylation Atlas: Prostate - Epithelial - Z000000RV Regulation 
prostateEpMerged Prostate Epithelium Merged Methylation Atlas: Prostate Epithelium Merged Samples Regulation 
bladderEp450 Bladder - Epithelial - Z00000450 Methylation Atlas: Bladder - Epithelial - Z00000450 Regulation 
bladderEp44L Bladder - Epithelial - Z0000044L Methylation Atlas: Bladder - Epithelial - Z0000044L Regulation 
bladderEp43F Bladder - Epithelial - Z0000043F Methylation Atlas: Bladder - Epithelial - Z0000043F Regulation 
bladderEp0QP Bladder - Epithelial - Z000000QP Methylation Atlas: Bladder - Epithelial - Z000000QP Regulation 
bladderEp0QM Bladder - Epithelial - Z000000QM Methylation Atlas: Bladder - Epithelial - Z000000QM Regulation 
bladderEpMerged Bladder Epithelium Merged Methylation Atlas: Bladder Epithelium Merged Samples Regulation 
colonRightEp0V8 Colon Right - Epithelial - Z000000V8 Methylation Atlas: Colon Right - Epithelial - Z000000V8 Regulation 
colonRightEp0V0 Colon Right - Epithelial - Z000000V0 Methylation Atlas: Colon Right - Epithelial - Z000000V0 Regulation 
colonRightEndo44S Colon Right - Endocrine - Z0000044S Methylation Atlas: Colon Right - Endocrine - Z0000044S Regulation 
colonLeftEp43C Colon Left - Epithelial - Z0000043C Methylation Atlas: Colon Left - Epithelial - Z0000043C Regulation 
colonLeftEp43B Colon Left - Epithelial - Z0000043B Methylation Atlas: Colon Left - Epithelial - Z0000043B Regulation 
colonLeftEp0VA Colon Left - Epithelial - Z000000VA Methylation Atlas: Colon Left - Epithelial - Z000000VA Regulation 
colonLeftEndo44T Colon Left - Endocrine - Z0000044T Methylation Atlas: Colon Left - Endocrine - Z0000044T Regulation 
colonLeftEndo44J Colon Left - Endocrine - Z0000044J Methylation Atlas: Colon Left - Endocrine - Z0000044J Regulation 
colonEpMerged Colon Epithelium Merged Methylation Atlas: Colon Epithelium Merged Samples Regulation 
smIntEp42V Small int - Epithelial - Z0000042V Methylation Atlas: Small int - Epithelial - Z0000042V Regulation 
smIntEp0UY Small int - Epithelial - Z000000UY Methylation Atlas: Small int - Epithelial - Z000000UY Regulation 
smIntEp0UW Small int - Epithelial - Z000000UW Methylation Atlas: Small int - Epithelial - Z000000UW Regulation 
smIntEp0RT Small int - Epithelial - Z000000RT Methylation Atlas: Small int - Epithelial - Z000000RT Regulation 
smIntEndo436 Small int - Endocrine - Z00000436 Methylation Atlas: Small int - Endocrine - Z00000436 Regulation 
smallIntEpMerged Small Intestine Epithelium Merged Methylation Atlas: Small Intestine Epithelium Merged Samples Regulation 
gastFundEp0SV Gastric fundus - Epithelial - Z000000SV Methylation Atlas: Gastric fundus - Epithelial - Z000000SV Regulation 
gastFundEp0SK Gastric fundus - Epithelial - Z000000SK Methylation Atlas: Gastric fundus - Epithelial - Z000000SK Regulation 
gastFundEp0RX Gastric fundus - Epithelial - Z000000RX Methylation Atlas: Gastric fundus - Epithelial - Z000000RX Regulation 
gastBodyEp0ST Gastric body - Epithelial - Z000000ST Methylation Atlas: Gastric body - Epithelial - Z000000ST Regulation 
gastBodyEp0SM Gastric body - Epithelial - Z000000SM Methylation Atlas: Gastric body - Epithelial - Z000000SM Regulation 
gastBodyEp0SD Gastric body - Epithelial - Z000000SD Methylation Atlas: Gastric body - Epithelial - Z000000SD Regulation 
gastAntEp0SR Gastric antrum - Epithelial - Z000000SR Methylation Atlas: Gastric antrum - Epithelial - Z000000SR Regulation 
gastAntEp0SP Gastric antrum - Epithelial - Z000000SP Methylation Atlas: Gastric antrum - Epithelial - Z000000SP Regulation 
gastAntEp0SF Gastric antrum - Epithelial - Z000000SF Methylation Atlas: Gastric antrum - Epithelial - Z000000SF Regulation 
gastAntEndo438 Gastric antrum - Endocrine - Z00000438 Methylation Atlas: Gastric antrum - Endocrine - Z00000438 Regulation 
gastAntEndo437 Gastric antrum - Endocrine - Z00000437 Methylation Atlas: Gastric antrum - Endocrine - Z00000437 Regulation 
gastricEpMerged Gastric Epithelium Merged Methylation Atlas: Gastric Epithelium Merged Samples Regulation 
kidneyTubEp440 Kidney Tubular - Epithelial - Z00000440 Methylation Atlas: Kidney Tubular - Epithelial - Z00000440 Regulation 
kidneyTubEp43Z Kidney Tubular - Epithelial - Z0000043Z Methylation Atlas: Kidney Tubular - Epithelial - Z0000043Z Regulation 
kidneyTubEp0QH Kidney Tubular - Epithelial - Z000000QH Methylation Atlas: Kidney Tubular - Epithelial - Z000000QH Regulation 
kidneyGlomPodo442 Kidney Glomerular - Podocytes - Z00000442 Methylation Atlas: Kidney Glomerular - Podocytes - Z00000442 Regulation 
kidneyGlomPodo441 Kidney Glomerular - Podocytes - Z00000441 Methylation Atlas: Kidney Glomerular - Podocytes - Z00000441 Regulation 
kidneyGlomPodo42W Kidney Glomerular - Podocytes - Z0000042W Methylation Atlas: Kidney Glomerular - Podocytes - Z0000042W Regulation 
kidneyGlomEp45L Kidney Glomerular - Epithelial - Z0000045L Methylation Atlas: Kidney Glomerular - Epithelial - Z0000045L Regulation 
kidneyGlomEp45K Kidney Glomerular - Epithelial - Z0000045K Methylation Atlas: Kidney Glomerular - Epithelial - Z0000045K Regulation 
kidneyEpMerged Kidney Epithelium Merged Methylation Atlas: Kidney Epithelium Merged Samples Regulation 
liverHep44M Liver - Hepatocytes - Z0000044M Methylation Atlas: Liver - Hepatocytes - Z0000044M Regulation 
liverHep44H Liver - Hepatocytes - Z0000044H Methylation Atlas: Liver - Hepatocytes - Z0000044H Regulation 
liverHep43Q Liver - Hepatocytes - Z0000043Q Methylation Atlas: Liver - Hepatocytes - Z0000043Q Regulation 
liverHep431 Liver - Hepatocytes - Z00000431 Methylation Atlas: Liver - Hepatocytes - Z00000431 Regulation 
liverHep0T3 Liver - Hepatocytes - Z000000T3 Methylation Atlas: Liver - Hepatocytes - Z000000T3 Regulation 
liverHep0R3 Liver - Hepatocytes - Z000000R3 Methylation Atlas: Liver - Hepatocytes - Z000000R3 Regulation 
liverHepMerged Liver Hepatocytes Merged Methylation Atlas: Liver Hepatocytes Merged Samples Regulation 
pancDuct43V Pancreas - Duct - Z0000043V Methylation Atlas: Pancreas - Duct - Z0000043V Regulation 
pancDuct43U Pancreas - Duct - Z0000043U Methylation Atlas: Pancreas - Duct - Z0000043U Regulation 
pancDuct43T Pancreas - Duct - Z0000043T Methylation Atlas: Pancreas - Duct - Z0000043T Regulation 
pancDuct0QZ Pancreas - Duct - Z000000QZ Methylation Atlas: Pancreas - Duct - Z000000QZ Regulation 
pancDuctMerged Pancreas Duct Cells Merged Methylation Atlas: Pancreas Duct Cells Merged Samples Regulation 
pancAcinar43Y Pancreas - Acinar - Z0000043Y Methylation Atlas: Pancreas - Acinar - Z0000043Y Regulation 
pancAcinar43X Pancreas - Acinar - Z0000043X Methylation Atlas: Pancreas - Acinar - Z0000043X Regulation 
pancAcinar43W Pancreas - Acinar - Z0000043W Methylation Atlas: Pancreas - Acinar - Z0000043W Regulation 
pancAcinar0QX Pancreas - Acinar - Z000000QX Methylation Atlas: Pancreas - Acinar - Z000000QX Regulation 
pancAcinarMerged Pancreas Acinar Cells Merged Methylation Atlas: Pancreas Acinar Cells Merged Samples Regulation 
pancDelta457 Pancreas - Delta - Z00000457 Methylation Atlas: Pancreas - Delta - Z00000457 Regulation 
pancDelta454 Pancreas - Delta - Z00000454 Methylation Atlas: Pancreas - Delta - Z00000454 Regulation 
pancDelta451 Pancreas - Delta - Z00000451 Methylation Atlas: Pancreas - Delta - Z00000451 Regulation 
pancDeltaMerged Pancreas Delta Cells Merged Methylation Atlas: Pancreas Delta Cells Merged Samples Regulation 
pancBeta458 Pancreas - Beta - Z00000458 Methylation Atlas: Pancreas - Beta - Z00000458 Regulation 
pancBeta455 Pancreas - Beta - Z00000455 Methylation Atlas: Pancreas - Beta - Z00000455 Regulation 
pancBeta452 Pancreas - Beta - Z00000452 Methylation Atlas: Pancreas - Beta - Z00000452 Regulation 
pancBetaMerged Pancreas Beta Cells Merged Methylation Atlas: Pancreas Beta Cells Merged Samples Regulation 
pancAlpha459 Pancreas - Alpha - Z00000459 Methylation Atlas: Pancreas - Alpha - Z00000459 Regulation 
pancAlpha456 Pancreas - Alpha - Z00000456 Methylation Atlas: Pancreas - Alpha - Z00000456 Regulation 
pancAlpha453 Pancreas - Alpha - Z00000453 Methylation Atlas: Pancreas - Alpha - Z00000453 Regulation 
pancAlphaMerged Pancreas Alpha Cells Merged Methylation Atlas: Pancreas Alpha Cells Merged Samples Regulation 
breastLumEp0VN Breast Luminal - Epithelial - Z000000VN Methylation Atlas: Breast Luminal - Epithelial - Z000000VN Regulation 
breastLumEp0VJ Breast Luminal - Epithelial - Z000000VJ Methylation Atlas: Breast Luminal - Epithelial - Z000000VJ Regulation 
breastLumEp0V2 Breast Luminal - Epithelial - Z000000V2 Methylation Atlas: Breast Luminal - Epithelial - Z000000V2 Regulation 
breastLuminalEpMerged Breast Luminal Epithelium Merged Methylation Atlas: Breast Luminal Epithelium Merged Samples Regulation 
breastBasalEp43E Breast Basal - Epithelial - Z0000043E Methylation Atlas: Breast Basal - Epithelial - Z0000043E Regulation 
breastBasalEp0VL Breast Basal - Epithelial - Z000000VL Methylation Atlas: Breast Basal - Epithelial - Z000000VL Regulation 
breastBasalEp0VG Breast Basal - Epithelial - Z000000VG Methylation Atlas: Breast Basal - Epithelial - Z000000VG Regulation 
breastBasalEp0V6 Breast Basal - Epithelial - Z000000V6 Methylation Atlas: Breast Basal - Epithelial - Z000000V6 Regulation 
breastBasalEpMerged Breast Basal Epithelium Merged Methylation Atlas: Breast Basal Epithelium Merged Samples Regulation 
lungPleura42B Lung - Pleura - Z0000042B Methylation Atlas: Lung - Pleura - Z0000042B Regulation 
lungAlveoEp0VE Lung Alveolar - Epithelial - Z000000VE Methylation Atlas: Lung Alveolar - Epithelial - Z000000VE Regulation 
lungAlveoEp0VC Lung Alveolar - Epithelial - Z000000VC Methylation Atlas: Lung Alveolar - Epithelial - Z000000VC Regulation 
lungAlveoEp0T1 Lung Alveolar - Epithelial - Z000000T1 Methylation Atlas: Lung Alveolar - Epithelial - Z000000T1 Regulation 
lungAlveoEpMerged Lung Alveolar Epithelium Merged Methylation Atlas: Lung Alveolar Epithelium Merged Samples Regulation 
lungBronEp0S5 Lung Bronchus - Epithelial - Z000000S5 Methylation Atlas: Lung Bronchus - Epithelial - Z000000S5 Regulation 
lungBronEp0RZ Lung Bronchus - Epithelial - Z000000RZ Methylation Atlas: Lung Bronchus - Epithelial - Z000000RZ Regulation 
lungBronEp0QD Lung Bronchus - Epithelial - Z000000QD Methylation Atlas: Lung Bronchus - Epithelial - Z000000QD Regulation 
lungBronEpMerged Lung Bronchus Epithelium Merged Methylation Atlas: Lung Bronchus Epithelium Merged Samples Regulation 
tonsilPharyngealEp0S1 Tonsil Pharyngeal - Epithelial - Z000000S1 Methylation Atlas: Tonsil Pharyngeal - Epithelial - Z000000S1 Regulation 
tonsilPharyngealEp0Q9 Tonsil Pharyngeal - Epithelial - Z000000Q9 Methylation Atlas: Tonsil Pharyngeal - Epithelial - Z000000Q9 Regulation 
tonsilPalatineEp0RR Tonsil Palatine - Epithelial - Z000000RR Methylation Atlas: Tonsil Palatine - Epithelial - Z000000RR Regulation 
tonsilPalatineEp0RP Tonsil Palatine - Epithelial - Z000000RP Methylation Atlas: Tonsil Palatine - Epithelial - Z000000RP Regulation 
tonsilPalatineEp0QF Tonsil Palatine - Epithelial - Z000000QF Methylation Atlas: Tonsil Palatine - Epithelial - Z000000QF Regulation 
tongueBaseEp44B Tongue base - Epithelial - Z0000044B Methylation Atlas: Tongue base - Epithelial - Z0000044B Regulation 
tongueEp44F Tongue - Epithelial - Z0000044F Methylation Atlas: Tongue - Epithelial - Z0000044F Regulation 
tongueEp449 Tongue - Epithelial - Z00000449 Methylation Atlas: Tongue - Epithelial - Z00000449 Regulation 
tongueEp0QV Tongue - Epithelial - Z000000QV Methylation Atlas: Tongue - Epithelial - Z000000QV Regulation 
pharynxEp44A Pharynx - Epithelial - Z0000044A Methylation Atlas: Pharynx - Epithelial - Z0000044A Regulation 
larynxEp0QB Larynx - Epithelial - Z000000QB Methylation Atlas: Larynx - Epithelial - Z000000QB Regulation 
esophEp426 Esophagus - Epithelial - Z00000426 Methylation Atlas: Esophagus - Epithelial - Z00000426 Regulation 
esophEp0PZ Esophagus - Epithelial - Z000000PZ Methylation Atlas: Esophagus - Epithelial - Z000000PZ Regulation 
headNeckEpMerged Head Neck Epithelium Merged Methylation Atlas: Head Neck Epithelium Merged Samples Regulation 
boneMarrowErythProg0RK Bone marrow - Erythrocyte progenitors - Z000000RK Methylation Atlas: Bone marrow - Erythrocyte progenitors - Z000000RK Regulation 
boneMarrowErythProg0RH Bone marrow - Erythrocyte progenitors - Z000000RH Methylation Atlas: Bone marrow - Erythrocyte progenitors - Z000000RH Regulation 
boneMarrowErythProg0RF Bone marrow - Erythrocyte progenitors - Z000000RF Methylation Atlas: Bone marrow - Erythrocyte progenitors - Z000000RF Regulation 
erythProgMerged Erythrocyte Progenitors Merged Methylation Atlas: Erythrocyte Progenitors Merged Samples Regulation 
bloodGran0UT Blood - Granulocytes - Z000000UT Methylation Atlas: Blood - Granulocytes - Z000000UT Regulation 
bloodGran0UD Blood - Granulocytes - Z000000UD Methylation Atlas: Blood - Granulocytes - Z000000UD Regulation 
bloodGran0TZ Blood - Granulocytes - Z000000TZ Methylation Atlas: Blood - Granulocytes - Z000000TZ Regulation 
bloodGranulMerged Blood Granulocytes Merged Methylation Atlas: Blood Granulocytes Merged Samples Regulation 
lungInterMacro44E Lung Interstitial - Macrophages - Z0000044E Methylation Atlas: Lung Interstitial - Macrophages - Z0000044E Regulation 
lungInterMacro44D Lung Interstitial - Macrophages - Z0000044D Methylation Atlas: Lung Interstitial - Macrophages - Z0000044D Regulation 
lungInterMacro447 Lung Interstitial - Macrophages - Z00000447 Methylation Atlas: Lung Interstitial - Macrophages - Z00000447 Regulation 
lungAlveoMacro44C Lung Alveolar - Macrophages - Z0000044C Methylation Atlas: Lung Alveolar - Macrophages - Z0000044C Regulation 
lungAlveoMacro448 Lung Alveolar - Macrophages - Z00000448 Methylation Atlas: Lung Alveolar - Macrophages - Z00000448 Regulation 
liverMacro43P Liver - Macrophages - Z0000043P Methylation Atlas: Liver - Macrophages - Z0000043P Regulation 
colonMacro446 Colon - Macrophages - Z00000446 Methylation Atlas: Colon - Macrophages - Z00000446 Regulation 
colonMacro444 Colon - Macrophages - Z00000444 Methylation Atlas: Colon - Macrophages - Z00000444 Regulation 
bloodMono0UH Blood - Monocytes - Z000000UH Methylation Atlas: Blood - Monocytes - Z000000UH Regulation 
bloodMono0U3 Blood - Monocytes - Z000000U3 Methylation Atlas: Blood - Monocytes - Z000000U3 Regulation 
bloodMono0TP Blood - Monocytes - Z000000TP Methylation Atlas: Blood - Monocytes - Z000000TP Regulation 
bloodMonoMacroMerged Blood Monocytes Macrophages Merged Methylation Atlas: Blood Monocytes Macrophages Merged Samples Regulation 
bloodNk0UF Blood - NK - Z000000UF Methylation Atlas: Blood - NK - Z000000UF Regulation 
bloodNk0U1 Blood - NK - Z000000U1 Methylation Atlas: Blood - NK - Z000000U1 Regulation 
bloodNk0TM Blood - NK - Z000000TM Methylation Atlas: Blood - NK - Z000000TM Regulation 
bloodNkMerged Blood NK Cells Merged Methylation Atlas: Blood NK Cells Merged Samples Regulation 
bloodB0UR Blood - B - Z000000UR Methylation Atlas: Blood - B - Z000000UR Regulation 
bloodB0UB Blood - B - Z000000UB Methylation Atlas: Blood - B - Z000000UB Regulation 
bloodB0TX Blood - B - Z000000TX Methylation Atlas: Blood - B - Z000000TX Regulation 
bloodBMem41K Blood - B Mem - Z0000041K Methylation Atlas: Blood - B Mem - Z0000041K Regulation 
bloodBMem41J Blood - B Mem - Z0000041J Methylation Atlas: Blood - B Mem - Z0000041J Regulation 
bloodBMerged Blood B Cells Merged Methylation Atlas: Blood B Cells Merged Samples Regulation 
bloodTNaiveCd841H Blood - T Naive CD8 - Z0000041H Methylation Atlas: Blood - T Naive CD8 - Z0000041H Regulation 
bloodTNaiveCd841B Blood - T Naive CD8 - Z0000041B Methylation Atlas: Blood - T Naive CD8 - Z0000041B Regulation 
bloodTNaiveCd441E Blood - T Naive CD4 - Z0000041E Methylation Atlas: Blood - T Naive CD4 - Z0000041E Regulation 
bloodTEffmemCd841G Blood - T EffMem CD8 - Z0000041G Methylation Atlas: Blood - T EffMem CD8 - Z0000041G Regulation 
bloodTEffmemCd841A Blood - T EffMem CD8 - Z0000041A Methylation Atlas: Blood - T EffMem CD8 - Z0000041A Regulation 
bloodTEffmemCd441M Blood - T EffMem CD4 - Z0000041M Methylation Atlas: Blood - T EffMem CD4 - Z0000041M Regulation 
bloodTEffmemCd441C Blood - T EffMem CD4 - Z0000041C Methylation Atlas: Blood - T EffMem CD4 - Z0000041C Regulation 
bloodTEffmemCd4416 Blood - T EffMem CD4 - Z00000416 Methylation Atlas: Blood - T EffMem CD4 - Z00000416 Regulation 
bloodTEffCd841Q Blood - T Eff CD8 - Z0000041Q Methylation Atlas: Blood - T Eff CD8 - Z0000041Q Regulation 
bloodTEffCd841F Blood - T Eff CD8 - Z0000041F Methylation Atlas: Blood - T Eff CD8 - Z0000041F Regulation 
bloodTEffCd8419 Blood - T Eff CD8 - Z00000419 Methylation Atlas: Blood - T Eff CD8 - Z00000419 Regulation 
bloodTCenmemCd441N Blood - T CenMem CD4 - Z0000041N Methylation Atlas: Blood - T CenMem CD4 - Z0000041N Regulation 
bloodTCenmemCd441D Blood - T CenMem CD4 - Z0000041D Methylation Atlas: Blood - T CenMem CD4 - Z0000041D Regulation 
bloodTCenmemCd4417 Blood - T CenMem CD4 - Z00000417 Methylation Atlas: Blood - T CenMem CD4 - Z00000417 Regulation 
bloodTCd80UK Blood - T CD8 - Z000000UK Methylation Atlas: Blood - T CD8 - Z000000UK Regulation 
bloodTCd80U5 Blood - T CD8 - Z000000U5 Methylation Atlas: Blood - T CD8 - Z000000U5 Regulation 
bloodTCd80TR Blood - T CD8 - Z000000TR Methylation Atlas: Blood - T CD8 - Z000000TR Regulation 
bloodTCd40UM Blood - T CD4 - Z000000UM Methylation Atlas: Blood - T CD4 - Z000000UM Regulation 
bloodTCd40U7 Blood - T CD4 - Z000000U7 Methylation Atlas: Blood - T CD4 - Z000000U7 Regulation 
bloodTCd40TT Blood - T CD4 - Z000000TT Methylation Atlas: Blood - T CD4 - Z000000TT Regulation 
bloodTCd30UP Blood - T CD3 - Z000000UP Methylation Atlas: Blood - T CD3 - Z000000UP Regulation 
bloodTCd30TV Blood - T CD3 - Z000000TV Methylation Atlas: Blood - T CD3 - Z000000TV Regulation 
bloodTMerged Blood T Cells Merged Methylation Atlas: Blood T Cells Merged Samples Regulation 
saphVeinEndoth0SB Saphenous Vein - Endothel - Z000000SB Methylation Atlas: Saphenous Vein - Endothel - Z000000SB Regulation 
saphVeinEndoth0S7 Saphenous Vein - Endothel - Z000000S7 Methylation Atlas: Saphenous Vein - Endothel - Z000000S7 Regulation 
saphVeinEndoth0RM Saphenous Vein - Endothel - Z000000RM Methylation Atlas: Saphenous Vein - Endothel - Z000000RM Regulation 
pancIsletEndoth42Y Pancreas Islet - Endothel - Z0000042Y Methylation Atlas: Pancreas Islet - Endothel - Z0000042Y Regulation 
pancEndoth430 Pancreas - Endothel - Z00000430 Methylation Atlas: Pancreas - Endothel - Z00000430 Regulation 
pancEndoth42X Pancreas - Endothel - Z0000042X Methylation Atlas: Pancreas - Endothel - Z0000042X Regulation 
pancEndoth42D Pancreas - Endothel - Z0000042D Methylation Atlas: Pancreas - Endothel - Z0000042D Regulation 
lungAlveoEndoth45H Lung Alveolar - Endothel - Z0000045H Methylation Atlas: Lung Alveolar - Endothel - Z0000045H Regulation 
lungAlveoEndoth0QK Lung Alveolar - Endothel - Z000000QK Methylation Atlas: Lung Alveolar - Endothel - Z000000QK Regulation 
lungAlveoEndoth0Q1 Lung Alveolar - Endothel - Z000000Q1 Methylation Atlas: Lung Alveolar - Endothel - Z000000Q1 Regulation 
liverEndothium0RB Liver - Endothelium - Z000000RB Methylation Atlas: Liver - Endothelium - Z000000RB Regulation 
kidneyTubEndoth42R Kidney Tubular - Endothel - Z0000042R Methylation Atlas: Kidney Tubular - Endothel - Z0000042R Regulation 
kidneyTubEndoth0Q3 Kidney Tubular - Endothel - Z000000Q3 Methylation Atlas: Kidney Tubular - Endothel - Z000000Q3 Regulation 
kidneyTubEndoth0PX Kidney Tubular - Endothel - Z000000PX Methylation Atlas: Kidney Tubular - Endothel - Z000000PX Regulation 
kidneyGlomEndoth45J Kidney Glomerular - Endothel - Z0000045J Methylation Atlas: Kidney Glomerular - Endothel - Z0000045J Regulation 
kidneyGlomEndoth443 Kidney Glomerular - Endothel - Z00000443 Methylation Atlas: Kidney Glomerular - Endothel - Z00000443 Regulation 
kidneyGlomEndoth0Q5 Kidney Glomerular - Endothel - Z000000Q5 Methylation Atlas: Kidney Glomerular - Endothel - Z000000Q5 Regulation 
aortaEndoth43G Aorta - Endothel - Z0000043G Methylation Atlas: Aorta - Endothel - Z0000043G Regulation 
aortaEndoth422 Aorta - Endothel - Z00000422 Methylation Atlas: Aorta - Endothel - Z00000422 Regulation 
endothelMerged Endothelial Merged Methylation Atlas: Endothelial Merged Samples Regulation 
adipo0T9 Adipocytes - Z000000T9 Methylation Atlas: Adipocytes - Z000000T9 Regulation 
adipo0T7 Adipocytes - Z000000T7 Methylation Atlas: Adipocytes - Z000000T7 Regulation 
adipo0T5 Adipocytes - Z000000T5 Methylation Atlas: Adipocytes - Z000000T5 Regulation 
adipocytesMerged Adipocytes Merged Methylation Atlas: Adipocytes Merged Samples Regulation 
skelMusc429 Skeletal - Muscle - Z00000429 Methylation Atlas: Skeletal - Muscle - Z00000429 Regulation 
skelMusc427 Skeletal - Muscle - Z00000427 Methylation Atlas: Skeletal - Muscle - Z00000427 Regulation 
skelMuscMerged Skeletal Muscle Merged Methylation Atlas: Skeletal Muscle Merged Samples Regulation 
heartFibro43R Heart - Fibroblasts - Z0000043R Methylation Atlas: Heart - Fibroblasts - Z0000043R Regulation 
heartFibro41X Heart - Fibroblasts - Z0000041X Methylation Atlas: Heart - Fibroblasts - Z0000041X Regulation 
heartFibro41W Heart - Fibroblasts - Z0000041W Methylation Atlas: Heart - Fibroblasts - Z0000041W Regulation 
heartFibro41V Heart - Fibroblasts - Z0000041V Methylation Atlas: Heart - Fibroblasts - Z0000041V Regulation 
heartFibroMerged Heart Fibroblasts Merged Methylation Atlas: Heart Fibroblasts Merged Samples Regulation 
prostSmMusc41Y Prostate - Smooth Muscle - Z0000041Y Methylation Atlas: Prostate - Smooth Muscle - Z0000041Y Regulation 
lungBronSmMusc421 Lung Bronchus - Smooth Muscle - Z00000421 Methylation Atlas: Lung Bronchus - Smooth Muscle - Z00000421 Regulation 
coronArtSmMusc420 Coronary Artery - Smooth Muscle - Z00000420 Methylation Atlas: Coronary Artery - Smooth Muscle - Z00000420 Regulation 
bladderSmMusc41Z Bladder - Smooth Muscle - Z0000041Z Methylation Atlas: Bladder - Smooth Muscle - Z0000041Z Regulation 
aortaSmMusc41U Aorta - Smooth Muscle - Z0000041U Methylation Atlas: Aorta - Smooth Muscle - Z0000041U Regulation 
smoothMuscMerged Smooth Muscle Merged Methylation Atlas: Smooth Muscle Merged Samples Regulation 
heartCardio44R Heart - Cardiomyocyte - Z0000044R Methylation Atlas: Heart - Cardiomyocyte - Z0000044R Regulation 
heartCardio44Q Heart - Cardiomyocyte - Z0000044Q Methylation Atlas: Heart - Cardiomyocyte - Z0000044Q Regulation 
heartCardio44K Heart - Cardiomyocyte - Z0000044K Methylation Atlas: Heart - Cardiomyocyte - Z0000044K Regulation 
heartCardio44G Heart - Cardiomyocyte - Z0000044G Methylation Atlas: Heart - Cardiomyocyte - Z0000044G Regulation 
heartCardioMerged Heart Cardiomyocytes Merged Methylation Atlas: Heart Cardiomyocytes Merged Samples Regulation 
oligo42N Oligodendrocytes - Z0000042N Methylation Atlas: Oligodendrocytes - Z0000042N Regulation 
oligo42L Oligodendrocytes - Z0000042L Methylation Atlas: Oligodendrocytes - Z0000042L Regulation 
oligo42E Oligodendrocytes - Z0000042E Methylation Atlas: Oligodendrocytes - Z0000042E Regulation 
oligo0TK Oligodendrocytes - Z000000TK Methylation Atlas: Oligodendrocytes - Z000000TK Regulation 
oligodendMerged Oligodendrocytes Merged Methylation Atlas: Oligodendrocytes Merged Samples Regulation 
neuron0TH Neuron - Z000000TH Methylation Atlas: Neuron - Z000000TH Regulation 
cortexNeuron42P Cortex - Neuron - Z0000042P Methylation Atlas: Cortex - Neuron - Z0000042P Regulation 
cortexNeuron42M Cortex - Neuron - Z0000042M Methylation Atlas: Cortex - Neuron - Z0000042M Regulation 
cortexNeuron42K Cortex - Neuron - Z0000042K Methylation Atlas: Cortex - Neuron - Z0000042K Regulation 
cortexNeuron42J Cortex - Neuron - Z0000042J Methylation Atlas: Cortex - Neuron - Z0000042J Regulation 
cortexNeuron42H Cortex - Neuron - Z0000042H Methylation Atlas: Cortex - Neuron - Z0000042H Regulation 
cortexNeuron42F Cortex - Neuron - Z0000042F Methylation Atlas: Cortex - Neuron - Z0000042F Regulation 
cortexNeuron0TF Cortex - Neuron - Z000000TF Methylation Atlas: Cortex - Neuron - Z000000TF Regulation 
cortexNeuron0TD Cortex - Neuron - Z000000TD Methylation Atlas: Cortex - Neuron - Z000000TD Regulation 
cerebNeuron0TB Cerebellum - Neuron - Z000000TB Methylation Atlas: Cerebellum - Neuron - Z000000TB Regulation 
neuronMerged Neurons Merged Methylation Atlas: Neurons Merged Samples Regulation 
nestedRepeats Interrupted Rpts Fragments of Interrupted Repeats Joined by RepeatMasker ID Repeats Description This track shows joined fragments of interrupted repeats extracted from the output of the RepeatMasker program which screens DNA sequences for interspersed repeats and low complexity DNA sequences using the Repbase Update library of repeats from the Genetic Information Research Institute (GIRI). Repbase Update is described in Jurka (2000) in the References section below. The detailed annotations from RepeatMasker are in the RepeatMasker track. This track shows fragments of original repeat insertions which have been interrupted by insertions of younger repeats or through local rearrangements. The fragments are joined using the ID column of RepeatMasker output. Display Conventions and Configuration In pack or full mode, each interrupted repeat is displayed as boxes (fragments) joined by horizontal lines, labeled with the repeat name. If all fragments are on the same strand, arrows are added to the horizontal line to indicate the strand. In dense or squish mode, labels and arrows are omitted and in dense mode, all items are collapsed to fit on a single row. Items are shaded according to the average identity score of their fragments. Usually, the shade of an item is similar to the shades of its fragments unless some fragments are much more diverged than others. The score displayed above is the average identity score, clipped to a range of 50% - 100% and then mapped to the range 0 - 1000 for shading in the browser. Methods UCSC has used the most current versions of the RepeatMasker software and repeat libraries available to generate these data. Note that these versions may be newer than those that are publicly available on the Internet. Data are generated using the RepeatMasker -s flag. Additional flags may be used for certain organisms. See the FAQ for more information. Credits Thanks to Arian Smit, Robert Hubley and GIRI for providing the tools and repeat libraries used to generate this track. References Smit AFA, Hubley R, Green P. RepeatMasker Open-3.0. https://www.repeatmasker.org/. 1996-2010. Repbase Update is described in: Jurka J. Repbase Update: a database and an electronic journal of repetitive elements. Trends Genet. 2000 Sep;16(9):418-420. PMID: 10973072 For a discussion of repeats in mammalian genomes, see: Smit AF. Interspersed repeats and other mementos of transposable elements in mammalian genomes. Curr Opin Genet Dev. 1999 Dec;9(6):657-63. PMID: 10607616 Smit AF. The origin of interspersed repeats in the human genome. Curr Opin Genet Dev. 1996 Dec;6(6):743-8. PMID: 8994846 
mavedb_maps MaveDB Heatmaps Variant Effect Maps from MaveDB Expression Description This track provides heatmaps of multiplexed assays of variant effects (MAVE) from MaveDB. Each heatmap presents the results of an experiment where many small substitutions were tested within a gene to examine their functional consequences. Display Conventions Heatmaps within the track display the consequence of substituting invididual amino acids within the genome with alternatives (alternatives are listed along the left edge of the heatmap). Score ranges vary among experiments, but each is presented with the highest scores in red, the lowest scores in blue, and scores at the midpoint between the two in silver. Higher scores correspond to a higher enrichment level for that variant compared to others in the experiment set. The column along the left edge of each heatmap provide single-letter amino acid codes do indicate what was substituted in for that piece of the experiment. = indicates a synonymous substitution, - indicates a deletion, and * indicates a stop codon. Cells where multiple scores were reported are marked with the score count (e.g. "2" if two scores were reported). Mousing over a cell in the heatmap will display the ID number of that particular substitution in the experiment, a MAVE-HGVS description of the substitution with three-letter amino acid codes, and the score (or scores, if more than one is present). When the display is zoomed out farther than a 200,000 base window, the display switches to a coverage plot of where the MaveDB heatmaps can be found. Track Controls The track controls include a filter for the URN ID of the experiment (e.g. 00000103-a-1). The display supports full, pack, and squish modes. In dense mode, the track switches to a dense BED-like display where items mark the extent of individual heatmaps and exons indicate where the heatmap includes score values. Methods Methods for the various experiments are described briefly on the individual details pages for each heatmap in the track, and in greater detail on the MaveDB page for that experiment (link available on our own details pages). JSON files containing data from these experiments were processed into UCSC's heatmap extension of the standard BED format for display here. Data Access Direct access to the data files for these experiments can be obtained from MaveDB. References Rubin AF, Stone J, Bianchi AH, Capodanno BJ, Da EY, Dias M, Esposito D, Frazer J, Fu Y, Grindstaff SB et al. MaveDB 2024: a curated community database with over seven million variant effects from multiplexed functional assays. Genome Biol. 2025 Jan 21;26(1):13. PMID: 39838450; PMC: PMC11753097 
mpraVarDb MPRAVarDB MPRAs: MPRAVarDB - MPRA-tested Regulatory Variant Effects Regulation Description The MPRAVarDB track shows 239,028 variants successfully mapped to hg38 (from 242,818 total) across 18 MPRA studies compiled in the MPRAVarDB database (Jin et al., 2024). Each variant was experimentally tested in an MPRA experiment to evaluate whether it affects regulatory activity. The database covers over 30 cell lines and 30 human diseases and traits, including neurodegenerative diseases, immune disorders, melanoma, multiple myeloma, and autoimmune diseases. Note on cell lines: The cell line shown for each variant is the reporter cell line in which the human regulatory element was assayed. Several studies used mouse cell lines (e.g. Neuro-2a, N2A, NIH/3T3, MIN6) as reporter systems for human sequences; these variants retain human (hg38) coordinates. Note on study type: Not all studies measure transcriptional regulation in the same sense. Two of the larger contributors, Griesemer et al., 2021 (72,546 variants) and Schuster et al., 2023 (26,546 variants), test 3'UTR variants placed downstream of the reporter, where the log2 fold change between alleles reflects changes in mRNA stability, decay, RBP or miRNA binding, or translation efficiency rather than transcriptional activation. The remaining studies test 5' regulatory elements (promoters and enhancers) where log2FC reflects changes in transcription. Together, the 3'UTR studies account for 99,092 of the 239,028 variants in the track (~41%). Display Conventions Items are colored by statistical significance: Dark red: FDR &lt; 0.05 (significant after multiple testing correction) &mdash; 22,451 variants (9.4%) Orange: nominal p-value &lt; 0.05 but FDR &ge; 0.05 &mdash; 17,773 variants (7.4%) Grey: not significant (p-value &ge; 0.05) &mdash; 198,804 variants (83.2%) Each item shows the variant name (rsID when available, otherwise chr:pos:ref&gt;alt), the reference and alternate alleles, the associated disease or trait, cell line, log2 fold change, p-value, and FDR. Cell-type specificity: MPRA results are typically cell-type-specific, and significance in one cell line does not imply activity in another. For example, Tewhey et al., 2016 found only modest correlation (R &asymp; 0.63) between LCL and HepG2 measurements of the same eQTL variants, and McAfee et al., 2023 reported that only 205 of 1,004 HEK293-positive variants overlapped HNP-positive variants. The cell line filter can be used to narrow results to a relevant context. Note on Kircher et al., 2019: This study contributes 44,647 variants (~19% of the track) using a saturation mutagenesis design that tests nearly every possible nucleotide substitution at each position of 20 disease-associated regulatory elements at single-base-pair resolution: 10 promoters (TERT, LDLR, HBB, HBG1, HNF4A, MSMB, PKLR, F9, FOXE1, GP1BB) and 10 enhancers (SORT1, ZRS, BCL11A, IRF4, IRF6, MYC tested with two distinct enhancers, RET, TCF7L2, and the UC88 ultraconserved enhancer). Regions over those elements show many densely-packed Kircher variants that may dominate visualization at those loci. Interpreting log2FC The log2 fold change is computed as log2(alt RNA/DNA) &minus; log2(ref RNA/DNA). A positive value means the alternate allele drove more reporter activity than the reference allele in this assay; a negative value means the reverse. The linear allelic ratio is approximately 2log2FC: log2FC = 0.5 corresponds to roughly 1.41&times; allelic difference, log2FC = 1.0 to 2&times;, and log2FC = 2.0 to 4&times;. As noted in the Description section, log2FC reflects transcriptional activation for 5'-regulatory studies and steady-state mRNA abundance, decay, or translation efficiency for 3'UTR studies (Griesemer et al., 2021; Schuster et al., 2023). Studies The following table lists the 18 MPRA studies included in MPRAVarDB, with the number of tested variants, diseases/traits, cell lines, and a brief description of the variant selection. Study Variants Disease/Trait Cell Line(s) Description Griesemer et al., 2021 72,546 NHGRI-EBI GWAS catalog GM12878, HEK293FT, HMEC, HepG2, K562, SKNSH 3'UTR SNPs and indels in LD with GWAS catalog variants, variants under positive selection, and rare outlier expression variants from GTEx Kircher et al., 2019 44,647 Various (18 diseases including diabetes, cancer, blood disorders, limb malformations) HEK293T, HEL92.1.7, HaCaT, HeLa, HepG2, K562, LNCaP, MIN6, NIH/3T3, Neuro-2a, SK-MEL-28, SF7996 Saturation mutagenesis of 20 disease-associated regulatory elements at single base-pair resolution Abell et al., 2022 29,564 eQTL (no specific disease) GM12878 30,893 variants in LD with independent, common, top-ranked eQTL across 744 eGenes in the CEU cohort Tewhey et al., 2016 23,430 eQTL (no specific disease) GM12878 32,373 variants associated with eQTLs in lymphoblastoid cell lines Schuster et al., 2023 26,546 Prostate cancer PC3 14,497 single-nucleotide mutations enriched in oncogenic pathways and 3'UTR regulatory elements Mouri et al., 2022 14,549 Autoimmune diseases (Crohn's, IBD, psoriasis, MS, RA, T1D, ulcerative colitis) Jurkat GWAS variants from autoimmune disease loci tested for regulatory element activity in T cells McAfee et al., 2023 10,302 Schizophrenia HEK293s, HNPS 5,173 fine-mapped schizophrenia GWAS variants Cooper et al., 2022 5,330 Alzheimer's disease, Progressive supranuclear palsy HEK293T 5,706 noncoding SNVs from 25 AD and 9 PSP genome-wide significant loci Long et al., 2022 3,980 Melanoma C283T, UACC903 1,992 risk-associated variants in tight LD (r2&gt;0.8) from 54 melanoma risk loci Myint et al., 2020 2,158 Schizophrenia, Alzheimer's disease K562, SH-SY5Y 1,049 SZ and 30 AD variants in 64 SZ loci and 9 AD loci Choi et al., 2020 1,664 Melanoma HEK293FT, UACC903 GWAS melanoma risk variants Ajore et al., 2022 1,582 Multiple myeloma L363, MOLP8 1,039 variants in high LD (r2&gt;0.8) at 23 MM risk loci Klein et al., 2019 1,119 Osteoarthritis Saos-2 1,605 SNPs in high LD (r2&gt;0.8) at 35 lead SNPs associated with OA via GWAS Lu et al., 2021 1,036 Systemic lupus erythematosus GM12878, Jurkat 18,312 variants in tight LD (r2&gt;0.8) with 578 GWAS index variants at 531 loci Mulvey &amp; Dougherty, 2021 275 Major depressive disorder N2A Over 1,000 SNPs from 39 neuropsychiatric GWAS loci, selected by overlap with eQTL and histone marks Ferraro et al., 2020 150 Rare variant expression (no specific disease) GM12878 Rare variants contributing to extreme expression, allelic expression, and splicing across 49 GTEx tissues Rao et al., 2021 88 Alcohol use disorder BLA, CE, NAC, SFC SNPs in 3'UTR of 88 genes from allele-specific expression analysis (30 AUD subjects vs 30 controls) Ulirsch et al., 2016 62 Red blood cell traits K562, K562+GATA1 2,756 variants in strong LD with 75 sentinel variants associated with RBC traits Variant counts above are from the source publications (pre-liftOver totals). Of 242,818 total source variants, 239,028 lifted successfully to hg38; see Methods. Methods Data was downloaded from the MPRAVarDB web server. Variants originally mapped to hg19 (213,689 of 242,818) were lifted to hg38 using liftOver. 114 variants could not be mapped and were excluded. The remaining variants were merged with the 29,129 natively hg38-mapped variants to produce a total of 239,028 hg38 records. Significance thresholds across studies: The source studies in MPRAVarDB do not all use the same significance framework. Most studies apply a Benjamini-Hochberg FDR threshold (commonly 0.05 or 0.10), but some report only nominal regression p-values. For example, Tewhey et al., 2016 uses BH FDR &lt; 0.05 to call "emVars", Griesemer et al., 2021 and McAfee et al., 2023 use BH FDR &lt; 0.10, and Kircher et al., 2019 reports raw regression p-values rather than FDR. The track applies a uniform FDR &lt; 0.05 / nominal p &lt; 0.05 color cutoff for visual consistency, which is the more conservative of the FDR thresholds reported by the source studies. For any variant of interest, consult the source publication for the original significance call. Data Access The data can be explored interactively in table format with the Table Browser or the Data Integrator and exported from there to spreadsheet or tab-sep tables. From scripts, the data can be accessed through our API, track=mpraVarDb. For automated download and analysis, the genome annotation is stored in a bigBed file that can be downloaded from our download server. The file for this track is called mpravardb.bb. Individual regions or the whole genome annotation can be obtained using our tool bigBedToBed, which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tool can also be used to obtain features within a given range, e.g. bigBedToBed http://hgdownload.soe.ucsc.edu/gbdb/hg38/mpra/mpravardb/mpravardb.bb -chrom=chr21 -start=0 -end=100000000 stdout The original annotation source data can be downloaded from the MPRAVarDB web server. Credits Thanks to Weijia Jin and colleagues at the University of Florida for creating and maintaining the MPRAVarDB database. References Abell NS, DeGorter MK, Gloudemans MJ, Greenwald E, Smith KS, He Z, Montgomery SB. Multiple causal variants underlie genetic associations in humans. Science. 2022 Mar 18;375(6586):1247-1254. PMID: 35298243; PMC: PMC9725108 Ajore R, Niroula A, Pertesi M, Cafaro C, Thodberg M, Went M, Bao EL, Duran-Lozano L, Lopez de Lapuente Portilla A, Olafsdottir T et al. Functional dissection of inherited non-coding variation influencing multiple myeloma risk. Nat Commun. 2022 Jan 10;13(1):151. PMID: 35013207; PMC: PMC8748989 Choi J, Zhang T, Vu A, Ablain J, Makowski MM, Colli LM, Xu M, Hennessey RC, Yin J, Rothschild H et al. Massively parallel reporter assays of melanoma risk variants identify MX2 as a gene promoting melanoma. Nat Commun. 2020 Jun 1;11(1):2718. PMID: 32483191; PMC: PMC7264232 Cooper YA, Teyssier N, Dr&#228;ger NM, Guo Q, Davis JE, Sattler SM, Yang Z, Patel A, Wu S, Kosuri S et al. Functional regulatory variants implicate distinct transcriptional networks in dementia. Science. 2022 Aug 19;377(6608):eabi8654. PMID: 35981026 Ferraro NM, Strober BJ, Einson J, Abell NS, Aguet F, Barbeira AN, Brandt M, Bucan M, Castel SE, Davis JR et al. Transcriptomic signatures across human tissues identify functional rare genetic variation. Science. 2020 Sep 11;369(6509). PMID: 32913073; PMC: PMC7646251 Griesemer D, Xue JR, Reilly SK, Ulirsch JC, Kukreja K, Davis JR, Kanai M, Yang DK, Butts JC, Guney MH et al. Genome-wide functional screen of 3&#39;UTR variants uncovers causal variants for human disease and evolution. Cell. 2021 Sep 30;184(20):5247-5260.e19. PMID: 34534445; PMC: PMC8487971 Jin W, Xia Y, Nizomov J, Liu Y, Li Z, Lu Q, Chen L. MPRAVarDB: an online database and web server for exploring regulatory effects of genetic variants. Bioinformatics. 2024 Oct 1;40(10). PMID: 39325859; PMC: PMC11464417 Kircher M, Xiong C, Martin B, Schubach M, Inoue F, Bell RJA, Costello JF, Shendure J, Ahituv N. Saturation mutagenesis of twenty disease-associated regulatory elements at single base-pair resolution. Nat Commun. 2019 Aug 8;10(1):3583. PMID: 31395865; PMC: PMC6687891 Klein JC, Keith A, Rice SJ, Shepherd C, Agarwal V, Loughlin J, Shendure J. Functional testing of thousands of osteoarthritis-associated variants for regulatory activity. Nat Commun. 2019 Jun 4;10(1):2434. PMID: 31164647; PMC: PMC6547687 Long E, Yin J, Funderburk KM, Xu M, Feng J, Kane A, Zhang T, Myers T, Golden A, Thakur R et al. Massively parallel reporter assays and variant scoring identified functional variants and target genes for melanoma loci and highlighted cell-type specificity. Am J Hum Genet. 2022 Dec 1;109(12):2210-2229. PMID: 36423637; PMC: PMC9748337 Lu X, Chen X, Forney C, Donmez O, Miller D, Parameswaran S, Hong T, Huang Y, Pujato M, Cazares T et al. Global discovery of lupus genetic risk variant allelic enhancer activity. Nat Commun. 2021 Mar 12;12(1):1611. PMID: 33712590; PMC: PMC7955039 McAfee JC, Lee S, Lee J, Bell JL, Krupa O, Davis J, Insigne K, Bond ML, Zhao N, Boyle AP et al. Systematic investigation of allelic regulatory activity of schizophrenia-associated common variants. Cell Genom. 2023 Oct 11;3(10):100404. PMID: 37868037; PMC: PMC10589626 Mouri K, Guo MH, de Boer CG, Lissner MM, Harten IA, Newby GA, DeBerg HA, Platt WF, Gentili M, Liu DR et al. Prioritization of autoimmune disease-associated genetic variants that perturb regulatory element activity in T cells. Nat Genet. 2022 May;54(5):603-612. PMID: 35513721; PMC: PMC9793778 Mulvey B, Dougherty JD. Transcriptional-regulatory convergence across functional MDD risk variants identified by massively parallel reporter assays. Transl Psychiatry. 2021 Jul 22;11(1):403. PMID: 34294677; PMC: PMC8298436 Myint L, Wang R, Boukas L, Hansen KD, Goff LA, Avramopoulos D. A screen of 1,049 schizophrenia and 30 Alzheimer&#39;s-associated variants for regulatory potential. Am J Med Genet B Neuropsychiatr Genet. 2020 Jan;183(1):61-73. PMID: 31503409; PMC: PMC7233147 Rao X, Thapa KS, Chen AB, Lin H, Gao H, Reiter JL, Hargreaves KA, Ipe J, Lai D, Xuei X et al. Allele-specific expression and high-throughput reporter assay reveal functional genetic variants associated with alcohol use disorders. Mol Psychiatry. 2021 Apr;26(4):1142-1151. PMID: 31477794; PMC: PMC7050407 Schuster SL, Arora S, Wladyka CL, Itagi P, Corey L, Young D, Stackhouse BL, Kollath L, Wu QV, Corey E et al. Multi-level functional genomics reveals molecular and cellular oncogenicity of patient-based 3&#39;-untranslated region mutations. Cell Rep. 2023 Aug 29;42(8):112840. PMID: 37516102; PMC: PMC10540565 Tewhey R, Kotliar D, Park DS, Liu B, Winnicki S, Reilly SK, Andersen KG, Mikkelsen TS, Lander ES, Schaffner SF et al. Direct Identification of Hundreds of Expression-Modulating Variants using a Multiplexed Reporter Assay. Cell. 2016 Jun 2;165(6):1519-1529. PMID: 27259153; PMC: PMC4957403 Ulirsch JC, Nandakumar SK, Wang L, Giani FC, Zhang X, Rogov P, Melnikov A, McDonel P, Do R, Mikkelsen TS et al. Systematic Functional Dissection of Common Genetic Variation Affecting Red Blood Cell Traits. Cell. 2016 Jun 2;165(6):1530-1545. PMID: 27259154; PMC: PMC4893171 
refSeqComposite NCBI RefSeq RefSeq genes from NCBI Genes and Gene Predictions Description The NCBI RefSeq Genes composite track shows human protein-coding and non-protein-coding genes taken from the NCBI RNA reference sequences collection (RefSeq). All subtracks use coordinates provided by RefSeq, except for the UCSC RefSeq track, which UCSC produces by realigning the RefSeq RNAs to the genome. This realignment may result in occasional differences between the annotation coordinates provided by UCSC and NCBI. For RNA-seq analysis, we advise using NCBI aligned tables like RefSeq All or RefSeq Curated. See the Methods section for more details about how the different tracks were created. Please visit NCBI's Feedback for Gene and Reference Sequences (RefSeq) page to make suggestions, submit additions and corrections, or ask for help concerning RefSeq records. For more information on the different gene tracks, see our Genes FAQ. Display Conventions and Configuration This track is a composite track that contains differing data sets. To show only a selected set of subtracks, uncheck the boxes next to the tracks that you wish to hide. Note: Not all subtracks are available on all assemblies. The possible subtracks include: RefSeq aligned annotations and UCSC alignment of RefSeq annotations RefSeq All &ndash; all curated and predicted annotations provided by RefSeq. RefSeq Curated &ndash; subset of RefSeq All that includes only those annotations whose accessions begin with NM, NR, NP or YP. (NP and YP are used only for protein-coding genes on the mitochondrion; YP is used for human only.) RefSeq Predicted &ndash; subset of RefSeq All that includes those annotations whose accessions begin with XM or XR. RefSeq Other &ndash; all other annotations produced by the RefSeq group that do not fit the requirements for inclusion in the RefSeq Curated or the RefSeq Predicted tracks, as they do not have a product and therefore no RefSeq accession. More than 90% are pseudogenes, T-cell receptor or immunoglobulin segments. The few remaining entries are gene clusters (e.g. protocadherin). RefSeq Alignments &ndash; alignments of RefSeq RNAs to the human genome provided by the RefSeq group, following the display conventions for PSL tracks. RefSeq Diffs &ndash; alignment differences between the human reference genome(s) and RefSeq transcripts. (Track not currently available for every assembly.) UCSC RefSeq &ndash; annotations generated from UCSC's realignment of RNAs with NM and NR accessions to the human genome. This track was previously known as the &quot;RefSeq Genes&quot; track. RefSeq Select+MANE (subset) &ndash; Subset of RefSeq Curated, transcripts marked as RefSeq Select or MANE Select. A single Select transcript is chosen as representative for each protein-coding gene. This track includes transcripts categorized as MANE, which are further agreed upon as representative by both NCBI RefSeq and Ensembl/GENCODE, and have a 100% identical match to a transcript in the Ensembl annotation. See NCBI RefSeq Select. Note that we provide a separate track, MANE (hg38), which contains only the MANE transcripts. RefSeq HGMD (subset) &ndash; Subset of RefSeq Curated, transcripts annotated by the Human Gene Mutation Database. This track is only available on the human genomes hg19 and hg38. It is the most restricted RefSeq subset, targeting clinical diagnostics. RefSeq Historical &ndash; previous RefSeq transcript versions, including NM_ accessions and HGVS searches. This track is only available on hg38. NCBI Orthologs &ndash; Orthologous genes were identified by NCBI's Eukaryotic Genome Annotation Pipeline for the NCBI Gene dataset using a combination of protein sequence similarity and local synteny analysis. Orthology is determined between the genome being annotated and a reference genome, such as human or zebrafish, and pairs of orthologs are grouped together. Transitive relationships are inferred within each group, for example, zebrafish &lt;-&gt; human &lt;-&gt; mouse. For more information on how NCBI calculates orthologs, see the details provided here. This track is available for the following assemblies: hg38, mm39, danRer11, canFam6, and bosTau9. The RefSeq All, RefSeq Curated, RefSeq Predicted, RefSeq HGMD, RefSeq Select/MANE and UCSC RefSeq tracks follow the display conventions for gene prediction tracks. The color shading indicates the level of review the RefSeq record has undergone: predicted (light), provisional (medium), or reviewed (dark), as defined by RefSeq. Color Level of review Reviewed: the RefSeq record has been reviewed by NCBI staff or by a collaborator. The NCBI review process includes assessing available sequence data and the literature. Some RefSeq records may incorporate expanded sequence and annotation information. Provisional: the RefSeq record has not yet been subject to individual review. The initial sequence-to-gene association has been established by outside collaborators or NCBI staff. Predicted: the RefSeq record has not yet been subject to individual review, and some aspect of the RefSeq record is predicted. The item labels and codon display properties for features within this track can be configured through the check-box controls at the top of the track description page. To adjust the settings for an individual subtrack, click the wrench icon next to the track name in the subtrack list. Label: By default, items are labeled by gene name. Click the appropriate Label option to display the accession name or OMIM identifier instead of the gene name, show all or a subset of these labels including the gene name, OMIM identifier and accession names, or turn off the label completely. Codon coloring: This track has an optional codon coloring feature that allows users to quickly validate and compare gene predictions. To display codon colors, select the genomic codons option from the Color track by codons pull-down menu. For more information about this feature, go to the Coloring Gene Predictions and Annotations by Codon page. The RefSeq Diffs track contains five different types of inconsistency between the reference genome sequence and the RefSeq transcript sequences. The five types of differences are as follows: mismatch &ndash; aligned but mismatching bases, plus HGVS g. to show the genomic change required to match the transcript and HGVS c./n. to show the transcript change required to match the genome. short gap &ndash; genomic gaps that are too small to be introns (arbitrary cutoff of &lt; 45 bp), most likely insertions/deletion variants or errors, with HGVS g. and c./n. showing differences. shift gap &ndash; shortGap items whose placement could be shifted left and/or right on the genome due to repetitive sequence, with HGVS c./n. position range of ambiguous region in transcript. Here, thin and thick lines are used -- the thin line shows the span of the repetitive sequence, and the thick line shows the rightmost shifted gap. double gap &ndash; genomic gaps that are long enough to be introns but that skip over transcript sequence (invisible in default setting), with HGVS c./n. deletion. skipped &ndash; sequence at the beginning or end of a transcript that is not aligned to the genome (invisible in default setting), with HGVS c./n. deletion HGVS Terminology (Human Genome Variation Society): g. = genomic sequence ; c. = coding DNA sequence ; n. = non-coding RNA reference sequence. When reporting HGVS with RefSeq sequences, to make sure that results from research articles can be mapped to the genome unambiguously, please specify the RefSeq annotation release displayed on the transcript's Genome Browser details page and also the RefSeq transcript ID with version (e.g. NM_012309.4 not NM_012309). Methods Tracks contained in the RefSeq annotation and RefSeq RNA alignment tracks were created at UCSC using data from the NCBI RefSeq project. Data files were downloaded from RefSeq in GFF file format and converted to the genePred and PSL table formats for display in the Genome Browser. Information about the NCBI annotation pipeline can be found here. The RefSeq Diffs track is generated by UCSC using NCBI's RefSeq RNA alignments. The UCSC RefSeq Genes track is constructed using the same methods as previous RefSeq Genes tracks. RefSeq RNAs were aligned against the human genome using BLAT. Those with an alignment of less than 15% were discarded. When a single RNA aligned in multiple places, the alignment having the highest base identity was identified. Only alignments having a base identity level within 0.1% of the best and at least 96% base identity with the genomic sequence were kept. The NCBI Orthologs track was generated using the latest NCBI files (gene2accession and gene_orthologs). NCBI chromosome identifiers were mapped to UCSC-compatible IDs using species-specific chromosome alias files, and genes were filtered to include only those located on valid NCBI chromosomes. A custom Python script processed the ortholog relationships and created bed files for each species. The bed files were then converted to BigBed format, with indexing for search functionality. The procedure is documented in the makeDoc from our GitHub repository. Data Access The raw data for these tracks can be accessed in multiple ways. It can be explored interactively using the REST API, Table Browser or Data Integrator. The tables can also be accessed programmatically through our public MySQL server or downloaded from our downloads server for local processing. The previous track versions are available in the archives of our downloads server. You can also access any RefSeq table entries in JSON format through our JSON API. The data in the RefSeq Other, RefSeq Diffs, and NCBI Orthologs tracks are organized in bigBed file format; more information about accessing the information in this bigBed file can be found below. The other subtracks are associated with database tables as follows: genePred format: RefSeq All - ncbiRefSeq RefSeq Curated - ncbiRefSeqCurated RefSeq Predicted - ncbiRefSeqPredicted RefSeq HGMD - ncbiRefSeqHgmd RefSeq Select+MANE - ncbiRefSeqSelect UCSC RefSeq - refGene PSL format: RefSeq Alignments - ncbiRefSeqPsl The first column of each of these tables is &quot;bin&quot;. This column is designed to speed up access for display in the Genome Browser, but can be safely ignored in downstream analysis. You can read more about the bin indexing system here. The annotations in the RefSeqOther, RefSeqDiffs, and NCBI Orthologs tracks are stored in bigBed files, which can be obtained from our downloads server here, ncbiRefSeqOther.bb, ncbiRefSeqDiffs.bb, and ncbiOrtho.bb. Individual regions or the whole set of genome-wide annotations can be obtained using our tool bigBedToBed which can be compiled from the source code or downloaded as a precompiled binary for your system from the utilities directory linked below. For example, to extract only annotations in a given region, you could use the following command: bigBedToBed http://hgdownload.soe.ucsc.edu/gbdb/hg38/ncbiRefSeq/ncbiRefSeqOther.bb -chrom=chr16 -start=34990190 -end=36727467 stdout You can download a GTF format version of the RefSeq All table from the GTF downloads directory. The genePred format tracks can also be converted to GTF format using the genePredToGtf utility, available from the utilities directory on the UCSC downloads server. The utility can be run from the command line like so: genePredToGtf hg38 ncbiRefSeqPredicted ncbiRefSeqPredicted.gtf Note that using genePredToGtf in this manner accesses our public MySQL server, and you therefore must set up your hg.conf as described on the MySQL page linked near the beginning of the Data Access section. A file containing the RNA sequences in FASTA format for all items in the RefSeq All, RefSeq Curated, and RefSeq Predicted tracks can be found on our downloads server here. Please refer to our mailing list archives for questions. Previous versions of the ncbiRefSeq set of tracks can be found on our archive download server. Credits This track was produced at UCSC from data generated by scientists worldwide and curated by the NCBI RefSeq project. References Kent WJ. BLAT - the BLAST-like alignment tool. Genome Res. 2002 Apr;12(4):656-64. PMID: 11932250; PMC: PMC187518 Pruitt KD, Brown GR, Hiatt SM, Thibaud-Nissen F, Astashyn A, Ermolaeva O, Farrell CM, Hart J, Landrum MJ, McGarvey KM et al. RefSeq: an update on mammalian reference sequences. Nucleic Acids Res. 2014 Jan;42(Database issue):D756-63. PMID: 24259432; PMC: PMC3965018 Pruitt KD, Tatusova T, Maglott DR. NCBI Reference Sequence (RefSeq): a curated non-redundant sequence database of genomes, transcripts and proteins. Nucleic Acids Res. 2005 Jan 1;33(Database issue):D501-4. PMID: 15608248; PMC: PMC539979 
ncbiOrtho NCBI Orthologs NCBI Gene Orthologs Genes and Gene Predictions 
ncbiRefSeqHistorical RefSeq Historical NCBI RefSeq Historical Transcript Versions Genes and Gene Predictions 
ncbiRefSeqHgmd RefSeq HGMD NCBI RefSeq HGMD subset: transcripts with clinical variants in HGMD Genes and Gene Predictions 
ncbiRefSeqSelect RefSeq Select and MANE NCBI RefSeq Select and MANE subset: A single representative transcript Genes and Gene Predictions 
refGene UCSC RefSeq UCSC annotations of RefSeq RNAs (NM_* and NR_*) Genes and Gene Predictions Description The RefSeq Genes track shows known human protein-coding and non-protein-coding genes taken from the NCBI RNA reference sequences collection (RefSeq). The data underlying this track are updated weekly. Please visit the Feedback for Gene and Reference Sequences (RefSeq) page to make suggestions, submit additions and corrections, or ask for help concerning RefSeq records. For more information on the different gene tracks, see our Genes FAQ. Display Conventions and Configuration This track follows the display conventions for gene prediction tracks. The color shading indicates the level of review the RefSeq record has undergone: predicted (light), provisional (medium), reviewed (dark). The item labels and display colors of features within this track can be configured through the controls at the top of the track description page. Label: By default, items are labeled by gene name. Click the appropriate Label option to display the accession name instead of the gene name, show both the gene and accession names, or turn off the label completely. Codon coloring: This track contains an optional codon coloring feature that allows users to quickly validate and compare gene predictions. To display codon colors, select the genomic codons option from the Color track by codons pull-down menu. For more information about this feature, go to the Coloring Gene Predictions and Annotations by Codon page. Hide non-coding genes: By default, both the protein-coding and non-protein-coding genes are displayed. If you wish to see only the coding genes, click this box. Methods RefSeq RNAs were aligned against the human genome using BLAT. Those with an alignment of less than 15% were discarded. When a single RNA aligned in multiple places, the alignment having the highest base identity was identified. Only alignments having a base identity level within 0.1% of the best and at least 96% base identity with the genomic sequence were kept. Credits This track was produced at UCSC from RNA sequence data generated by scientists worldwide and curated by the NCBI RefSeq project. References Kent WJ. BLAT - the BLAST-like alignment tool. Genome Res. 2002 Apr;12(4):656-64. PMID: 11932250; PMC: PMC187518 Pruitt KD, Brown GR, Hiatt SM, Thibaud-Nissen F, Astashyn A, Ermolaeva O, Farrell CM, Hart J, Landrum MJ, McGarvey KM et al. RefSeq: an update on mammalian reference sequences. Nucleic Acids Res. 2014 Jan;42(Database issue):D756-63. PMID: 24259432; PMC: PMC3965018 Pruitt KD, Tatusova T, Maglott DR. NCBI Reference Sequence (RefSeq): a curated non-redundant sequence database of genomes, transcripts and proteins. Nucleic Acids Res. 2005 Jan 1;33(Database issue):D501-4. PMID: 15608248; PMC: PMC539979 
ncbiRefSeqGenomicDiff RefSeq Diffs Differences between NCBI RefSeq Transcripts and the Reference Genome Genes and Gene Predictions 
ncbiRefSeqPsl RefSeq Alignments RefSeq Alignments of RNAs Genes and Gene Predictions 
ncbiRefSeqOther RefSeq Other NCBI RefSeq Other Annotations (not NM_*, NR_*, XM_*, XR_*, NP_* or YP_*) Genes and Gene Predictions 
ncbiRefSeqPredicted RefSeq Predicted NCBI RefSeq genes, predicted subset (XM_* or XR_*) Genes and Gene Predictions 
ncbiRefSeqCurated RefSeq Curated NCBI RefSeq genes, curated subset (NM_*, NR_*, NP_* or YP_*) Genes and Gene Predictions 
ncbiRefSeq RefSeq All NCBI RefSeq genes, curated and predicted (NM_*, XM_*, NR_*, XR_*, NP_*, YP_*) Genes and Gene Predictions 
nmdDetectiveA NMDetective-A NMDetective-A: Random forest prediction of NMD efficiency (Lindeboom 2016) Genes and Gene Predictions Description The NMDetective tracks display genome-wide predictions of nonsense-mediated mRNA decay (NMD) efficiency from Lindeboom et al. 2016. NMDetective scores predict whether a premature termination codon (PTC) at a given position will trigger NMD and mRNA degradation, or whether the transcript will escape NMD and potentially produce a truncated protein. Scores range from approximately &minus;1 to +1. Positive values indicate that a PTC at that position is predicted to trigger NMD (the mRNA is degraded). Negative values indicate that the PTC is predicted to escape NMD (the truncated mRNA may be translated into an aberrant protein). Values near zero indicate intermediate or uncertain NMD efficiency. Subtracks TrackDescription NMDetective-A Random forest model predicting NMD efficiency for all possible PTCs introduced by single-nucleotide variants. Explains ~71% of systematic variance in NMD efficiency. NMDetective-B Simplified decision tree model for all possible PTCs. Slightly lower accuracy (~68% variance explained) but more interpretable, making it suitable for clinical applications. NMDetective-A PTC Random forest model predicting NMD efficiency specifically for the first out-of-frame PTC introduced by frameshifting indel mutations. NMDetective-B PTC Decision tree model for the first out-of-frame PTC from frameshifting indels. Display Conventions and Configuration Each subtrack is displayed as a signal (bigWig) track. By default, the vertical axis ranges from &minus;1 to +1. Regions with positive values (predicted NMD-triggering) are shown above the baseline; regions with negative values (predicted NMD escape) are shown below. Blue tracks (NMDetective-A and -B): predictions for all possible PTCs from single-nucleotide nonsense variants. Green tracks (NMDetective-A PTC and -B PTC): predictions for the first out-of-frame PTC from frameshifting indels. Methods The NMDetective models were trained on somatic nonsense mutation data from 9,769 cancer patients and validated with frameshift mutations and germline variants (Lindeboom et al. 2019). The models incorporate the following features to predict NMD efficiency: Whether the PTC falls in the last exon Distance to the last 50 nt of the penultimate exon (the EJC-based &ldquo;50 bp rule&rdquo;) Distance from the coding start (start-proximal NMD insensitivity) Exon length mRNA half-life Distance to the downstream exon-junction complex Distance to the wild-type stop codon NMDetective-A (random forest regression) captures non-linear interactions among these features and achieves the highest predictive accuracy. NMDetective-B (decision tree) applies a simpler rule-based classification that is more transparent, with a modest reduction in accuracy. The predictions were generated for every possible PTC-introducing single-nucleotide variant and for the first out-of-frame PTC from every possible single-nucleotide frameshifting indel across all human protein-coding transcripts. The original bedGraph custom track files were downloaded from the NMDetective Figshare page resource and converted to bigWig format at UCSC. Data Access The data underlying these tracks can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credits Thanks to Rik Lindeboom for providing custom tracks and the original NMDetective data on Figshare. References Lindeboom RG, Supek F, Lehner B. The rules and impact of nonsense-mediated mRNA decay in human cancers. Nat Genet. 2016 Oct;48(10):1112-8. PMID: 27618451; PMC: PMC5045715 Lindeboom RGH, Vermeulen M, Lehner B, Supek F. The impact of nonsense-mediated mRNA decay on genetic disease, gene editing and cancer immunotherapy. Nat Genet. 2019 Nov;51(11):1645-1651. PMID: 31659324; PMC: PMC6858879 
omimGene2 OMIM Genes OMIM Gene Phenotypes - Dark Green Can Be Disease-causing Phenotypes, Variants, and Literature Description NOTE: OMIM is intended for use primarily by physicians and other professionals concerned with genetic disorders, by genetics researchers, and by advanced students in science and medicine. While the OMIM database is open to the public, users seeking information about a personal medical or genetic condition are urged to consult with a qualified physician for diagnosis and for answers to personal questions. Further, please be sure to click through to omim.org for the very latest, as they are continually updating data. NOTE ABOUT DOWNLOADS: OMIM is the property of Johns Hopkins University and is not available for download or mirroring by any third party without their permission. Please see OMIM for downloads. OMIM is a compendium of human genes and genetic phenotypes. The full-text, referenced overviews in OMIM contain information on all known Mendelian disorders and over 12,000 genes. OMIM is authored and edited at the McKusick-Nathans Institute of Genetic Medicine, Johns Hopkins University School of Medicine, under the direction of Dr. Ada Hamosh. This database was initiated in the early 1960s by Dr. Victor A. McKusick as a catalog of Mendelian traits and disorders, entitled Mendelian Inheritance in Man (MIM). The OMIM data are separated into three separate tracks: OMIM Alleles &nbsp;&nbsp;&nbsp;&nbsp;Variants in the OMIM database that have associated dbSNP identifiers. This track is currently unavailable on the hg38 assembly, as it depends on dbSNP data that has not been released yet. OMIM Genes &nbsp;&nbsp;&nbsp;&nbsp;The genomic positions of gene entries in the OMIM database. The coloring indicates the associated OMIM phenotype map key. OMIM Phenotypes - Gene Unknown &nbsp;&nbsp;&nbsp;&nbsp;Regions known to be associated with a phenotype, but for which no specific gene is known to be causative. This track also includes known multi-gene syndromes. This track shows the genomic positions of all gene entries in the Online Mendelian Inheritance in Man (OMIM) database. Display Conventions and Configuration Genomic locations of OMIM gene entries are displayed as solid blocks. The entries are colored according to the associated OMIM phenotype map key (if any): Lighter Green for phenotype map key 1 OMIM records - the disorder has been placed on the map based on its association with a gene, but the underlying defect is not known. Light Green for phenotype map key 2 OMIM records - the disorder has been placed on the map by linkage; no mutation has been found. Dark Green for phenotype map key 3 OMIM records - the molecular basis for the disorder is known; a mutation has been found in the gene. Purple for phenotype map key 4 OMIM records - a contiguous gene deletion or duplication syndrome; multiple genes are deleted or duplicated causing the phenotype. Light Gray for Others - no associated OMIM phenotype map key info available. Gene symbol and disease information, when available, are displayed on the details page for an item, and links to related RefSeq Genes and UCSC Genes are given. The descriptions of the OMIM entries are shown on the main browser display when Full display mode is chosen. In Pack mode, the descriptions are shown when mousing over each entry. Items displayed can be filtered according to phenotype map key on the track controls page. Methods The mappings displayed in this track are based on OMIM gene entries, their Entrez Gene IDs, and the corresponding RefSeq Gene locations: The data file genemap.txt from OMIM was loaded into the MySQL table omimGeneMap. The data file mim2gene.txt from OMIM was processed and loaded into the MySQL table omim2gene. Entries in genemap.txt having disorder info were parsed and loaded into the omimPhenotype table. For each OMIM gene in the omim2gene table, the Entrez Gene ID was used to get the corresponding RefSeq Gene ID via the ncbiRefLink table, and the RefSeq ID was used to get the genomic location from the ncbiRefSeq table. The OMIM gene IDs and corresponding RefSeq Gene locations were loaded into the omimGene2 table, the primary table for this track. Data Access Because OMIM has only allowed Data queries within individual chromosomes, no download files are available from the Genome Browser. Full genome datasets can be downloaded directly from the OMIM Downloads page. All genome-wide downloads are freely available from OMIM after registration. If you need the OMIM data in exactly the format of the UCSC Genome Browser, for example if you are running a UCSC Genome Browser local installation (a partial &quot;mirror&quot;), please create a user account on omim.org and contact OMIM via https://omim.org/contact. Send them your OMIM account name and request access to the UCSC Genome Browser &quot;entitlement&quot;. They will then grant you access to a MySQL/MariaDB data dump that contains all UCSC Genome Browser OMIM tables. UCSC offers queries within chromosomes from Table Browser that include a variety of filtering options and cross-referencing other datasets using our Data Integrator tool. UCSC also has an API that can be used to retrieve data in JSON format from a particular chromosome range. Please refer to our searchable mailing list archives for more questions and example queries, or our Data Access FAQ for more information. Example: Retrieve phenotype, Mode of Inheritance, and other OMIM data within a range Go to Table Browser, make sure the right dataset is selected: group: Phenotype and Literature, track: OMIM Genes, table: omimGene2. Define region of interest by entering coordinates or a gene symbol into the &quot;Position&quot; textbox, such as chr1:11,106,535-11,262,551 or MTOR, or upload a list. Format your data by setting the &quot;Output format&quot; dropdown to &quot;selected fields from primary and related Tables&quot; and click get output. This brings up the data field and linked table selection page. Select chrom, chromStart, chromEnd, and name from omimGene2 table. Then select the related tables omim2gene and omimPhenotype and click allow selection from check tables. This brings up the fields of the linked tables, where you can select approvedGeneSymbol, omimID, description, omimPhenotypeMapKey, and inhMode. Click on the get output to proceed to the results page: chr1 11106534 11262551 MTOR 601231, Smith-Kingsmore syndrome,Focal cortical dysplasia, type II, somatic, 3, Autosomal dominant For a quick link to pre-fill these options, click this session link. Credits Thanks to OMIM and NCBI for the use of their data. This track was constructed by Fan Hsu, Robert Kuhn, and Brooke Rhead of the UCSC Genome Bioinformatics Group. References Amberger J, Bocchini CA, Scott AF, Hamosh A. McKusick's Online Mendelian Inheritance in Man (OMIM&#174;). Nucleic Acids Res. 2009 Jan;37(Database issue):D793-6. Epub 2008 Oct 8. Hamosh A, Scott AF, Amberger JS, Bocchini CA, McKusick VA. Online Mendelian Inheritance in Man (OMIM), a knowledgebase of human genes and genetic disorders. Nucleic Acids Res. 2005 Jan 1;33(Database issue):D514-7. 
recombPat Recomb. deCODE Pat Recombination rate: deCODE Genetics, paternal Mapping and Sequencing Description The recombination rate track represents calculated rates of recombination based on the genetic maps from deCODE (Halldorsson et al., 2019) and 1000 Genomes (2013 Phase 3 release, lifted from hg19). The deCODE map is more recent, has a higher resolution and was natively created on hg38 and therefore recommended. For the Recomb. deCODE average track, the recombination rates for chrX represent the female rate. This track also includes a subtrack with all the individual deCODE recombination events and another subtrack with several thousand de-novo mutations found in the deCODE sequencing data. These two tracks are hidden by default and have to be switched on explicitly on the configuration page. Display Conventions and Configuration This is a super track that contains different subtracks, three with the deCODE recombination rates (paternal, maternal and average) and one with the 1000 Genomes recombination rate (average). These tracks are in signal graph (wiggle) format. By default, to show most recombination hotspots, their maximum value is set to 100 cM, even though many regions have values higher than 100. The maximum value can be changed on the configuration pages of the tracks. There are two more tracks that show additional details provided by deCODE: one subtrack with the raw data of all cross-overs tagged with their proband ID and another one with around 8000 human de-novo mutation variants that are linked to cross-over changes. Methods The deCODE genetic map was created at deCODE Genetics. It is based on microarrays assaying 626,828 SNP markers that allowed to identify 1,476,140 crossovers in 56,321 paternal meioses and 3,055,395 crossovers in 70,086 maternal meioses. In total, the data is based on 4,531,535 crossovers in 126,427 meioses. By using WGS data with 9,305,070 SNPs, the boundaries for 761,981 crossovers were refined: 247,942 crossovers in 9423 paternal meioses and 514,039 crossovers in 11,750 maternal meioses. The average resolution of the genetic map is 682 base pairs (bp): 655 and 708 bp for the paternal and maternal maps, respectively. The 1000 Genomes genetic map is based on the IMPUTE genetic map based on 1000 Genomes Phase 3, on hg19 coordinates. It was converted to hg38 by Po-Ru Loh at the Broad Institute. After a run of liftOver, he post-processed the data to deal with situations in which consecutive map locations became much closer/farther after lifting. The heuristic used is sufficient for statistical phasing but may not be optimal for other analyses. For this reason, and because of its higher resolution, the DeCODE map is therefore recommended for hg38. As with all other tracks, the data conversion commands and pointers to the original data files are documented in the makeDoc file of this track. Data Access The raw data can be explored interactively with the Table Browser, or the Data Integrator. For automated access, this track, like all others, is available via our API. However, for bulk processing, it is recommended to download the dataset. For automated download and analysis, the genome annotation is stored at UCSC in bigWig and bigBed files that can be downloaded from our download server. Individual regions or the whole genome annotation can be obtained using our tools bigWigToWig or bigBedToBed which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tools can also be used to obtain features confined to a given range, e.g., bigWigToBedGraph -chrom=chr17 -start=45941345 -end=45942345 http://hgdownload.soe.ucsc.edu/gbdb/hg38/recombRate/recombAvg.bw stdout Please refer to our Data Access FAQ for more information. Credits This track was produced at UCSC using data that are freely available for the deCODE and 1000 Genomes genetic maps. Thanks to Po-Ru Loh at the Broad Institute for providing the code to lift the hg19 1000 Genomes map data to hg38. References 1000 Genomes Project Consortium., Abecasis GR, Altshuler D, Auton A, Brooks LD, Durbin RM, Gibbs RA, Hurles ME, McVean GA. A map of human genome variation from population-scale sequencing. Nature. 2010 Oct 28;467(7319):1061-73. PMID: 20981092; PMC: PMC3042601 Halldorsson BV, Palsson G, Stefansson OA, Jonsson H, Hardarson MT, Eggertsson HP, Gunnarsson B, Oddsson A, Halldorsson GH, Zink F et al. Characterizing mutagenic effects of recombination through a sequence-level genetic map. Science. 2019 Jan 25;363(6425). PMID: 30679340 
spliceAIWt SpliceAI Wildtype SpliceAI Wildtype: Splicing of the reference genome sequence Phenotypes, Variants, and Literature Description The "Splicing Impact" container track contains tracks showing the predicted or validated effect of variants close to splice sites. AbSplice AbSplice is a method that predicts aberrant splicing across human tissues, as described in Wagner, &Ccedil;elik et al., 2023. This track displays precomputed AbSplice scores for all possible single-nucleotide variants genome-wide. The scores represent the probability that a given variant causes aberrant splicing in a given tissue. AbSplice scores can be computed from VCF files and are based on quantitative tissue-specific splice site annotations (SpliceMaps). While SpliceMaps can be generated for any tissue of interest from a cohort of RNA-seq samples, this track includes 49 tissues available from the Genotype-Tissue Expression (GTEx) dataset. SpliceAI Variants SpliceAI is an open-source deep learning splicing prediction algorithm that can predict splicing alterations caused by DNA variations. To score variants, the spliceAI algorithm is run on the genome sequence itself and scores each nucleotide for the probability that it is a donor or acceptor site, on both the forward and the reverse strand. Then variants are added to the sequence and the new sequence is scored. Variants may activate nearby cryptic splice sites, leading to abnormal transcript isoforms. SpliceAI was developed at Illumina; a lookup tool is provided by the Broad institute. SpliceAI Wildtype This SpliceAI &quot;Wildtype&quot; container track shows the scores for the genome sequence itself, without variants, from predicted splice donor (5&apos; intron boundaries) and splice acceptor (3&apos; intron boundaries) sites. Predictions are strand-specific, with separate subtracks for the plus and minus strands. These tracks are useful in combination with the variants track for evaluating new transcript models. They can be used to assess potential exon boundaries or possible splice acceptor sites. Why are some variants not scored by SpliceAI? SpliceAI only annotates variants within genes defined by the gene annotation file. Additionally, SpliceAI does not annotate variants if they are close to chromosome ends (5kb on either side), deletions of length greater than twice the input parameter -D, or inconsistent with the reference fasta file. What are the differences between masked and unmasked tracks? The unmasked tracks include splicing changes corresponding to strengthening annotated splice sites and weakening unannotated splice sites, which are typically much less pathogenic than weakening annotated splice sites and strengthening unannotated splice sites. The delta scores of such splicing changes are set to 0 in the masked files. We recommend using the unmasked tracks for alternative splicing analysis and masked tracks for variant interpretation. SpliceVarDB SpliceVarDB is an online database consolidating over 50,000 variants assayed for their effects on splicing in over 8,000 human genes. The authors evaluated over 500 published data sources and established a spliceogenicity scale to standardize, harmonize, and consolidate variant validation data generated by a range of experimental protocols. Genes and variant locations were obtained using GENCODE v44. Splice regions were calculated as specific distances from the closest canonical exon, including 5&apos; and 3&apos; untranslated regions (UTRs). The database is available at splicevardb.org. Display Conventions and Configuration AbSplice The AbSplice score is a probability estimate of how likely aberrant splicing of some sort takes place in a given tissue. The authors suggest three cutoffs which are represented by color in the track. High (red) - An AbSplice score over 0.2 indicates a high likelihood of aberrant splicing in at least one tissue. Medium (orange) - A score between 0.05 and 0.2 indicates a medium likelihood. Low (blue) - A score between 0.01 and 0.05 indicates a low likelihood. Scores below 0.01 are not displayed. Mouseover on items shows the gene name, maximum score, and tissues that had this score. Clicking on any item brings up a table with scores for all 49 GTEX tissues. SpliceAI Variants are colored according to Walker et al. 2023 splicing impact: Predicted impact on splicing: Score &gt;&#61; 0.2 Not informative: Score &lt; 0.2 and &gt; 0.1 No impact on splicing: Score &lt;&#61; 0.1 Mouseover on items shows the variant, gene name, type of change (donor gain/loss, acceptor gain/loss), location of affected cryptic splice, and spliceAI score. Clicking on any item brings up a table with this information. The scores range from 0 to 1 and can be interpreted as the probability of the variant being splice-altering. In the paper, a detailed characterization is provided for 0.2 (high recall), 0.5 (recommended), and 0.8 (high precision) cutoffs. SpliceAI Wildtype These tracks are in bigWig format. The signal height represents the SpliceAI probability score. This track may be configured in a variety of ways to highlight different aspects of the displayed information. Click the &quot;Graph configuration help&quot; link for an explanation of configuration options. SpliceVarDB According to the strength of their supporting evidence, variants were classified as &quot;splice-altering&quot; (~25%), &quot;not splice-altering&quot; (~25%), and &quot;low-frequency splice-altering&quot; (~50%), which correspond to weak or indeterminate evidence of spliceogenicity. 55% of the splice-altering variants in SpliceVarDB are outside the canonical splice sites (5.6% are deep intronic). The data is shown as lollipop plots that can be clicked, the details page then shows a link to SpliceVarDB with full details. The classification thresholds primarily follow those established by the original study. However, most studies only defined criteria for splice-altering variants and did not define criteria for variants that resulted in normal splicing. The authors implemented stringent thresholds to define the normal category and ensure a high-quality set of control variants. Variants that did not meet these criteria were classified as low-frequency splice-altering variants with a wide range of sub-optimal scores. Variants that fell between the normal and splice-altering classifications were placed into a low-frequency splice-altering category. In situations where a variant was validated multiple times, if at least one validation returned splice-altering and another returned normal, the &quot;conflicting&quot; category was applied. The lollipop plots are color-coded based on the score value, which corresponds to the following classifications: 3 - Splice-altering 2 - Low-frequency 1 - Normal 0 - Conflicting Methods AbSplice Data was converted from the files (AbSplice_DNA_ hg38 _snvs_high_scores.zip) provided by the authors at zenodo.org. Files in the score_cutoff=0.01 directory were concatenated. To convert the data to bigBed format, scores and their tissues were selected from the AbSplice_DNA fields and maximum scores, and then calculated using a custom Python script, which can be found in the makeDoc from our GitHub repository. SpliceAI The data were downloaded from Illumina. The spliceAI scores are represented in the VCF INFO field as SpliceAI=G|OR4F5|0.01|0.00|0.00|0.00|-32|49|-40|-31 Here, the pipe-separated fields contain ALT allele Gene name Acceptor gain score Acceptor loss score Donor gain score Donor loss score Relative location of affected cryptic acceptor Relative location of affected acceptor Relative location of affected cryptic donor Relative location of affected donor Since most of the values are 0 or almost 0, we selected only those variants with a score equal to or greater than 0.02. The complete processing of this track can be found in the makedoc. SpliceAI Wildtype Data was provided by the Michael Hiller lab. SpliceAI was run on the entire genome reference chromosomes. Since the algorithm does not know where transcripts start or end, the scores can differ from those on other websites, especially for splice sites before the last exon or around the first exon. SpliceVarDB The data was converted by Patricia Sullivan from SpliceVarDB to bigLolly format, and the UCSC Browser staff downloaded it for display. Data Access Precomputed AbSplice-DNA scores in all 49 GTEx tissues are available at Zenodo. License The SpliceAI data is not available for download from the Genome Browser. The raw data can be found directly on Illumina. FOR ACADEMIC AND NOT-FOR-PROFIT RESEARCH USE ONLY. The SpliceAI scores are made available by Illumina only for academic or not-for-profit research only. By accessing the SpliceAI data, you acknowledge and agree that you may only use this data for your own personal academic or not-for-profit research only, and not for any other purposes. You may not use this data for any for-profit, clinical, or other commercial purpose without obtaining a commercial license from Illumina, Inc. The raw data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. For automated download and analysis, the genome annotation is stored in a bigBed or a bigWig file that can be downloaded from our download server. Individual regions or the whole genome annotation can be obtained using our tools, e.g. bigBedToBed http://hgdownload.soe.ucsc.edu/gbdb/hg19/splicevardb/SVADB.bb -chrom=chr21 -start=0 -end=100000000 stdout bigWigToBedGraph -chrom=chr1 -start=100000 -end=100500 http://hgdownload.soe.ucsc.edu/gbdb/hg38/bbi/spliceAi/wildtype/spliceAiAcceptorMinus.bw stdout These tools can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. Credits Thanks to Illumina for making SpliceAI available, both the model and the precomputed data files. Thanks to Francois Lecoquierre from the University of Oxford, Jean-Madeleine de Sainte Agathe from Institut Pasteur Paris, and Michael Hiller from the Senckenberg Museum Frankfurt for suggesting and then creating the SpliceAI Wildtype annotations. Thanks to Nils Wagner for helpful comments and suggestions for the AbSplice track. Thanks to the SpliceVarDB team for converting the data into our data formats. References Jaganathan K, Kyriazopoulou Panagiotopoulou S, McRae JF, Darbandi SF, Knowles D, Li YI, Kosmicki JA, Arbelaez J, Cui W, Schwartz GB et al. Predicting Splicing from Primary Sequence with Deep Learning. Cell. 2019 Jan 24;176(3):535-548.e24. PMID: 30661751 Sullivan PJ, Quinn JMW, Wu W, Pinese M, Cowley MJ. SpliceVarDB: A comprehensive database of experimentally validated human splicing variants. Am J Hum Genet. 2024 Oct 3;111(10):2164-2175. PMID: 39226898; PMC: PMC11480807 Wagner N, &#199;elik MH, H&#246;lzlwimmer FR, Mertes C, Prokisch H, Y&#233;pez VA, Gagneur J. Aberrant splicing prediction across human tissues. Nat Genet. 2023 May;55(5):861-870. PMID: 37142848 Walker LC, Hoya M, Wiggins GAR, Lindy A, Vincent LM, Parsons MT, Canson DM, Bis-Brewer D, Cass A, Tchourbanov A et al. Using the ACMG/AMP framework to capture evidence related to predicted and observed impact on splicing: Recommendations from the ClinGen SVI Splicing Subgroup. Am J Hum Genet. 2023 Jul 6;110(7):1046-1067. PMID: 37352859; PMC: PMC10357475 
spliceAiDonorMinus SpliceAI Donor Minus SpliceAI Splice Donor Sites, Minus Strand Phenotypes, Variants, and Literature 
spliceAiDonorPlus SpliceAI Donor Plus SpliceAI Splice Donor Sites, Plus Strand Phenotypes, Variants, and Literature 
spliceAiAccMinus SpliceAI Acceptor Minus SpliceAI Splice Acceptor Sites, Minus Strand Phenotypes, Variants, and Literature 
spliceAiAccPlus SpliceAI Acceptor Plus SpliceAI Splice Acceptor Sites, Plus Strand Phenotypes, Variants, and Literature 
TSS_activity_read_counts TSS activity - read counts FANTOM5: TSS activity per sample read counts Regulation Description The FANTOM5 track shows mapped transcription start sites (TSS) and their usage in primary cells, cell lines, and tissues to produce a comprehensive overview of gene expression across the human body by using single molecule sequencing. Display Conventions and Configuration Items in this track are colored according to their strand orientation. Blue indicates alignment to the negative strand, and red indicates alignment to the positive strand. Methods Protocol Individual biological states are profiled by HeliScopeCAGE, which is a variation of the CAGE (Cap Analysis Gene Expression) protocol based on a single molecule sequencer. The standard protocol requiring 5 &micro;g of total RNA as a starting material is referred to as hCAGE, and an optimized version for a lower quantity (~ 100 ng) is referred to as LQhCAGE (Kanamori-Katyama et al. 2011). hCAGE LQhCAGE Samples Transcription start sites (TSSs) were mapped and their usage in human and mouse primary cells, cell lines, and tissues was to produce a comprehensive overview of mammalian gene expression across the human body. 5&prime;-end of the mapped CAGE reads are counted at a single base pair resolution (CTSS, CAGE tag starting sites) on the genomic coordinates, which represent TSS activities in the sample. Individual samples shown in "TSS activity" tracks are grouped as below. Primary cell Tissue Cell Line Time course Fractionation TSS peaks TSS (CAGE) peaks across the panel of the biological states (samples) are identified by DPI (decomposition based peak identification, Forrest et al. 2014), where each of the peaks consists of neighboring and related TSSs. The peaks are used as anchors to define promoters and units of promoter-level expression analysis. Two subsets of the peaks are defined based on evidence of read counts, depending on scopes of subsequent analyses, and the first subset (referred as a robust set of the peaks, thresholded for expression analysis is shown as TSS peaks. They are named "p#@GENE_SYMBOL" if associated with 5'-end of known genes, or "p@CHROM:START..END,STRAND" otherwise. The summary tracks consist of the TSS (CAGE) peaks and summary profiles of TSS activities (total and maximum values). The summary track consists of the following tracks. TSS (CAGE) peaks the robust peaks TSS summary profiles Total counts and TPM (tags per million) in all the samples Maximum counts and TPM among the samples TSS activity 5&prime;-end of the mapped CAGE reads are counted at a single base pair resolution (CTSS, CAGE tag starting sites) on the genomic coordinates, which represent TSS activities in the sample. The read counts tracks indicate raw counts of CAGE reads, and the TPM tracks indicate normalized counts as TPM (tags per million). Categories of individual samples - Cell Line hCAGE - Cell Line LQhCAGE - fractionation hCAGE - Primary cell hCAGE - Primary cell LQhCAGE - Time course hCAGE - Tissue hCAGE Data Access FANTOM5 data can be explored interactively with the Table Browser and cross-referenced with the Data Integrator. For programmatic access, the track can be accessed using the Genome Browser&apos;s REST API. ReMap annotations can be downloaded from the Genome Browser's download server as a bigBed file. This compressed binary format can be remotely queried through command line utilities. Please note that some of the download files can be quite large. The FANTOM5 reprocessed data can be found and downloaded on the FANTOM website. Credits Thanks to the FANTOM5 consortium, the Large Scale Data Managing Unit and Preventive Medicine and Applied Genomics Unit, the Center for Integrative Medical Sciences (IMS), and RIKEN for providing this data and its analysis. References FANTOM Consortium and the RIKEN PMI and CLST (DGT), Forrest AR, Kawaji H, Rehli M, Baillie JK, de Hoon MJ, Haberle V, Lassmann T, Kulakovskiy IV, Lizio M et al. A promoter-level mammalian expression atlas. Nature. 2014 Mar 27;507(7493):462-70. PMID: 24670764; PMC: PMC4529748 Kanamori-Katayama M, Itoh M, Kawaji H, Lassmann T, Katayama S, Kojima M, Bertin N, Kaiho A, Ninomiya N, Daub CO et al. Unamplified cap analysis of gene expression on a single-molecule sequencer. Genome Res. 2011 Jul;21(7):1150-9. PMID: 21596820; PMC: PMC3129257 Lizio M, Harshbarger J, Shimoji H, Severin J, Kasukawa T, Sahin S, Abugessaisa I, Fukuda S, Hori F, Ishikawa-Kato S et al. Gateways to the FANTOM5 promoter level mammalian expression atlas. Genome Biol. 2015 Jan 5;16(1):22. PMID: 25723102; PMC: PMC4310165 
VeinAdult_CNhs12844_ctss_rev VeinAdult- vein, adult_CNhs12844_10191-103E2_reverse Regulation 
VeinAdult_CNhs12844_ctss_fwd VeinAdult+ vein, adult_CNhs12844_10191-103E2_forward Regulation 
VaginaAdult_CNhs12854_ctss_rev VaginaAdult- vagina, adult_CNhs12854_10204-103F6_reverse Regulation 
VaginaAdult_CNhs12854_ctss_fwd VaginaAdult+ vagina, adult_CNhs12854_10204-103F6_forward Regulation 
UterusFetalDonor1_CNhs11763_ctss_rev UterusFetalD1- uterus, fetal, donor1_CNhs11763_10055-101H1_reverse Regulation 
UterusFetalDonor1_CNhs11763_ctss_fwd UterusFetalD1+ uterus, fetal, donor1_CNhs11763_10055-101H1_forward Regulation 
UterusAdultPool1_CNhs11676_ctss_rev UterusAdultPl1- uterus, adult, pool1_CNhs11676_10100-102D1_reverse Regulation 
UterusAdultPool1_CNhs11676_ctss_fwd UterusAdultPl1+ uterus, adult, pool1_CNhs11676_10100-102D1_forward Regulation 
UrethraDonor2_CNhs13464_ctss_rev UrethraD2- Urethra, donor2_CNhs13464_10319-105A4_reverse Regulation 
UrethraDonor2_CNhs13464_ctss_fwd UrethraD2+ Urethra, donor2_CNhs13464_10319-105A4_forward Regulation 
UniversalRNAHumanNormalTissuesBiochainPool1_CNhs10612_ctss_rev UniversalRnaNormalTissuesBiochainPl1- Universal RNA - Human Normal Tissues Biochain, pool1_CNhs10612_10007-101B4_reverse Regulation 
UniversalRNAHumanNormalTissuesBiochainPool1_CNhs10612_ctss_fwd UniversalRnaNormalTissuesBiochainPl1+ Universal RNA - Human Normal Tissues Biochain, pool1_CNhs10612_10007-101B4_forward Regulation 
UmbilicalCordFetalDonor1_CNhs11765_ctss_rev UmbilicalCordFetalD1- umbilical cord, fetal, donor1_CNhs11765_10057-101H3_reverse Regulation 
UmbilicalCordFetalDonor1_CNhs11765_ctss_fwd UmbilicalCordFetalD1+ umbilical cord, fetal, donor1_CNhs11765_10057-101H3_forward Regulation 
TracheaFetalDonor1_CNhs11766_ctss_rev TracheaFetalD1- trachea, fetal, donor1_CNhs11766_10058-101H4_reverse Regulation 
TracheaFetalDonor1_CNhs11766_ctss_fwd TracheaFetalD1+ trachea, fetal, donor1_CNhs11766_10058-101H4_forward Regulation 
TracheaAdultPool1_CNhs10635_ctss_rev TracheaAdultPl1- trachea, adult, pool1_CNhs10635_10029-101E2_reverse Regulation 
TracheaAdultPool1_CNhs10635_ctss_fwd TracheaAdultPl1+ trachea, adult, pool1_CNhs10635_10029-101E2_forward Regulation 
TonsilAdultPool1_CNhs10654_ctss_rev TonsilAdultPl1- tonsil, adult, pool1_CNhs10654_10047-101G2_reverse Regulation 
TonsilAdultPool1_CNhs10654_ctss_fwd TonsilAdultPl1+ tonsil, adult, pool1_CNhs10654_10047-101G2_forward Regulation 
TongueFetalDonor1_CNhs11768_ctss_rev TongueFetalD1- tongue, fetal, donor1_CNhs11768_10059-101H5_reverse Regulation 
TongueFetalDonor1_CNhs11768_ctss_fwd TongueFetalD1+ tongue, fetal, donor1_CNhs11768_10059-101H5_forward Regulation 
TongueEpidermisFungiformPapillaeDonor1_CNhs13460_ctss_rev TongueEpidermisD1- tongue epidermis (fungiform papillae), donor1_CNhs13460_10288-104F9_reverse Regulation 
TongueEpidermisFungiformPapillaeDonor1_CNhs13460_ctss_fwd TongueEpidermisD1+ tongue epidermis (fungiform papillae), donor1_CNhs13460_10288-104F9_forward Regulation 
TongueAdult_CNhs12853_ctss_rev TongueAdult- tongue, adult_CNhs12853_10203-103F5_reverse Regulation 
TongueAdult_CNhs12853_ctss_fwd TongueAdult+ tongue, adult_CNhs12853_10203-103F5_forward Regulation 
ThyroidFetalDonor1_CNhs11769_ctss_rev ThyroidFetalD1- thyroid, fetal, donor1_CNhs11769_10060-101H6_reverse Regulation 
ThyroidFetalDonor1_CNhs11769_ctss_fwd ThyroidFetalD1+ thyroid, fetal, donor1_CNhs11769_10060-101H6_forward Regulation 
ThyroidAdultPool1_CNhs10634_ctss_rev ThyroidAdultPl1- thyroid, adult, pool1_CNhs10634_10028-101E1_reverse Regulation 
ThyroidAdultPool1_CNhs10634_ctss_fwd ThyroidAdultPl1+ thyroid, adult, pool1_CNhs10634_10028-101E1_forward Regulation 
ThymusFetalPool1_CNhs10650_ctss_rev ThymusFetalPl1- thymus, fetal, pool1_CNhs10650_10043-101F7_reverse Regulation 
ThymusFetalPool1_CNhs10650_ctss_fwd ThymusFetalPl1+ thymus, fetal, pool1_CNhs10650_10043-101F7_forward Regulation 
ThymusAdultPool1_CNhs10633_ctss_rev ThymusAdultPl1- thymus, adult, pool1_CNhs10633_10027-101D9_reverse Regulation 
ThymusAdultPool1_CNhs10633_ctss_fwd ThymusAdultPl1+ thymus, adult, pool1_CNhs10633_10027-101D9_forward Regulation 
ThroatFetalDonor1_CNhs11770_ctss_rev ThroatFetalD1- throat, fetal, donor1_CNhs11770_10061-101H7_reverse Regulation 
ThroatFetalDonor1_CNhs11770_ctss_fwd ThroatFetalD1+ throat, fetal, donor1_CNhs11770_10061-101H7_forward Regulation 
ThroatAdult_CNhs12858_ctss_rev ThroatAdult- throat, adult_CNhs12858_10209-103G2_reverse Regulation 
ThroatAdult_CNhs12858_ctss_fwd ThroatAdult+ throat, adult_CNhs12858_10209-103G2_forward Regulation 
ThalamusNewbornDonor10223_CNhs14084_ctss_rev ThalamusNbD10223- thalamus, newborn, donor10223_CNhs14084_10366-105F6_reverse Regulation 
ThalamusNewbornDonor10223_CNhs14084_ctss_fwd ThalamusNbD10223+ thalamus, newborn, donor10223_CNhs14084_10366-105F6_forward Regulation 
ThalamusAdultDonor10258TechRep2_CNhs14551_ctss_rev ThalamusAdultD10258Tr2- thalamus, adult, donor10258, tech_rep2_CNhs14551_10370-105G1_reverse Regulation 
ThalamusAdultDonor10258TechRep2_CNhs14551_ctss_fwd ThalamusAdultD10258Tr2+ thalamus, adult, donor10258, tech_rep2_CNhs14551_10370-105G1_forward Regulation 
ThalamusAdultDonor10258TechRep1_CNhs14223_ctss_rev ThalamusAdultD10258Tr1- thalamus, adult, donor10258, tech_rep1_CNhs14223_10370-105G1_reverse Regulation 
ThalamusAdultDonor10258TechRep1_CNhs14223_ctss_fwd ThalamusAdultD10258Tr1+ thalamus, adult, donor10258, tech_rep1_CNhs14223_10370-105G1_forward Regulation 
ThalamusAdultDonor10252_CNhs12314_ctss_rev ThalamusAdultD10252- thalamus, adult, donor10252_CNhs12314_10154-103A1_reverse Regulation 
ThalamusAdultDonor10252_CNhs12314_ctss_fwd ThalamusAdultD10252+ thalamus, adult, donor10252_CNhs12314_10154-103A1_forward Regulation 
ThalamusAdultDonor10196_CNhs13794_ctss_rev ThalamusAdultD10196- thalamus - adult, donor10196_CNhs13794_10168-103B6_reverse Regulation 
ThalamusAdultDonor10196_CNhs13794_ctss_fwd ThalamusAdultD10196+ thalamus - adult, donor10196_CNhs13794_10168-103B6_forward Regulation 
TestisAdultPool2_CNhs12998_ctss_rev TestisAdultPl2- testis, adult, pool2_CNhs12998_10096-102C6_reverse Regulation 
TestisAdultPool2_CNhs12998_ctss_fwd TestisAdultPl2+ testis, adult, pool2_CNhs12998_10096-102C6_forward Regulation 
TestisAdultPool1_CNhs10632_ctss_rev TestisAdultPl1- testis, adult, pool1_CNhs10632_10026-101D8_reverse Regulation 
TestisAdultPool1_CNhs10632_ctss_fwd TestisAdultPl1+ testis, adult, pool1_CNhs10632_10026-101D8_forward Regulation 
TemporalLobeFetalDonor1TechRep2_CNhs12996_ctss_rev TemporalLobeFetalD1Tr2- temporal lobe, fetal, donor1, tech_rep2_CNhs12996_10063-101H9_reverse Regulation 
TemporalLobeFetalDonor1TechRep2_CNhs12996_ctss_fwd TemporalLobeFetalD1Tr2+ temporal lobe, fetal, donor1, tech_rep2_CNhs12996_10063-101H9_forward Regulation 
TemporalLobeFetalDonor1TechRep1_CNhs11772_ctss_rev TemporalLobeFetalD1Tr1- temporal lobe, fetal, donor1, tech_rep1_CNhs11772_10063-101H9_reverse Regulation 
TemporalLobeFetalDonor1TechRep1_CNhs11772_ctss_fwd TemporalLobeFetalD1Tr1+ temporal lobe, fetal, donor1, tech_rep1_CNhs11772_10063-101H9_forward Regulation 
TemporalLobeAdultPool1_CNhs10637_ctss_rev TemporalLobeAdultPl1- temporal lobe, adult, pool1_CNhs10637_10031-101E4_reverse Regulation 
TemporalLobeAdultPool1_CNhs10637_ctss_fwd TemporalLobeAdultPl1+ temporal lobe, adult, pool1_CNhs10637_10031-101E4_forward Regulation 
SubstantiaNigraNewbornDonor10223_CNhs14076_ctss_rev SubstantiaNigraNbD10223- substantia nigra, newborn, donor10223_CNhs14076_10358-105E7_reverse Regulation 
SubstantiaNigraNewbornDonor10223_CNhs14076_ctss_fwd SubstantiaNigraNbD10223+ substantia nigra, newborn, donor10223_CNhs14076_10358-105E7_forward Regulation 
SubstantiaNigraAdultDonor10258_CNhs14224_ctss_rev SubstantiaNigraAdultD10258- substantia nigra, adult, donor10258_CNhs14224_10371-105G2_reverse Regulation 
SubstantiaNigraAdultDonor10258_CNhs14224_ctss_fwd SubstantiaNigraAdultD10258+ substantia nigra, adult, donor10258_CNhs14224_10371-105G2_forward Regulation 
SubstantiaNigraAdultDonor10252_CNhs12318_ctss_rev SubstantiaNigraAdultD10252- substantia nigra, adult, donor10252_CNhs12318_10158-103A5_reverse Regulation 
SubstantiaNigraAdultDonor10252_CNhs12318_ctss_fwd SubstantiaNigraAdultD10252+ substantia nigra, adult, donor10252_CNhs12318_10158-103A5_forward Regulation 
SubstantiaNigraAdultDonor10196_CNhs13803_ctss_rev SubstantiaNigraAdultD10196- substantia nigra - adult, donor10196_CNhs13803_10178-103C7_reverse Regulation 
SubstantiaNigraAdultDonor10196_CNhs13803_ctss_fwd SubstantiaNigraAdultD10196+ substantia nigra - adult, donor10196_CNhs13803_10178-103C7_forward Regulation 
SubmaxillaryGlandAdult_CNhs12852_ctss_rev SubmaxillaryGlandAdult- submaxillary gland, adult_CNhs12852_10202-103F4_reverse Regulation 
SubmaxillaryGlandAdult_CNhs12852_ctss_fwd SubmaxillaryGlandAdult+ submaxillary gland, adult_CNhs12852_10202-103F4_forward Regulation 
StomachFetalDonor1_CNhs11771_ctss_rev StomachFetalD1- stomach, fetal, donor1_CNhs11771_10062-101H8_reverse Regulation 
StomachFetalDonor1_CNhs11771_ctss_fwd StomachFetalD1+ stomach, fetal, donor1_CNhs11771_10062-101H8_forward Regulation 
SpleenFetalPool1_CNhs10651_ctss_rev SpleenFetalPl1- spleen, fetal, pool1_CNhs10651_10044-101F8_reverse Regulation 
SpleenFetalPool1_CNhs10651_ctss_fwd SpleenFetalPl1+ spleen, fetal, pool1_CNhs10651_10044-101F8_forward Regulation 
SpleenAdultPool1_CNhs10631_ctss_rev SpleenAdultPl1- spleen, adult, pool1_CNhs10631_10025-101D7_reverse Regulation 
SpleenAdultPool1_CNhs10631_ctss_fwd SpleenAdultPl1+ spleen, adult, pool1_CNhs10631_10025-101D7_forward Regulation 
SpinalCordNewbornDonor10223_CNhs14077_ctss_rev SpinalCordNbD10223- spinal cord, newborn, donor10223_CNhs14077_10359-105E8_reverse Regulation 
SpinalCordNewbornDonor10223_CNhs14077_ctss_fwd SpinalCordNbD10223+ spinal cord, newborn, donor10223_CNhs14077_10359-105E8_forward Regulation 
SpinalCordFetalDonor1_CNhs11764_ctss_rev SpinalCordFetalD1- spinal cord, fetal, donor1_CNhs11764_10056-101H2_reverse Regulation 
SpinalCordFetalDonor1_CNhs11764_ctss_fwd SpinalCordFetalD1+ spinal cord, fetal, donor1_CNhs11764_10056-101H2_forward Regulation 
SpinalCordAdultDonor10258_CNhs14222_ctss_rev SpinalCordAdultD10258- spinal cord, adult, donor10258_CNhs14222_10369-105F9_reverse Regulation 
SpinalCordAdultDonor10258_CNhs14222_ctss_fwd SpinalCordAdultD10258+ spinal cord, adult, donor10258_CNhs14222_10369-105F9_forward Regulation 
SpinalCordAdultDonor10252_CNhs12227_ctss_rev SpinalCordAdultD10252- spinal cord, adult, donor10252_CNhs12227_10159-103A6_reverse Regulation 
SpinalCordAdultDonor10252_CNhs12227_ctss_fwd SpinalCordAdultD10252+ spinal cord, adult, donor10252_CNhs12227_10159-103A6_forward Regulation 
SpinalCordAdultDonor10196_CNhs13807_ctss_rev SpinalCordAdultD10196- spinal cord - adult, donor10196_CNhs13807_10181-103D1_reverse Regulation 
SpinalCordAdultDonor10196_CNhs13807_ctss_fwd SpinalCordAdultD10196+ spinal cord - adult, donor10196_CNhs13807_10181-103D1_forward Regulation 
SmoothMuscleAdultPool1_CNhs11755_ctss_rev SmoothMuscleAdultPl1- smooth muscle, adult, pool1_CNhs11755_10048-101G3_reverse Regulation 
SmoothMuscleAdultPool1_CNhs11755_ctss_fwd SmoothMuscleAdultPl1+ smooth muscle, adult, pool1_CNhs11755_10048-101G3_forward Regulation 
SmallIntestineFetalDonor1_CNhs11773_ctss_rev SmallIntestineFetalD1- small intestine, fetal, donor1_CNhs11773_10064-101I1_reverse Regulation 
SmallIntestineFetalDonor1_CNhs11773_ctss_fwd SmallIntestineFetalD1+ small intestine, fetal, donor1_CNhs11773_10064-101I1_forward Regulation 
SmallIntestineAdultPool1_CNhs10630_ctss_rev SmallIntestineAdultPl1- small intestine, adult, pool1_CNhs10630_10024-101D6_reverse Regulation 
SmallIntestineAdultPool1_CNhs10630_ctss_fwd SmallIntestineAdultPl1+ small intestine, adult, pool1_CNhs10630_10024-101D6_forward Regulation 
SkinPalmDonor1_CNhs13458_ctss_rev SkinPalmD1- Skin - palm, donor1_CNhs13458_10286-104F7_reverse Regulation 
SkinPalmDonor1_CNhs13458_ctss_fwd SkinPalmD1+ Skin - palm, donor1_CNhs13458_10286-104F7_forward Regulation 
SkinFetalDonor1_CNhs11774_ctss_rev SkinFetalD1- skin, fetal, donor1_CNhs11774_10065-101I2_reverse Regulation 
SkinFetalDonor1_CNhs11774_ctss_fwd SkinFetalD1+ skin, fetal, donor1_CNhs11774_10065-101I2_forward Regulation 
SkinAdultDonor1_CNhs11785_ctss_rev SkinAdultD1- skin, adult, donor1_CNhs11785_10074-102A2_reverse Regulation 
SkinAdultDonor1_CNhs11785_ctss_fwd SkinAdultD1+ skin, adult, donor1_CNhs11785_10074-102A2_forward Regulation 
SkeletalMuscleSoleusMuscleDonor1_CNhs13454_ctss_rev SkeletalMuscleSoleusMuscleD1- skeletal muscle - soleus muscle, donor1_CNhs13454_10282-104F3_reverse Regulation 
SkeletalMuscleSoleusMuscleDonor1_CNhs13454_ctss_fwd SkeletalMuscleSoleusMuscleD1+ skeletal muscle - soleus muscle, donor1_CNhs13454_10282-104F3_forward Regulation 
SkeletalMuscleFetalDonor1_CNhs11776_ctss_rev SkeletalMuscleFetalD1- skeletal muscle, fetal, donor1_CNhs11776_10066-101I3_reverse Regulation 
SkeletalMuscleFetalDonor1_CNhs11776_ctss_fwd SkeletalMuscleFetalD1+ skeletal muscle, fetal, donor1_CNhs11776_10066-101I3_forward Regulation 
SkeletalMuscleAdultPool1_CNhs10629_ctss_rev SkeletalMuscleAdultPl1- skeletal muscle, adult, pool1_CNhs10629_10023-101D5_reverse Regulation 
SkeletalMuscleAdultPool1_CNhs10629_ctss_fwd SkeletalMuscleAdultPl1+ skeletal muscle, adult, pool1_CNhs10629_10023-101D5_forward Regulation 
SeminalVesicleAdult_CNhs12851_ctss_rev SeminalVesicleAdult- seminal vesicle, adult_CNhs12851_10201-103F3_reverse Regulation 
SeminalVesicleAdult_CNhs12851_ctss_fwd SeminalVesicleAdult+ seminal vesicle, adult_CNhs12851_10201-103F3_forward Regulation 
SalivaryGlandAdultPool1_CNhs11677_ctss_rev SalivaryGlandAdultPl1- salivary gland, adult, pool1_CNhs11677_10093-102C3_reverse Regulation 
SalivaryGlandAdultPool1_CNhs11677_ctss_fwd SalivaryGlandAdultPl1+ salivary gland, adult, pool1_CNhs11677_10093-102C3_forward Regulation 
SABiosciencesXpressRefHumanUniversalTotalRNAPool1_CNhs10610_ctss_rev SabiosciencesXpressrefUniversalPl1- SABiosciences XpressRef Human Universal Total RNA, pool1_CNhs10610_10002-101A5_reverse Regulation 
SABiosciencesXpressRefHumanUniversalTotalRNAPool1_CNhs10610_ctss_fwd SabiosciencesXpressrefUniversalPl1+ SABiosciences XpressRef Human Universal Total RNA, pool1_CNhs10610_10002-101A5_forward Regulation 
RetinaAdultPool1_CNhs10636_ctss_rev RetinaAdultPl1- retina, adult, pool1_CNhs10636_10030-101E3_reverse Regulation 
RetinaAdultPool1_CNhs10636_ctss_fwd RetinaAdultPl1+ retina, adult, pool1_CNhs10636_10030-101E3_forward Regulation 
RectumFetalDonor1_CNhs11777_ctss_rev RectumFetalD1- rectum, fetal, donor1_CNhs11777_10067-101I4_reverse Regulation 
RectumFetalDonor1_CNhs11777_ctss_fwd RectumFetalD1+ rectum, fetal, donor1_CNhs11777_10067-101I4_forward Regulation 
PutamenNewbornDonor10223_CNhs14083_ctss_rev PutamenNbD10223- putamen, newborn, donor10223_CNhs14083_10365-105F5_reverse Regulation 
PutamenNewbornDonor10223_CNhs14083_ctss_fwd PutamenNbD10223+ putamen, newborn, donor10223_CNhs14083_10365-105F5_forward Regulation 
PutamenAdultDonor10258TechRep2_CNhs14618_ctss_rev PutamenAdultD10258Tr2- putamen, adult, donor10258, tech_rep2_CNhs14618_10372-105G3_reverse Regulation 
PutamenAdultDonor10258TechRep2_CNhs14618_ctss_fwd PutamenAdultD10258Tr2+ putamen, adult, donor10258, tech_rep2_CNhs14618_10372-105G3_forward Regulation 
PutamenAdultDonor10258TechRep1_CNhs14225_ctss_rev PutamenAdultD10258Tr1- putamen, adult, donor10258, tech_rep1_CNhs14225_10372-105G3_reverse Regulation 
PutamenAdultDonor10258TechRep1_CNhs14225_ctss_fwd PutamenAdultD10258Tr1+ putamen, adult, donor10258, tech_rep1_CNhs14225_10372-105G3_forward Regulation 
PutamenAdultDonor10252_CNhs13912_ctss_rev PutamenAdultD10252- putamen, adult, donor10252_CNhs13912_10152-102I8_reverse Regulation 
PutamenAdultDonor10252_CNhs13912_ctss_fwd PutamenAdultD10252+ putamen, adult, donor10252_CNhs13912_10152-102I8_forward Regulation 
PutamenAdultDonor10196_CNhs12324_ctss_rev PutamenAdultD10196- putamen, adult, donor10196_CNhs12324_10176-103C5_reverse Regulation 
PutamenAdultDonor10196_CNhs12324_ctss_fwd PutamenAdultD10196+ putamen, adult, donor10196_CNhs12324_10176-103C5_forward Regulation 
ProstateAdultPool1_CNhs10628_ctss_rev ProstateAdultPl1- prostate, adult, pool1_CNhs10628_10022-101D4_reverse Regulation 
ProstateAdultPool1_CNhs10628_ctss_fwd ProstateAdultPl1+ prostate, adult, pool1_CNhs10628_10022-101D4_forward Regulation 
PostcentralGyrusAdultPool1_CNhs10638_ctss_rev PostcentralGyrusAdultPl1- postcentral gyrus, adult, pool1_CNhs10638_10032-101E5_reverse Regulation 
PostcentralGyrusAdultPool1_CNhs10638_ctss_fwd PostcentralGyrusAdultPl1+ postcentral gyrus, adult, pool1_CNhs10638_10032-101E5_forward Regulation 
PonsAdultPool1_CNhs10640_ctss_rev PonsAdultPl1- pons, adult, pool1_CNhs10640_10033-101E6_reverse Regulation 
PonsAdultPool1_CNhs10640_ctss_fwd PonsAdultPl1+ pons, adult, pool1_CNhs10640_10033-101E6_forward Regulation 
PlacentaAdultPool1_CNhs10627_ctss_rev PlacentaAdultPl1- placenta, adult, pool1_CNhs10627_10021-101D3_reverse Regulation 
PlacentaAdultPool1_CNhs10627_ctss_fwd PlacentaAdultPl1+ placenta, adult, pool1_CNhs10627_10021-101D3_forward Regulation 
PituitaryGlandAdultDonor10258_CNhs14231_ctss_rev PituitaryGlandAdultD10258- pituitary gland, adult, donor10258_CNhs14231_10378-105G9_reverse Regulation 
PituitaryGlandAdultDonor10258_CNhs14231_ctss_fwd PituitaryGlandAdultD10258+ pituitary gland, adult, donor10258_CNhs14231_10378-105G9_forward Regulation 
PituitaryGlandAdultDonor10252_CNhs12229_ctss_rev PituitaryGlandAdultD10252- pituitary gland, adult, donor10252_CNhs12229_10162-103A9_reverse Regulation 
PituitaryGlandAdultDonor10252_CNhs12229_ctss_fwd PituitaryGlandAdultD10252+ pituitary gland, adult, donor10252_CNhs12229_10162-103A9_forward Regulation 
PituitaryGlandAdultDonor10196_CNhs13805_ctss_rev PituitaryGlandAdultD10196- pituitary gland - adult, donor10196_CNhs13805_10180-103C9_reverse Regulation 
PituitaryGlandAdultDonor10196_CNhs13805_ctss_fwd PituitaryGlandAdultD10196+ pituitary gland - adult, donor10196_CNhs13805_10180-103C9_forward Regulation 
PinealGlandAdultDonor10258_CNhs14230_ctss_rev PinealGlandAdultD10258- pineal gland, adult, donor10258_CNhs14230_10377-105G8_reverse Regulation 
PinealGlandAdultDonor10258_CNhs14230_ctss_fwd PinealGlandAdultD10258+ pineal gland, adult, donor10258_CNhs14230_10377-105G8_forward Regulation 
PinealGlandAdultDonor10252_CNhs12228_ctss_rev PinealGlandAdultD10252- pineal gland, adult, donor10252_CNhs12228_10160-103A7_reverse Regulation 
PinealGlandAdultDonor10252_CNhs12228_ctss_fwd PinealGlandAdultD10252+ pineal gland, adult, donor10252_CNhs12228_10160-103A7_forward Regulation 
PinealGlandAdultDonor10196_CNhs13804_ctss_rev PinealGlandAdultD10196- pineal gland - adult, donor10196_CNhs13804_10179-103C8_reverse Regulation 
PinealGlandAdultDonor10196_CNhs13804_ctss_fwd PinealGlandAdultD10196+ pineal gland - adult, donor10196_CNhs13804_10179-103C8_forward Regulation 
PenisAdult_CNhs12850_ctss_rev PenisAdult- penis, adult_CNhs12850_10200-103F2_reverse Regulation 
PenisAdult_CNhs12850_ctss_fwd PenisAdult+ penis, adult_CNhs12850_10200-103F2_forward Regulation 
ParotidGlandAdult_CNhs12849_ctss_rev ParotidGlandAdult- parotid gland, adult_CNhs12849_10199-103F1_reverse Regulation 
ParotidGlandAdult_CNhs12849_ctss_fwd ParotidGlandAdult+ parotid gland, adult_CNhs12849_10199-103F1_forward Regulation 
ParietalLobeNewbornDonor10223_CNhs14074_ctss_rev ParietalLobeNbD10223- parietal lobe, newborn, donor10223_CNhs14074_10356-105E5_reverse Regulation 
ParietalLobeNewbornDonor10223_CNhs14074_ctss_fwd ParietalLobeNbD10223+ parietal lobe, newborn, donor10223_CNhs14074_10356-105E5_forward Regulation 
ParietalLobeFetalDonor1_CNhs11782_ctss_rev ParietalLobeFetalD1- parietal lobe, fetal, donor1_CNhs11782_10072-101I9_reverse Regulation 
ParietalLobeFetalDonor1_CNhs11782_ctss_fwd ParietalLobeFetalD1+ parietal lobe, fetal, donor1_CNhs11782_10072-101I9_forward Regulation 
ParietalLobeAdultPool1_CNhs10641_ctss_rev ParietalLobeAdultPl1- parietal lobe, adult, pool1_CNhs10641_10034-101E7_reverse Regulation 
ParietalLobeAdultPool1_CNhs10641_ctss_fwd ParietalLobeAdultPl1+ parietal lobe, adult, pool1_CNhs10641_10034-101E7_forward Regulation 
ParietalLobeAdultDonor10252_CNhs12317_ctss_rev ParietalLobeAdultD10252- parietal lobe, adult, donor10252_CNhs12317_10157-103A4_reverse Regulation 
ParietalLobeAdultDonor10252_CNhs12317_ctss_fwd ParietalLobeAdultD10252+ parietal lobe, adult, donor10252_CNhs12317_10157-103A4_forward Regulation 
ParietalLobeAdultDonor10196_CNhs13797_ctss_rev ParietalLobeAdultD10196- parietal lobe - adult, donor10196_CNhs13797_10171-103B9_reverse Regulation 
ParietalLobeAdultDonor10196_CNhs13797_ctss_fwd ParietalLobeAdultD10196+ parietal lobe - adult, donor10196_CNhs13797_10171-103B9_forward Regulation 
ParietalCortexAdultDonor10258_CNhs14226_ctss_rev ParietalCortexAdultD10258- parietal cortex, adult, donor10258_CNhs14226_10373-105G4_reverse Regulation 
ParietalCortexAdultDonor10258_CNhs14226_ctss_fwd ParietalCortexAdultD10258+ parietal cortex, adult, donor10258_CNhs14226_10373-105G4_forward Regulation 
ParacentralGyrusAdultPool1_CNhs10642_ctss_rev ParacentralGyrusAdultPl1- paracentral gyrus, adult, pool1_CNhs10642_10035-101E8_reverse Regulation 
ParacentralGyrusAdultPool1_CNhs10642_ctss_fwd ParacentralGyrusAdultPl1+ paracentral gyrus, adult, pool1_CNhs10642_10035-101E8_forward Regulation 
PancreasAdultDonor1_CNhs11756_ctss_rev PancreasAdultD1- pancreas, adult, donor1_CNhs11756_10049-101G4_reverse Regulation 
PancreasAdultDonor1_CNhs11756_ctss_fwd PancreasAdultD1+ pancreas, adult, donor1_CNhs11756_10049-101G4_forward Regulation 
OvaryAdultPool1_CNhs10626_ctss_rev OvaryAdultPl1- ovary, adult, pool1_CNhs10626_10020-101D2_reverse Regulation 
OvaryAdultPool1_CNhs10626_ctss_fwd OvaryAdultPl1+ ovary, adult, pool1_CNhs10626_10020-101D2_forward Regulation 
OpticNerveDonor1_CNhs13449_ctss_rev OpticNerveD1- optic nerve, donor1_CNhs13449_10277-104E7_reverse Regulation 
OpticNerveDonor1_CNhs13449_ctss_fwd OpticNerveD1+ optic nerve, donor1_CNhs13449_10277-104E7_forward Regulation 
OlfactoryRegionAdult_CNhs12611_ctss_rev OlfactoryRegionAdult- olfactory region, adult_CNhs12611_10195-103E6_reverse Regulation 
OlfactoryRegionAdult_CNhs12611_ctss_fwd OlfactoryRegionAdult+ olfactory region, adult_CNhs12611_10195-103E6_forward Regulation 
OccipitalPoleAdultPool1_CNhs10643_ctss_rev OccipitalPoleAdultPl1- occipital pole, adult, pool1_CNhs10643_10036-101E9_reverse Regulation 
OccipitalPoleAdultPool1_CNhs10643_ctss_fwd OccipitalPoleAdultPl1+ occipital pole, adult, pool1_CNhs10643_10036-101E9_forward Regulation 
OccipitalLobeFetalDonor1_CNhs11784_ctss_rev OccipitalLobeFetalD1- occipital lobe, fetal, donor1_CNhs11784_10073-102A1_reverse Regulation 
OccipitalLobeFetalDonor1_CNhs11784_ctss_fwd OccipitalLobeFetalD1+ occipital lobe, fetal, donor1_CNhs11784_10073-102A1_forward Regulation 
OccipitalLobeAdultDonor1_CNhs11787_ctss_rev OccipitalLobeAdultD1- occipital lobe, adult, donor1_CNhs11787_10076-102A4_reverse Regulation 
OccipitalLobeAdultDonor1_CNhs11787_ctss_fwd OccipitalLobeAdultD1+ occipital lobe, adult, donor1_CNhs11787_10076-102A4_forward Regulation 
OccipitalCortexNewbornDonor10223_CNhs14073_ctss_rev OccipitalCortexNbD10223- occipital cortex, newborn, donor10223_CNhs14073_10355-105E4_reverse Regulation 
OccipitalCortexNewbornDonor10223_CNhs14073_ctss_fwd OccipitalCortexNbD10223+ occipital cortex, newborn, donor10223_CNhs14073_10355-105E4_forward Regulation 
OccipitalCortexAdultDonor10252_CNhs12320_ctss_rev OccipitalCortexAdultD10252- occipital cortex, adult, donor10252_CNhs12320_10163-103B1_reverse Regulation 
OccipitalCortexAdultDonor10252_CNhs12320_ctss_fwd OccipitalCortexAdultD10252+ occipital cortex, adult, donor10252_CNhs12320_10163-103B1_forward Regulation 
OccipitalCortexAdultDonor10196_CNhs13798_ctss_rev OccipitalCortexAdultD10196- occipital cortex - adult, donor10196_CNhs13798_10172-103C1_reverse Regulation 
OccipitalCortexAdultDonor10196_CNhs13798_ctss_fwd OccipitalCortexAdultD10196+ occipital cortex - adult, donor10196_CNhs13798_10172-103C1_forward Regulation 
NucleusAccumbensAdultPool1_CNhs10644_ctss_rev NucleusAccumbensAdultPl1- nucleus accumbens, adult, pool1_CNhs10644_10037-101F1_reverse Regulation 
NucleusAccumbensAdultPool1_CNhs10644_ctss_fwd NucleusAccumbensAdultPl1+ nucleus accumbens, adult, pool1_CNhs10644_10037-101F1_forward Regulation 
MedullaOblongataNewbornDonor10223_CNhs14079_ctss_rev MedullaOblongataNbD10223- medulla oblongata, newborn, donor10223_CNhs14079_10361-105F1_reverse Regulation 
MedullaOblongataNewbornDonor10223_CNhs14079_ctss_fwd MedullaOblongataNbD10223+ medulla oblongata, newborn, donor10223_CNhs14079_10361-105F1_forward Regulation 
MedullaOblongataAdultPool1_CNhs10645_ctss_rev MedullaOblongataAdultPl1- medulla oblongata, adult, pool1_CNhs10645_10038-101F2_reverse Regulation 
MedullaOblongataAdultPool1_CNhs10645_ctss_fwd MedullaOblongataAdultPl1+ medulla oblongata, adult, pool1_CNhs10645_10038-101F2_forward Regulation 
MedullaOblongataAdultDonor10252_CNhs12315_ctss_rev MedullaOblongataAdultD10252- medulla oblongata, adult, donor10252_CNhs12315_10155-103A2_reverse Regulation 
MedullaOblongataAdultDonor10252_CNhs12315_ctss_fwd MedullaOblongataAdultD10252+ medulla oblongata, adult, donor10252_CNhs12315_10155-103A2_forward Regulation 
MedullaOblongataAdultDonor10196_CNhs13800_ctss_rev MedullaOblongataAdultD10196- medulla oblongata - adult, donor10196_CNhs13800_10174-103C3_reverse Regulation 
MedullaOblongataAdultDonor10196_CNhs13800_ctss_fwd MedullaOblongataAdultD10196+ medulla oblongata - adult, donor10196_CNhs13800_10174-103C3_forward Regulation 
MedialTemporalGyrusNewbornDonor10223_CNhs14070_ctss_rev MedialTemporalGyrusNbD10223- medial temporal gyrus, newborn, donor10223_CNhs14070_10353-105E2_reverse Regulation 
MedialTemporalGyrusNewbornDonor10223_CNhs14070_ctss_fwd MedialTemporalGyrusNbD10223+ medial temporal gyrus, newborn, donor10223_CNhs14070_10353-105E2_forward Regulation 
MedialTemporalGyrusAdultDonor10258TechRep2_CNhs14552_ctss_rev MedialTemporalGyrusAdultD10258Tr2- medial temporal gyrus, adult, donor10258, tech_rep2_CNhs14552_10376-105G7_reverse Regulation 
MedialTemporalGyrusAdultDonor10258TechRep2_CNhs14552_ctss_fwd MedialTemporalGyrusAdultD10258Tr2+ medial temporal gyrus, adult, donor10258, tech_rep2_CNhs14552_10376-105G7_forward Regulation 
MedialTemporalGyrusAdultDonor10258TechRep1_CNhs14229_ctss_rev MedialTemporalGyrusAdultD10258Tr1- medial temporal gyrus, adult, donor10258, tech_rep1_CNhs14229_10376-105G7_reverse Regulation 
MedialTemporalGyrusAdultDonor10258TechRep1_CNhs14229_ctss_fwd MedialTemporalGyrusAdultD10258Tr1+ medial temporal gyrus, adult, donor10258, tech_rep1_CNhs14229_10376-105G7_forward Regulation 
MedialTemporalGyrusAdultDonor10252_CNhs12316_ctss_rev MedialTemporalGyrusAdultD10252- medial temporal gyrus, adult, donor10252_CNhs12316_10156-103A3_reverse Regulation 
MedialTemporalGyrusAdultDonor10252_CNhs12316_ctss_fwd MedialTemporalGyrusAdultD10252+ medial temporal gyrus, adult, donor10252_CNhs12316_10156-103A3_forward Regulation 
MedialTemporalGyrusAdultDonor10196_CNhs13809_ctss_rev MedialTemporalGyrusAdultD10196- medial temporal gyrus - adult, donor10196_CNhs13809_10183-103D3_reverse Regulation 
MedialTemporalGyrusAdultDonor10196_CNhs13809_ctss_fwd MedialTemporalGyrusAdultD10196+ medial temporal gyrus - adult, donor10196_CNhs13809_10183-103D3_forward Regulation 
MedialFrontalGyrusNewbornDonor10223_CNhs14069_ctss_rev MedialFrontalGyrusNbD10223- medial frontal gyrus, newborn, donor10223_CNhs14069_10352-105E1_reverse Regulation 
MedialFrontalGyrusNewbornDonor10223_CNhs14069_ctss_fwd MedialFrontalGyrusNbD10223+ medial frontal gyrus, newborn, donor10223_CNhs14069_10352-105E1_forward Regulation 
MedialFrontalGyrusAdultDonor10258_CNhs14221_ctss_rev MedialFrontalGyrusAdultD10258- medial frontal gyrus, adult, donor10258_CNhs14221_10368-105F8_reverse Regulation 
MedialFrontalGyrusAdultDonor10258_CNhs14221_ctss_fwd MedialFrontalGyrusAdultD10258+ medial frontal gyrus, adult, donor10258_CNhs14221_10368-105F8_forward Regulation 
MedialFrontalGyrusAdultDonor10252_CNhs12310_ctss_rev MedialFrontalGyrusAdultD10252- medial frontal gyrus, adult, donor10252_CNhs12310_10150-102I6_reverse Regulation 
MedialFrontalGyrusAdultDonor10252_CNhs12310_ctss_fwd MedialFrontalGyrusAdultD10252+ medial frontal gyrus, adult, donor10252_CNhs12310_10150-102I6_forward Regulation 
MedialFrontalGyrusAdultDonor10196_CNhs13796_ctss_rev MedialFrontalGyrusAdultD10196- medial frontal gyrus - adult, donor10196_CNhs13796_10170-103B8_reverse Regulation 
MedialFrontalGyrusAdultDonor10196_CNhs13796_ctss_fwd MedialFrontalGyrusAdultD10196+ medial frontal gyrus - adult, donor10196_CNhs13796_10170-103B8_forward Regulation 
LymphNodeAdultDonor1_CNhs11788_ctss_rev LymphNodeAdultD1- lymph node, adult, donor1_CNhs11788_10077-102A5_reverse Regulation 
LymphNodeAdultDonor1_CNhs11788_ctss_fwd LymphNodeAdultD1+ lymph node, adult, donor1_CNhs11788_10077-102A5_forward Regulation 
LungRightLowerLobeAdultDonor1_CNhs11786_ctss_rev LungRightLowerLobeAdultD1- lung, right lower lobe, adult, donor1_CNhs11786_10075-102A3_reverse Regulation 
LungRightLowerLobeAdultDonor1_CNhs11786_ctss_fwd LungRightLowerLobeAdultD1+ lung, right lower lobe, adult, donor1_CNhs11786_10075-102A3_forward Regulation 
LungFetalDonor1_CNhs11680_ctss_rev LungFetalD1- lung, fetal, donor1_CNhs11680_10068-101I5_reverse Regulation 
LungFetalDonor1_CNhs11680_ctss_fwd LungFetalD1+ lung, fetal, donor1_CNhs11680_10068-101I5_forward Regulation 
LungAdultPool1_CNhs10625_ctss_rev LungAdultPl1- lung, adult, pool1_CNhs10625_10019-101D1_reverse Regulation 
LungAdultPool1_CNhs10625_ctss_fwd LungAdultPl1+ lung, adult, pool1_CNhs10625_10019-101D1_forward Regulation 
LocusCoeruleusNewbornDonor10223_CNhs14080_ctss_rev LocusCoeruleusNbD10223- locus coeruleus, newborn, donor10223_CNhs14080_10362-105F2_reverse Regulation 
LocusCoeruleusNewbornDonor10223_CNhs14080_ctss_fwd LocusCoeruleusNbD10223+ locus coeruleus, newborn, donor10223_CNhs14080_10362-105F2_forward Regulation 
LocusCoeruleusAdultDonor10258_CNhs14550_ctss_rev LocusCoeruleusAdultD10258- locus coeruleus, adult, donor10258_CNhs14550_10375-105G6_reverse Regulation 
LocusCoeruleusAdultDonor10258_CNhs14550_ctss_fwd LocusCoeruleusAdultD10258+ locus coeruleus, adult, donor10258_CNhs14550_10375-105G6_forward Regulation 
LocusCoeruleusAdultDonor10252_CNhs12322_ctss_rev LocusCoeruleusAdultD10252- locus coeruleus, adult, donor10252_CNhs12322_10165-103B3_reverse Regulation 
LocusCoeruleusAdultDonor10252_CNhs12322_ctss_fwd LocusCoeruleusAdultD10252+ locus coeruleus, adult, donor10252_CNhs12322_10165-103B3_forward Regulation 
LocusCoeruleusAdultDonor10196_CNhs13808_ctss_rev LocusCoeruleusAdultD10196- locus coeruleus - adult, donor10196_CNhs13808_10182-103D2_reverse Regulation 
LocusCoeruleusAdultDonor10196_CNhs13808_ctss_fwd LocusCoeruleusAdultD10196+ locus coeruleus - adult, donor10196_CNhs13808_10182-103D2_forward Regulation 
LiverFetalPool1_CNhs11798_ctss_rev LiverFetalPl1- liver, fetal, pool1_CNhs11798_10086-102B5_reverse Regulation 
LiverFetalPool1_CNhs11798_ctss_fwd LiverFetalPl1+ liver, fetal, pool1_CNhs11798_10086-102B5_forward Regulation 
LiverAdultPool1_CNhs10624_ctss_rev LiverAdultPl1- liver, adult, pool1_CNhs10624_10018-101C9_reverse Regulation 
LiverAdultPool1_CNhs10624_ctss_fwd LiverAdultPl1+ liver, adult, pool1_CNhs10624_10018-101C9_forward Regulation 
LeftVentricleAdultDonor1_CNhs11789_ctss_rev LeftVentricleAdultD1- left ventricle, adult, donor1_CNhs11789_10078-102A6_reverse Regulation 
LeftVentricleAdultDonor1_CNhs11789_ctss_fwd LeftVentricleAdultD1+ left ventricle, adult, donor1_CNhs11789_10078-102A6_forward Regulation 
LeftAtriumAdultDonor1_CNhs11790_ctss_rev LeftAtriumAdultD1- left atrium, adult, donor1_CNhs11790_10079-102A7_reverse Regulation 
LeftAtriumAdultDonor1_CNhs11790_ctss_fwd LeftAtriumAdultD1+ left atrium, adult, donor1_CNhs11790_10079-102A7_forward Regulation 
KidneyFetalPool1_CNhs10652_ctss_rev KidneyFetalPl1- kidney, fetal, pool1_CNhs10652_10045-101F9_reverse Regulation 
KidneyFetalPool1_CNhs10652_ctss_fwd KidneyFetalPl1+ kidney, fetal, pool1_CNhs10652_10045-101F9_forward Regulation 
KidneyAdultPool1_CNhs10622_ctss_rev KidneyAdultPl1- kidney, adult, pool1_CNhs10622_10017-101C8_reverse Regulation 
KidneyAdultPool1_CNhs10622_ctss_fwd KidneyAdultPl1+ kidney, adult, pool1_CNhs10622_10017-101C8_forward Regulation 
InsulaAdultPool1_CNhs10646_ctss_rev InsulaAdultPl1- insula, adult, pool1_CNhs10646_10039-101F3_reverse Regulation 
InsulaAdultPool1_CNhs10646_ctss_fwd InsulaAdultPl1+ insula, adult, pool1_CNhs10646_10039-101F3_forward Regulation 
HippocampusNewbornDonor10223_CNhs14081_ctss_rev HippocampusNbD10223- hippocampus, newborn, donor10223_CNhs14081_10363-105F3_reverse Regulation 
HippocampusNewbornDonor10223_CNhs14081_ctss_fwd HippocampusNbD10223+ hippocampus, newborn, donor10223_CNhs14081_10363-105F3_forward Regulation 
HippocampusAdultDonor10258_CNhs14227_ctss_rev HippocampusAdultD10258- hippocampus, adult, donor10258_CNhs14227_10374-105G5_reverse Regulation 
HippocampusAdultDonor10258_CNhs14227_ctss_fwd HippocampusAdultD10258+ hippocampus, adult, donor10258_CNhs14227_10374-105G5_forward Regulation 
HippocampusAdultDonor10252_CNhs12312_ctss_rev HippocampusAdultD10252- hippocampus, adult, donor10252_CNhs12312_10153-102I9_reverse Regulation 
HippocampusAdultDonor10252_CNhs12312_ctss_fwd HippocampusAdultD10252+ hippocampus, adult, donor10252_CNhs12312_10153-102I9_forward Regulation 
HippocampusAdultDonor10196_CNhs13795_ctss_rev HippocampusAdultD10196- hippocampus - adult, donor10196_CNhs13795_10169-103B7_reverse Regulation 
HippocampusAdultDonor10196_CNhs13795_ctss_fwd HippocampusAdultD10196+ hippocampus - adult, donor10196_CNhs13795_10169-103B7_forward Regulation 
HeartTricuspidValveAdult_CNhs12857_ctss_rev HeartTricuspidValveAdult- heart - tricuspid valve, adult_CNhs12857_10207-103F9_reverse Regulation 
HeartTricuspidValveAdult_CNhs12857_ctss_fwd HeartTricuspidValveAdult+ heart - tricuspid valve, adult_CNhs12857_10207-103F9_forward Regulation 
HeartPulmonicValveAdult_CNhs12856_ctss_rev HeartPulmonicValveAdult- heart - pulmonic valve, adult_CNhs12856_10206-103F8_reverse Regulation 
HeartPulmonicValveAdult_CNhs12856_ctss_fwd HeartPulmonicValveAdult+ heart - pulmonic valve, adult_CNhs12856_10206-103F8_forward Regulation 
HeartMitralValveAdult_CNhs12855_ctss_rev HeartMitralValveAdult- heart - mitral valve, adult_CNhs12855_10205-103F7_reverse Regulation 
HeartMitralValveAdult_CNhs12855_ctss_fwd HeartMitralValveAdult+ heart - mitral valve, adult_CNhs12855_10205-103F7_forward Regulation 
HeartFetalPool1_CNhs10653_ctss_rev HeartFetalPl1- heart, fetal, pool1_CNhs10653_10046-101G1_reverse Regulation 
HeartFetalPool1_CNhs10653_ctss_fwd HeartFetalPl1+ heart, fetal, pool1_CNhs10653_10046-101G1_forward Regulation 
HeartAdultPool1_CNhs10621_ctss_rev HeartAdultPl1- heart, adult, pool1_CNhs10621_10016-101C7_reverse Regulation 
HeartAdultPool1_CNhs10621_ctss_fwd HeartAdultPl1+ heart, adult, pool1_CNhs10621_10016-101C7_forward Regulation 
HeartAdultDiseasedPostinfarctionDonor1_CNhs11757_ctss_rev HeartAdultDiseasedPost-infarctionD1- heart, adult, diseased post-infarction, donor1_CNhs11757_10050-101G5_reverse Regulation 
HeartAdultDiseasedPostinfarctionDonor1_CNhs11757_ctss_fwd HeartAdultDiseasedPost-infarctionD1+ heart, adult, diseased post-infarction, donor1_CNhs11757_10050-101G5_forward Regulation 
HeartAdultDiseasedDonor1_CNhs11758_ctss_rev HeartAdultDiseasedD1- heart, adult, diseased, donor1_CNhs11758_10051-101G6_reverse Regulation 
HeartAdultDiseasedDonor1_CNhs11758_ctss_fwd HeartAdultDiseasedD1+ heart, adult, diseased, donor1_CNhs11758_10051-101G6_forward Regulation 
GlobusPallidusNewbornDonor10223_CNhs14082_ctss_rev GlobusPallidusNbD10223- globus pallidus, newborn, donor10223_CNhs14082_10364-105F4_reverse Regulation 
GlobusPallidusNewbornDonor10223_CNhs14082_ctss_fwd GlobusPallidusNbD10223+ globus pallidus, newborn, donor10223_CNhs14082_10364-105F4_forward Regulation 
GlobusPallidusAdultDonor10258_CNhs14549_ctss_rev GlobusPallidusAdultD10258- globus pallidus, adult, donor10258_CNhs14549_10367-105F7_reverse Regulation 
GlobusPallidusAdultDonor10258_CNhs14549_ctss_fwd GlobusPallidusAdultD10258+ globus pallidus, adult, donor10258_CNhs14549_10367-105F7_forward Regulation 
GlobusPallidusAdultDonor10252_CNhs12319_ctss_rev GlobusPallidusAdultD10252- globus pallidus, adult, donor10252_CNhs12319_10161-103A8_reverse Regulation 
GlobusPallidusAdultDonor10252_CNhs12319_ctss_fwd GlobusPallidusAdultD10252+ globus pallidus, adult, donor10252_CNhs12319_10161-103A8_forward Regulation 
GlobusPallidusAdultDonor10196_CNhs13801_ctss_rev GlobusPallidusAdultD10196- globus pallidus - adult, donor10196_CNhs13801_10175-103C4_reverse Regulation 
GlobusPallidusAdultDonor10196_CNhs13801_ctss_fwd GlobusPallidusAdultD10196+ globus pallidus - adult, donor10196_CNhs13801_10175-103C4_forward Regulation 
GallBladderAdult_CNhs12848_ctss_rev GallBladderAdult- gall bladder, adult_CNhs12848_10198-103E9_reverse Regulation 
GallBladderAdult_CNhs12848_ctss_fwd GallBladderAdult+ gall bladder, adult_CNhs12848_10198-103E9_forward Regulation 
FrontalLobeAdultPool1_CNhs10647_ctss_rev FrontalLobeAdultPl1- frontal lobe, adult, pool1_CNhs10647_10040-101F4_reverse Regulation 
FrontalLobeAdultPool1_CNhs10647_ctss_fwd FrontalLobeAdultPl1+ frontal lobe, adult, pool1_CNhs10647_10040-101F4_forward Regulation 
FingernailIncludingNailPlateEponychiumAndHyponychiumDonor2_CNhs13445_ctss_rev FingernailD2- Fingernail (including nail plate, eponychium and hyponychium), donor2_CNhs13445_10301-104H4_reverse Regulation 
FingernailIncludingNailPlateEponychiumAndHyponychiumDonor2_CNhs13445_ctss_fwd FingernailD2+ Fingernail (including nail plate, eponychium and hyponychium), donor2_CNhs13445_10301-104H4_forward Regulation 
EyeVitreousHumorDonor1_CNhs13440_ctss_rev EyeVitreousHumorD1- eye - vitreous humor, donor1_CNhs13440_10268-104D7_reverse Regulation 
EyeVitreousHumorDonor1_CNhs13440_ctss_fwd EyeVitreousHumorD1+ eye - vitreous humor, donor1_CNhs13440_10268-104D7_forward Regulation 
EyeMuscleSuperiorDonor2_CNhs13441_ctss_rev EyeMuscleSuperiorD2- eye - muscle superior, donor2_CNhs13441_10297-104G9_reverse Regulation 
EyeMuscleSuperiorDonor2_CNhs13441_ctss_fwd EyeMuscleSuperiorD2+ eye - muscle superior, donor2_CNhs13441_10297-104G9_forward Regulation 
EyeMuscleMedialDonor2_CNhs13443_ctss_rev EyeMuscleMedialD2- eye - muscle medial, donor2_CNhs13443_10299-104H2_reverse Regulation 
EyeMuscleMedialDonor2_CNhs13443_ctss_fwd EyeMuscleMedialD2+ eye - muscle medial, donor2_CNhs13443_10299-104H2_forward Regulation 
EyeMuscleLateralDonor2_CNhs13442_ctss_rev EyeMuscleLateralD2- eye - muscle lateral, donor2_CNhs13442_10298-104H1_reverse Regulation 
EyeMuscleLateralDonor2_CNhs13442_ctss_fwd EyeMuscleLateralD2+ eye - muscle lateral, donor2_CNhs13442_10298-104H1_forward Regulation 
EyeMuscleInferiorRectusDonor1_CNhs13444_ctss_rev EyeMuscleInferiorRectusD1- eye - muscle inferior rectus, donor1_CNhs13444_10272-104E2_reverse Regulation 
EyeMuscleInferiorRectusDonor1_CNhs13444_ctss_fwd EyeMuscleInferiorRectusD1+ eye - muscle inferior rectus, donor1_CNhs13444_10272-104E2_forward Regulation 
EyeFetalDonor1_CNhs11762_ctss_rev EyeFetalD1- eye, fetal, donor1_CNhs11762_10054-101G9_reverse Regulation 
EyeFetalDonor1_CNhs11762_ctss_fwd EyeFetalD1+ eye, fetal, donor1_CNhs11762_10054-101G9_forward Regulation 
EsophagusAdultPool1_CNhs10620_ctss_rev EsophagusAdultPl1- esophagus, adult, pool1_CNhs10620_10015-101C6_reverse Regulation 
EsophagusAdultPool1_CNhs10620_ctss_fwd EsophagusAdultPl1+ esophagus, adult, pool1_CNhs10620_10015-101C6_forward Regulation 
EpididymisAdult_CNhs12847_ctss_rev EpididymisAdult- epididymis, adult_CNhs12847_10197-103E8_reverse Regulation 
EpididymisAdult_CNhs12847_ctss_fwd EpididymisAdult+ epididymis, adult_CNhs12847_10197-103E8_forward Regulation 
DuraMaterAdultDonor1_CNhs10648_ctss_rev DuraMaterAdultD1- dura mater, adult, donor1_CNhs10648_10041-101F5_reverse Regulation 
DuraMaterAdultDonor1_CNhs10648_ctss_fwd DuraMaterAdultD1+ dura mater, adult, donor1_CNhs10648_10041-101F5_forward Regulation 
DuodenumFetalDonor1TechRep2_CNhs12997_ctss_rev DuodenumFetalD1Tr2- duodenum, fetal, donor1, tech_rep2_CNhs12997_10071-101I8_reverse Regulation 
DuodenumFetalDonor1TechRep2_CNhs12997_ctss_fwd DuodenumFetalD1Tr2+ duodenum, fetal, donor1, tech_rep2_CNhs12997_10071-101I8_forward Regulation 
DuodenumFetalDonor1TechRep1_CNhs11781_ctss_rev DuodenumFetalD1Tr1- duodenum, fetal, donor1, tech_rep1_CNhs11781_10071-101I8_reverse Regulation 
DuodenumFetalDonor1TechRep1_CNhs11781_ctss_fwd DuodenumFetalD1Tr1+ duodenum, fetal, donor1, tech_rep1_CNhs11781_10071-101I8_forward Regulation 
DuctusDeferensAdult_CNhs12846_ctss_rev DuctusDeferensAdult- ductus deferens, adult_CNhs12846_10196-103E7_reverse Regulation 
DuctusDeferensAdult_CNhs12846_ctss_fwd DuctusDeferensAdult+ ductus deferens, adult_CNhs12846_10196-103E7_forward Regulation 
DiencephalonAdult_CNhs12610_ctss_rev DiencephalonAdult- diencephalon, adult_CNhs12610_10193-103E4_reverse Regulation 
DiencephalonAdult_CNhs12610_ctss_fwd DiencephalonAdult+ diencephalon, adult_CNhs12610_10193-103E4_forward Regulation 
DiaphragmFetalDonor1_CNhs11779_ctss_rev DiaphragmFetalD1- diaphragm, fetal, donor1_CNhs11779_10069-101I6_reverse Regulation 
DiaphragmFetalDonor1_CNhs11779_ctss_fwd DiaphragmFetalD1+ diaphragm, fetal, donor1_CNhs11779_10069-101I6_forward Regulation 
CruciateLigamentDonor2_CNhs13439_ctss_rev CruciateLigamentD2- cruciate ligament, donor2_CNhs13439_10295-104G7_reverse Regulation 
CruciateLigamentDonor2_CNhs13439_ctss_fwd CruciateLigamentD2+ cruciate ligament, donor2_CNhs13439_10295-104G7_forward Regulation 
CorpusCallosumAdultPool1_CNhs10649_ctss_rev CorpusCallosumAdultPl1- corpus callosum, adult, pool1_CNhs10649_10042-101F6_reverse Regulation 
CorpusCallosumAdultPool1_CNhs10649_ctss_fwd CorpusCallosumAdultPl1+ corpus callosum, adult, pool1_CNhs10649_10042-101F6_forward Regulation 
ColonFetalDonor1_CNhs11780_ctss_rev ColonFetalD1- colon, fetal, donor1_CNhs11780_10070-101I7_reverse Regulation 
ColonFetalDonor1_CNhs11780_ctss_fwd ColonFetalD1+ colon, fetal, donor1_CNhs11780_10070-101I7_forward Regulation 
ColonAdultPool1_CNhs10619_ctss_rev ColonAdultPl1- colon, adult, pool1_CNhs10619_10014-101C5_reverse Regulation 
ColonAdultPool1_CNhs10619_ctss_fwd ColonAdultPl1+ colon, adult, pool1_CNhs10619_10014-101C5_forward Regulation 
ColonAdultDonor1_CNhs11794_ctss_rev ColonAdultD1- colon, adult, donor1_CNhs11794_10082-102B1_reverse Regulation 
ColonAdultDonor1_CNhs11794_ctss_fwd ColonAdultD1+ colon, adult, donor1_CNhs11794_10082-102B1_forward Regulation 
ClontechHumanUniversalReferenceTotalRNAPool1_CNhs10608_ctss_rev ClontechUniversalReferencePl1- Clontech Human Universal Reference Total RNA, pool1_CNhs10608_10000-101A1_reverse Regulation 
ClontechHumanUniversalReferenceTotalRNAPool1_CNhs10608_ctss_fwd ClontechUniversalReferencePl1+ Clontech Human Universal Reference Total RNA, pool1_CNhs10608_10000-101A1_forward Regulation 
CervixAdultPool1_CNhs10618_ctss_rev CervixAdultPl1- cervix, adult, pool1_CNhs10618_10013-101C4_reverse Regulation 
CervixAdultPool1_CNhs10618_ctss_fwd CervixAdultPl1+ cervix, adult, pool1_CNhs10618_10013-101C4_forward Regulation 
CerebrospinalFluidDonor2_CNhs13437_ctss_rev CerebrospinalFluidD2- cerebrospinal fluid, donor2_CNhs13437_10294-104G6_reverse Regulation 
CerebrospinalFluidDonor2_CNhs13437_ctss_fwd CerebrospinalFluidD2+ cerebrospinal fluid, donor2_CNhs13437_10294-104G6_forward Regulation 
CerebralMeningesAdult_CNhs12840_ctss_rev CerebralMeningesAdult- cerebral meninges, adult_CNhs12840_10188-103D8_reverse Regulation 
CerebralMeningesAdult_CNhs12840_ctss_fwd CerebralMeningesAdult+ cerebral meninges, adult_CNhs12840_10188-103D8_forward Regulation 
CerebellumNewbornDonor10223_CNhs14075_ctss_rev CerebellumNbD10223- cerebellum, newborn, donor10223_CNhs14075_10357-105E6_reverse Regulation 
CerebellumNewbornDonor10223_CNhs14075_ctss_fwd CerebellumNbD10223+ cerebellum, newborn, donor10223_CNhs14075_10357-105E6_forward Regulation 
CerebellumAdultPool1_CNhs11795_ctss_rev CerebellumAdultPl1- cerebellum, adult, pool1_CNhs11795_10083-102B2_reverse Regulation 
CerebellumAdultPool1_CNhs11795_ctss_fwd CerebellumAdultPl1+ cerebellum, adult, pool1_CNhs11795_10083-102B2_forward Regulation 
CerebellumAdultDonor10252_CNhs12323_ctss_rev CerebellumAdultD10252- cerebellum, adult, donor10252_CNhs12323_10166-103B4_reverse Regulation 
CerebellumAdultDonor10252_CNhs12323_ctss_fwd CerebellumAdultD10252+ cerebellum, adult, donor10252_CNhs12323_10166-103B4_forward Regulation 
CerebellumAdultDonor10196_CNhs13799_ctss_rev CerebellumAdultD10196- cerebellum - adult, donor10196_CNhs13799_10173-103C2_reverse Regulation 
CerebellumAdultDonor10196_CNhs13799_ctss_fwd CerebellumAdultD10196+ cerebellum - adult, donor10196_CNhs13799_10173-103C2_forward Regulation 
CaudateNucleusNewbornDonor10223_CNhs14071_ctss_rev CaudateNucleusNbD10223- caudate nucleus, newborn, donor10223_CNhs14071_10354-105E3_reverse Regulation 
CaudateNucleusNewbornDonor10223_CNhs14071_ctss_fwd CaudateNucleusNbD10223+ caudate nucleus, newborn, donor10223_CNhs14071_10354-105E3_forward Regulation 
CaudateNucleusAdultDonor10258_CNhs14232_ctss_rev CaudateNucleusAdultD10258- caudate nucleus, adult, donor10258_CNhs14232_10379-105H1_reverse Regulation 
CaudateNucleusAdultDonor10258_CNhs14232_ctss_fwd CaudateNucleusAdultD10258+ caudate nucleus, adult, donor10258_CNhs14232_10379-105H1_forward Regulation 
CaudateNucleusAdultDonor10252_CNhs12321_ctss_rev CaudateNucleusAdultD10252- caudate nucleus, adult, donor10252_CNhs12321_10164-103B2_reverse Regulation 
CaudateNucleusAdultDonor10252_CNhs12321_ctss_fwd CaudateNucleusAdultD10252+ caudate nucleus, adult, donor10252_CNhs12321_10164-103B2_forward Regulation 
CaudateNucleusAdultDonor10196_CNhs13802_ctss_rev CaudateNucleusAdultD10196- caudate nucleus - adult, donor10196_CNhs13802_10177-103C6_reverse Regulation 
CaudateNucleusAdultDonor10196_CNhs13802_ctss_fwd CaudateNucleusAdultD10196+ caudate nucleus - adult, donor10196_CNhs13802_10177-103C6_forward Regulation 
BreastAdultDonor1_CNhs11792_ctss_rev BreastAdultD1- breast, adult, donor1_CNhs11792_10080-102A8_reverse Regulation 
BreastAdultDonor1_CNhs11792_ctss_fwd BreastAdultD1+ breast, adult, donor1_CNhs11792_10080-102A8_forward Regulation 
BrainFetalPool1_CNhs11797_ctss_rev BrainFetalPl1- brain, fetal, pool1_CNhs11797_10085-102B4_reverse Regulation 
BrainFetalPool1_CNhs11797_ctss_fwd BrainFetalPl1+ brain, fetal, pool1_CNhs11797_10085-102B4_forward Regulation 
BrainAdultPool1_CNhs10617_ctss_rev BrainAdultPl1- brain, adult, pool1_CNhs10617_10012-101C3_reverse Regulation 
BrainAdultPool1_CNhs10617_ctss_fwd BrainAdultPl1+ brain, adult, pool1_CNhs10617_10012-101C3_forward Regulation 
BrainAdultDonor1_CNhs11796_ctss_rev BrainAdultD1- brain, adult, donor1_CNhs11796_10084-102B3_reverse Regulation 
BrainAdultDonor1_CNhs11796_ctss_fwd BrainAdultD1+ brain, adult, donor1_CNhs11796_10084-102B3_forward Regulation 
BoneMarrowAdult_CNhs12845_ctss_rev BoneMarrowAdult- bone marrow, adult_CNhs12845_10192-103E3_reverse Regulation 
BoneMarrowAdult_CNhs12845_ctss_fwd BoneMarrowAdult+ bone marrow, adult_CNhs12845_10192-103E3_forward Regulation 
BloodAdultPool1_CNhs11761_ctss_rev BloodAdultPl1- blood, adult, pool1_CNhs11761_10053-101G8_reverse Regulation 
BloodAdultPool1_CNhs11761_ctss_fwd BloodAdultPl1+ blood, adult, pool1_CNhs11761_10053-101G8_forward Regulation 
BladderAdultPool1_CNhs10616_ctss_rev BladderAdultPl1- bladder, adult, pool1_CNhs10616_10011-101C2_reverse Regulation 
BladderAdultPool1_CNhs10616_ctss_fwd BladderAdultPl1+ bladder, adult, pool1_CNhs10616_10011-101C2_forward Regulation 
ArteryAdult_CNhs12843_ctss_rev ArteryAdult- artery, adult_CNhs12843_10190-103E1_reverse Regulation 
ArteryAdult_CNhs12843_ctss_fwd ArteryAdult+ artery, adult_CNhs12843_10190-103E1_forward Regulation 
AppendixAdult_CNhs12842_ctss_rev AppendixAdult- appendix, adult_CNhs12842_10189-103D9_reverse Regulation 
AppendixAdult_CNhs12842_ctss_fwd AppendixAdult+ appendix, adult_CNhs12842_10189-103D9_forward Regulation 
AortaAdultPool1_CNhs11760_ctss_rev AortaAdultPl1- aorta, adult, pool1_CNhs11760_10052-101G7_reverse Regulation 
AortaAdultPool1_CNhs11760_ctss_fwd AortaAdultPl1+ aorta, adult, pool1_CNhs11760_10052-101G7_forward Regulation 
AmygdalaNewbornDonor10223_CNhs14078_ctss_rev AmygdalaNbD1D10223- amygdala, newborn, donor10223_CNhs14078_10360-105E9_reverse Regulation 
AmygdalaNewbornDonor10223_CNhs14078_ctss_fwd AmygdalaNbD1D10223+ amygdala, newborn, donor10223_CNhs14078_10360-105E9_forward Regulation 
AmygdalaAdultDonor10252_CNhs12311_ctss_rev AmygdalaAdultD10252- amygdala, adult, donor10252_CNhs12311_10151-102I7_reverse Regulation 
AmygdalaAdultDonor10252_CNhs12311_ctss_fwd AmygdalaAdultD10252+ amygdala, adult, donor10252_CNhs12311_10151-102I7_forward Regulation 
AmygdalaAdultDonor10196_CNhs13793_ctss_rev AmygdalaAdultD10196- amygdala - adult, donor10196_CNhs13793_10167-103B5_reverse Regulation 
AmygdalaAdultDonor10196_CNhs13793_ctss_fwd AmygdalaAdultD10196+ amygdala - adult, donor10196_CNhs13793_10167-103B5_forward Regulation 
AdrenalGlandAdultPool1_CNhs11793_ctss_rev AdrenalGlandAdultPl1- adrenal gland, adult, pool1_CNhs11793_10081-102A9_reverse Regulation 
AdrenalGlandAdultPool1_CNhs11793_ctss_fwd AdrenalGlandAdultPl1+ adrenal gland, adult, pool1_CNhs11793_10081-102A9_forward Regulation 
AdiposeTissueAdultPool1_CNhs10615_ctss_rev AdiposeTissueAdultPl1- adipose tissue, adult, pool1_CNhs10615_10010-101C1_reverse Regulation 
AdiposeTissueAdultPool1_CNhs10615_ctss_fwd AdiposeTissueAdultPl1+ adipose tissue, adult, pool1_CNhs10615_10010-101C1_forward Regulation 
AdiposeDonor4_CNhs13975_ctss_rev AdiposeD4- adipose, donor4_CNhs13975_10187-103D7_reverse Regulation 
AdiposeDonor4_CNhs13975_ctss_fwd AdiposeD4+ adipose, donor4_CNhs13975_10187-103D7_forward Regulation 
AdiposeDonor3_CNhs13974_ctss_rev AdiposeD3- adipose, donor3_CNhs13974_10186-103D6_reverse Regulation 
AdiposeDonor3_CNhs13974_ctss_fwd AdiposeD3+ adipose, donor3_CNhs13974_10186-103D6_forward Regulation 
AdiposeDonor2_CNhs13973_ctss_rev AdiposeD2- adipose, donor2_CNhs13973_10185-103D5_reverse Regulation 
AdiposeDonor2_CNhs13973_ctss_fwd AdiposeD2+ adipose, donor2_CNhs13973_10185-103D5_forward Regulation 
AdiposeDonor1_CNhs13972_ctss_rev AdiposeD1- adipose, donor1_CNhs13972_10184-103D4_reverse Regulation 
AdiposeDonor1_CNhs13972_ctss_fwd AdiposeD1+ adipose, donor1_CNhs13972_10184-103D4_forward Regulation 
AchillesTendonDonor2_CNhs13435_ctss_rev AchillesTendonD2- achilles tendon, donor2_CNhs13435_10292-104G4_reverse Regulation 
AchillesTendonDonor2_CNhs13435_ctss_fwd AchillesTendonD2+ achilles tendon, donor2_CNhs13435_10292-104G4_forward Regulation 
Saos2OsteosarcomaCellLineUntreatedControlDay28BiolRep3B3T17_CNhs14196_ctss_rev Tc:Saos-2Untreated_Day28Br3- Saos-2 osteosarcoma cell line, untreated control, day28, biol_rep3 (B3 T17)_CNhs14196_12893-137H4_reverse Regulation 
Saos2OsteosarcomaCellLineUntreatedControlDay28BiolRep3B3T17_CNhs14196_ctss_fwd Tc:Saos-2Untreated_Day28Br3+ Saos-2 osteosarcoma cell line, untreated control, day28, biol_rep3 (B3 T17)_CNhs14196_12893-137H4_forward Regulation 
Saos2OsteosarcomaCellLineUntreatedControlDay28BiolRep2B2T17_CNhs14195_ctss_rev Tc:Saos-2Untreated_Day28Br2- Saos-2 osteosarcoma cell line, untreated control, day28, biol_rep2 (B2 T17)_CNhs14195_12795-136F5_reverse Regulation 
Saos2OsteosarcomaCellLineUntreatedControlDay28BiolRep2B2T17_CNhs14195_ctss_fwd Tc:Saos-2Untreated_Day28Br2+ Saos-2 osteosarcoma cell line, untreated control, day28, biol_rep2 (B2 T17)_CNhs14195_12795-136F5_forward Regulation 
Saos2OsteosarcomaCellLineUntreatedControlDay28BiolRep1B1T17_CNhs14194_ctss_rev Tc:Saos-2Untreated_Day28Br1- Saos-2 osteosarcoma cell line, untreated control, day28, biol_rep1 (B1 T17)_CNhs14194_12697-135D6_reverse Regulation 
Saos2OsteosarcomaCellLineUntreatedControlDay28BiolRep1B1T17_CNhs14194_ctss_fwd Tc:Saos-2Untreated_Day28Br1+ Saos-2 osteosarcoma cell line, untreated control, day28, biol_rep1 (B1 T17)_CNhs14194_12697-135D6_forward Regulation 
MesenchymalStemCellsAdiposeDerivedUndifferentiatedControlBiolRep3_CNhs13634_ctss_rev Tc:MscToAdiposeUndiffBr3- mesenchymal stem cells (adipose derived), undifferentiated control, biol_rep3_CNhs13634_13282-142F6_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedUndifferentiatedControlBiolRep3_CNhs13634_ctss_fwd Tc:MscToAdiposeUndiffBr3+ mesenchymal stem cells (adipose derived), undifferentiated control, biol_rep3_CNhs13634_13282-142F6_forward Regulation 
MesenchymalStemCellsAdiposeDerivedUndifferentiatedControlBiolRep2_CNhs13633_ctss_rev Tc:MscToAdiposeUndiffBr2- mesenchymal stem cells (adipose derived), undifferentiated control, biol_rep2_CNhs13633_13281-142F5_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedUndifferentiatedControlBiolRep2_CNhs13633_ctss_fwd Tc:MscToAdiposeUndiffBr2+ mesenchymal stem cells (adipose derived), undifferentiated control, biol_rep2_CNhs13633_13281-142F5_forward Regulation 
MesenchymalStemCellsAdiposeDerivedUndifferentiatedControlBiolRep1_CNhs13692_ctss_rev Tc:MscToAdiposeUndiffBr1- mesenchymal stem cells (adipose derived), undifferentiated control, biol_rep1_CNhs13692_13280-142F4_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedUndifferentiatedControlBiolRep1_CNhs13692_ctss_fwd Tc:MscToAdiposeUndiffBr1+ mesenchymal stem cells (adipose derived), undifferentiated control, biol_rep1_CNhs13692_13280-142F4_forward Regulation 
MonocytederivedMacrophagesResponseToMockInfluenzaInfection00hr00minDonor1868_121MI_0h_CNhs13637_ctss_rev Tc:MdmToMock_00hr00minD1- Monocyte-derived macrophages response to mock influenza infection, 00hr00min, donor1 (868_121:MI_0h)_CNhs13637_13304-142I1_reverse Regulation 
MonocytederivedMacrophagesResponseToMockInfluenzaInfection00hr00minDonor1868_121MI_0h_CNhs13637_ctss_fwd Tc:MdmToMock_00hr00minD1+ Monocyte-derived macrophages response to mock influenza infection, 00hr00min, donor1 (868_121:MI_0h)_CNhs13637_13304-142I1_forward Regulation 
MonocytederivedMacrophagesResponseToLPS16hrDonor1T20Subject1_CNhs12930_ctss_rev Tc:MdmToLps_16hrD1- Monocyte-derived macrophages response to LPS, 16hr, donor1 (t20 Subject1)_CNhs12930_12717-135F8_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS16hrDonor1T20Subject1_CNhs12930_ctss_fwd Tc:MdmToLps_16hrD1+ Monocyte-derived macrophages response to LPS, 16hr, donor1 (t20 Subject1)_CNhs12930_12717-135F8_forward Regulation 
MonocytederivedMacrophagesResponseToLPS10hrDonor1T17Subject1_CNhs12928_ctss_rev Tc:MdmToLps_10hrD1- Monocyte-derived macrophages response to LPS, 10hr, donor1 (t17 Subject1)_CNhs12928_12714-135F5_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS10hrDonor1T17Subject1_CNhs12928_ctss_fwd Tc:MdmToLps_10hrD1+ Monocyte-derived macrophages response to LPS, 10hr, donor1 (t17 Subject1)_CNhs12928_12714-135F5_forward Regulation 
MonocytederivedMacrophagesResponseToLPS07hrDonor3T15Subject3_CNhs13325_ctss_rev Tc:MdmToLps_07hrD3- Monocyte-derived macrophages response to LPS, 07hr, donor3 (t15 Subject3)_CNhs13325_12908-138A1_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS07hrDonor3T15Subject3_CNhs13325_ctss_fwd Tc:MdmToLps_07hrD3+ Monocyte-derived macrophages response to LPS, 07hr, donor3 (t15 Subject3)_CNhs13325_12908-138A1_forward Regulation 
MonocytederivedMacrophagesResponseToLPS07hrDonor2T15Subject2_CNhs13394_ctss_rev Tc:MdmToLps_07hrD2- Monocyte-derived macrophages response to LPS, 07hr, donor2 (t15 Subject2)_CNhs13394_12810-136H2_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS07hrDonor2T15Subject2_CNhs13394_ctss_fwd Tc:MdmToLps_07hrD2+ Monocyte-derived macrophages response to LPS, 07hr, donor2 (t15 Subject2)_CNhs13394_12810-136H2_forward Regulation 
MonocytederivedMacrophagesResponseToLPS07hrDonor1T15Subject1_CNhs12926_ctss_rev Tc:MdmToLps_07hrD1- Monocyte-derived macrophages response to LPS, 07hr, donor1 (t15 Subject1)_CNhs12926_12712-135F3_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS07hrDonor1T15Subject1_CNhs12926_ctss_fwd Tc:MdmToLps_07hrD1+ Monocyte-derived macrophages response to LPS, 07hr, donor1 (t15 Subject1)_CNhs12926_12712-135F3_forward Regulation 
MonocytederivedMacrophagesResponseToLPS06hrDonor3T14Subject3_CNhs13187_ctss_rev Tc:MdmToLps_06hrD3- Monocyte-derived macrophages response to LPS, 06hr, donor3 (t14 Subject3)_CNhs13187_12907-137I9_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS06hrDonor3T14Subject3_CNhs13187_ctss_fwd Tc:MdmToLps_06hrD3+ Monocyte-derived macrophages response to LPS, 06hr, donor3 (t14 Subject3)_CNhs13187_12907-137I9_forward Regulation 
MonocytederivedMacrophagesResponseToLPS06hrDonor2T14Subject2_CNhs13393_ctss_rev Tc:MdmToLps_06hrD2- Monocyte-derived macrophages response to LPS, 06hr, donor2 (t14 Subject2)_CNhs13393_12809-136H1_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS06hrDonor2T14Subject2_CNhs13393_ctss_fwd Tc:MdmToLps_06hrD2+ Monocyte-derived macrophages response to LPS, 06hr, donor2 (t14 Subject2)_CNhs13393_12809-136H1_forward Regulation 
MonocytederivedMacrophagesResponseToLPS06hrDonor1T14Subject1_CNhs12925_ctss_rev Tc:MdmToLps_06hrD1- Monocyte-derived macrophages response to LPS, 06hr, donor1 (t14 Subject1)_CNhs12925_12711-135F2_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS06hrDonor1T14Subject1_CNhs12925_ctss_fwd Tc:MdmToLps_06hrD1+ Monocyte-derived macrophages response to LPS, 06hr, donor1 (t14 Subject1)_CNhs12925_12711-135F2_forward Regulation 
MonocytederivedMacrophagesResponseToLPS04hrDonor1T12Subject1_CNhs13154_ctss_rev Tc:MdmToLps_04hrD1- Monocyte-derived macrophages response to LPS, 04hr, donor1 (t12 Subject1)_CNhs13154_12709-135E9_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS04hrDonor1T12Subject1_CNhs13154_ctss_fwd Tc:MdmToLps_04hrD1+ Monocyte-derived macrophages response to LPS, 04hr, donor1 (t12 Subject1)_CNhs13154_12709-135E9_forward Regulation 
MonocytederivedMacrophagesResponseToLPS03hr30minDonor1T11Subject1_CNhs13153_ctss_rev Tc:MdmToLps_03hr30minD1- Monocyte-derived macrophages response to LPS, 03hr30min, donor1 (t11 Subject1)_CNhs13153_12708-135E8_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS03hr30minDonor1T11Subject1_CNhs13153_ctss_fwd Tc:MdmToLps_03hr30minD1+ Monocyte-derived macrophages response to LPS, 03hr30min, donor1 (t11 Subject1)_CNhs13153_12708-135E8_forward Regulation 
MonocytederivedMacrophagesResponseToLPS02hr00minDonor1T8Subject1_CNhs13151_ctss_rev Tc:MdmToLps_02hr00minD1- Monocyte-derived macrophages response to LPS, 02hr00min, donor1 (t8 Subject1)_CNhs13151_12705-135E5_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS02hr00minDonor1T8Subject1_CNhs13151_ctss_fwd Tc:MdmToLps_02hr00minD1+ Monocyte-derived macrophages response to LPS, 02hr00min, donor1 (t8 Subject1)_CNhs13151_12705-135E5_forward Regulation 
MonocytederivedMacrophagesResponseToLPS01hr40minDonor3T7Subject3_CNhs13180_ctss_rev Tc:MdmToLps_01hr40minD3- Monocyte-derived macrophages response to LPS, 01hr40min, donor3 (t7 Subject3)_CNhs13180_12900-137I2_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS01hr40minDonor3T7Subject3_CNhs13180_ctss_fwd Tc:MdmToLps_01hr40minD3+ Monocyte-derived macrophages response to LPS, 01hr40min, donor3 (t7 Subject3)_CNhs13180_12900-137I2_forward Regulation 
MonocytederivedMacrophagesResponseToLPS01hr40minDonor2T7Subject2_CNhs13385_ctss_rev Tc:MdmToLps_01hr40minD2- Monocyte-derived macrophages response to LPS, 01hr40min, donor2 (t7 Subject2)_CNhs13385_12802-136G3_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS01hr40minDonor2T7Subject2_CNhs13385_ctss_fwd Tc:MdmToLps_01hr40minD2+ Monocyte-derived macrophages response to LPS, 01hr40min, donor2 (t7 Subject2)_CNhs13385_12802-136G3_forward Regulation 
MonocytederivedMacrophagesResponseToLPS01hr40minDonor1T7Subject1_CNhs13150_ctss_rev Tc:MdmToLps_01hr40minD1- Monocyte-derived macrophages response to LPS, 01hr40min, donor1 (t7 Subject1)_CNhs13150_12704-135E4_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS01hr40minDonor1T7Subject1_CNhs13150_ctss_fwd Tc:MdmToLps_01hr40minD1+ Monocyte-derived macrophages response to LPS, 01hr40min, donor1 (t7 Subject1)_CNhs13150_12704-135E4_forward Regulation 
MonocytederivedMacrophagesResponseToLPS01hr20minDonor1T6Subject1_CNhs13149_ctss_rev Tc:MdmToLps_01hr20minD1- Monocyte-derived macrophages response to LPS, 01hr20min, donor1 (t6 Subject1)_CNhs13149_12703-135E3_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS01hr20minDonor1T6Subject1_CNhs13149_ctss_fwd Tc:MdmToLps_01hr20minD1+ Monocyte-derived macrophages response to LPS, 01hr20min, donor1 (t6 Subject1)_CNhs13149_12703-135E3_forward Regulation 
MonocytederivedMacrophagesResponseToLPS01hr00minDonor1T5Subject1_CNhs13148_ctss_rev Tc:MdmToLps_01hr00minD1- Monocyte-derived macrophages response to LPS, 01hr00min, donor1 (t5 Subject1)_CNhs13148_12702-135E2_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS01hr00minDonor1T5Subject1_CNhs13148_ctss_fwd Tc:MdmToLps_01hr00minD1+ Monocyte-derived macrophages response to LPS, 01hr00min, donor1 (t5 Subject1)_CNhs13148_12702-135E2_forward Regulation 
MonocytederivedMacrophagesResponseToLPS00hr45minDonor1T4Subject1_CNhs13147_ctss_rev Tc:MdmToLps_00hr45minD1- Monocyte-derived macrophages response to LPS, 00hr45min, donor1 (t4 Subject1)_CNhs13147_12701-135E1_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS00hr45minDonor1T4Subject1_CNhs13147_ctss_fwd Tc:MdmToLps_00hr45minD1+ Monocyte-derived macrophages response to LPS, 00hr45min, donor1 (t4 Subject1)_CNhs13147_12701-135E1_forward Regulation 
MonocytederivedMacrophagesResponseToLPS00hr30minDonor1T3Subject1_CNhs13146_ctss_rev Tc:MdmToLps_00hr30minD1- Monocyte-derived macrophages response to LPS, 00hr30min, donor1 (t3 Subject1)_CNhs13146_12700-135D9_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS00hr30minDonor1T3Subject1_CNhs13146_ctss_fwd Tc:MdmToLps_00hr30minD1+ Monocyte-derived macrophages response to LPS, 00hr30min, donor1 (t3 Subject1)_CNhs13146_12700-135D9_forward Regulation 
MonocytederivedMacrophagesResponseToLPS00hr15minDonor1T2Subject1_CNhs13145_ctss_rev Tc:MdmToLps_00hr15minD1- Monocyte-derived macrophages response to LPS, 00hr15min, donor1 (t2 Subject1)_CNhs13145_12699-135D8_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS00hr15minDonor1T2Subject1_CNhs13145_ctss_fwd Tc:MdmToLps_00hr15minD1+ Monocyte-derived macrophages response to LPS, 00hr15min, donor1 (t2 Subject1)_CNhs13145_12699-135D8_forward Regulation 
K562ErythroblasticLeukemiaResponseToHeminDay04BiolRep3_CNhs12804_ctss_rev Tc:K562ToHemin_Day04Br3- K562 erythroblastic leukemia response to hemin, day04, biol_rep3_CNhs12804_13228-141I6_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHeminDay04BiolRep3_CNhs12804_ctss_fwd Tc:K562ToHemin_Day04Br3+ K562 erythroblastic leukemia response to hemin, day04, biol_rep3_CNhs12804_13228-141I6_forward Regulation 
K562ErythroblasticLeukemiaResponseToHeminDay04BiolRep2_CNhs12702_ctss_rev Tc:K562ToHemin_Day04Br2- K562 erythroblastic leukemia response to hemin, day04, biol_rep2_CNhs12702_13162-141B3_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHeminDay04BiolRep2_CNhs12702_ctss_fwd Tc:K562ToHemin_Day04Br2+ K562 erythroblastic leukemia response to hemin, day04, biol_rep2_CNhs12702_13162-141B3_forward Regulation 
K562ErythroblasticLeukemiaResponseToHeminDay04BiolRep1_CNhs12474_ctss_rev Tc:K562ToHemin_Day04Br1- K562 erythroblastic leukemia response to hemin, day04, biol_rep1_CNhs12474_13096-140C9_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHeminDay04BiolRep1_CNhs12474_ctss_fwd Tc:K562ToHemin_Day04Br1+ K562 erythroblastic leukemia response to hemin, day04, biol_rep1_CNhs12474_13096-140C9_forward Regulation 
K562ErythroblasticLeukemiaResponseToHeminDay03BiolRep3_CNhs12803_ctss_rev Tc:K562ToHemin_Day03Br3- K562 erythroblastic leukemia response to hemin, day03, biol_rep3_CNhs12803_13227-141I5_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHeminDay03BiolRep3_CNhs12803_ctss_fwd Tc:K562ToHemin_Day03Br3+ K562 erythroblastic leukemia response to hemin, day03, biol_rep3_CNhs12803_13227-141I5_forward Regulation 
K562ErythroblasticLeukemiaResponseToHeminDay03BiolRep2_CNhs12701_ctss_rev Tc:K562ToHemin_Day03Br2- K562 erythroblastic leukemia response to hemin, day03, biol_rep2_CNhs12701_13161-141B2_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHeminDay03BiolRep2_CNhs12701_ctss_fwd Tc:K562ToHemin_Day03Br2+ K562 erythroblastic leukemia response to hemin, day03, biol_rep2_CNhs12701_13161-141B2_forward Regulation 
K562ErythroblasticLeukemiaResponseToHeminDay03BiolRep1_CNhs12473_ctss_rev Tc:K562ToHemin_Day03Br1- K562 erythroblastic leukemia response to hemin, day03, biol_rep1_CNhs12473_13095-140C8_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHeminDay03BiolRep1_CNhs12473_ctss_fwd Tc:K562ToHemin_Day03Br1+ K562 erythroblastic leukemia response to hemin, day03, biol_rep1_CNhs12473_13095-140C8_forward Regulation 
K562ErythroblasticLeukemiaResponseToHeminDay02BiolRep3_CNhs12802_ctss_rev Tc:K562ToHemin_Day02Br3- K562 erythroblastic leukemia response to hemin, day02, biol_rep3_CNhs12802_13226-141I4_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHeminDay02BiolRep3_CNhs12802_ctss_fwd Tc:K562ToHemin_Day02Br3+ K562 erythroblastic leukemia response to hemin, day02, biol_rep3_CNhs12802_13226-141I4_forward Regulation 
K562ErythroblasticLeukemiaResponseToHeminDay02BiolRep2_CNhs12700_ctss_rev Tc:K562ToHemin_Day02Br2- K562 erythroblastic leukemia response to hemin, day02, biol_rep2_CNhs12700_13160-141B1_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHeminDay02BiolRep2_CNhs12700_ctss_fwd Tc:K562ToHemin_Day02Br2+ K562 erythroblastic leukemia response to hemin, day02, biol_rep2_CNhs12700_13160-141B1_forward Regulation 
K562ErythroblasticLeukemiaResponseToHeminDay02BiolRep1_CNhs12472_ctss_rev Tc:K562ToHemin_Day02Br1- K562 erythroblastic leukemia response to hemin, day02, biol_rep1_CNhs12472_13094-140C7_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHeminDay02BiolRep1_CNhs12472_ctss_fwd Tc:K562ToHemin_Day02Br1+ K562 erythroblastic leukemia response to hemin, day02, biol_rep1_CNhs12472_13094-140C7_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin24hrBiolRep3_CNhs12801_ctss_rev Tc:K562ToHemin_24hrBr3- K562 erythroblastic leukemia response to hemin, 24hr, biol_rep3_CNhs12801_13225-141I3_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin24hrBiolRep3_CNhs12801_ctss_fwd Tc:K562ToHemin_24hrBr3+ K562 erythroblastic leukemia response to hemin, 24hr, biol_rep3_CNhs12801_13225-141I3_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin24hrBiolRep2_CNhs12699_ctss_rev Tc:K562ToHemin_24hrBr2- K562 erythroblastic leukemia response to hemin, 24hr, biol_rep2_CNhs12699_13159-141A9_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin24hrBiolRep2_CNhs12699_ctss_fwd Tc:K562ToHemin_24hrBr2+ K562 erythroblastic leukemia response to hemin, 24hr, biol_rep2_CNhs12699_13159-141A9_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin24hrBiolRep1_CNhs12471_ctss_rev Tc:K562ToHemin_24hrBr1- K562 erythroblastic leukemia response to hemin, 24hr, biol_rep1_CNhs12471_13093-140C6_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin24hrBiolRep1_CNhs12471_ctss_fwd Tc:K562ToHemin_24hrBr1+ K562 erythroblastic leukemia response to hemin, 24hr, biol_rep1_CNhs12471_13093-140C6_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin12hrBiolRep3_CNhs12800_ctss_rev Tc:K562ToHemin_12hrBr3- K562 erythroblastic leukemia response to hemin, 12hr, biol_rep3_CNhs12800_13224-141I2_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin12hrBiolRep3_CNhs12800_ctss_fwd Tc:K562ToHemin_12hrBr3+ K562 erythroblastic leukemia response to hemin, 12hr, biol_rep3_CNhs12800_13224-141I2_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin12hrBiolRep2_CNhs12698_ctss_rev Tc:K562ToHemin_12hrBr2- K562 erythroblastic leukemia response to hemin, 12hr, biol_rep2_CNhs12698_13158-141A8_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin12hrBiolRep2_CNhs12698_ctss_fwd Tc:K562ToHemin_12hrBr2+ K562 erythroblastic leukemia response to hemin, 12hr, biol_rep2_CNhs12698_13158-141A8_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin12hrBiolRep1_CNhs12470_ctss_rev Tc:K562ToHemin_12hrBr1- K562 erythroblastic leukemia response to hemin, 12hr, biol_rep1_CNhs12470_13092-140C5_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin12hrBiolRep1_CNhs12470_ctss_fwd Tc:K562ToHemin_12hrBr1+ K562 erythroblastic leukemia response to hemin, 12hr, biol_rep1_CNhs12470_13092-140C5_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin06hrBiolRep3_CNhs12799_ctss_rev Tc:K562ToHemin_06hrBr3- K562 erythroblastic leukemia response to hemin, 06hr, biol_rep3_CNhs12799_13223-141I1_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin06hrBiolRep3_CNhs12799_ctss_fwd Tc:K562ToHemin_06hrBr3+ K562 erythroblastic leukemia response to hemin, 06hr, biol_rep3_CNhs12799_13223-141I1_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin06hrBiolRep2_CNhs12697_ctss_rev Tc:K562ToHemin_06hrBr2- K562 erythroblastic leukemia response to hemin, 06hr, biol_rep2_CNhs12697_13157-141A7_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin06hrBiolRep2_CNhs12697_ctss_fwd Tc:K562ToHemin_06hrBr2+ K562 erythroblastic leukemia response to hemin, 06hr, biol_rep2_CNhs12697_13157-141A7_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin06hrBiolRep1_CNhs12469_ctss_rev Tc:K562ToHemin_06hrBr1- K562 erythroblastic leukemia response to hemin, 06hr, biol_rep1_CNhs12469_13091-140C4_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin06hrBiolRep1_CNhs12469_ctss_fwd Tc:K562ToHemin_06hrBr1+ K562 erythroblastic leukemia response to hemin, 06hr, biol_rep1_CNhs12469_13091-140C4_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin04hrBiolRep3_CNhs12798_ctss_rev Tc:K562ToHemin_04hrBr3- K562 erythroblastic leukemia response to hemin, 04hr, biol_rep3_CNhs12798_13222-141H9_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin04hrBiolRep3_CNhs12798_ctss_fwd Tc:K562ToHemin_04hrBr3+ K562 erythroblastic leukemia response to hemin, 04hr, biol_rep3_CNhs12798_13222-141H9_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin04hrBiolRep2_CNhs12696_ctss_rev Tc:K562ToHemin_04hrBr2- K562 erythroblastic leukemia response to hemin, 04hr, biol_rep2_CNhs12696_13156-141A6_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin04hrBiolRep2_CNhs12696_ctss_fwd Tc:K562ToHemin_04hrBr2+ K562 erythroblastic leukemia response to hemin, 04hr, biol_rep2_CNhs12696_13156-141A6_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin04hrBiolRep1_CNhs12468_ctss_rev Tc:K562ToHemin_04hrBr1- K562 erythroblastic leukemia response to hemin, 04hr, biol_rep1_CNhs12468_13090-140C3_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin04hrBiolRep1_CNhs12468_ctss_fwd Tc:K562ToHemin_04hrBr1+ K562 erythroblastic leukemia response to hemin, 04hr, biol_rep1_CNhs12468_13090-140C3_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin03hr30minBiolRep3_CNhs12797_ctss_rev Tc:K562ToHemin_03hr30minBr3- K562 erythroblastic leukemia response to hemin, 03hr30min, biol_rep3_CNhs12797_13221-141H8_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin03hr30minBiolRep3_CNhs12797_ctss_fwd Tc:K562ToHemin_03hr30minBr3+ K562 erythroblastic leukemia response to hemin, 03hr30min, biol_rep3_CNhs12797_13221-141H8_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin03hr30minBiolRep2_CNhs12695_ctss_rev Tc:K562ToHemin_03hr30minBr2- K562 erythroblastic leukemia response to hemin, 03hr30min, biol_rep2_CNhs12695_13155-141A5_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin03hr30minBiolRep2_CNhs12695_ctss_fwd Tc:K562ToHemin_03hr30minBr2+ K562 erythroblastic leukemia response to hemin, 03hr30min, biol_rep2_CNhs12695_13155-141A5_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin03hr30minBiolRep1_CNhs12467_ctss_rev Tc:K562ToHemin_03hr30minBr1- K562 erythroblastic leukemia response to hemin, 03hr30min, biol_rep1_CNhs12467_13089-140C2_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin03hr30minBiolRep1_CNhs12467_ctss_fwd Tc:K562ToHemin_03hr30minBr1+ K562 erythroblastic leukemia response to hemin, 03hr30min, biol_rep1_CNhs12467_13089-140C2_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin03hr00minBiolRep3_CNhs12796_ctss_rev Tc:K562ToHemin_03hr00minBr3- K562 erythroblastic leukemia response to hemin, 03hr00min, biol_rep3_CNhs12796_13220-141H7_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin03hr00minBiolRep3_CNhs12796_ctss_fwd Tc:K562ToHemin_03hr00minBr3+ K562 erythroblastic leukemia response to hemin, 03hr00min, biol_rep3_CNhs12796_13220-141H7_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin03hr00minBiolRep2_CNhs12694_ctss_rev Tc:K562ToHemin_03hr00minBr2- K562 erythroblastic leukemia response to hemin, 03hr00min, biol_rep2_CNhs12694_13154-141A4_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin03hr00minBiolRep2_CNhs12694_ctss_fwd Tc:K562ToHemin_03hr00minBr2+ K562 erythroblastic leukemia response to hemin, 03hr00min, biol_rep2_CNhs12694_13154-141A4_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin03hr00minBiolRep1_CNhs12466_ctss_rev Tc:K562ToHemin_03hr00minBr1- K562 erythroblastic leukemia response to hemin, 03hr00min, biol_rep1_CNhs12466_13088-140C1_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin03hr00minBiolRep1_CNhs12466_ctss_fwd Tc:K562ToHemin_03hr00minBr1+ K562 erythroblastic leukemia response to hemin, 03hr00min, biol_rep1_CNhs12466_13088-140C1_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin02hr30minBiolRep3_CNhs12795_ctss_rev Tc:K562ToHemin_02hr30minBr3- K562 erythroblastic leukemia response to hemin, 02hr30min, biol_rep3_CNhs12795_13219-141H6_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin02hr30minBiolRep3_CNhs12795_ctss_fwd Tc:K562ToHemin_02hr30minBr3+ K562 erythroblastic leukemia response to hemin, 02hr30min, biol_rep3_CNhs12795_13219-141H6_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin02hr30minBiolRep2_CNhs12693_ctss_rev Tc:K562ToHemin_02hr30minBr2- K562 erythroblastic leukemia response to hemin, 02hr30min, biol_rep2_CNhs12693_13153-141A3_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin02hr30minBiolRep2_CNhs12693_ctss_fwd Tc:K562ToHemin_02hr30minBr2+ K562 erythroblastic leukemia response to hemin, 02hr30min, biol_rep2_CNhs12693_13153-141A3_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin02hr30minBiolRep1_CNhs12465_ctss_rev Tc:K562ToHemin_02hr30minBr1- K562 erythroblastic leukemia response to hemin, 02hr30min, biol_rep1_CNhs12465_13087-140B9_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin02hr30minBiolRep1_CNhs12465_ctss_fwd Tc:K562ToHemin_02hr30minBr1+ K562 erythroblastic leukemia response to hemin, 02hr30min, biol_rep1_CNhs12465_13087-140B9_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin02hr00minBiolRep3_CNhs12794_ctss_rev Tc:K562ToHemin_02hr00minBr3- K562 erythroblastic leukemia response to hemin, 02hr00min, biol_rep3_CNhs12794_13218-141H5_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin02hr00minBiolRep3_CNhs12794_ctss_fwd Tc:K562ToHemin_02hr00minBr3+ K562 erythroblastic leukemia response to hemin, 02hr00min, biol_rep3_CNhs12794_13218-141H5_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin02hr00minBiolRep2_CNhs12692_ctss_rev Tc:K562ToHemin_02hr00minBr2- K562 erythroblastic leukemia response to hemin, 02hr00min, biol_rep2_CNhs12692_13152-141A2_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin02hr00minBiolRep2_CNhs12692_ctss_fwd Tc:K562ToHemin_02hr00minBr2+ K562 erythroblastic leukemia response to hemin, 02hr00min, biol_rep2_CNhs12692_13152-141A2_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin02hr00minBiolRep1_CNhs12737_ctss_rev Tc:K562ToHemin_02hr00minBr1- K562 erythroblastic leukemia response to hemin, 02hr00min, biol_rep1_CNhs12737_13086-140B8_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin02hr00minBiolRep1_CNhs12737_ctss_fwd Tc:K562ToHemin_02hr00minBr1+ K562 erythroblastic leukemia response to hemin, 02hr00min, biol_rep1_CNhs12737_13086-140B8_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin01hr40minBiolRep3_CNhs12792_ctss_rev Tc:K562ToHemin_01hr40minBr3- K562 erythroblastic leukemia response to hemin, 01hr40min, biol_rep3_CNhs12792_13217-141H4_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin01hr40minBiolRep3_CNhs12792_ctss_fwd Tc:K562ToHemin_01hr40minBr3+ K562 erythroblastic leukemia response to hemin, 01hr40min, biol_rep3_CNhs12792_13217-141H4_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin01hr40minBiolRep2_CNhs12691_ctss_rev Tc:K562ToHemin_01hr40minBr2- K562 erythroblastic leukemia response to hemin, 01hr40min, biol_rep2_CNhs12691_13151-141A1_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin01hr40minBiolRep2_CNhs12691_ctss_fwd Tc:K562ToHemin_01hr40minBr2+ K562 erythroblastic leukemia response to hemin, 01hr40min, biol_rep2_CNhs12691_13151-141A1_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin01hr40minBiolRep1_CNhs12464_ctss_rev Tc:K562ToHemin_01hr40minBr1- K562 erythroblastic leukemia response to hemin, 01hr40min, biol_rep1_CNhs12464_13085-140B7_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin01hr40minBiolRep1_CNhs12464_ctss_fwd Tc:K562ToHemin_01hr40minBr1+ K562 erythroblastic leukemia response to hemin, 01hr40min, biol_rep1_CNhs12464_13085-140B7_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin01hr20minBiolRep3_CNhs12791_ctss_rev Tc:K562ToHemin_01hr20minBr3- K562 erythroblastic leukemia response to hemin, 01hr20min, biol_rep3_CNhs12791_13216-141H3_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin01hr20minBiolRep3_CNhs12791_ctss_fwd Tc:K562ToHemin_01hr20minBr3+ K562 erythroblastic leukemia response to hemin, 01hr20min, biol_rep3_CNhs12791_13216-141H3_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin01hr20minBiolRep2_CNhs12690_ctss_rev Tc:K562ToHemin_01hr20minBr2- K562 erythroblastic leukemia response to hemin, 01hr20min, biol_rep2_CNhs12690_13150-140I9_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin01hr20minBiolRep2_CNhs12690_ctss_fwd Tc:K562ToHemin_01hr20minBr2+ K562 erythroblastic leukemia response to hemin, 01hr20min, biol_rep2_CNhs12690_13150-140I9_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin01hr20minBiolRep1_CNhs12463_ctss_rev Tc:K562ToHemin_01hr20minBr1- K562 erythroblastic leukemia response to hemin, 01hr20min, biol_rep1_CNhs12463_13084-140B6_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin01hr20minBiolRep1_CNhs12463_ctss_fwd Tc:K562ToHemin_01hr20minBr1+ K562 erythroblastic leukemia response to hemin, 01hr20min, biol_rep1_CNhs12463_13084-140B6_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin01hr00minBiolRep3_CNhs12790_ctss_rev Tc:K562ToHemin_01hr00minBr3- K562 erythroblastic leukemia response to hemin, 01hr00min, biol_rep3_CNhs12790_13215-141H2_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin01hr00minBiolRep3_CNhs12790_ctss_fwd Tc:K562ToHemin_01hr00minBr3+ K562 erythroblastic leukemia response to hemin, 01hr00min, biol_rep3_CNhs12790_13215-141H2_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin01hr00minBiolRep2_CNhs12689_ctss_rev Tc:K562ToHemin_01hr00minBr2- K562 erythroblastic leukemia response to hemin, 01hr00min, biol_rep2_CNhs12689_13149-140I8_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin01hr00minBiolRep2_CNhs12689_ctss_fwd Tc:K562ToHemin_01hr00minBr2+ K562 erythroblastic leukemia response to hemin, 01hr00min, biol_rep2_CNhs12689_13149-140I8_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin01hr00minBiolRep1_CNhs12462_ctss_rev Tc:K562ToHemin_01hr00minBr1- K562 erythroblastic leukemia response to hemin, 01hr00min, biol_rep1_CNhs12462_13083-140B5_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin01hr00minBiolRep1_CNhs12462_ctss_fwd Tc:K562ToHemin_01hr00minBr1+ K562 erythroblastic leukemia response to hemin, 01hr00min, biol_rep1_CNhs12462_13083-140B5_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin00hr45minBiolRep3_CNhs12789_ctss_rev Tc:K562ToHemin_00hr45minBr3- K562 erythroblastic leukemia response to hemin, 00hr45min, biol_rep3_CNhs12789_13214-141H1_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin00hr45minBiolRep3_CNhs12789_ctss_fwd Tc:K562ToHemin_00hr45minBr3+ K562 erythroblastic leukemia response to hemin, 00hr45min, biol_rep3_CNhs12789_13214-141H1_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin00hr45minBiolRep2_CNhs12688_ctss_rev Tc:K562ToHemin_00hr45minBr2- K562 erythroblastic leukemia response to hemin, 00hr45min, biol_rep2_CNhs12688_13148-140I7_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin00hr45minBiolRep2_CNhs12688_ctss_fwd Tc:K562ToHemin_00hr45minBr2+ K562 erythroblastic leukemia response to hemin, 00hr45min, biol_rep2_CNhs12688_13148-140I7_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin00hr45minBiolRep1_CNhs12461_ctss_rev Tc:K562ToHemin_00hr45minBr1- K562 erythroblastic leukemia response to hemin, 00hr45min, biol_rep1_CNhs12461_13082-140B4_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin00hr45minBiolRep1_CNhs12461_ctss_fwd Tc:K562ToHemin_00hr45minBr1+ K562 erythroblastic leukemia response to hemin, 00hr45min, biol_rep1_CNhs12461_13082-140B4_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin00hr30minBiolRep3_CNhs12788_ctss_rev Tc:K562ToHemin_00hr30minBr3- K562 erythroblastic leukemia response to hemin, 00hr30min, biol_rep3_CNhs12788_13213-141G9_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin00hr30minBiolRep3_CNhs12788_ctss_fwd Tc:K562ToHemin_00hr30minBr3+ K562 erythroblastic leukemia response to hemin, 00hr30min, biol_rep3_CNhs12788_13213-141G9_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin00hr30minBiolRep2_CNhs12687_ctss_rev Tc:K562ToHemin_00hr30minBr2- K562 erythroblastic leukemia response to hemin, 00hr30min, biol_rep2_CNhs12687_13147-140I6_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin00hr30minBiolRep2_CNhs12687_ctss_fwd Tc:K562ToHemin_00hr30minBr2+ K562 erythroblastic leukemia response to hemin, 00hr30min, biol_rep2_CNhs12687_13147-140I6_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin00hr30minBiolRep1_CNhs12460_ctss_rev Tc:K562ToHemin_00hr30minBr1- K562 erythroblastic leukemia response to hemin, 00hr30min, biol_rep1_CNhs12460_13081-140B3_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin00hr30minBiolRep1_CNhs12460_ctss_fwd Tc:K562ToHemin_00hr30minBr1+ K562 erythroblastic leukemia response to hemin, 00hr30min, biol_rep1_CNhs12460_13081-140B3_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin00hr15minBiolRep3_CNhs12787_ctss_rev Tc:K562ToHemin_00hr15minBr3- K562 erythroblastic leukemia response to hemin, 00hr15min, biol_rep3_CNhs12787_13212-141G8_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin00hr15minBiolRep3_CNhs12787_ctss_fwd Tc:K562ToHemin_00hr15minBr3+ K562 erythroblastic leukemia response to hemin, 00hr15min, biol_rep3_CNhs12787_13212-141G8_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin00hr15minBiolRep2_CNhs12686_ctss_rev Tc:K562ToHemin_00hr15minBr2- K562 erythroblastic leukemia response to hemin, 00hr15min, biol_rep2_CNhs12686_13146-140I5_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin00hr15minBiolRep2_CNhs12686_ctss_fwd Tc:K562ToHemin_00hr15minBr2+ K562 erythroblastic leukemia response to hemin, 00hr15min, biol_rep2_CNhs12686_13146-140I5_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin00hr15minBiolRep1_CNhs12459_ctss_rev Tc:K562ToHemin_00hr15minBr1- K562 erythroblastic leukemia response to hemin, 00hr15min, biol_rep1_CNhs12459_13080-140B2_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin00hr15minBiolRep1_CNhs12459_ctss_fwd Tc:K562ToHemin_00hr15minBr1+ K562 erythroblastic leukemia response to hemin, 00hr15min, biol_rep1_CNhs12459_13080-140B2_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin00hr00minBiolRep3_CNhs12786_ctss_rev Tc:K562ToHemin_00hr00minBr3- K562 erythroblastic leukemia response to hemin, 00hr00min, biol_rep3_CNhs12786_13211-141G7_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin00hr00minBiolRep3_CNhs12786_ctss_fwd Tc:K562ToHemin_00hr00minBr3+ K562 erythroblastic leukemia response to hemin, 00hr00min, biol_rep3_CNhs12786_13211-141G7_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin00hr00minBiolRep2_CNhs12684_ctss_rev Tc:K562ToHemin_00hr00minBr2- K562 erythroblastic leukemia response to hemin, 00hr00min, biol_rep2_CNhs12684_13145-140I4_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin00hr00minBiolRep2_CNhs12684_ctss_fwd Tc:K562ToHemin_00hr00minBr2+ K562 erythroblastic leukemia response to hemin, 00hr00min, biol_rep2_CNhs12684_13145-140I4_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin00hr00minBiolRep1_CNhs12458_ctss_rev Tc:K562ToHemin_00hr00minBr1- K562 erythroblastic leukemia response to hemin, 00hr00min, biol_rep1_CNhs12458_13079-140B1_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin00hr00minBiolRep1_CNhs12458_ctss_fwd Tc:K562ToHemin_00hr00minBr1+ K562 erythroblastic leukemia response to hemin, 00hr00min, biol_rep1_CNhs12458_13079-140B1_forward Regulation 
HIPSBiolRep3_CNhs14216_ctss_rev Tc:hIPSBr3- hIPS, biol_rep3_CNhs14216_14382-156B8_reverse Regulation 
HIPSBiolRep3_CNhs14216_ctss_fwd Tc:hIPSBr3+ hIPS, biol_rep3_CNhs14216_14382-156B8_forward Regulation 
HIPSBiolRep2_CNhs14215_ctss_rev Tc:hIPSBr2- hIPS, biol_rep2_CNhs14215_14381-156B7_reverse Regulation 
HIPSBiolRep2_CNhs14215_ctss_fwd Tc:hIPSBr2+ hIPS, biol_rep2_CNhs14215_14381-156B7_forward Regulation 
HIPSBiolRep1_CNhs14214_ctss_rev Tc:hIPSBr1- hIPS, biol_rep1_CNhs14214_14380-156B6_reverse Regulation 
HIPSBiolRep1_CNhs14214_ctss_fwd Tc:hIPSBr1+ hIPS, biol_rep1_CNhs14214_14380-156B6_forward Regulation 
HIPSCCl2BiolRep3_CNhs14219_ctss_rev Tc:hIPS+CCl2Br3- hIPS +CCl2, biol_rep3_CNhs14219_14385-156C2_reverse Regulation 
HIPSCCl2BiolRep3_CNhs14219_ctss_fwd Tc:hIPS+CCl2Br3+ hIPS +CCl2, biol_rep3_CNhs14219_14385-156C2_forward Regulation 
HIPSCCl2BiolRep2_CNhs14218_ctss_rev Tc:hIPS+CCl2Br2- hIPS +CCl2, biol_rep2_CNhs14218_14384-156C1_reverse Regulation 
HIPSCCl2BiolRep2_CNhs14218_ctss_fwd Tc:hIPS+CCl2Br2+ hIPS +CCl2, biol_rep2_CNhs14218_14384-156C1_forward Regulation 
HIPSCCl2BiolRep1_CNhs14217_ctss_rev Tc:hIPS+CCl2Br1- hIPS +CCl2, biol_rep1_CNhs14217_14383-156B9_reverse Regulation 
HIPSCCl2BiolRep1_CNhs14217_ctss_fwd Tc:hIPS+CCl2Br1+ hIPS +CCl2, biol_rep1_CNhs14217_14383-156B9_forward Regulation 
H1EmbryonicStemCellsDifferentiationToCD34HSCDay09BiolRep3_CNhs13971_ctss_rev Tc:H1ToHsc_Day09Br3- H1 embryonic stem cells differentiation to CD34+ HSC, day09, biol_rep3_CNhs13971_13531-145G3_reverse Regulation 
H1EmbryonicStemCellsDifferentiationToCD34HSCDay09BiolRep3_CNhs13971_ctss_fwd Tc:H1ToHsc_Day09Br3+ H1 embryonic stem cells differentiation to CD34+ HSC, day09, biol_rep3_CNhs13971_13531-145G3_forward Regulation 
H1EmbryonicStemCellsDifferentiationToCD34HSCDay09BiolRep2_CNhs13970_ctss_rev Tc:H1ToHsc_Day09Br2- H1 embryonic stem cells differentiation to CD34+ HSC, day09, biol_rep2_CNhs13970_13530-145G2_reverse Regulation 
H1EmbryonicStemCellsDifferentiationToCD34HSCDay09BiolRep2_CNhs13970_ctss_fwd Tc:H1ToHsc_Day09Br2+ H1 embryonic stem cells differentiation to CD34+ HSC, day09, biol_rep2_CNhs13970_13530-145G2_forward Regulation 
H1EmbryonicStemCellsDifferentiationToCD34HSCDay09BiolRep1_CNhs13969_ctss_rev Tc:H1ToHsc_Day09Br1- H1 embryonic stem cells differentiation to CD34+ HSC, day09, biol_rep1_CNhs13969_13529-145G1_reverse Regulation 
H1EmbryonicStemCellsDifferentiationToCD34HSCDay09BiolRep1_CNhs13969_ctss_fwd Tc:H1ToHsc_Day09Br1+ H1 embryonic stem cells differentiation to CD34+ HSC, day09, biol_rep1_CNhs13969_13529-145G1_forward Regulation 
H1EmbryonicStemCellsDifferentiationToCD34HSCDay03BiolRep3_CNhs13968_ctss_rev Tc:H1ToHsc_Day03Br3- H1 embryonic stem cells differentiation to CD34+ HSC, day03, biol_rep3_CNhs13968_13528-145F9_reverse Regulation 
H1EmbryonicStemCellsDifferentiationToCD34HSCDay03BiolRep3_CNhs13968_ctss_fwd Tc:H1ToHsc_Day03Br3+ H1 embryonic stem cells differentiation to CD34+ HSC, day03, biol_rep3_CNhs13968_13528-145F9_forward Regulation 
H1EmbryonicStemCellsDifferentiationToCD34HSCDay03BiolRep2_CNhs13966_ctss_rev Tc:H1ToHsc_Day03Br2- H1 embryonic stem cells differentiation to CD34+ HSC, day03, biol_rep2_CNhs13966_13527-145F8_reverse Regulation 
H1EmbryonicStemCellsDifferentiationToCD34HSCDay03BiolRep2_CNhs13966_ctss_fwd Tc:H1ToHsc_Day03Br2+ H1 embryonic stem cells differentiation to CD34+ HSC, day03, biol_rep2_CNhs13966_13527-145F8_forward Regulation 
H1EmbryonicStemCellsDifferentiationToCD34HSCDay03BiolRep1_CNhs13965_ctss_rev Tc:H1ToHsc_Day03Br1- H1 embryonic stem cells differentiation to CD34+ HSC, day03, biol_rep1_CNhs13965_13526-145F7_reverse Regulation 
H1EmbryonicStemCellsDifferentiationToCD34HSCDay03BiolRep1_CNhs13965_ctss_fwd Tc:H1ToHsc_Day03Br1+ H1 embryonic stem cells differentiation to CD34+ HSC, day03, biol_rep1_CNhs13965_13526-145F7_forward Regulation 
H1EmbryonicStemCellsDifferentiationToCD34HSCDay00BiolRep3_CNhs13964_ctss_rev Tc:H1ToHsc_Day00Br3- H1 embryonic stem cells differentiation to CD34+ HSC, day00, biol_rep3_CNhs13964_13525-145F6_reverse Regulation 
H1EmbryonicStemCellsDifferentiationToCD34HSCDay00BiolRep3_CNhs13964_ctss_fwd Tc:H1ToHsc_Day00Br3+ H1 embryonic stem cells differentiation to CD34+ HSC, day00, biol_rep3_CNhs13964_13525-145F6_forward Regulation 
H1EmbryonicStemCellsDifferentiationToCD34HSCDay00BiolRep2_CNhs14068_ctss_rev Tc:H1ToHsc_Day00Br2- H1 embryonic stem cells differentiation to CD34+ HSC, day00, biol_rep2_CNhs14068_13524-145F5_reverse Regulation 
H1EmbryonicStemCellsDifferentiationToCD34HSCDay00BiolRep2_CNhs14068_ctss_fwd Tc:H1ToHsc_Day00Br2+ H1 embryonic stem cells differentiation to CD34+ HSC, day00, biol_rep2_CNhs14068_13524-145F5_forward Regulation 
H1EmbryonicStemCellsDifferentiationToCD34HSCDay00BiolRep1_CNhs14067_ctss_rev Tc:H1ToHsc_Day00Br1- H1 embryonic stem cells differentiation to CD34+ HSC, day00, biol_rep1_CNhs14067_13523-145F4_reverse Regulation 
H1EmbryonicStemCellsDifferentiationToCD34HSCDay00BiolRep1_CNhs14067_ctss_fwd Tc:H1ToHsc_Day00Br1+ H1 embryonic stem cells differentiation to CD34+ HSC, day00, biol_rep1_CNhs14067_13523-145F4_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha24hr00minBiolRep2_CNhs14536_ctss_rev Tc:ARPE-19Emt_24hr00minBr2- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 24hr00min, biol_rep2_CNhs14536_13680-147E8_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha24hr00minBiolRep2_CNhs14536_ctss_fwd Tc:ARPE-19Emt_24hr00minBr2+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 24hr00min, biol_rep2_CNhs14536_13680-147E8_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha06hr00minBiolRep2_CNhs14520_ctss_rev Tc:ARPE-19Emt_06hr00minBr2- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 06hr00min, biol_rep2_CNhs14520_13665-147D2_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha06hr00minBiolRep2_CNhs14520_ctss_fwd Tc:ARPE-19Emt_06hr00minBr2+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 06hr00min, biol_rep2_CNhs14520_13665-147D2_forward Regulation 
MyoblastDifferentiationToMyotubesDay10ControlDonor3_CNhs14584_ctss_rev MyoblastToMyotubes_Day10D3- Myoblast differentiation to myotubes, day10, control donor3_CNhs14584_13494-145C2_reverse Regulation 
MyoblastDifferentiationToMyotubesDay10ControlDonor3_CNhs14584_ctss_fwd MyoblastToMyotubes_Day10D3+ Myoblast differentiation to myotubes, day10, control donor3_CNhs14584_13494-145C2_forward Regulation 
MyoblastDifferentiationToMyotubesDay06DuchenneMuscularDystrophyDonor2_CNhs14601_ctss_rev MyoblastToMyotubes_Day06D2- Myoblast differentiation to myotubes, day06, Duchenne Muscular Dystrophy donor2_CNhs14601_13510-145D9_reverse Regulation 
MyoblastDifferentiationToMyotubesDay06DuchenneMuscularDystrophyDonor2_CNhs14601_ctss_fwd MyoblastToMyotubes_Day06D2+ Myoblast differentiation to myotubes, day06, Duchenne Muscular Dystrophy donor2_CNhs14601_13510-145D9_forward Regulation 
MyoblastDifferentiationToMyotubesDay01ControlDonor2_CNhs14568_ctss_rev MyoblastToMyotubes_Day01D2- Myoblast differentiation to myotubes, day01, control donor2_CNhs14568_13479-145A5_reverse Regulation 
MyoblastDifferentiationToMyotubesDay01ControlDonor2_CNhs14568_ctss_fwd MyoblastToMyotubes_Day01D2+ Myoblast differentiation to myotubes, day01, control donor2_CNhs14568_13479-145A5_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay14BiolRep2_CNhs13631_ctss_rev MscAdipogenicInduction_Day14Br2- mesenchymal stem cells (adipose derived), adipogenic induction, day14, biol_rep2_CNhs13631_13278-142F2_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay14BiolRep2_CNhs13631_ctss_fwd MscAdipogenicInduction_Day14Br2+ mesenchymal stem cells (adipose derived), adipogenic induction, day14, biol_rep2_CNhs13631_13278-142F2_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay04BiolRep2_CNhs13623_ctss_rev MscAdipogenicInduction_Day04Br2- mesenchymal stem cells (adipose derived), adipogenic induction, day04, biol_rep2_CNhs13623_13269-142E2_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay04BiolRep2_CNhs13623_ctss_fwd MscAdipogenicInduction_Day04Br2+ mesenchymal stem cells (adipose derived), adipogenic induction, day04, biol_rep2_CNhs13623_13269-142E2_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay01BiolRep1_CNhs13615_ctss_rev MscAdipogenicInduction_Day01Br1- mesenchymal stem cells (adipose derived), adipogenic induction, day01, biol_rep1_CNhs13615_13262-142D4_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay01BiolRep1_CNhs13615_ctss_fwd MscAdipogenicInduction_Day01Br1+ mesenchymal stem cells (adipose derived), adipogenic induction, day01, biol_rep1_CNhs13615_13262-142D4_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction12hr00minBiolRep3_CNhs13614_ctss_rev MscAdipogenicInduction_12hr00minBr3- mesenchymal stem cells (adipose derived), adipogenic induction, 12hr00min, biol_rep3_CNhs13614_13261-142D3_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction12hr00minBiolRep3_CNhs13614_ctss_fwd MscAdipogenicInduction_12hr00minBr3+ mesenchymal stem cells (adipose derived), adipogenic induction, 12hr00min, biol_rep3_CNhs13614_13261-142D3_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction12hr00minBiolRep2_CNhs13613_ctss_rev MscAdipogenicInduction_12hr00minBr2- mesenchymal stem cells (adipose derived), adipogenic induction, 12hr00min, biol_rep2_CNhs13613_13260-142D2_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction12hr00minBiolRep2_CNhs13613_ctss_fwd MscAdipogenicInduction_12hr00minBr2+ mesenchymal stem cells (adipose derived), adipogenic induction, 12hr00min, biol_rep2_CNhs13613_13260-142D2_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction12hr00minBiolRep1_CNhs13612_ctss_rev MscAdipogenicInduction_12hr00minBr1- mesenchymal stem cells (adipose derived), adipogenic induction, 12hr00min, biol_rep1_CNhs13612_13259-142D1_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction12hr00minBiolRep1_CNhs13612_ctss_fwd MscAdipogenicInduction_12hr00minBr1+ mesenchymal stem cells (adipose derived), adipogenic induction, 12hr00min, biol_rep1_CNhs13612_13259-142D1_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction03hr00minBiolRep2_CNhs13610_ctss_rev MscAdipogenicInduction_03hr00minBr2- mesenchymal stem cells (adipose derived), adipogenic induction, 03hr00min, biol_rep2_CNhs13610_13257-142C8_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction03hr00minBiolRep2_CNhs13610_ctss_fwd MscAdipogenicInduction_03hr00minBr2+ mesenchymal stem cells (adipose derived), adipogenic induction, 03hr00min, biol_rep2_CNhs13610_13257-142C8_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction02hr30minBiolRep2_CNhs13607_ctss_rev MscAdipogenicInduction_02hr30minBr2- mesenchymal stem cells (adipose derived), adipogenic induction, 02hr30min, biol_rep2_CNhs13607_13254-142C5_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction02hr30minBiolRep2_CNhs13607_ctss_fwd MscAdipogenicInduction_02hr30minBr2+ mesenchymal stem cells (adipose derived), adipogenic induction, 02hr30min, biol_rep2_CNhs13607_13254-142C5_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction02hr00minBiolRep3_CNhs13605_ctss_rev MscAdipogenicInduction_02hr00minBr3- mesenchymal stem cells (adipose derived), adipogenic induction, 02hr00min, biol_rep3_CNhs13605_13252-142C3_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction02hr00minBiolRep3_CNhs13605_ctss_fwd MscAdipogenicInduction_02hr00minBr3+ mesenchymal stem cells (adipose derived), adipogenic induction, 02hr00min, biol_rep3_CNhs13605_13252-142C3_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction01hr20minBiolRep3_CNhs13599_ctss_rev MscAdipogenicInduction_01hr20minBr3- mesenchymal stem cells (adipose derived), adipogenic induction, 01hr20min, biol_rep3_CNhs13599_13246-142B6_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction01hr20minBiolRep3_CNhs13599_ctss_fwd MscAdipogenicInduction_01hr20minBr3+ mesenchymal stem cells (adipose derived), adipogenic induction, 01hr20min, biol_rep3_CNhs13599_13246-142B6_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction01hr20minBiolRep2_CNhs13598_ctss_rev MscAdipogenicInduction_01hr20minBr2- mesenchymal stem cells (adipose derived), adipogenic induction, 01hr20min, biol_rep2_CNhs13598_13245-142B5_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction01hr20minBiolRep2_CNhs13598_ctss_fwd MscAdipogenicInduction_01hr20minBr2+ mesenchymal stem cells (adipose derived), adipogenic induction, 01hr20min, biol_rep2_CNhs13598_13245-142B5_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction01hr20minBiolRep1_CNhs13434_ctss_rev MscAdipogenicInduction_01hr20minBr1- mesenchymal stem cells (adipose derived), adipogenic induction, 01hr20min, biol_rep1_CNhs13434_13244-142B4_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction01hr20minBiolRep1_CNhs13434_ctss_fwd MscAdipogenicInduction_01hr20minBr1+ mesenchymal stem cells (adipose derived), adipogenic induction, 01hr20min, biol_rep1_CNhs13434_13244-142B4_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction00hr30minBiolRep3_CNhs13427_ctss_rev MscAdipogenicInduction_00hr30minBr3- mesenchymal stem cells (adipose derived), adipogenic induction, 00hr30min, biol_rep3_CNhs13427_13237-142A6_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction00hr30minBiolRep3_CNhs13427_ctss_fwd MscAdipogenicInduction_00hr30minBr3+ mesenchymal stem cells (adipose derived), adipogenic induction, 00hr30min, biol_rep3_CNhs13427_13237-142A6_forward Regulation 
MonocytederivedMacrophagesResponseToUdornInfluenzaInfection24hr00minDonor4227_121Ud_24h_CNhs13643_ctss_rev MonocyteMacrophageUdornInfluenza_24hr00minD4- Monocyte-derived macrophages response to udorn influenza infection, 24hr00min, donor4 (227_121:Ud_24h)_CNhs13643_13314-143A2_reverse Regulation 
MonocytederivedMacrophagesResponseToUdornInfluenzaInfection24hr00minDonor4227_121Ud_24h_CNhs13643_ctss_fwd MonocyteMacrophageUdornInfluenza_24hr00minD4+ Monocyte-derived macrophages response to udorn influenza infection, 24hr00min, donor4 (227_121:Ud_24h)_CNhs13643_13314-143A2_forward Regulation 
MonocytederivedMacrophagesResponseToUdornInfluenzaInfection02hr00minDonor2150_120Ud_2h_CNhs13647_ctss_rev MonocyteMacrophageUdornInfluenza_02hr00minD2- Monocyte-derived macrophages response to udorn influenza infection, 02hr00min, donor2 (150_120:Ud_2h)_CNhs13647_13318-143A6_reverse Regulation 
MonocytederivedMacrophagesResponseToUdornInfluenzaInfection02hr00minDonor2150_120Ud_2h_CNhs13647_ctss_fwd MonocyteMacrophageUdornInfluenza_02hr00minD2+ Monocyte-derived macrophages response to udorn influenza infection, 02hr00min, donor2 (150_120:Ud_2h)_CNhs13647_13318-143A6_forward Regulation 
MelanocyteDonor3MC3_CNhs13406_ctss_rev MelanocyteD3- Melanocyte, donor3 (MC+3)_CNhs13406_12837-137B2_reverse Regulation 
MelanocyteDonor3MC3_CNhs13406_ctss_fwd MelanocyteD3+ Melanocyte, donor3 (MC+3)_CNhs13406_12837-137B2_forward Regulation 
MelanocyteDonor2MC2_CNhs13156_ctss_rev MelanocyteD2- Melanocyte, donor2 (MC+2)_CNhs13156_12739-135I3_reverse Regulation 
MelanocyteDonor2MC2_CNhs13156_ctss_fwd MelanocyteD2+ Melanocyte, donor2 (MC+2)_CNhs13156_12739-135I3_forward Regulation 
MelanocyteDonor1MC1_CNhs12816_ctss_rev MelanocyteD1- Melanocyte, donor1 (MC+1)_CNhs12816_12641-134G4_reverse Regulation 
MelanocyteDonor1MC1_CNhs12816_ctss_fwd MelanocyteD1+ Melanocyte, donor1 (MC+1)_CNhs12816_12641-134G4_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay07BiolRep1_CNhs13659_ctss_rev Hes3-gfpCardiomyocyticInduction_Day07Br1- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day07, biol_rep1_CNhs13659_13334-143C4_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay07BiolRep1_CNhs13659_ctss_fwd Hes3-gfpCardiomyocyticInduction_Day07Br1+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day07, biol_rep1_CNhs13659_13334-143C4_forward Regulation 
H9EmbryonicStemCellsBiolRep3H9ES3_CNhs12837_ctss_rev H9EmbryonicStemCellsBr3- H9 Embryonic Stem cells, biol_rep3 (H9ES-3)_CNhs12837_12822-136I5_reverse Regulation 
H9EmbryonicStemCellsBiolRep3H9ES3_CNhs12837_ctss_fwd H9EmbryonicStemCellsBr3+ H9 Embryonic Stem cells, biol_rep3 (H9ES-3)_CNhs12837_12822-136I5_forward Regulation 
H9EmbryonicStemCellsBiolRep2H9ES2_CNhs12824_ctss_rev H9EmbryonicStemCellsBr2- H9 Embryonic Stem cells, biol_rep2 (H9ES-2)_CNhs12824_12724-135G6_reverse Regulation 
H9EmbryonicStemCellsBiolRep2H9ES2_CNhs12824_ctss_fwd H9EmbryonicStemCellsBr2+ H9 Embryonic Stem cells, biol_rep2 (H9ES-2)_CNhs12824_12724-135G6_forward Regulation 
H9EmbryonicStemCellsBiolRep1H9ES1_CNhs11917_ctss_rev H9EmbryonicStemCellsBr1- H9 Embryonic Stem cells, biol_rep1 (H9ES-1)_CNhs11917_12626-134E7_reverse Regulation 
H9EmbryonicStemCellsBiolRep1H9ES1_CNhs11917_ctss_fwd H9EmbryonicStemCellsBr1+ H9 Embryonic Stem cells, biol_rep1 (H9ES-1)_CNhs11917_12626-134E7_forward Regulation 
AorticSmoothMuscleCellResponseToIL1b05hrBiolRep3LK57_CNhs13585_ctss_rev AorticSmsToIL1b_05hrBr3- Aortic smooth muscle cell response to IL1b, 05hr, biol_rep3 (LK57)_CNhs13585_12856-137D3_reverse Regulation 
AorticSmoothMuscleCellResponseToIL1b05hrBiolRep3LK57_CNhs13585_ctss_fwd AorticSmsToIL1b_05hrBr3+ Aortic smooth muscle cell response to IL1b, 05hr, biol_rep3 (LK57)_CNhs13585_12856-137D3_forward Regulation 
AorticSmoothMuscleCellResponseToIL1b03hrBiolRep3LK51_CNhs13583_ctss_rev AorticSmsToIL1b_03hrBr3- Aortic smooth muscle cell response to IL1b, 03hr, biol_rep3 (LK51)_CNhs13583_12854-137D1_reverse Regulation 
AorticSmoothMuscleCellResponseToIL1b03hrBiolRep3LK51_CNhs13583_ctss_fwd AorticSmsToIL1b_03hrBr3+ Aortic smooth muscle cell response to IL1b, 03hr, biol_rep3 (LK51)_CNhs13583_12854-137D1_forward Regulation 
AorticSmoothMuscleCellResponseToIL1b02hrBiolRep1LK46_CNhs13354_ctss_rev AorticSmsToIL1b_02hrBr1- Aortic smooth muscle cell response to IL1b, 02hr, biol_rep1 (LK46)_CNhs13354_12657-134I2_reverse Regulation 
AorticSmoothMuscleCellResponseToIL1b02hrBiolRep1LK46_CNhs13354_ctss_fwd AorticSmsToIL1b_02hrBr1+ Aortic smooth muscle cell response to IL1b, 02hr, biol_rep1 (LK46)_CNhs13354_12657-134I2_forward Regulation 
AorticSmoothMuscleCellResponseToIL1b01hrBiolRep3LK45_CNhs13581_ctss_rev AorticSmsToIL1b_01hrBr3- Aortic smooth muscle cell response to IL1b, 01hr, biol_rep3 (LK45)_CNhs13581_12852-137C8_reverse Regulation 
AorticSmoothMuscleCellResponseToIL1b01hrBiolRep3LK45_CNhs13581_ctss_fwd AorticSmsToIL1b_01hrBr3+ Aortic smooth muscle cell response to IL1b, 01hr, biol_rep3 (LK45)_CNhs13581_12852-137C8_forward Regulation 
AorticSmoothMuscleCellResponseToFGF204hrBiolRep3LK24_CNhs13574_ctss_rev AorticSmsToFgf2_04hrBr3- Aortic smooth muscle cell response to FGF2, 04hr, biol_rep3 (LK24)_CNhs13574_12845-137C1_reverse Regulation 
AorticSmoothMuscleCellResponseToFGF204hrBiolRep3LK24_CNhs13574_ctss_fwd AorticSmsToFgf2_04hrBr3+ Aortic smooth muscle cell response to FGF2, 04hr, biol_rep3 (LK24)_CNhs13574_12845-137C1_forward Regulation 
AorticSmoothMuscleCellResponseToFGF204hrBiolRep2LK23_CNhs13365_ctss_rev AorticSmsToFgf2_04hrBr2- Aortic smooth muscle cell response to FGF2, 04hr, biol_rep2 (LK23)_CNhs13365_12747-136A2_reverse Regulation 
AorticSmoothMuscleCellResponseToFGF204hrBiolRep2LK23_CNhs13365_ctss_fwd AorticSmsToFgf2_04hrBr2+ Aortic smooth muscle cell response to FGF2, 04hr, biol_rep2 (LK23)_CNhs13365_12747-136A2_forward Regulation 
AorticSmoothMuscleCellResponseToFGF204hrBiolRep1LK22_CNhs13346_ctss_rev AorticSmsToFgf2_04hrBr1- Aortic smooth muscle cell response to FGF2, 04hr, biol_rep1 (LK22)_CNhs13346_12649-134H3_reverse Regulation 
AorticSmoothMuscleCellResponseToFGF204hrBiolRep1LK22_CNhs13346_ctss_fwd AorticSmsToFgf2_04hrBr1+ Aortic smooth muscle cell response to FGF2, 04hr, biol_rep1 (LK22)_CNhs13346_12649-134H3_forward Regulation 
AorticSmoothMuscleCellResponseToFGF201hrBiolRep2LK14_CNhs13362_ctss_rev AorticSmsToFgf2_01hrBr2- Aortic smooth muscle cell response to FGF2, 01hr, biol_rep2 (LK14)_CNhs13362_12744-135I8_reverse Regulation 
AorticSmoothMuscleCellResponseToFGF201hrBiolRep2LK14_CNhs13362_ctss_fwd AorticSmsToFgf2_01hrBr2+ Aortic smooth muscle cell response to FGF2, 01hr, biol_rep2 (LK14)_CNhs13362_12744-135I8_forward Regulation 
AorticSmoothMuscleCellResponseToFGF200hr00minBiolRep3LK3_CNhs13567_ctss_rev AorticSmsToFgf2_00hr00minBr3- Aortic smooth muscle cell response to FGF2, 00hr00min, biol_rep3 (LK3)_CNhs13567_12838-137B3_reverse Regulation 
AorticSmoothMuscleCellResponseToFGF200hr00minBiolRep3LK3_CNhs13567_ctss_fwd AorticSmsToFgf2_00hr00minBr3+ Aortic smooth muscle cell response to FGF2, 00hr00min, biol_rep3 (LK3)_CNhs13567_12838-137B3_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF100hr00minBiolRep1_CNhs12564_ctss_rev Mcf7ToEgf1_00hr00minBr1- MCF7 breast cancer cell line response to EGF1, 00hr00min, biol_rep1_CNhs12564_13031-139E7_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF100hr00minBiolRep1_CNhs12564_ctss_fwd Mcf7ToEgf1_00hr00minBr1+ MCF7 breast cancer cell line response to EGF1, 00hr00min, biol_rep1_CNhs12564_13031-139E7_forward Regulation 
WholeBloodRibopureDonor090612Donation3_CNhs11949_ctss_rev WholeBloodD090612Dn3- Whole blood (ribopure), donor090612, donation3_CNhs11949_12184-129A6_reverse Regulation 
WholeBloodRibopureDonor090612Donation3_CNhs11949_ctss_fwd WholeBloodD090612Dn3+ Whole blood (ribopure), donor090612, donation3_CNhs11949_12184-129A6_forward Regulation 
WholeBloodRibopureDonor090612Donation2_CNhs11673_ctss_rev WholeBloodD090612Dn2- Whole blood (ribopure), donor090612, donation2_CNhs11673_12183-129A5_reverse Regulation 
WholeBloodRibopureDonor090612Donation2_CNhs11673_ctss_fwd WholeBloodD090612Dn2+ Whole blood (ribopure), donor090612, donation2_CNhs11673_12183-129A5_forward Regulation 
WholeBloodRibopureDonor090612Donation1_CNhs11672_ctss_rev WholeBloodD090612Dn1- Whole blood (ribopure), donor090612, donation1_CNhs11672_12182-129A4_reverse Regulation 
WholeBloodRibopureDonor090612Donation1_CNhs11672_ctss_fwd WholeBloodD090612Dn1+ Whole blood (ribopure), donor090612, donation1_CNhs11672_12182-129A4_forward Regulation 
WholeBloodRibopureDonor090325Donation2_CNhs11076_ctss_rev WholeBloodD090325Dn2- Whole blood (ribopure), donor090325, donation2_CNhs11076_12177-128I8_reverse Regulation 
WholeBloodRibopureDonor090325Donation2_CNhs11076_ctss_fwd WholeBloodD090325Dn2+ Whole blood (ribopure), donor090325, donation2_CNhs11076_12177-128I8_forward Regulation 
WholeBloodRibopureDonor090325Donation1_CNhs11075_ctss_rev WholeBloodD090325Dn1- Whole blood (ribopure), donor090325, donation1_CNhs11075_12176-128I7_reverse Regulation 
WholeBloodRibopureDonor090325Donation1_CNhs11075_ctss_fwd WholeBloodD090325Dn1+ Whole blood (ribopure), donor090325, donation1_CNhs11075_12176-128I7_forward Regulation 
WholeBloodRibopureDonor090309Donation3_CNhs11948_ctss_rev WholeBloodD090309Dn3- Whole blood (ribopure), donor090309, donation3_CNhs11948_12181-129A3_reverse Regulation 
WholeBloodRibopureDonor090309Donation3_CNhs11948_ctss_fwd WholeBloodD090309Dn3+ Whole blood (ribopure), donor090309, donation3_CNhs11948_12181-129A3_forward Regulation 
WholeBloodRibopureDonor090309Donation2_CNhs11671_ctss_rev WholeBloodD090309Dn2- Whole blood (ribopure), donor090309, donation2_CNhs11671_12180-129A2_reverse Regulation 
WholeBloodRibopureDonor090309Donation2_CNhs11671_ctss_fwd WholeBloodD090309Dn2+ Whole blood (ribopure), donor090309, donation2_CNhs11671_12180-129A2_forward Regulation 
WholeBloodRibopureDonor090309Donation1_CNhs11675_ctss_rev WholeBloodD090309Dn1- Whole blood (ribopure), donor090309, donation1_CNhs11675_12179-129A1_reverse Regulation 
WholeBloodRibopureDonor090309Donation1_CNhs11675_ctss_fwd WholeBloodD090309Dn1+ Whole blood (ribopure), donor090309, donation1_CNhs11675_12179-129A1_forward Regulation 
UrothelialCellsDonor3_CNhs12122_ctss_rev UrothelialCellsD3- Urothelial Cells, donor3_CNhs12122_11681-122H7_reverse Regulation 
UrothelialCellsDonor3_CNhs12122_ctss_fwd UrothelialCellsD3+ Urothelial Cells, donor3_CNhs12122_11681-122H7_forward Regulation 
UrothelialCellsDonor2_CNhs12091_ctss_rev UrothelialCellsD2- Urothelial Cells, donor2_CNhs12091_11600-120H7_reverse Regulation 
UrothelialCellsDonor2_CNhs12091_ctss_fwd UrothelialCellsD2+ Urothelial Cells, donor2_CNhs12091_11600-120H7_forward Regulation 
UrothelialCellsDonor1_CNhs11334_ctss_rev UrothelialCellsD1- Urothelial Cells, donor1_CNhs11334_11520-119H8_reverse Regulation 
UrothelialCellsDonor1_CNhs11334_ctss_fwd UrothelialCellsD1+ Urothelial Cells, donor1_CNhs11334_11520-119H8_forward Regulation 
UrothelialCellsDonor0_CNhs10843_ctss_rev UrothelialCellsD0- Urothelial cells, donor0_CNhs10843_11216-116B1_reverse Regulation 
UrothelialCellsDonor0_CNhs10843_ctss_fwd UrothelialCellsD0+ Urothelial cells, donor0_CNhs10843_11216-116B1_forward Regulation 
TrachealEpithelialCellsDonor3_CNhs12051_ctss_rev TrachealEpithelialCellsD3- Tracheal Epithelial Cells, donor3_CNhs12051_11441-118I1_reverse Regulation 
TrachealEpithelialCellsDonor3_CNhs12051_ctss_fwd TrachealEpithelialCellsD3+ Tracheal Epithelial Cells, donor3_CNhs12051_11441-118I1_forward Regulation 
TrachealEpithelialCellsDonor2_CNhs11993_ctss_rev TrachealEpithelialCellsD2- Tracheal Epithelial Cells, donor2_CNhs11993_11369-118A1_reverse Regulation 
TrachealEpithelialCellsDonor2_CNhs11993_ctss_fwd TrachealEpithelialCellsD2+ Tracheal Epithelial Cells, donor2_CNhs11993_11369-118A1_forward Regulation 
TrachealEpithelialCellsDonor1_CNhs11092_ctss_rev TrachealEpithelialCellsD1- Tracheal Epithelial Cells, donor1_CNhs11092_11292-117A5_reverse Regulation 
TrachealEpithelialCellsDonor1_CNhs11092_ctss_fwd TrachealEpithelialCellsD1+ Tracheal Epithelial Cells, donor1_CNhs11092_11292-117A5_forward Regulation 
TrabecularMeshworkCellsDonor3_CNhs12124_ctss_rev TrabecularMeshworkCellsD3- Trabecular Meshwork Cells, donor3_CNhs12124_11693-123A1_reverse Regulation 
TrabecularMeshworkCellsDonor3_CNhs12124_ctss_fwd TrabecularMeshworkCellsD3+ Trabecular Meshwork Cells, donor3_CNhs12124_11693-123A1_forward Regulation 
TrabecularMeshworkCellsDonor2_CNhs12097_ctss_rev TrabecularMeshworkCellsD2- Trabecular Meshwork Cells, donor2_CNhs12097_11612-122A1_reverse Regulation 
TrabecularMeshworkCellsDonor2_CNhs12097_ctss_fwd TrabecularMeshworkCellsD2+ Trabecular Meshwork Cells, donor2_CNhs12097_11612-122A1_forward Regulation 
TrabecularMeshworkCellsDonor1_CNhs11340_ctss_rev TrabecularMeshworkCellsD1- Trabecular Meshwork Cells, donor1_CNhs11340_11532-120A2_reverse Regulation 
TrabecularMeshworkCellsDonor1_CNhs11340_ctss_fwd TrabecularMeshworkCellsD1+ Trabecular Meshwork Cells, donor1_CNhs11340_11532-120A2_forward Regulation 
TenocyteDonor3_CNhs12641_ctss_rev TenocyteD3- tenocyte, donor3_CNhs12641_11768-123I4_reverse Regulation 
TenocyteDonor3_CNhs12641_ctss_fwd TenocyteD3+ tenocyte, donor3_CNhs12641_11768-123I4_forward Regulation 
TenocyteDonor2_CNhs12640_ctss_rev TenocyteD2- tenocyte, donor2_CNhs12640_11765-123I1_reverse Regulation 
TenocyteDonor2_CNhs12640_ctss_fwd TenocyteD2+ tenocyte, donor2_CNhs12640_11765-123I1_forward Regulation 
TenocyteDonor1_CNhs12639_ctss_rev TenocyteD1- tenocyte, donor1_CNhs12639_11763-123H8_reverse Regulation 
TenocyteDonor1_CNhs12639_ctss_fwd TenocyteD1+ tenocyte, donor1_CNhs12639_11763-123H8_forward Regulation 
SynoviocyteDonor3_CNhs12050_ctss_rev SynoviocyteD3- Synoviocyte, donor3_CNhs12050_11440-118H9_reverse Regulation 
SynoviocyteDonor3_CNhs12050_ctss_fwd SynoviocyteD3+ Synoviocyte, donor3_CNhs12050_11440-118H9_forward Regulation 
SynoviocyteDonor2_CNhs11992_ctss_rev SynoviocyteD2- Synoviocyte, donor2_CNhs11992_11368-117I9_reverse Regulation 
SynoviocyteDonor2_CNhs11992_ctss_fwd SynoviocyteD2+ Synoviocyte, donor2_CNhs11992_11368-117I9_forward Regulation 
SynoviocyteDonor1_CNhs11068_ctss_rev SynoviocyteD1- Synoviocyte, donor1_CNhs11068_11291-117A4_reverse Regulation 
SynoviocyteDonor1_CNhs11068_ctss_fwd SynoviocyteD1+ Synoviocyte, donor1_CNhs11068_11291-117A4_forward Regulation 
SmoothMuscleCellsUterineDonor3_CNhs11927_ctss_rev SmcUterineD3- Smooth Muscle Cells - Uterine, donor3_CNhs11927_11466-119B8_reverse Regulation 
SmoothMuscleCellsUterineDonor3_CNhs11927_ctss_fwd SmcUterineD3+ Smooth Muscle Cells - Uterine, donor3_CNhs11927_11466-119B8_forward Regulation 
SmoothMuscleCellsUterineDonor1_CNhs11921_ctss_rev SmcUterineD1- Smooth Muscle Cells - Uterine, donor1_CNhs11921_11258-116F7_reverse Regulation 
SmoothMuscleCellsUterineDonor1_CNhs11921_ctss_fwd SmcUterineD1+ Smooth Muscle Cells - Uterine, donor1_CNhs11921_11258-116F7_forward Regulation 
SmoothMuscleCellsUmbilicalVeinDonor3_CNhs13076_ctss_rev SmcUmbilicalVeinD3- Smooth Muscle Cells - Umbilical Vein, donor3_CNhs13076_11702-123B1_reverse Regulation 
SmoothMuscleCellsUmbilicalVeinDonor3_CNhs13076_ctss_fwd SmcUmbilicalVeinD3+ Smooth Muscle Cells - Umbilical Vein, donor3_CNhs13076_11702-123B1_forward Regulation 
SmoothMuscleCellsUmbilicalVeinDonor2_CNhs12569_ctss_rev SmcUmbilicalVeinD2- Smooth Muscle Cells - Umbilical Vein, donor2_CNhs12569_11621-122B1_reverse Regulation 
SmoothMuscleCellsUmbilicalVeinDonor2_CNhs12569_ctss_fwd SmcUmbilicalVeinD2+ Smooth Muscle Cells - Umbilical Vein, donor2_CNhs12569_11621-122B1_forward Regulation 
SmoothMuscleCellsUmbilicalVeinDonor1_CNhs12597_ctss_rev SmcUmbilicalVeinD1- Smooth Muscle Cells - Umbilical Vein, donor1_CNhs12597_11541-120B2_reverse Regulation 
SmoothMuscleCellsUmbilicalVeinDonor1_CNhs12597_ctss_fwd SmcUmbilicalVeinD1+ Smooth Muscle Cells - Umbilical Vein, donor1_CNhs12597_11541-120B2_forward Regulation 
SmoothMuscleCellsUmbilicalArteryDonor3_CNhs12049_ctss_rev SmcUmbilicalArteryD3- Smooth Muscle Cells - Umbilical Artery, donor3_CNhs12049_11439-118H8_reverse Regulation 
SmoothMuscleCellsUmbilicalArteryDonor3_CNhs12049_ctss_fwd SmcUmbilicalArteryD3+ Smooth Muscle Cells - Umbilical Artery, donor3_CNhs12049_11439-118H8_forward Regulation 
SmoothMuscleCellsUmbilicalArteryDonor2_CNhs11991_ctss_rev SmcUmbilicalArteryD2- Smooth Muscle Cells - Umbilical Artery, donor2_CNhs11991_11367-117I8_reverse Regulation 
SmoothMuscleCellsUmbilicalArteryDonor2_CNhs11991_ctss_fwd SmcUmbilicalArteryD2+ Smooth Muscle Cells - Umbilical Artery, donor2_CNhs11991_11367-117I8_forward Regulation 
SmoothMuscleCellsUmbilicalArteryDonor1_CNhs11091_ctss_rev SmcUmbilicalArteryD1- Smooth Muscle Cells - Umbilical Artery, donor1_CNhs11091_11290-117A3_reverse Regulation 
SmoothMuscleCellsUmbilicalArteryDonor1_CNhs11091_ctss_fwd SmcUmbilicalArteryD1+ Smooth Muscle Cells - Umbilical Artery, donor1_CNhs11091_11290-117A3_forward Regulation 
SmoothMuscleCellsUmbilicalArteryDonor0_CNhs10839_ctss_rev SmcUmbilicalArteryD0- Smooth Muscle Cells - Umbilical artery, donor0_CNhs10839_11212-116A6_reverse Regulation 
SmoothMuscleCellsUmbilicalArteryDonor0_CNhs10839_ctss_fwd SmcUmbilicalArteryD0+ Smooth Muscle Cells - Umbilical artery, donor0_CNhs10839_11212-116A6_forward Regulation 
SmoothMuscleCellsTrachealDonor3_CNhs12894_ctss_rev SmcTrachealD3- Smooth Muscle Cells - Tracheal, donor3_CNhs12894_11674-122G9_reverse Regulation 
SmoothMuscleCellsTrachealDonor3_CNhs12894_ctss_fwd SmcTrachealD3+ Smooth Muscle Cells - Tracheal, donor3_CNhs12894_11674-122G9_forward Regulation 
SmoothMuscleCellsTrachealDonor2_CNhs12567_ctss_rev SmcTrachealD2- Smooth Muscle Cells - Tracheal, donor2_CNhs12567_11593-120G9_reverse Regulation 
SmoothMuscleCellsTrachealDonor2_CNhs12567_ctss_fwd SmcTrachealD2+ Smooth Muscle Cells - Tracheal, donor2_CNhs12567_11593-120G9_forward Regulation 
SmoothMuscleCellsTrachealDonor1_CNhs11329_ctss_rev SmcTrachealD1- Smooth Muscle Cells - Tracheal, donor1_CNhs11329_11513-119H1_reverse Regulation 
SmoothMuscleCellsTrachealDonor1_CNhs11329_ctss_fwd SmcTrachealD1+ Smooth Muscle Cells - Tracheal, donor1_CNhs11329_11513-119H1_forward Regulation 
SmoothMuscleCellsSubclavianArteryDonor3_CNhs12048_ctss_rev SmcSubclavianArteryD3- Smooth Muscle Cells - Subclavian Artery, donor3_CNhs12048_11438-118H7_reverse Regulation 
SmoothMuscleCellsSubclavianArteryDonor3_CNhs12048_ctss_fwd SmcSubclavianArteryD3+ Smooth Muscle Cells - Subclavian Artery, donor3_CNhs12048_11438-118H7_forward Regulation 
SmoothMuscleCellsSubclavianArteryDonor2_CNhs11990_ctss_rev SmcSubclavianArteryD2- Smooth Muscle Cells - Subclavian Artery, donor2_CNhs11990_11366-117I7_reverse Regulation 
SmoothMuscleCellsSubclavianArteryDonor2_CNhs11990_ctss_fwd SmcSubclavianArteryD2+ Smooth Muscle Cells - Subclavian Artery, donor2_CNhs11990_11366-117I7_forward Regulation 
SmoothMuscleCellsSubclavianArteryDonor1_CNhs11090_ctss_rev SmcSubclavianArteryD1- Smooth Muscle Cells - Subclavian Artery, donor1_CNhs11090_11289-117A2_reverse Regulation 
SmoothMuscleCellsSubclavianArteryDonor1_CNhs11090_ctss_fwd SmcSubclavianArteryD1+ Smooth Muscle Cells - Subclavian Artery, donor1_CNhs11090_11289-117A2_forward Regulation 
SmoothMuscleCellsPulmonaryArteryDonor3_CNhs12047_ctss_rev SmcPulmonaryArteryD3- Smooth Muscle Cells - Pulmonary Artery, donor3_CNhs12047_11437-118H6_reverse Regulation 
SmoothMuscleCellsPulmonaryArteryDonor3_CNhs12047_ctss_fwd SmcPulmonaryArteryD3+ Smooth Muscle Cells - Pulmonary Artery, donor3_CNhs12047_11437-118H6_forward Regulation 
SmoothMuscleCellsPulmonaryArteryDonor2_CNhs11989_ctss_rev SmcPulmonaryArteryD2- Smooth Muscle Cells - Pulmonary Artery, donor2_CNhs11989_11365-117I6_reverse Regulation 
SmoothMuscleCellsPulmonaryArteryDonor2_CNhs11989_ctss_fwd SmcPulmonaryArteryD2+ Smooth Muscle Cells - Pulmonary Artery, donor2_CNhs11989_11365-117I6_forward Regulation 
SmoothMuscleCellsPulmonaryArteryDonor1_CNhs11089_ctss_rev SmcPulmonaryArteryD1- Smooth Muscle Cells - Pulmonary Artery, donor1_CNhs11089_11288-117A1_reverse Regulation 
SmoothMuscleCellsPulmonaryArteryDonor1_CNhs11089_ctss_fwd SmcPulmonaryArteryD1+ Smooth Muscle Cells - Pulmonary Artery, donor1_CNhs11089_11288-117A1_forward Regulation 
SmoothMuscleCellsProstateDonor3_CNhs11910_ctss_rev SmcProstateD3- Smooth Muscle Cells - Prostate, donor3_CNhs11910_11465-119B7_reverse Regulation 
SmoothMuscleCellsProstateDonor3_CNhs11910_ctss_fwd SmcProstateD3+ Smooth Muscle Cells - Prostate, donor3_CNhs11910_11465-119B7_forward Regulation 
SmoothMuscleCellsProstateDonor2_CNhs11976_ctss_rev SmcProstateD2- Smooth Muscle Cells - Prostate, donor2_CNhs11976_11335-117F3_reverse Regulation 
SmoothMuscleCellsProstateDonor2_CNhs11976_ctss_fwd SmcProstateD2+ Smooth Muscle Cells - Prostate, donor2_CNhs11976_11335-117F3_forward Regulation 
SmoothMuscleCellsProstateDonor1_CNhs11920_ctss_rev SmcProstateD1- Smooth Muscle Cells - Prostate, donor1_CNhs11920_11257-116F6_reverse Regulation 
SmoothMuscleCellsProstateDonor1_CNhs11920_ctss_fwd SmcProstateD1+ Smooth Muscle Cells - Prostate, donor1_CNhs11920_11257-116F6_forward Regulation 
SmoothMuscleCellsIntestinalDonor1_CNhs12595_ctss_rev SmcIntestinalD1- Smooth Muscle Cells - Intestinal, donor1_CNhs12595_11509-119G6_reverse Regulation 
SmoothMuscleCellsIntestinalDonor1_CNhs12595_ctss_fwd SmcIntestinalD1+ Smooth Muscle Cells - Intestinal, donor1_CNhs12595_11509-119G6_forward Regulation 
SmoothMuscleCellsInternalThoracicArteryDonor3_CNhs12046_ctss_rev SmcInternalThoracicArteryD3- Smooth Muscle Cells - Internal Thoracic Artery, donor3_CNhs12046_11436-118H5_reverse Regulation 
SmoothMuscleCellsInternalThoracicArteryDonor3_CNhs12046_ctss_fwd SmcInternalThoracicArteryD3+ Smooth Muscle Cells - Internal Thoracic Artery, donor3_CNhs12046_11436-118H5_forward Regulation 
SmoothMuscleCellsInternalThoracicArteryDonor2_CNhs11988_ctss_rev SmcInternalThoracicArteryD2- Smooth Muscle Cells - Internal Thoracic Artery, donor2_CNhs11988_11364-117I5_reverse Regulation 
SmoothMuscleCellsInternalThoracicArteryDonor2_CNhs11988_ctss_fwd SmcInternalThoracicArteryD2+ Smooth Muscle Cells - Internal Thoracic Artery, donor2_CNhs11988_11364-117I5_forward Regulation 
SmoothMuscleCellsInternalThoracicArteryDonor1_CNhs11067_ctss_rev SmcInternalThoracicArteryD1- Smooth Muscle Cells - Internal Thoracic Artery, donor1_CNhs11067_11287-116I9_reverse Regulation 
SmoothMuscleCellsInternalThoracicArteryDonor1_CNhs11067_ctss_fwd SmcInternalThoracicArteryD1+ Smooth Muscle Cells - Internal Thoracic Artery, donor1_CNhs11067_11287-116I9_forward Regulation 
SmoothMuscleCellsEsophagealDonor2_CNhs12727_ctss_rev SmcEsophagealD2- Smooth Muscle Cells - Esophageal, donor2_CNhs12727_11588-120G4_reverse Regulation 
SmoothMuscleCellsEsophagealDonor2_CNhs12727_ctss_fwd SmcEsophagealD2+ Smooth Muscle Cells - Esophageal, donor2_CNhs12727_11588-120G4_forward Regulation 
SmoothMuscleCellsEsophagealDonor1_CNhs11324_ctss_rev SmcEsophagealD1- Smooth Muscle Cells - Esophageal, donor1_CNhs11324_11508-119G5_reverse Regulation 
SmoothMuscleCellsEsophagealDonor1_CNhs11324_ctss_fwd SmcEsophagealD1+ Smooth Muscle Cells - Esophageal, donor1_CNhs11324_11508-119G5_forward Regulation 
SmoothMuscleCellsCoronaryArteryDonor3_CNhs12045_ctss_rev SmcCoronaryArteryD3- Smooth Muscle Cells - Coronary Artery, donor3_CNhs12045_11435-118H4_reverse Regulation 
SmoothMuscleCellsCoronaryArteryDonor3_CNhs12045_ctss_fwd SmcCoronaryArteryD3+ Smooth Muscle Cells - Coronary Artery, donor3_CNhs12045_11435-118H4_forward Regulation 
SmoothMuscleCellsCoronaryArteryDonor2_CNhs11987_ctss_rev SmcCoronaryArteryD2- Smooth Muscle Cells - Coronary Artery, donor2_CNhs11987_11363-117I4_reverse Regulation 
SmoothMuscleCellsCoronaryArteryDonor2_CNhs11987_ctss_fwd SmcCoronaryArteryD2+ Smooth Muscle Cells - Coronary Artery, donor2_CNhs11987_11363-117I4_forward Regulation 
SmoothMuscleCellsCoronaryArteryDonor1_CNhs11088_ctss_rev SmcCoronaryArteryD1- Smooth Muscle Cells - Coronary Artery, donor1_CNhs11088_11286-116I8_reverse Regulation 
SmoothMuscleCellsCoronaryArteryDonor1_CNhs11088_ctss_fwd SmcCoronaryArteryD1+ Smooth Muscle Cells - Coronary Artery, donor1_CNhs11088_11286-116I8_forward Regulation 
SmoothMuscleCellsColonicDonor3_CNhs12007_ctss_rev SmcColonicD3- Smooth Muscle Cells - Colonic, donor3_CNhs12007_11396-118D1_reverse Regulation 
SmoothMuscleCellsColonicDonor3_CNhs12007_ctss_fwd SmcColonicD3+ Smooth Muscle Cells - Colonic, donor3_CNhs12007_11396-118D1_forward Regulation 
SmoothMuscleCellsColonicDonor2_CNhs11963_ctss_rev SmcColonicD2- Smooth Muscle Cells - Colonic, donor2_CNhs11963_11320-117D6_reverse Regulation 
SmoothMuscleCellsColonicDonor2_CNhs11963_ctss_fwd SmcColonicD2+ Smooth Muscle Cells - Colonic, donor2_CNhs11963_11320-117D6_forward Regulation 
SmoothMuscleCellsColonicDonor1_CNhs10868_ctss_rev SmcColonicD1- Smooth Muscle Cells - Colonic, donor1_CNhs10868_11239-116D6_reverse Regulation 
SmoothMuscleCellsColonicDonor1_CNhs10868_ctss_fwd SmcColonicD1+ Smooth Muscle Cells - Colonic, donor1_CNhs10868_11239-116D6_forward Regulation 
SmoothMuscleCellsCarotidDonor3_CNhs12044_ctss_rev SmcCarotidD3- Smooth Muscle Cells - Carotid, donor3_CNhs12044_11434-118H3_reverse Regulation 
SmoothMuscleCellsCarotidDonor3_CNhs12044_ctss_fwd SmcCarotidD3+ Smooth Muscle Cells - Carotid, donor3_CNhs12044_11434-118H3_forward Regulation 
SmoothMuscleCellsCarotidDonor2_CNhs11986_ctss_rev SmcCarotidD2- Smooth Muscle Cells - Carotid, donor2_CNhs11986_11362-117I3_reverse Regulation 
SmoothMuscleCellsCarotidDonor2_CNhs11986_ctss_fwd SmcCarotidD2+ Smooth Muscle Cells - Carotid, donor2_CNhs11986_11362-117I3_forward Regulation 
SmoothMuscleCellsCarotidDonor1_CNhs11087_ctss_rev SmcCarotidD1- Smooth Muscle Cells - Carotid, donor1_CNhs11087_11285-116I7_reverse Regulation 
SmoothMuscleCellsCarotidDonor1_CNhs11087_ctss_fwd SmcCarotidD1+ Smooth Muscle Cells - Carotid, donor1_CNhs11087_11285-116I7_forward Regulation 
SmoothMuscleCellsBronchialDonor2_CNhs12348_ctss_rev SmcBronchialD2- Smooth Muscle Cells - Bronchial, donor2_CNhs12348_11592-120G8_reverse Regulation 
SmoothMuscleCellsBronchialDonor2_CNhs12348_ctss_fwd SmcBronchialD2+ Smooth Muscle Cells - Bronchial, donor2_CNhs12348_11592-120G8_forward Regulation 
SmoothMuscleCellsBronchialDonor1_CNhs11328_ctss_rev SmcBronchialD1- Smooth Muscle Cells - Bronchial, donor1_CNhs11328_11512-119G9_reverse Regulation 
SmoothMuscleCellsBronchialDonor1_CNhs11328_ctss_fwd SmcBronchialD1+ Smooth Muscle Cells - Bronchial, donor1_CNhs11328_11512-119G9_forward Regulation 
SmoothMuscleCellsBrainVascularDonor3_CNhs12004_ctss_rev SmcBrainVascularD3- Smooth Muscle Cells - Brain Vascular, donor3_CNhs12004_11391-118C5_reverse Regulation 
SmoothMuscleCellsBrainVascularDonor3_CNhs12004_ctss_fwd SmcBrainVascularD3+ Smooth Muscle Cells - Brain Vascular, donor3_CNhs12004_11391-118C5_forward Regulation 
SmoothMuscleCellsBrainVascularDonor2_CNhs11900_ctss_rev SmcBrainVascularD2- Smooth Muscle Cells - Brain Vascular, donor2_CNhs11900_11315-117D1_reverse Regulation 
SmoothMuscleCellsBrainVascularDonor2_CNhs11900_ctss_fwd SmcBrainVascularD2+ Smooth Muscle Cells - Brain Vascular, donor2_CNhs11900_11315-117D1_forward Regulation 
SmoothMuscleCellsBrainVascularDonor1_CNhs10863_ctss_rev SmcBrainVascularD1- Smooth Muscle Cells - Brain Vascular, donor1_CNhs10863_11234-116D1_reverse Regulation 
SmoothMuscleCellsBrainVascularDonor1_CNhs10863_ctss_fwd SmcBrainVascularD1+ Smooth Muscle Cells - Brain Vascular, donor1_CNhs10863_11234-116D1_forward Regulation 
SmoothMuscleCellsBrachiocephalicDonor3_CNhs12043_ctss_rev SmcBrachiocephalicD3- Smooth Muscle Cells - Brachiocephalic, donor3_CNhs12043_11433-118H2_reverse Regulation 
SmoothMuscleCellsBrachiocephalicDonor3_CNhs12043_ctss_fwd SmcBrachiocephalicD3+ Smooth Muscle Cells - Brachiocephalic, donor3_CNhs12043_11433-118H2_forward Regulation 
SmoothMuscleCellsBrachiocephalicDonor2_CNhs11985_ctss_rev SmcBrachiocephalicD2- Smooth Muscle Cells - Brachiocephalic, donor2_CNhs11985_11361-117I2_reverse Regulation 
SmoothMuscleCellsBrachiocephalicDonor2_CNhs11985_ctss_fwd SmcBrachiocephalicD2+ Smooth Muscle Cells - Brachiocephalic, donor2_CNhs11985_11361-117I2_forward Regulation 
SmoothMuscleCellsBrachiocephalicDonor1_CNhs11086_ctss_rev SmcBrachiocephalicD1- Smooth Muscle Cells - Brachiocephalic, donor1_CNhs11086_11284-116I6_reverse Regulation 
SmoothMuscleCellsBrachiocephalicDonor1_CNhs11086_ctss_fwd SmcBrachiocephalicD1+ Smooth Muscle Cells - Brachiocephalic, donor1_CNhs11086_11284-116I6_forward Regulation 
SmoothMuscleCellsBladderDonor1_CNhs12893_ctss_rev SmcBladderD1- Smooth Muscle Cells - Bladder, donor1_CNhs12893_11519-119H7_reverse Regulation 
SmoothMuscleCellsBladderDonor1_CNhs12893_ctss_fwd SmcBladderD1+ Smooth Muscle Cells - Bladder, donor1_CNhs12893_11519-119H7_forward Regulation 
SmoothMuscleCellsAorticDonor3_CNhs11309_ctss_rev SmcAorticCytofracD3- Smooth Muscle Cells - Aortic, donor3_CNhs11309_11432-118H1_reverse Regulation 
SmoothMuscleCellsAorticDonor3_CNhs11309_ctss_fwd SmcAorticCytofracD3+ Smooth Muscle Cells - Aortic, donor3_CNhs11309_11432-118H1_forward Regulation 
SmoothMuscleCellsAorticDonor2_CNhs11305_ctss_rev SmcAorticCytofracD2- Smooth Muscle Cells - Aortic, donor2_CNhs11305_11360-117I1_reverse Regulation 
SmoothMuscleCellsAorticDonor2_CNhs11305_ctss_fwd SmcAorticCytofracD2+ Smooth Muscle Cells - Aortic, donor2_CNhs11305_11360-117I1_forward Regulation 
SmoothMuscleCellsAorticDonor1_CNhs11085_ctss_rev SmcAorticCytofracD1- Smooth Muscle Cells - Aortic, donor1_CNhs11085_11283-116I5_reverse Regulation 
SmoothMuscleCellsAorticDonor1_CNhs11085_ctss_fwd SmcAorticCytofracD1+ Smooth Muscle Cells - Aortic, donor1_CNhs11085_11283-116I5_forward Regulation 
SmoothMuscleCellsAorticDonor0_CNhs10838_ctss_rev SmcAorticCytofracD0- Smooth Muscle Cells - Aortic, donor0_CNhs10838_11210-116A4_reverse Regulation 
SmoothMuscleCellsAorticDonor0_CNhs10838_ctss_fwd SmcAorticCytofracD0+ Smooth Muscle Cells - Aortic, donor0_CNhs10838_11210-116A4_forward Regulation 
SmoothMuscleCellsAirwayControlDonor4_CNhs14193_ctss_rev SmcAirwayControlD4- Smooth muscle cells - airway, control, donor4_CNhs14193_11969-126D7_reverse Regulation 
SmoothMuscleCellsAirwayControlDonor4_CNhs14193_ctss_fwd SmcAirwayControlD4+ Smooth muscle cells - airway, control, donor4_CNhs14193_11969-126D7_forward Regulation 
SmoothMuscleCellsAirwayControlDonor3_CNhs14192_ctss_rev SmcAirwayControlD3- Smooth muscle cells - airway, control, donor3_CNhs14192_11968-126D6_reverse Regulation 
SmoothMuscleCellsAirwayControlDonor3_CNhs14192_ctss_fwd SmcAirwayControlD3+ Smooth muscle cells - airway, control, donor3_CNhs14192_11968-126D6_forward Regulation 
SmoothMuscleCellsAirwayControlDonor2_CNhs14191_ctss_rev SmcAirwayControlD2- Smooth muscle cells - airway, control, donor2_CNhs14191_11967-126D5_reverse Regulation 
SmoothMuscleCellsAirwayControlDonor2_CNhs14191_ctss_fwd SmcAirwayControlD2+ Smooth muscle cells - airway, control, donor2_CNhs14191_11967-126D5_forward Regulation 
SmoothMuscleCellsAirwayControlDonor1_CNhs14190_ctss_rev SmcAirwayControlD1- Smooth muscle cells - airway, control, donor1_CNhs14190_11966-126D4_reverse Regulation 
SmoothMuscleCellsAirwayControlDonor1_CNhs14190_ctss_fwd SmcAirwayControlD1+ Smooth muscle cells - airway, control, donor1_CNhs14190_11966-126D4_forward Regulation 
SmoothMuscleCellsAirwayAsthmaticDonor6_CNhs14189_ctss_rev SmcAirwayAsthmaD6- Smooth muscle cells - airway, asthmatic, donor6_CNhs14189_11965-126D3_reverse Regulation 
SmoothMuscleCellsAirwayAsthmaticDonor6_CNhs14189_ctss_fwd SmcAirwayAsthmaD6+ Smooth muscle cells - airway, asthmatic, donor6_CNhs14189_11965-126D3_forward Regulation 
SmoothMuscleCellsAirwayAsthmaticDonor5_CNhs14188_ctss_rev SmcAirwayAsthmaD5- Smooth muscle cells - airway, asthmatic, donor5_CNhs14188_11964-126D2_reverse Regulation 
SmoothMuscleCellsAirwayAsthmaticDonor5_CNhs14188_ctss_fwd SmcAirwayAsthmaD5+ Smooth muscle cells - airway, asthmatic, donor5_CNhs14188_11964-126D2_forward Regulation 
SmoothMuscleCellsAirwayAsthmaticDonor4_CNhs14187_ctss_rev SmcAirwayAsthmaD4- Smooth muscle cells - airway, asthmatic, donor4_CNhs14187_11963-126D1_reverse Regulation 
SmoothMuscleCellsAirwayAsthmaticDonor4_CNhs14187_ctss_fwd SmcAirwayAsthmaD4+ Smooth muscle cells - airway, asthmatic, donor4_CNhs14187_11963-126D1_forward Regulation 
SmoothMuscleCellsAirwayAsthmaticDonor3_CNhs14186_ctss_rev SmcAirwayAsthmaD3- Smooth muscle cells - airway, asthmatic, donor3_CNhs14186_11962-126C9_reverse Regulation 
SmoothMuscleCellsAirwayAsthmaticDonor3_CNhs14186_ctss_fwd SmcAirwayAsthmaD3+ Smooth muscle cells - airway, asthmatic, donor3_CNhs14186_11962-126C9_forward Regulation 
SmoothMuscleCellsAirwayAsthmaticDonor2_CNhs14184_ctss_rev SmcAirwayAsthmaD2- Smooth muscle cells - airway, asthmatic, donor2_CNhs14184_11961-126C8_reverse Regulation 
SmoothMuscleCellsAirwayAsthmaticDonor2_CNhs14184_ctss_fwd SmcAirwayAsthmaD2+ Smooth muscle cells - airway, asthmatic, donor2_CNhs14184_11961-126C8_forward Regulation 
SmoothMuscleCellsAirwayAsthmaticDonor1_CNhs14183_ctss_rev SmcAirwayAsthmaD1- Smooth muscle cells - airway, asthmatic, donor1_CNhs14183_11960-126C7_reverse Regulation 
SmoothMuscleCellsAirwayAsthmaticDonor1_CNhs14183_ctss_fwd SmcAirwayAsthmaD1+ Smooth muscle cells - airway, asthmatic, donor1_CNhs14183_11960-126C7_forward Regulation 
SmallAirwayEpithelialCellsDonor3_CNhs12016_ctss_rev SmallAirwayEpithelialCellsD3- Small Airway Epithelial Cells, donor3_CNhs12016_11406-118E2_reverse Regulation 
SmallAirwayEpithelialCellsDonor3_CNhs12016_ctss_fwd SmallAirwayEpithelialCellsD3+ Small Airway Epithelial Cells, donor3_CNhs12016_11406-118E2_forward Regulation 
SmallAirwayEpithelialCellsDonor2_CNhs11975_ctss_rev SmallAirwayEpithelialCellsD2- Small Airway Epithelial Cells, donor2_CNhs11975_11334-117F2_reverse Regulation 
SmallAirwayEpithelialCellsDonor2_CNhs11975_ctss_fwd SmallAirwayEpithelialCellsD2+ Small Airway Epithelial Cells, donor2_CNhs11975_11334-117F2_forward Regulation 
SmallAirwayEpithelialCellsDonor1_CNhs10884_ctss_rev SmallAirwayEpithelialCellsD1- Small Airway Epithelial Cells, donor1_CNhs10884_11256-116F5_reverse Regulation 
SmallAirwayEpithelialCellsDonor1_CNhs10884_ctss_fwd SmallAirwayEpithelialCellsD1+ Small Airway Epithelial Cells, donor1_CNhs10884_11256-116F5_forward Regulation 
SkeletalMuscleSatelliteCellsDonor3_CNhs12008_ctss_rev SkeletalMuscleSatelliteCellsD3- Skeletal Muscle Satellite Cells, donor3_CNhs12008_11397-118D2_reverse Regulation 
SkeletalMuscleSatelliteCellsDonor3_CNhs12008_ctss_fwd SkeletalMuscleSatelliteCellsD3+ Skeletal Muscle Satellite Cells, donor3_CNhs12008_11397-118D2_forward Regulation 
SkeletalMuscleSatelliteCellsDonor2_CNhs11964_ctss_rev SkeletalMuscleSatelliteCellsD2- Skeletal Muscle Satellite Cells, donor2_CNhs11964_11321-117D7_reverse Regulation 
SkeletalMuscleSatelliteCellsDonor2_CNhs11964_ctss_fwd SkeletalMuscleSatelliteCellsD2+ Skeletal Muscle Satellite Cells, donor2_CNhs11964_11321-117D7_forward Regulation 
SkeletalMuscleSatelliteCellsDonor1_CNhs10869_ctss_rev SkeletalMuscleSatelliteCellsD1- Skeletal Muscle Satellite Cells, donor1_CNhs10869_11240-116D7_reverse Regulation 
SkeletalMuscleSatelliteCellsDonor1_CNhs10869_ctss_fwd SkeletalMuscleSatelliteCellsD1+ Skeletal Muscle Satellite Cells, donor1_CNhs10869_11240-116D7_forward Regulation 
SkeletalMuscleCellsDifferentiatedIntoMyotubesMultinucleatedDonor3_CNhs12041_ctss_rev SkeletalMuscleCellsIntoMyotubesD3- Skeletal muscle cells differentiated into Myotubes - multinucleated, donor3_CNhs12041_11431-118G9_reverse Regulation 
SkeletalMuscleCellsDifferentiatedIntoMyotubesMultinucleatedDonor3_CNhs12041_ctss_fwd SkeletalMuscleCellsIntoMyotubesD3+ Skeletal muscle cells differentiated into Myotubes - multinucleated, donor3_CNhs12041_11431-118G9_forward Regulation 
SkeletalMuscleCellsDifferentiatedIntoMyotubesMultinucleatedDonor2_CNhs11984_ctss_rev SkeletalMuscleCellsIntoMyotubesD2- Skeletal muscle cells differentiated into Myotubes - multinucleated, donor2_CNhs11984_11359-117H9_reverse Regulation 
SkeletalMuscleCellsDifferentiatedIntoMyotubesMultinucleatedDonor2_CNhs11984_ctss_fwd SkeletalMuscleCellsIntoMyotubesD2+ Skeletal muscle cells differentiated into Myotubes - multinucleated, donor2_CNhs11984_11359-117H9_forward Regulation 
SkeletalMuscleCellsDifferentiatedIntoMyotubesMultinucleatedDonor1_CNhs11084_ctss_rev SkeletalMuscleCellsIntoMyotubesD1- Skeletal muscle cells differentiated into Myotubes - multinucleated, donor1_CNhs11084_11282-116I4_reverse Regulation 
SkeletalMuscleCellsDifferentiatedIntoMyotubesMultinucleatedDonor1_CNhs11084_ctss_fwd SkeletalMuscleCellsIntoMyotubesD1+ Skeletal muscle cells differentiated into Myotubes - multinucleated, donor1_CNhs11084_11282-116I4_forward Regulation 
SkeletalMuscleCellsDonor6_CNhs12060_ctss_rev SkeletalMuscleCellsD6- Skeletal Muscle Cells, donor6_CNhs12060_11459-119B1_reverse Regulation 
SkeletalMuscleCellsDonor6_CNhs12060_ctss_fwd SkeletalMuscleCellsD6+ Skeletal Muscle Cells, donor6_CNhs12060_11459-119B1_forward Regulation 
SkeletalMuscleCellsDonor5_CNhs12056_ctss_rev SkeletalMuscleCellsD5- Skeletal Muscle Cells, donor5_CNhs12056_11455-119A6_reverse Regulation 
SkeletalMuscleCellsDonor5_CNhs12056_ctss_fwd SkeletalMuscleCellsD5+ Skeletal Muscle Cells, donor5_CNhs12056_11455-119A6_forward Regulation 
SkeletalMuscleCellsDonor4_CNhs12053_ctss_rev SkeletalMuscleCellsD4- Skeletal Muscle Cells, donor4_CNhs12053_11451-119A2_reverse Regulation 
SkeletalMuscleCellsDonor4_CNhs12053_ctss_fwd SkeletalMuscleCellsD4+ Skeletal Muscle Cells, donor4_CNhs12053_11451-119A2_forward Regulation 
SkeletalMuscleCellsDonor3_CNhs12040_ctss_rev SkeletalMuscleCellsD3- Skeletal Muscle Cells, donor3_CNhs12040_11430-118G8_reverse Regulation 
SkeletalMuscleCellsDonor3_CNhs12040_ctss_fwd SkeletalMuscleCellsD3+ Skeletal Muscle Cells, donor3_CNhs12040_11430-118G8_forward Regulation 
SkeletalMuscleCellsDonor2_CNhs11983_ctss_rev SkeletalMuscleCellsD2- Skeletal Muscle Cells, donor2_CNhs11983_11358-117H8_reverse Regulation 
SkeletalMuscleCellsDonor2_CNhs11983_ctss_fwd SkeletalMuscleCellsD2+ Skeletal Muscle Cells, donor2_CNhs11983_11358-117H8_forward Regulation 
SkeletalMuscleCellsDonor1_CNhs11083_ctss_rev SkeletalMuscleCellsD1- Skeletal Muscle Cells, donor1_CNhs11083_11281-116I3_reverse Regulation 
SkeletalMuscleCellsDonor1_CNhs11083_ctss_fwd SkeletalMuscleCellsD1+ Skeletal Muscle Cells, donor1_CNhs11083_11281-116I3_forward Regulation 
SertoliCellsDonor2_CNhs11974_ctss_rev SertoliCellsD2- Sertoli Cells, donor2_CNhs11974_11333-117F1_reverse Regulation 
SertoliCellsDonor2_CNhs11974_ctss_fwd SertoliCellsD2+ Sertoli Cells, donor2_CNhs11974_11333-117F1_forward Regulation 
SertoliCellsDonor1_CNhs10851_ctss_rev SertoliCellsD1- Sertoli Cells, donor1_CNhs10851_11255-116F4_reverse Regulation 
SertoliCellsDonor1_CNhs10851_ctss_fwd SertoliCellsD1+ Sertoli Cells, donor1_CNhs10851_11255-116F4_forward Regulation 
SebocyteDonor3_CNhs11995_ctss_rev SebocyteD3- Sebocyte, donor3_CNhs11995_11378-118B1_reverse Regulation 
SebocyteDonor3_CNhs11995_ctss_fwd SebocyteD3+ Sebocyte, donor3_CNhs11995_11378-118B1_forward Regulation 
SebocyteDonor2_CNhs11951_ctss_rev SebocyteD2- Sebocyte, donor2_CNhs11951_11301-117B5_reverse Regulation 
SebocyteDonor2_CNhs11951_ctss_fwd SebocyteD2+ Sebocyte, donor2_CNhs11951_11301-117B5_forward Regulation 
SebocyteDonor1_CNhs10847_ctss_rev SebocyteD1- Sebocyte, donor1_CNhs10847_11220-116B5_reverse Regulation 
SebocyteDonor1_CNhs10847_ctss_fwd SebocyteD1+ Sebocyte, donor1_CNhs10847_11220-116B5_forward Regulation 
SchwannCellsDonor3_CNhs12621_ctss_rev SchwannCellsD3- Schwann Cells, donor3_CNhs12621_11659-122F3_reverse Regulation 
SchwannCellsDonor3_CNhs12621_ctss_fwd SchwannCellsD3+ Schwann Cells, donor3_CNhs12621_11659-122F3_forward Regulation 
SchwannCellsDonor2_CNhs12345_ctss_rev SchwannCellsD2- Schwann Cells, donor2_CNhs12345_11578-120F3_reverse Regulation 
SchwannCellsDonor2_CNhs12345_ctss_fwd SchwannCellsD2+ Schwann Cells, donor2_CNhs12345_11578-120F3_forward Regulation 
SchwannCellsDonor1_CNhs12073_ctss_rev SchwannCellsD1- Schwann Cells, donor1_CNhs12073_11498-119F4_reverse Regulation 
SchwannCellsDonor1_CNhs12073_ctss_fwd SchwannCellsD1+ Schwann Cells, donor1_CNhs12073_11498-119F4_forward Regulation 
SalivaryAcinarCellsDonor3_CNhs12812_ctss_rev SalivaryAcinarCellsD3- salivary acinar cells, donor3_CNhs12812_11773-123I9_reverse Regulation 
SalivaryAcinarCellsDonor3_CNhs12812_ctss_fwd SalivaryAcinarCellsD3+ salivary acinar cells, donor3_CNhs12812_11773-123I9_forward Regulation 
SalivaryAcinarCellsDonor2_CNhs12811_ctss_rev SalivaryAcinarCellsD2- salivary acinar cells, donor2_CNhs12811_11772-123I8_reverse Regulation 
SalivaryAcinarCellsDonor2_CNhs12811_ctss_fwd SalivaryAcinarCellsD2+ salivary acinar cells, donor2_CNhs12811_11772-123I8_forward Regulation 
SalivaryAcinarCellsDonor1_CNhs12810_ctss_rev SalivaryAcinarCellsD1- salivary acinar cells, donor1_CNhs12810_11771-123I7_reverse Regulation 
SalivaryAcinarCellsDonor1_CNhs12810_ctss_fwd SalivaryAcinarCellsD1+ salivary acinar cells, donor1_CNhs12810_11771-123I7_forward Regulation 
RenalProximalTubularEpithelialCellDonor3_CNhs12120_ctss_rev RptecD3- Renal Proximal Tubular Epithelial Cell, donor3_CNhs12120_11676-122H2_reverse Regulation 
RenalProximalTubularEpithelialCellDonor3_CNhs12120_ctss_fwd RptecD3+ Renal Proximal Tubular Epithelial Cell, donor3_CNhs12120_11676-122H2_forward Regulation 
RenalProximalTubularEpithelialCellDonor2_CNhs12087_ctss_rev RptecD2- Renal Proximal Tubular Epithelial Cell, donor2_CNhs12087_11595-120H2_reverse Regulation 
RenalProximalTubularEpithelialCellDonor2_CNhs12087_ctss_fwd RptecD2+ Renal Proximal Tubular Epithelial Cell, donor2_CNhs12087_11595-120H2_forward Regulation 
RenalProximalTubularEpithelialCellDonor1_CNhs11330_ctss_rev RptecD1- Renal Proximal Tubular Epithelial Cell, donor1_CNhs11330_11515-119H3_reverse Regulation 
RenalProximalTubularEpithelialCellDonor1_CNhs11330_ctss_fwd RptecD1+ Renal Proximal Tubular Epithelial Cell, donor1_CNhs11330_11515-119H3_forward Regulation 
RetinalPigmentEpithelialCellsDonor3_CNhs12733_ctss_rev RpecD3- Retinal Pigment Epithelial Cells, donor3_CNhs12733_11689-122I6_reverse Regulation 
RetinalPigmentEpithelialCellsDonor3_CNhs12733_ctss_fwd RpecD3+ Retinal Pigment Epithelial Cells, donor3_CNhs12733_11689-122I6_forward Regulation 
RetinalPigmentEpithelialCellsDonor2_CNhs12096_ctss_rev RpecD2- Retinal Pigment Epithelial Cells, donor2_CNhs12096_11608-120I6_reverse Regulation 
RetinalPigmentEpithelialCellsDonor2_CNhs12096_ctss_fwd RpecD2+ Retinal Pigment Epithelial Cells, donor2_CNhs12096_11608-120I6_forward Regulation 
RetinalPigmentEpithelialCellsDonor1_CNhs11338_ctss_rev RpecD1- Retinal Pigment Epithelial Cells, donor1_CNhs11338_11528-119I7_reverse Regulation 
RetinalPigmentEpithelialCellsDonor1_CNhs11338_ctss_fwd RpecD1+ Retinal Pigment Epithelial Cells, donor1_CNhs11338_11528-119I7_forward Regulation 
RetinalPigmentEpithelialCellsDonor0_CNhs10842_ctss_rev RpecD0- Retinal Pigment Epithelial Cells, donor0_CNhs10842_11215-116A9_reverse Regulation 
RetinalPigmentEpithelialCellsDonor0_CNhs10842_ctss_fwd RpecD0+ Retinal Pigment Epithelial Cells, donor0_CNhs10842_11215-116A9_forward Regulation 
RenalGlomerularEndothelialCellsDonor4_CNhs13080_ctss_rev RgecD4- Renal Glomerular Endothelial Cells, donor4_CNhs13080_11783-124B1_reverse Regulation 
RenalGlomerularEndothelialCellsDonor4_CNhs13080_ctss_fwd RgecD4+ Renal Glomerular Endothelial Cells, donor4_CNhs13080_11783-124B1_forward Regulation 
RenalGlomerularEndothelialCellsDonor3_CNhs12624_ctss_rev RgecD3- Renal Glomerular Endothelial Cells, donor3_CNhs12624_11675-122H1_reverse Regulation 
RenalGlomerularEndothelialCellsDonor3_CNhs12624_ctss_fwd RgecD3+ Renal Glomerular Endothelial Cells, donor3_CNhs12624_11675-122H1_forward Regulation 
RenalGlomerularEndothelialCellsDonor2_CNhs12086_ctss_rev RgecD2- Renal Glomerular Endothelial Cells, donor2_CNhs12086_11594-120H1_reverse Regulation 
RenalGlomerularEndothelialCellsDonor2_CNhs12086_ctss_fwd RgecD2+ Renal Glomerular Endothelial Cells, donor2_CNhs12086_11594-120H1_forward Regulation 
RenalGlomerularEndothelialCellsDonor1_CNhs12074_ctss_rev RgecD1- Renal Glomerular Endothelial Cells, donor1_CNhs12074_11514-119H2_reverse Regulation 
RenalGlomerularEndothelialCellsDonor1_CNhs12074_ctss_fwd RgecD1+ Renal Glomerular Endothelial Cells, donor1_CNhs12074_11514-119H2_forward Regulation 
RenalMesangialCellsDonor3_CNhs12121_ctss_rev RenalMesangialCellsD3- Renal Mesangial Cells, donor3_CNhs12121_11679-122H5_reverse Regulation 
RenalMesangialCellsDonor3_CNhs12121_ctss_fwd RenalMesangialCellsD3+ Renal Mesangial Cells, donor3_CNhs12121_11679-122H5_forward Regulation 
RenalMesangialCellsDonor2_CNhs12089_ctss_rev RenalMesangialCellsD2- Renal Mesangial Cells, donor2_CNhs12089_11598-120H5_reverse Regulation 
RenalMesangialCellsDonor2_CNhs12089_ctss_fwd RenalMesangialCellsD2+ Renal Mesangial Cells, donor2_CNhs12089_11598-120H5_forward Regulation 
RenalMesangialCellsDonor1_CNhs11333_ctss_rev RenalMesangialCellsD1- Renal Mesangial Cells, donor1_CNhs11333_11518-119H6_reverse Regulation 
RenalMesangialCellsDonor1_CNhs11333_ctss_fwd RenalMesangialCellsD1+ Renal Mesangial Cells, donor1_CNhs11333_11518-119H6_forward Regulation 
RenalEpithelialCellsDonor3_CNhs12732_ctss_rev RenalEpithelialCellsD3- Renal Epithelial Cells, donor3_CNhs12732_11678-122H4_reverse Regulation 
RenalEpithelialCellsDonor3_CNhs12732_ctss_fwd RenalEpithelialCellsD3+ Renal Epithelial Cells, donor3_CNhs12732_11678-122H4_forward Regulation 
RenalEpithelialCellsDonor2_CNhs12088_ctss_rev RenalEpithelialCellsD2- Renal Epithelial Cells, donor2_CNhs12088_11597-120H4_reverse Regulation 
RenalEpithelialCellsDonor2_CNhs12088_ctss_fwd RenalEpithelialCellsD2+ Renal Epithelial Cells, donor2_CNhs12088_11597-120H4_forward Regulation 
RenalEpithelialCellsDonor1_CNhs11332_ctss_rev RenalEpithelialCellsD1- Renal Epithelial Cells, donor1_CNhs11332_11517-119H5_reverse Regulation 
RenalEpithelialCellsDonor1_CNhs11332_ctss_fwd RenalEpithelialCellsD1+ Renal Epithelial Cells, donor1_CNhs11332_11517-119H5_forward Regulation 
RenalCorticalEpithelialCellsDonor2_CNhs12728_ctss_rev RcecD2- Renal Cortical Epithelial Cells, donor2_CNhs12728_11596-120H3_reverse Regulation 
RenalCorticalEpithelialCellsDonor2_CNhs12728_ctss_fwd RcecD2+ Renal Cortical Epithelial Cells, donor2_CNhs12728_11596-120H3_forward Regulation 
RenalCorticalEpithelialCellsDonor1_CNhs11331_ctss_rev RcecD1- Renal Cortical Epithelial Cells, donor1_CNhs11331_11516-119H4_reverse Regulation 
RenalCorticalEpithelialCellsDonor1_CNhs11331_ctss_fwd RcecD1+ Renal Cortical Epithelial Cells, donor1_CNhs11331_11516-119H4_forward Regulation 
ProstateStromalCellsDonor3_CNhs12015_ctss_rev ProstateStromalCellsD3- Prostate Stromal Cells, donor3_CNhs12015_11405-118E1_reverse Regulation 
ProstateStromalCellsDonor3_CNhs12015_ctss_fwd ProstateStromalCellsD3+ Prostate Stromal Cells, donor3_CNhs12015_11405-118E1_forward Regulation 
ProstateStromalCellsDonor2_CNhs11973_ctss_rev ProstateStromalCellsD2- Prostate Stromal Cells, donor2_CNhs11973_11332-117E9_reverse Regulation 
ProstateStromalCellsDonor2_CNhs11973_ctss_fwd ProstateStromalCellsD2+ Prostate Stromal Cells, donor2_CNhs11973_11332-117E9_forward Regulation 
ProstateStromalCellsDonor1_CNhs10883_ctss_rev ProstateStromalCellsD1- Prostate Stromal Cells, donor1_CNhs10883_11254-116F3_reverse Regulation 
ProstateStromalCellsDonor1_CNhs10883_ctss_fwd ProstateStromalCellsD1+ Prostate Stromal Cells, donor1_CNhs10883_11254-116F3_forward Regulation 
ProstateEpithelialCellsDonor3_CNhs12014_ctss_rev ProstateEpithelialCellsD3- Prostate Epithelial Cells, donor3_CNhs12014_11404-118D9_reverse Regulation 
ProstateEpithelialCellsDonor3_CNhs12014_ctss_fwd ProstateEpithelialCellsD3+ Prostate Epithelial Cells, donor3_CNhs12014_11404-118D9_forward Regulation 
ProstateEpithelialCellsDonor2_CNhs11972_ctss_rev ProstateEpithelialCellsD2- Prostate Epithelial Cells, donor2_CNhs11972_11331-117E8_reverse Regulation 
ProstateEpithelialCellsDonor2_CNhs11972_ctss_fwd ProstateEpithelialCellsD2+ Prostate Epithelial Cells, donor2_CNhs11972_11331-117E8_forward Regulation 
ProstateEpithelialCellsPolarizedDonor1_CNhs10882_ctss_rev ProstateEpithelialCellsD1- Prostate Epithelial Cells (polarized), donor1_CNhs10882_11253-116F2_reverse Regulation 
ProstateEpithelialCellsPolarizedDonor1_CNhs10882_ctss_fwd ProstateEpithelialCellsD1+ Prostate Epithelial Cells (polarized), donor1_CNhs10882_11253-116F2_forward Regulation 
PreadipocyteVisceralDonor3_CNhs12039_ctss_rev PreadipocyteVisceralD3- Preadipocyte - visceral, donor3_CNhs12039_11429-118G7_reverse Regulation 
PreadipocyteVisceralDonor3_CNhs12039_ctss_fwd PreadipocyteVisceralD3+ Preadipocyte - visceral, donor3_CNhs12039_11429-118G7_forward Regulation 
PreadipocyteVisceralDonor2_CNhs11982_ctss_rev PreadipocyteVisceralD2- Preadipocyte - visceral, donor2_CNhs11982_11357-117H7_reverse Regulation 
PreadipocyteVisceralDonor2_CNhs11982_ctss_fwd PreadipocyteVisceralD2+ Preadipocyte - visceral, donor2_CNhs11982_11357-117H7_forward Regulation 
PreadipocyteVisceralDonor1_CNhs11082_ctss_rev PreadipocyteVisceralD1- Preadipocyte - visceral, donor1_CNhs11082_11280-116I2_reverse Regulation 
PreadipocyteVisceralDonor1_CNhs11082_ctss_fwd PreadipocyteVisceralD1+ Preadipocyte - visceral, donor1_CNhs11082_11280-116I2_forward Regulation 
PreadipocyteSubcutaneousDonor3_CNhs12038_ctss_rev PreadipocyteSubcutaneousD3- Preadipocyte - subcutaneous, donor3_CNhs12038_11428-118G6_reverse Regulation 
PreadipocyteSubcutaneousDonor3_CNhs12038_ctss_fwd PreadipocyteSubcutaneousD3+ Preadipocyte - subcutaneous, donor3_CNhs12038_11428-118G6_forward Regulation 
PreadipocyteSubcutaneousDonor2_CNhs11981_ctss_rev PreadipocyteSubcutaneousD2- Preadipocyte - subcutaneous, donor2_CNhs11981_11356-117H6_reverse Regulation 
PreadipocyteSubcutaneousDonor2_CNhs11981_ctss_fwd PreadipocyteSubcutaneousD2+ Preadipocyte - subcutaneous, donor2_CNhs11981_11356-117H6_forward Regulation 
PreadipocyteSubcutaneousDonor1_CNhs11081_ctss_rev PreadipocyteSubcutaneousD1- Preadipocyte - subcutaneous, donor1_CNhs11081_11279-116I1_reverse Regulation 
PreadipocyteSubcutaneousDonor1_CNhs11081_ctss_fwd PreadipocyteSubcutaneousD1+ Preadipocyte - subcutaneous, donor1_CNhs11081_11279-116I1_forward Regulation 
PreadipocytePerirenalDonor1_CNhs12065_ctss_rev PreadipocytePerirenalD1- Preadipocyte - perirenal, donor1_CNhs12065_11469-119C2_reverse Regulation 
PreadipocytePerirenalDonor1_CNhs12065_ctss_fwd PreadipocytePerirenalD1+ Preadipocyte - perirenal, donor1_CNhs12065_11469-119C2_forward Regulation 
PreadipocyteOmentalDonor3_CNhs12013_ctss_rev PreadipocyteOmentalD3- Preadipocyte - omental, donor3_CNhs12013_11403-118D8_reverse Regulation 
PreadipocyteOmentalDonor3_CNhs12013_ctss_fwd PreadipocyteOmentalD3+ Preadipocyte - omental, donor3_CNhs12013_11403-118D8_forward Regulation 
PreadipocyteOmentalDonor2_CNhs11902_ctss_rev PreadipocyteOmentalD2- Preadipocyte - omental, donor2_CNhs11902_11329-117E6_reverse Regulation 
PreadipocyteOmentalDonor2_CNhs11902_ctss_fwd PreadipocyteOmentalD2+ Preadipocyte - omental, donor2_CNhs11902_11329-117E6_forward Regulation 
PreadipocyteOmentalDonor1_CNhs11065_ctss_rev PreadipocyteOmentalD1- Preadipocyte - omental, donor1_CNhs11065_11468-119C1_reverse Regulation 
PreadipocyteOmentalDonor1_CNhs11065_ctss_fwd PreadipocyteOmentalD1+ Preadipocyte - omental, donor1_CNhs11065_11468-119C1_forward Regulation 
PreadipocyteBreastDonor2_CNhs11971_ctss_rev PreadipocyteBreastD2- Preadipocyte - breast, donor2_CNhs11971_11328-117E5_reverse Regulation 
PreadipocyteBreastDonor2_CNhs11971_ctss_fwd PreadipocyteBreastD2+ Preadipocyte - breast, donor2_CNhs11971_11328-117E5_forward Regulation 
PreadipocyteBreastDonor1_CNhs11052_ctss_rev PreadipocyteBreastD1- Preadipocyte - breast, donor1_CNhs11052_11467-119B9_reverse Regulation 
PreadipocyteBreastDonor1_CNhs11052_ctss_fwd PreadipocyteBreastD1+ Preadipocyte - breast, donor1_CNhs11052_11467-119B9_forward Regulation 
PlacentalEpithelialCellsDonor3_CNhs12037_ctss_rev PlacentalEpithelialCellsD3- Placental Epithelial Cells, donor3_CNhs12037_11427-118G5_reverse Regulation 
PlacentalEpithelialCellsDonor3_CNhs12037_ctss_fwd PlacentalEpithelialCellsD3+ Placental Epithelial Cells, donor3_CNhs12037_11427-118G5_forward Regulation 
PlacentalEpithelialCellsDonor2_CNhs11386_ctss_rev PlacentalEpithelialCellsD2- Placental Epithelial Cells, donor2_CNhs11386_11355-117H5_reverse Regulation 
PlacentalEpithelialCellsDonor2_CNhs11386_ctss_fwd PlacentalEpithelialCellsD2+ Placental Epithelial Cells, donor2_CNhs11386_11355-117H5_forward Regulation 
PlacentalEpithelialCellsDonor1_CNhs11079_ctss_rev PlacentalEpithelialCellsD1- Placental Epithelial Cells, donor1_CNhs11079_11278-116H9_reverse Regulation 
PlacentalEpithelialCellsDonor1_CNhs11079_ctss_fwd PlacentalEpithelialCellsD1+ Placental Epithelial Cells, donor1_CNhs11079_11278-116H9_forward Regulation 
PeripheralBloodMononuclearCellsDonor3_CNhs12002_ctss_rev PeripheralBloodMononuclearCellsD3- Peripheral Blood Mononuclear Cells, donor3_CNhs12002_11388-118C2_reverse Regulation 
PeripheralBloodMononuclearCellsDonor3_CNhs12002_ctss_fwd PeripheralBloodMononuclearCellsD3+ Peripheral Blood Mononuclear Cells, donor3_CNhs12002_11388-118C2_forward Regulation 
PeripheralBloodMononuclearCellsDonor2_CNhs11958_ctss_rev PeripheralBloodMononuclearCellsD2- Peripheral Blood Mononuclear Cells, donor2_CNhs11958_11312-117C7_reverse Regulation 
PeripheralBloodMononuclearCellsDonor2_CNhs11958_ctss_fwd PeripheralBloodMononuclearCellsD2+ Peripheral Blood Mononuclear Cells, donor2_CNhs11958_11312-117C7_forward Regulation 
PeripheralBloodMononuclearCellsDonor1_CNhs10860_ctss_rev PeripheralBloodMononuclearCellsD1- Peripheral Blood Mononuclear Cells, donor1_CNhs10860_11231-116C7_reverse Regulation 
PeripheralBloodMononuclearCellsDonor1_CNhs10860_ctss_fwd PeripheralBloodMononuclearCellsD1+ Peripheral Blood Mononuclear Cells, donor1_CNhs10860_11231-116C7_forward Regulation 
PerineurialCellsDonor2_CNhs12590_ctss_rev PerineurialCellsD2- Perineurial Cells, donor2_CNhs12590_11579-120F4_reverse Regulation 
PerineurialCellsDonor2_CNhs12590_ctss_fwd PerineurialCellsD2+ Perineurial Cells, donor2_CNhs12590_11579-120F4_forward Regulation 
PerineurialCellsDonor1_CNhs12587_ctss_rev PerineurialCellsD1- Perineurial Cells, donor1_CNhs12587_11499-119F5_reverse Regulation 
PerineurialCellsDonor1_CNhs12587_ctss_fwd PerineurialCellsD1+ Perineurial Cells, donor1_CNhs12587_11499-119F5_forward Regulation 
PericytesDonor3_CNhs12116_ctss_rev PericytesD3- Pericytes, donor3_CNhs12116_11652-122E5_reverse Regulation 
PericytesDonor3_CNhs12116_ctss_fwd PericytesD3+ Pericytes, donor3_CNhs12116_11652-122E5_forward Regulation 
PericytesDonor2_CNhs12079_ctss_rev PericytesD2- Pericytes, donor2_CNhs12079_11571-120E5_reverse Regulation 
PericytesDonor2_CNhs12079_ctss_fwd PericytesD2+ Pericytes, donor2_CNhs12079_11571-120E5_forward Regulation 
PericytesDonor1_CNhs11317_ctss_rev PericytesD1- Pericytes, donor1_CNhs11317_11491-119E6_reverse Regulation 
PericytesDonor1_CNhs11317_ctss_fwd PericytesD1+ Pericytes, donor1_CNhs11317_11491-119E6_forward Regulation 
PancreaticStromalCellsDonor1_CNhs10877_ctss_rev PancreaticStromalCellsD1- Pancreatic stromal cells, donor1_CNhs10877_11249-116E7_reverse Regulation 
PancreaticStromalCellsDonor1_CNhs10877_ctss_fwd PancreaticStromalCellsD1+ Pancreatic stromal cells, donor1_CNhs10877_11249-116E7_forward Regulation 
OsteoblastDifferentiatedDonor3_CNhs12035_ctss_rev OsteoblastDifferentiatedD3- Osteoblast - differentiated, donor3_CNhs12035_11425-118G3_reverse Regulation 
OsteoblastDifferentiatedDonor3_CNhs12035_ctss_fwd OsteoblastDifferentiatedD3+ Osteoblast - differentiated, donor3_CNhs12035_11425-118G3_forward Regulation 
OsteoblastDifferentiatedDonor2_CNhs11980_ctss_rev OsteoblastDifferentiatedD2- Osteoblast - differentiated, donor2_CNhs11980_11353-117H3_reverse Regulation 
OsteoblastDifferentiatedDonor2_CNhs11980_ctss_fwd OsteoblastDifferentiatedD2+ Osteoblast - differentiated, donor2_CNhs11980_11353-117H3_forward Regulation 
OsteoblastDifferentiatedDonor1_CNhs11311_ctss_rev OsteoblastDifferentiatedD1- Osteoblast - differentiated, donor1_CNhs11311_11276-116H7_reverse Regulation 
OsteoblastDifferentiatedDonor1_CNhs11311_ctss_fwd OsteoblastDifferentiatedD1+ Osteoblast - differentiated, donor1_CNhs11311_11276-116H7_forward Regulation 
OsteoblastDonor3_CNhs12036_ctss_rev OsteoblastD3- Osteoblast, donor3_CNhs12036_11426-118G4_reverse Regulation 
OsteoblastDonor3_CNhs12036_ctss_fwd OsteoblastD3+ Osteoblast, donor3_CNhs12036_11426-118G4_forward Regulation 
OsteoblastDonor2_CNhs11385_ctss_rev OsteoblastD2- Osteoblast, donor2_CNhs11385_11354-117H4_reverse Regulation 
OsteoblastDonor2_CNhs11385_ctss_fwd OsteoblastD2+ Osteoblast, donor2_CNhs11385_11354-117H4_forward Regulation 
OsteoblastDonor1_CNhs11078_ctss_rev OsteoblastD1- Osteoblast, donor1_CNhs11078_11277-116H8_reverse Regulation 
OsteoblastDonor1_CNhs11078_ctss_fwd OsteoblastD1+ Osteoblast, donor1_CNhs11078_11277-116H8_forward Regulation 
OligodendrocytePrecursorsDonor1_CNhs12586_ctss_rev OligodendrocytePrecursorsD1- Oligodendrocyte - precursors, donor1_CNhs12586_11496-119F2_reverse Regulation 
OligodendrocytePrecursorsDonor1_CNhs12586_ctss_fwd OligodendrocytePrecursorsD1+ Oligodendrocyte - precursors, donor1_CNhs12586_11496-119F2_forward Regulation 
OlfactoryEpithelialCellsDonor4_CNhs13819_ctss_rev OlfactoryEpithelialCellsD4- Olfactory epithelial cells, donor4_CNhs13819_11936-126A1_reverse Regulation 
OlfactoryEpithelialCellsDonor4_CNhs13819_ctss_fwd OlfactoryEpithelialCellsD4+ Olfactory epithelial cells, donor4_CNhs13819_11936-126A1_forward Regulation 
OlfactoryEpithelialCellsDonor3_CNhs13818_ctss_rev OlfactoryEpithelialCellsD3- Olfactory epithelial cells, donor3_CNhs13818_11935-125I9_reverse Regulation 
OlfactoryEpithelialCellsDonor3_CNhs13818_ctss_fwd OlfactoryEpithelialCellsD3+ Olfactory epithelial cells, donor3_CNhs13818_11935-125I9_forward Regulation 
OlfactoryEpithelialCellsDonor2_CNhs13817_ctss_rev OlfactoryEpithelialCellsD2- Olfactory epithelial cells, donor2_CNhs13817_11934-125I8_reverse Regulation 
OlfactoryEpithelialCellsDonor2_CNhs13817_ctss_fwd OlfactoryEpithelialCellsD2+ Olfactory epithelial cells, donor2_CNhs13817_11934-125I8_forward Regulation 
OlfactoryEpithelialCellsDonor1_CNhs13816_ctss_rev OlfactoryEpithelialCellsD1- Olfactory epithelial cells, donor1_CNhs13816_11933-125I7_reverse Regulation 
OlfactoryEpithelialCellsDonor1_CNhs13816_ctss_fwd OlfactoryEpithelialCellsD1+ Olfactory epithelial cells, donor1_CNhs13816_11933-125I7_forward Regulation 
NucleusPulposusCellDonor3_CNhs12063_ctss_rev NucleusPulposusCellD3- Nucleus Pulposus Cell, donor3_CNhs12063_11462-119B4_reverse Regulation 
NucleusPulposusCellDonor3_CNhs12063_ctss_fwd NucleusPulposusCellD3+ Nucleus Pulposus Cell, donor3_CNhs12063_11462-119B4_forward Regulation 
NucleusPulposusCellDonor2_CNhs12019_ctss_rev NucleusPulposusCellD2- Nucleus Pulposus Cell, donor2_CNhs12019_11409-118E5_reverse Regulation 
NucleusPulposusCellDonor2_CNhs12019_ctss_fwd NucleusPulposusCellD2+ Nucleus Pulposus Cell, donor2_CNhs12019_11409-118E5_forward Regulation 
NucleusPulposusCellDonor1_CNhs10881_ctss_rev NucleusPulposusCellD1- Nucleus Pulposus Cell, donor1_CNhs10881_11252-116F1_reverse Regulation 
NucleusPulposusCellDonor1_CNhs10881_ctss_fwd NucleusPulposusCellD1+ Nucleus Pulposus Cell, donor1_CNhs10881_11252-116F1_forward Regulation 
NeutrophilsDonor3_CNhs11905_ctss_rev NeutrophilsD3- Neutrophils, donor3_CNhs11905_11390-118C4_reverse Regulation 
NeutrophilsDonor3_CNhs11905_ctss_fwd NeutrophilsD3+ Neutrophils, donor3_CNhs11905_11390-118C4_forward Regulation 
NeutrophilsDonor2_CNhs11959_ctss_rev NeutrophilsD2- Neutrophils, donor2_CNhs11959_11314-117C9_reverse Regulation 
NeutrophilsDonor2_CNhs11959_ctss_fwd NeutrophilsD2+ Neutrophils, donor2_CNhs11959_11314-117C9_forward Regulation 
NeutrophilsDonor1_CNhs10862_ctss_rev NeutrophilsD1- Neutrophils, donor1_CNhs10862_11233-116C9_reverse Regulation 
NeutrophilsDonor1_CNhs10862_ctss_fwd NeutrophilsD1+ Neutrophils, donor1_CNhs10862_11233-116C9_forward Regulation 
NeuronsDonor3_CNhs13815_ctss_rev NeuronsD3- Neurons, donor3_CNhs13815_11655-122E8_reverse Regulation 
NeuronsDonor3_CNhs13815_ctss_fwd NeuronsD3+ Neurons, donor3_CNhs13815_11655-122E8_forward Regulation 
NeuronsDonor2_CNhs12726_ctss_rev NeuronsD2- Neurons, donor2_CNhs12726_11574-120E8_reverse Regulation 
NeuronsDonor2_CNhs12726_ctss_fwd NeuronsD2+ Neurons, donor2_CNhs12726_11574-120E8_forward Regulation 
NeuronsDonor1_CNhs12338_ctss_rev NeuronsD1- Neurons, donor1_CNhs12338_11494-119E9_reverse Regulation 
NeuronsDonor1_CNhs12338_ctss_fwd NeuronsD1+ Neurons, donor1_CNhs12338_11494-119E9_forward Regulation 
NeuralStemCellsDonor2_CNhs11384_ctss_rev NeuralStemCellsD2- Neural stem cells, donor2_CNhs11384_11352-117H2_reverse Regulation 
NeuralStemCellsDonor2_CNhs11384_ctss_fwd NeuralStemCellsD2+ Neural stem cells, donor2_CNhs11384_11352-117H2_forward Regulation 
NeuralStemCellsDonor1_CNhs11063_ctss_rev NeuralStemCellsD1- Neural stem cells, donor1_CNhs11063_11275-116H6_reverse Regulation 
NeuralStemCellsDonor1_CNhs11063_ctss_fwd NeuralStemCellsD1+ Neural stem cells, donor1_CNhs11063_11275-116H6_forward Regulation 
NaturalKillerCellsDonor3_CNhs12001_ctss_rev NaturalKillerCellsD3- Natural Killer Cells, donor3_CNhs12001_11387-118C1_reverse Regulation 
NaturalKillerCellsDonor3_CNhs12001_ctss_fwd NaturalKillerCellsD3+ Natural Killer Cells, donor3_CNhs12001_11387-118C1_forward Regulation 
NaturalKillerCellsDonor2_CNhs11957_ctss_rev NaturalKillerCellsD2- Natural Killer Cells, donor2_CNhs11957_11311-117C6_reverse Regulation 
NaturalKillerCellsDonor2_CNhs11957_ctss_fwd NaturalKillerCellsD2+ Natural Killer Cells, donor2_CNhs11957_11311-117C6_forward Regulation 
NaturalKillerCellsDonor1_CNhs10859_ctss_rev NaturalKillerCellsD1- Natural Killer Cells, donor1_CNhs10859_11230-116C6_reverse Regulation 
NaturalKillerCellsDonor1_CNhs10859_ctss_fwd NaturalKillerCellsD1+ Natural Killer Cells, donor1_CNhs10859_11230-116C6_forward Regulation 
NasalEpithelialCellsDonor2_CNhs12574_ctss_rev NasalEpithelialCellsD2- nasal epithelial cells, donor2_CNhs12574_12227-129F4_reverse Regulation 
NasalEpithelialCellsDonor2_CNhs12574_ctss_fwd NasalEpithelialCellsD2+ nasal epithelial cells, donor2_CNhs12574_12227-129F4_forward Regulation 
NasalEpithelialCellsDonor1TechRep1_CNhs12589_ctss_rev NasalEpithelialCellsD1Tr1- nasal epithelial cells, donor1, tech_rep1_CNhs12589_12226-129F3_reverse Regulation 
NasalEpithelialCellsDonor1TechRep1_CNhs12589_ctss_fwd NasalEpithelialCellsD1Tr1+ nasal epithelial cells, donor1, tech_rep1_CNhs12589_12226-129F3_forward Regulation 
MyoblastDonor3_CNhs11908_ctss_rev MyoblastD3- Myoblast, donor3_CNhs11908_11398-118D3_reverse Regulation 
MyoblastDonor3_CNhs11908_ctss_fwd MyoblastD3+ Myoblast, donor3_CNhs11908_11398-118D3_forward Regulation 
MyoblastDonor2_CNhs11965_ctss_rev MyoblastD2- Myoblast, donor2_CNhs11965_11322-117D8_reverse Regulation 
MyoblastDonor2_CNhs11965_ctss_fwd MyoblastD2+ Myoblast, donor2_CNhs11965_11322-117D8_forward Regulation 
MyoblastDonor1_CNhs10870_ctss_rev MyoblastD1- Myoblast, donor1_CNhs10870_11241-116D8_reverse Regulation 
MyoblastDonor1_CNhs10870_ctss_fwd MyoblastD1+ Myoblast, donor1_CNhs10870_11241-116D8_forward Regulation 
MesenchymalStemCellsWhartonsJellyDonor1_CNhs11057_ctss_rev MscWharton'sJellyD1- Mesenchymal Stem Cells - Wharton's Jelly, donor1_CNhs11057_11548-120B9_reverse Regulation 
MesenchymalStemCellsWhartonsJellyDonor1_CNhs11057_ctss_fwd MscWharton'sJellyD1+ Mesenchymal Stem Cells - Wharton's Jelly, donor1_CNhs11057_11548-120B9_forward Regulation 
MesenchymalStemCellsVertebralDonor1_CNhs10846_ctss_rev MscVertebralD1- Mesenchymal Stem Cells - Vertebral, donor1_CNhs10846_11219-116B4_reverse Regulation 
MesenchymalStemCellsVertebralDonor1_CNhs10846_ctss_fwd MscVertebralD1+ Mesenchymal Stem Cells - Vertebral, donor1_CNhs10846_11219-116B4_forward Regulation 
MesenchymalStemCellsUmbilicalDonor3_CNhs12127_ctss_rev MscUmbilicalD3- Mesenchymal Stem Cells - umbilical, donor3_CNhs12127_11700-123A8_reverse Regulation 
MesenchymalStemCellsUmbilicalDonor3_CNhs12127_ctss_fwd MscUmbilicalD3+ Mesenchymal Stem Cells - umbilical, donor3_CNhs12127_11700-123A8_forward Regulation 
MesenchymalStemCellsUmbilicalDonor2_CNhs12102_ctss_rev MscUmbilicalD2- Mesenchymal Stem Cells - umbilical, donor2_CNhs12102_11619-122A8_reverse Regulation 
MesenchymalStemCellsUmbilicalDonor2_CNhs12102_ctss_fwd MscUmbilicalD2+ Mesenchymal Stem Cells - umbilical, donor2_CNhs12102_11619-122A8_forward Regulation 
MesenchymalStemCellsUmbilicalDonor1_CNhs11347_ctss_rev MscUmbilicalD1- Mesenchymal Stem Cells - umbilical, donor1_CNhs11347_11539-120A9_reverse Regulation 
MesenchymalStemCellsUmbilicalDonor1_CNhs11347_ctss_fwd MscUmbilicalD1+ Mesenchymal Stem Cells - umbilical, donor1_CNhs11347_11539-120A9_forward Regulation 
MesenchymalStemCellsUmbilicalDonor0_CNhs12492_ctss_rev MscUmbilicalD0- Mesenchymal stem cells - umbilical, donor0_CNhs12492_11214-116A8_reverse Regulation 
MesenchymalStemCellsUmbilicalDonor0_CNhs12492_ctss_fwd MscUmbilicalD0+ Mesenchymal stem cells - umbilical, donor0_CNhs12492_11214-116A8_forward Regulation 
MesenchymalStemCellsHepaticDonor2_CNhs12730_ctss_rev MscHepaticD2- Mesenchymal Stem Cells - hepatic, donor2_CNhs12730_11618-122A7_reverse Regulation 
MesenchymalStemCellsHepaticDonor2_CNhs12730_ctss_fwd MscHepaticD2+ Mesenchymal Stem Cells - hepatic, donor2_CNhs12730_11618-122A7_forward Regulation 
MesenchymalStemCellsHepaticDonor1_CNhs11346_ctss_rev MscHepaticD1- Mesenchymal Stem Cells - hepatic, donor1_CNhs11346_11538-120A8_reverse Regulation 
MesenchymalStemCellsHepaticDonor1_CNhs11346_ctss_fwd MscHepaticD1+ Mesenchymal Stem Cells - hepatic, donor1_CNhs11346_11538-120A8_forward Regulation 
MesenchymalStemCellsHepaticDonor0_CNhs10845_ctss_rev MscHepaticD0- Mesenchymal stem cells - hepatic, donor0_CNhs10845_11218-116B3_reverse Regulation 
MesenchymalStemCellsHepaticDonor0_CNhs10845_ctss_fwd MscHepaticD0+ Mesenchymal stem cells - hepatic, donor0_CNhs10845_11218-116B3_forward Regulation 
MesenchymalStemCellsBoneMarrowDonor4_CNhs11316_ctss_rev MscBoneMarrowD4- Mesenchymal Stem Cells - bone marrow, donor4_CNhs11316_11464-119B6_reverse Regulation 
MesenchymalStemCellsBoneMarrowDonor4_CNhs11316_ctss_fwd MscBoneMarrowD4+ Mesenchymal Stem Cells - bone marrow, donor4_CNhs11316_11464-119B6_forward Regulation 
MesenchymalStemCellsBoneMarrowDonor3_CNhs12126_ctss_rev MscBoneMarrowD3- Mesenchymal Stem Cells - bone marrow, donor3_CNhs12126_11697-123A5_reverse Regulation 
MesenchymalStemCellsBoneMarrowDonor3_CNhs12126_ctss_fwd MscBoneMarrowD3+ Mesenchymal Stem Cells - bone marrow, donor3_CNhs12126_11697-123A5_forward Regulation 
MesenchymalStemCellsBoneMarrowDonor2_CNhs12100_ctss_rev MscBoneMarrowD2- Mesenchymal Stem Cells - bone marrow, donor2_CNhs12100_11616-122A5_reverse Regulation 
MesenchymalStemCellsBoneMarrowDonor2_CNhs12100_ctss_fwd MscBoneMarrowD2+ Mesenchymal Stem Cells - bone marrow, donor2_CNhs12100_11616-122A5_forward Regulation 
MesenchymalStemCellsBoneMarrowDonor1_CNhs11344_ctss_rev MscBoneMarrowD1- Mesenchymal Stem Cells - bone marrow, donor1_CNhs11344_11536-120A6_reverse Regulation 
MesenchymalStemCellsBoneMarrowDonor1_CNhs11344_ctss_fwd MscBoneMarrowD1+ Mesenchymal Stem Cells - bone marrow, donor1_CNhs11344_11536-120A6_forward Regulation 
MesenchymalStemCellsAmnioticMembraneDonor2_CNhs12104_ctss_rev MscAmnioticMembraneD2- Mesenchymal Stem Cells - amniotic membrane, donor2_CNhs12104_11627-122B7_reverse Regulation 
MesenchymalStemCellsAmnioticMembraneDonor2_CNhs12104_ctss_fwd MscAmnioticMembraneD2+ Mesenchymal Stem Cells - amniotic membrane, donor2_CNhs12104_11627-122B7_forward Regulation 
MesenchymalStemCellsAmnioticMembraneDonor1_CNhs11349_ctss_rev MscAmnioticMembraneD1- Mesenchymal Stem Cells - amniotic membrane, donor1_CNhs11349_11547-120B8_reverse Regulation 
MesenchymalStemCellsAmnioticMembraneDonor1_CNhs11349_ctss_fwd MscAmnioticMembraneD1+ Mesenchymal Stem Cells - amniotic membrane, donor1_CNhs11349_11547-120B8_forward Regulation 
MesenchymalStemCellsAdiposeDonor3_CNhs12922_ctss_rev MscAdiposeD3- Mesenchymal Stem Cells - adipose, donor3_CNhs12922_11698-123A6_reverse Regulation 
MesenchymalStemCellsAdiposeDonor3_CNhs12922_ctss_fwd MscAdiposeD3+ Mesenchymal Stem Cells - adipose, donor3_CNhs12922_11698-123A6_forward Regulation 
MesenchymalStemCellsAdiposeDonor2_CNhs12101_ctss_rev MscAdiposeD2- Mesenchymal Stem Cells - adipose, donor2_CNhs12101_11617-122A6_reverse Regulation 
MesenchymalStemCellsAdiposeDonor2_CNhs12101_ctss_fwd MscAdiposeD2+ Mesenchymal Stem Cells - adipose, donor2_CNhs12101_11617-122A6_forward Regulation 
MesenchymalStemCellsAdiposeDonor1_CNhs11345_ctss_rev MscAdiposeD1- Mesenchymal Stem Cells - adipose, donor1_CNhs11345_11537-120A7_reverse Regulation 
MesenchymalStemCellsAdiposeDonor1_CNhs11345_ctss_fwd MscAdiposeD1+ Mesenchymal Stem Cells - adipose, donor1_CNhs11345_11537-120A7_forward Regulation 
MesenchymalStemCellsAdiposeDonor0_CNhs10844_ctss_rev MscAdiposeD0- Mesenchymal stem cells - adipose, donor0_CNhs10844_11217-116B2_reverse Regulation 
MesenchymalStemCellsAdiposeDonor0_CNhs10844_ctss_fwd MscAdiposeD0+ Mesenchymal stem cells - adipose, donor0_CNhs10844_11217-116B2_forward Regulation 
MesenchymalPrecursorCellOvarianCancerRightOvaryDonor4_CNhs13096_ctss_rev MpcOvarianCancerRightOvaryD4- mesenchymal precursor cell - ovarian cancer right ovary, donor4_CNhs13096_11837-124H1_reverse Regulation 
MesenchymalPrecursorCellOvarianCancerRightOvaryDonor4_CNhs13096_ctss_fwd MpcOvarianCancerRightOvaryD4+ mesenchymal precursor cell - ovarian cancer right ovary, donor4_CNhs13096_11837-124H1_forward Regulation 
MesenchymalPrecursorCellOvarianCancerRightOvaryDonor3SOC5702G_CNhs13507_ctss_rev MpcOvarianCancerRightOvaryD3- mesenchymal precursor cell - ovarian cancer right ovary, donor3 (SOC-57-02-G)_CNhs13507_11842-124H6_reverse Regulation 
MesenchymalPrecursorCellOvarianCancerRightOvaryDonor3SOC5702_CNhs12377_ctss_rev MpcOvarianCancerRightOvaryD3- mesenchymal precursor cell - ovarian cancer right ovary, donor3 (SOC-57-02)_CNhs12377_11761-123H6_reverse Regulation 
MesenchymalPrecursorCellOvarianCancerRightOvaryDonor3SOC5702G_CNhs13507_ctss_fwd MpcOvarianCancerRightOvaryD3+ mesenchymal precursor cell - ovarian cancer right ovary, donor3 (SOC-57-02-G)_CNhs13507_11842-124H6_forward Regulation 
MesenchymalPrecursorCellOvarianCancerRightOvaryDonor3SOC5702_CNhs12377_ctss_fwd MpcOvarianCancerRightOvaryD3+ mesenchymal precursor cell - ovarian cancer right ovary, donor3 (SOC-57-02)_CNhs12377_11761-123H6_forward Regulation 
MesenchymalPrecursorCellOvarianCancerRightOvaryDonor2_CNhs12375_ctss_rev MpcOvarianCancerRightOvaryD2- mesenchymal precursor cell - ovarian cancer right ovary, donor2_CNhs12375_11759-123H4_reverse Regulation 
MesenchymalPrecursorCellOvarianCancerRightOvaryDonor2_CNhs12375_ctss_fwd MpcOvarianCancerRightOvaryD2+ mesenchymal precursor cell - ovarian cancer right ovary, donor2_CNhs12375_11759-123H4_forward Regulation 
MesenchymalPrecursorCellOvarianCancerRightOvaryDonor1_CNhs12373_ctss_rev MpcOvarianCancerRightOvaryD1- mesenchymal precursor cell - ovarian cancer right ovary, donor1_CNhs12373_11757-123H2_reverse Regulation 
MesenchymalPrecursorCellOvarianCancerRightOvaryDonor1_CNhs12373_ctss_fwd MpcOvarianCancerRightOvaryD1+ mesenchymal precursor cell - ovarian cancer right ovary, donor1_CNhs12373_11757-123H2_forward Regulation 
MesenchymalPrecursorCellOvarianCancerMetastasisDonor4_CNhs13097_ctss_rev MpcOvarianCancerMetastasisD4- mesenchymal precursor cell - ovarian cancer metastasis, donor4_CNhs13097_11838-124H2_reverse Regulation 
MesenchymalPrecursorCellOvarianCancerMetastasisDonor4_CNhs13097_ctss_fwd MpcOvarianCancerMetastasisD4+ mesenchymal precursor cell - ovarian cancer metastasis, donor4_CNhs13097_11838-124H2_forward Regulation 
MesenchymalPrecursorCellOvarianCancerMetastasisDonor3_CNhs12378_ctss_rev MpcOvarianCancerMetastasisD3- mesenchymal precursor cell - ovarian cancer metastasis, donor3_CNhs12378_11762-123H7_reverse Regulation 
MesenchymalPrecursorCellOvarianCancerMetastasisDonor3_CNhs12378_ctss_fwd MpcOvarianCancerMetastasisD3+ mesenchymal precursor cell - ovarian cancer metastasis, donor3_CNhs12378_11762-123H7_forward Regulation 
MesenchymalPrecursorCellOvarianCancerMetastasisDonor2_CNhs13093_ctss_rev MpcOvarianCancerMetastasisD2- mesenchymal precursor cell - ovarian cancer metastasis, donor2_CNhs13093_11835-124G8_reverse Regulation 
MesenchymalPrecursorCellOvarianCancerMetastasisDonor2_CNhs13093_ctss_fwd MpcOvarianCancerMetastasisD2+ mesenchymal precursor cell - ovarian cancer metastasis, donor2_CNhs13093_11835-124G8_forward Regulation 
MesenchymalPrecursorCellOvarianCancerMetastasisDonor1_CNhs12374_ctss_rev MpcOvarianCancerMetastasisD1- mesenchymal precursor cell - ovarian cancer metastasis, donor1_CNhs12374_11758-123H3_reverse Regulation 
MesenchymalPrecursorCellOvarianCancerMetastasisDonor1_CNhs12374_ctss_fwd MpcOvarianCancerMetastasisD1+ mesenchymal precursor cell - ovarian cancer metastasis, donor1_CNhs12374_11758-123H3_forward Regulation 
MesenchymalPrecursorCellOvarianCancerLeftOvaryDonor4_CNhs13094_ctss_rev MpcOvarianCancerLeftOvaryD4- mesenchymal precursor cell - ovarian cancer left ovary, donor4_CNhs13094_11836-124G9_reverse Regulation 
MesenchymalPrecursorCellOvarianCancerLeftOvaryDonor4_CNhs13094_ctss_fwd MpcOvarianCancerLeftOvaryD4+ mesenchymal precursor cell - ovarian cancer left ovary, donor4_CNhs13094_11836-124G9_forward Regulation 
MesenchymalPrecursorCellOvarianCancerLeftOvaryDonor3_CNhs12376_ctss_rev MpcOvarianCancerLeftOvaryD3- mesenchymal precursor cell - ovarian cancer left ovary, donor3_CNhs12376_11760-123H5_reverse Regulation 
MesenchymalPrecursorCellOvarianCancerLeftOvaryDonor3_CNhs12376_ctss_fwd MpcOvarianCancerLeftOvaryD3+ mesenchymal precursor cell - ovarian cancer left ovary, donor3_CNhs12376_11760-123H5_forward Regulation 
MesenchymalPrecursorCellOvarianCancerLeftOvaryDonor2_CNhs13092_ctss_rev MpcOvarianCancerLeftOvaryD2- mesenchymal precursor cell - ovarian cancer left ovary, donor2_CNhs13092_11833-124G6_reverse Regulation 
MesenchymalPrecursorCellOvarianCancerLeftOvaryDonor2_CNhs13092_ctss_fwd MpcOvarianCancerLeftOvaryD2+ mesenchymal precursor cell - ovarian cancer left ovary, donor2_CNhs13092_11833-124G6_forward Regulation 
MesenchymalPrecursorCellOvarianCancerLeftOvaryDonor1_CNhs12372_ctss_rev MpcOvarianCancerLeftOvaryD1- mesenchymal precursor cell - ovarian cancer left ovary, donor1_CNhs12372_11756-123H1_reverse Regulation 
MesenchymalPrecursorCellOvarianCancerLeftOvaryDonor1_CNhs12372_ctss_fwd MpcOvarianCancerLeftOvaryD1+ mesenchymal precursor cell - ovarian cancer left ovary, donor1_CNhs12372_11756-123H1_forward Regulation 
MesenchymalPrecursorCellCardiacDonor4_CNhs12371_ctss_rev MpcCardiacD4- mesenchymal precursor cell - cardiac, donor4_CNhs12371_11755-123G9_reverse Regulation 
MesenchymalPrecursorCellCardiacDonor4_CNhs12371_ctss_fwd MpcCardiacD4+ mesenchymal precursor cell - cardiac, donor4_CNhs12371_11755-123G9_forward Regulation 
MesenchymalPrecursorCellCardiacDonor3_CNhs12370_ctss_rev MpcCardiacD3- mesenchymal precursor cell - cardiac, donor3_CNhs12370_11754-123G8_reverse Regulation 
MesenchymalPrecursorCellCardiacDonor3_CNhs12370_ctss_fwd MpcCardiacD3+ mesenchymal precursor cell - cardiac, donor3_CNhs12370_11754-123G8_forward Regulation 
MesenchymalPrecursorCellCardiacDonor2_CNhs12369_ctss_rev MpcCardiacD2- mesenchymal precursor cell - cardiac, donor2_CNhs12369_11753-123G7_reverse Regulation 
MesenchymalPrecursorCellCardiacDonor2_CNhs12369_ctss_fwd MpcCardiacD2+ mesenchymal precursor cell - cardiac, donor2_CNhs12369_11753-123G7_forward Regulation 
MesenchymalPrecursorCellCardiacDonor1_CNhs12368_ctss_rev MpcCardiacD1- mesenchymal precursor cell - cardiac, donor1_CNhs12368_11752-123G6_reverse Regulation 
MesenchymalPrecursorCellCardiacDonor1_CNhs12368_ctss_fwd MpcCardiacD1+ mesenchymal precursor cell - cardiac, donor1_CNhs12368_11752-123G6_forward Regulation 
MesenchymalPrecursorCellBoneMarrowDonor3_CNhs13098_ctss_rev MpcBoneMarrowD3- mesenchymal precursor cell - bone marrow, donor3_CNhs13098_11840-124H4_reverse Regulation 
MesenchymalPrecursorCellBoneMarrowDonor3_CNhs13098_ctss_fwd MpcBoneMarrowD3+ mesenchymal precursor cell - bone marrow, donor3_CNhs13098_11840-124H4_forward Regulation 
MesenchymalPrecursorCellBoneMarrowDonor2_CNhs12367_ctss_rev MpcBoneMarrowD2- mesenchymal precursor cell - bone marrow, donor2_CNhs12367_11751-123G5_reverse Regulation 
MesenchymalPrecursorCellBoneMarrowDonor2_CNhs12367_ctss_fwd MpcBoneMarrowD2+ mesenchymal precursor cell - bone marrow, donor2_CNhs12367_11751-123G5_forward Regulation 
MesenchymalPrecursorCellBoneMarrowDonor1_CNhs12366_ctss_rev MpcBoneMarrowD1- mesenchymal precursor cell - bone marrow, donor1_CNhs12366_11750-123G4_reverse Regulation 
MesenchymalPrecursorCellBoneMarrowDonor1_CNhs12366_ctss_fwd MpcBoneMarrowD1+ mesenchymal precursor cell - bone marrow, donor1_CNhs12366_11750-123G4_forward Regulation 
MesenchymalPrecursorCellAdiposeDonor3_CNhs12365_ctss_rev MpcAdiposeD3- mesenchymal precursor cell - adipose, donor3_CNhs12365_11749-123G3_reverse Regulation 
MesenchymalPrecursorCellAdiposeDonor3_CNhs12365_ctss_fwd MpcAdiposeD3+ mesenchymal precursor cell - adipose, donor3_CNhs12365_11749-123G3_forward Regulation 
MesenchymalPrecursorCellAdiposeDonor2_CNhs12364_ctss_rev MpcAdiposeD2- mesenchymal precursor cell - adipose, donor2_CNhs12364_11748-123G2_reverse Regulation 
MesenchymalPrecursorCellAdiposeDonor2_CNhs12364_ctss_fwd MpcAdiposeD2+ mesenchymal precursor cell - adipose, donor2_CNhs12364_11748-123G2_forward Regulation 
MesenchymalPrecursorCellAdiposeDonor1_CNhs12363_ctss_rev MpcAdiposeD1- mesenchymal precursor cell - adipose, donor1_CNhs12363_11747-123G1_reverse Regulation 
MesenchymalPrecursorCellAdiposeDonor1_CNhs12363_ctss_fwd MpcAdiposeD1+ mesenchymal precursor cell - adipose, donor1_CNhs12363_11747-123G1_forward Regulation 
MigratoryLangerhansCellsDonor3_CNhs13547_ctss_rev MigratoryLangerhansCellsD3- migratory langerhans cells, donor3_CNhs13547_11903-125F4_reverse Regulation 
MigratoryLangerhansCellsDonor3_CNhs13547_ctss_fwd MigratoryLangerhansCellsD3+ migratory langerhans cells, donor3_CNhs13547_11903-125F4_forward Regulation 
MigratoryLangerhansCellsDonor2_CNhs13536_ctss_rev MigratoryLangerhansCellsD2- migratory langerhans cells, donor2_CNhs13536_11902-125F3_reverse Regulation 
MigratoryLangerhansCellsDonor2_CNhs13536_ctss_fwd MigratoryLangerhansCellsD2+ migratory langerhans cells, donor2_CNhs13536_11902-125F3_forward Regulation 
MigratoryLangerhansCellsDonor1_CNhs13535_ctss_rev MigratoryLangerhansCellsD1- migratory langerhans cells, donor1_CNhs13535_11901-125F2_reverse Regulation 
MigratoryLangerhansCellsDonor1_CNhs13535_ctss_fwd MigratoryLangerhansCellsD1+ migratory langerhans cells, donor1_CNhs13535_11901-125F2_forward Regulation 
MesothelialCellsDonor3_CNhs12012_ctss_rev MesothelialCellsD3- Mesothelial Cells, donor3_CNhs12012_11402-118D7_reverse Regulation 
MesothelialCellsDonor3_CNhs12012_ctss_fwd MesothelialCellsD3+ Mesothelial Cells, donor3_CNhs12012_11402-118D7_forward Regulation 
MesothelialCellsDonor1_CNhs10850_ctss_rev MesothelialCellsD1- Mesothelial Cells, donor1_CNhs10850_11247-116E5_reverse Regulation 
MesothelialCellsDonor1_CNhs10850_ctss_fwd MesothelialCellsD1+ Mesothelial Cells, donor1_CNhs10850_11247-116E5_forward Regulation 
MeningealCellsDonor3_CNhs12731_ctss_rev MeningealCellsD3- Meningeal Cells, donor3_CNhs12731_11654-122E7_reverse Regulation 
MeningealCellsDonor3_CNhs12731_ctss_fwd MeningealCellsD3+ Meningeal Cells, donor3_CNhs12731_11654-122E7_forward Regulation 
MeningealCellsDonor2_CNhs12080_ctss_rev MeningealCellsD2- Meningeal Cells, donor2_CNhs12080_11573-120E7_reverse Regulation 
MeningealCellsDonor2_CNhs12080_ctss_fwd MeningealCellsD2+ Meningeal Cells, donor2_CNhs12080_11573-120E7_forward Regulation 
MeningealCellsDonor1_CNhs11320_ctss_rev MeningealCellsD1- Meningeal Cells, donor1_CNhs11320_11493-119E8_reverse Regulation 
MeningealCellsDonor1_CNhs11320_ctss_fwd MeningealCellsD1+ Meningeal Cells, donor1_CNhs11320_11493-119E8_forward Regulation 
MelanocyteLightDonor3_CNhs12033_ctss_rev MelanocyteLightD3- Melanocyte - light, donor3_CNhs12033_11423-118G1_reverse Regulation 
MelanocyteLightDonor3_CNhs12033_ctss_fwd MelanocyteLightD3+ Melanocyte - light, donor3_CNhs12033_11423-118G1_forward Regulation 
MelanocyteLightDonor2_CNhs11383_ctss_rev MelanocyteLightD2- Melanocyte - light, donor2_CNhs11383_11351-117H1_reverse Regulation 
MelanocyteLightDonor2_CNhs11383_ctss_fwd MelanocyteLightD2+ Melanocyte - light, donor2_CNhs11383_11351-117H1_forward Regulation 
MelanocyteLightDonor1_CNhs11303_ctss_rev MelanocyteLightD1- Melanocyte - light, donor1_CNhs11303_11274-116H5_reverse Regulation 
MelanocyteLightDonor1_CNhs11303_ctss_fwd MelanocyteLightD1+ Melanocyte - light, donor1_CNhs11303_11274-116H5_forward Regulation 
MelanocyteDarkDonor3_CNhs12570_ctss_rev MelanocyteDarkD3- Melanocyte - dark, donor3_CNhs12570_11663-122F7_reverse Regulation 
MelanocyteDarkDonor3_CNhs12570_ctss_fwd MelanocyteDarkD3+ Melanocyte - dark, donor3_CNhs12570_11663-122F7_forward Regulation 
MelanocyteDarkDonor2_CNhs12346_ctss_rev MelanocyteDarkD2- Melanocyte - dark, donor2_CNhs12346_11582-120F7_reverse Regulation 
MelanocyteDarkDonor2_CNhs12346_ctss_fwd MelanocyteDarkD2+ Melanocyte - dark, donor2_CNhs12346_11582-120F7_forward Regulation 
MelanocyteDarkDonor1_CNhs12591_ctss_rev MelanocyteDarkD1- Melanocyte - dark, donor1_CNhs12591_11502-119F8_reverse Regulation 
MelanocyteDarkDonor1_CNhs12591_ctss_fwd MelanocyteDarkD1+ Melanocyte - dark, donor1_CNhs12591_11502-119F8_forward Regulation 
MastCellStimulatedDonor1_CNhs11073_ctss_rev MastCellStimulatedD1- Mast cell - stimulated, donor1_CNhs11073_11487-119E2_reverse Regulation 
MastCellStimulatedDonor1_CNhs11073_ctss_fwd MastCellStimulatedD1+ Mast cell - stimulated, donor1_CNhs11073_11487-119E2_forward Regulation 
MastCellExpandedDonor8_CNhs13926_ctss_rev MastCellExpD8- Mast cell, expanded, donor8_CNhs13926_11941-126A6_reverse Regulation 
MastCellExpandedAndStimulatedDonor8_CNhs13927_ctss_rev MastCellExpD8- Mast cell, expanded and stimulated, donor8_CNhs13927_11942-126A7_reverse Regulation 
MastCellExpandedDonor8_CNhs13926_ctss_fwd MastCellExpD8+ Mast cell, expanded, donor8_CNhs13926_11941-126A6_forward Regulation 
MastCellExpandedAndStimulatedDonor8_CNhs13927_ctss_fwd MastCellExpD8+ Mast cell, expanded and stimulated, donor8_CNhs13927_11942-126A7_forward Regulation 
MastCellExpandedAndStimulatedDonor5_CNhs13925_ctss_rev MastCellExpD5- Mast cell, expanded and stimulated, donor5_CNhs13925_11940-126A5_reverse Regulation 
MastCellExpandedDonor5_CNhs13924_ctss_rev MastCellExpD5- Mast cell, expanded, donor5_CNhs13924_11939-126A4_reverse Regulation 
MastCellExpandedAndStimulatedDonor5_CNhs13925_ctss_fwd MastCellExpD5+ Mast cell, expanded and stimulated, donor5_CNhs13925_11940-126A5_forward Regulation 
MastCellExpandedDonor5_CNhs13924_ctss_fwd MastCellExpD5+ Mast cell, expanded, donor5_CNhs13924_11939-126A4_forward Regulation 
MastCellDonor4_CNhs12592_ctss_rev MastCellD4- Mast cell, donor4_CNhs12592_11567-120E1_reverse Regulation 
MastCellDonor4_CNhs12592_ctss_fwd MastCellD4+ Mast cell, donor4_CNhs12592_11567-120E1_forward Regulation 
MastCellDonor3_CNhs12593_ctss_rev MastCellD3- Mast cell, donor3_CNhs12593_11566-120D9_reverse Regulation 
MastCellDonor3_CNhs12593_ctss_fwd MastCellD3+ Mast cell, donor3_CNhs12593_11566-120D9_forward Regulation 
MastCellDonor2_CNhs12594_ctss_rev MastCellD2- Mast cell, donor2_CNhs12594_11565-120D8_reverse Regulation 
MastCellDonor2_CNhs12594_ctss_fwd MastCellD2+ Mast cell, donor2_CNhs12594_11565-120D8_forward Regulation 
MastCellDonor1_CNhs12566_ctss_rev MastCellD1- Mast cell, donor1_CNhs12566_11563-120D6_reverse Regulation 
MastCellDonor1_CNhs12566_ctss_fwd MastCellD1+ Mast cell, donor1_CNhs12566_11563-120D6_forward Regulation 
MammaryEpithelialCellDonor3_CNhs12032_ctss_rev MammaryEpithelialCellD3- Mammary Epithelial Cell, donor3_CNhs12032_11422-118F9_reverse Regulation 
MammaryEpithelialCellDonor3_CNhs12032_ctss_fwd MammaryEpithelialCellD3+ Mammary Epithelial Cell, donor3_CNhs12032_11422-118F9_forward Regulation 
MammaryEpithelialCellDonor2_CNhs11382_ctss_rev MammaryEpithelialCellD2- Mammary Epithelial Cell, donor2_CNhs11382_11350-117G9_reverse Regulation 
MammaryEpithelialCellDonor2_CNhs11382_ctss_fwd MammaryEpithelialCellD2+ Mammary Epithelial Cell, donor2_CNhs11382_11350-117G9_forward Regulation 
MammaryEpithelialCellDonor1_CNhs11077_ctss_rev MammaryEpithelialCellD1- Mammary Epithelial Cell, donor1_CNhs11077_11273-116H4_reverse Regulation 
MammaryEpithelialCellDonor1_CNhs11077_ctss_fwd MammaryEpithelialCellD1+ Mammary Epithelial Cell, donor1_CNhs11077_11273-116H4_forward Regulation 
MallassezderivedCellsDonor3_CNhs13551_ctss_rev MallassezCellsD3- Mallassez-derived cells, donor3_CNhs13551_11930-125I4_reverse Regulation 
MallassezderivedCellsDonor3_CNhs13551_ctss_fwd MallassezCellsD3+ Mallassez-derived cells, donor3_CNhs13551_11930-125I4_forward Regulation 
MallassezderivedCellsDonor2_CNhs13550_ctss_rev MallassezCellsD2- Mallassez-derived cells, donor2_CNhs13550_11929-125I3_reverse Regulation 
MallassezderivedCellsDonor2_CNhs13550_ctss_fwd MallassezCellsD2+ Mallassez-derived cells, donor2_CNhs13550_11929-125I3_forward Regulation 
MacrophageMonocyteDerivedDonor3_CNhs12003_ctss_rev MacrophageMonocyteD3- Macrophage - monocyte derived, donor3_CNhs12003_11389-118C3_reverse Regulation 
MacrophageMonocyteDerivedDonor3_CNhs12003_ctss_fwd MacrophageMonocyteD3+ Macrophage - monocyte derived, donor3_CNhs12003_11389-118C3_forward Regulation 
MacrophageMonocyteDerivedDonor2_CNhs11899_ctss_rev MacrophageMonocyteD2- Macrophage - monocyte derived, donor2_CNhs11899_11313-117C8_reverse Regulation 
MacrophageMonocyteDerivedDonor2_CNhs11899_ctss_fwd MacrophageMonocyteD2+ Macrophage - monocyte derived, donor2_CNhs11899_11313-117C8_forward Regulation 
MacrophageMonocyteDerivedDonor1_CNhs10861_ctss_rev MacrophageMonocyteD1- Macrophage - monocyte derived, donor1_CNhs10861_11232-116C8_reverse Regulation 
MacrophageMonocyteDerivedDonor1_CNhs10861_ctss_fwd MacrophageMonocyteD1+ Macrophage - monocyte derived, donor1_CNhs10861_11232-116C8_forward Regulation 
LensEpithelialCellsDonor3_CNhs12572_ctss_rev LensEpithelialCellsD3- Lens Epithelial Cells, donor3_CNhs12572_11690-122I7_reverse Regulation 
LensEpithelialCellsDonor3_CNhs12572_ctss_fwd LensEpithelialCellsD3+ Lens Epithelial Cells, donor3_CNhs12572_11690-122I7_forward Regulation 
LensEpithelialCellsDonor2_CNhs12568_ctss_rev LensEpithelialCellsD2- Lens Epithelial Cells, donor2_CNhs12568_11609-120I7_reverse Regulation 
LensEpithelialCellsDonor2_CNhs12568_ctss_fwd LensEpithelialCellsD2+ Lens Epithelial Cells, donor2_CNhs12568_11609-120I7_forward Regulation 
LensEpithelialCellsDonor1_CNhs12342_ctss_rev LensEpithelialCellsD1- Lens Epithelial Cells, donor1_CNhs12342_11529-119I8_reverse Regulation 
LensEpithelialCellsDonor1_CNhs12342_ctss_fwd LensEpithelialCellsD1+ Lens Epithelial Cells, donor1_CNhs12342_11529-119I8_forward Regulation 
KeratocytesDonor3_CNhs12921_ctss_rev KeratocytesD3- Keratocytes, donor3_CNhs12921_11688-122I5_reverse Regulation 
KeratocytesDonor3_CNhs12921_ctss_fwd KeratocytesD3+ Keratocytes, donor3_CNhs12921_11688-122I5_forward Regulation 
KeratocytesDonor2_CNhs12095_ctss_rev KeratocytesD2- Keratocytes, donor2_CNhs12095_11607-120I5_reverse Regulation 
KeratocytesDonor2_CNhs12095_ctss_fwd KeratocytesD2+ Keratocytes, donor2_CNhs12095_11607-120I5_forward Regulation 
KeratocytesDonor1_CNhs11337_ctss_rev KeratocytesD1- Keratocytes, donor1_CNhs11337_11527-119I6_reverse Regulation 
KeratocytesDonor1_CNhs11337_ctss_fwd KeratocytesD1+ Keratocytes, donor1_CNhs11337_11527-119I6_forward Regulation 
KeratinocyteOralDonor1_CNhs10879_ctss_rev KeratinocyteOralD1- Keratinocyte - oral, donor1_CNhs10879_11251-116E9_reverse Regulation 
KeratinocyteOralDonor1_CNhs10879_ctss_fwd KeratinocyteOralD1+ Keratinocyte - oral, donor1_CNhs10879_11251-116E9_forward Regulation 
KeratinocyteEpidermalDonor3_CNhs12031_ctss_rev KeratinocyteEpidermalD3- Keratinocyte - epidermal, donor3_CNhs12031_11421-118F8_reverse Regulation 
KeratinocyteEpidermalDonor3_CNhs12031_ctss_fwd KeratinocyteEpidermalD3+ Keratinocyte - epidermal, donor3_CNhs12031_11421-118F8_forward Regulation 
KeratinocyteEpidermalDonor2_CNhs11381_ctss_rev KeratinocyteEpidermalD2- Keratinocyte - epidermal, donor2_CNhs11381_11349-117G8_reverse Regulation 
KeratinocyteEpidermalDonor2_CNhs11381_ctss_fwd KeratinocyteEpidermalD2+ Keratinocyte - epidermal, donor2_CNhs11381_11349-117G8_forward Regulation 
KeratinocyteEpidermalDonor1_CNhs11064_ctss_rev KeratinocyteEpidermalD1- Keratinocyte - epidermal, donor1_CNhs11064_11272-116H3_reverse Regulation 
KeratinocyteEpidermalDonor1_CNhs11064_ctss_fwd KeratinocyteEpidermalD1+ Keratinocyte - epidermal, donor1_CNhs11064_11272-116H3_forward Regulation 
IrisPigmentEpithelialCellsDonor1_CNhs12596_ctss_rev IrisPigmentEpithelialCellsD1- Iris Pigment Epithelial Cells, donor1_CNhs12596_11530-119I9_reverse Regulation 
IrisPigmentEpithelialCellsDonor1_CNhs12596_ctss_fwd IrisPigmentEpithelialCellsD1+ Iris Pigment Epithelial Cells, donor1_CNhs12596_11530-119I9_forward Regulation 
IntestinalEpithelialCellsPolarizedDonor1_CNhs10875_ctss_rev IntestinalEpithelialCellsD1- Intestinal epithelial cells (polarized), donor1_CNhs10875_11246-116E4_reverse Regulation 
IntestinalEpithelialCellsPolarizedDonor1_CNhs10875_ctss_fwd IntestinalEpithelialCellsD1+ Intestinal epithelial cells (polarized), donor1_CNhs10875_11246-116E4_forward Regulation 
ImmatureLangerhansCellsDonor2_CNhs13480_ctss_rev ImmatureLangerhansCellsD2- immature langerhans cells, donor2_CNhs13480_11905-125F6_reverse Regulation 
ImmatureLangerhansCellsDonor2_CNhs13480_ctss_fwd ImmatureLangerhansCellsD2+ immature langerhans cells, donor2_CNhs13480_11905-125F6_forward Regulation 
ImmatureLangerhansCellsDonor1_CNhs13537_ctss_rev ImmatureLangerhansCellsD1- immature langerhans cells, donor1_CNhs13537_11904-125F5_reverse Regulation 
ImmatureLangerhansCellsDonor1_CNhs13537_ctss_fwd ImmatureLangerhansCellsD1+ immature langerhans cells, donor1_CNhs13537_11904-125F5_forward Regulation 
HepatocyteDonor3_CNhs12626_ctss_rev HepatocyteD3- Hepatocyte, donor3_CNhs12626_11684-122I1_reverse Regulation 
HepatocyteDonor3_CNhs12626_ctss_fwd HepatocyteD3+ Hepatocyte, donor3_CNhs12626_11684-122I1_forward Regulation 
HepatocyteDonor2_CNhs12349_ctss_rev HepatocyteD2- Hepatocyte, donor2_CNhs12349_11603-120I1_reverse Regulation 
HepatocyteDonor2_CNhs12349_ctss_fwd HepatocyteD2+ Hepatocyte, donor2_CNhs12349_11603-120I1_forward Regulation 
HepatocyteDonor1_CNhs12340_ctss_rev HepatocyteD1- Hepatocyte, donor1_CNhs12340_11523-119I2_reverse Regulation 
HepatocyteDonor1_CNhs12340_ctss_fwd HepatocyteD1+ Hepatocyte, donor1_CNhs12340_11523-119I2_forward Regulation 
HepaticStellateCellsLipocyteDonor3_CNhs12627_ctss_rev HepaticStellateCellsD3- Hepatic Stellate Cells (lipocyte), donor3_CNhs12627_11685-122I2_reverse Regulation 
HepaticStellateCellsLipocyteDonor3_CNhs12627_ctss_fwd HepaticStellateCellsD3+ Hepatic Stellate Cells (lipocyte), donor3_CNhs12627_11685-122I2_forward Regulation 
HepaticStellateCellsLipocyteDonor2_CNhs12093_ctss_rev HepaticStellateCellsD2- Hepatic Stellate Cells (lipocyte), donor2_CNhs12093_11604-120I2_reverse Regulation 
HepaticStellateCellsLipocyteDonor2_CNhs12093_ctss_fwd HepaticStellateCellsD2+ Hepatic Stellate Cells (lipocyte), donor2_CNhs12093_11604-120I2_forward Regulation 
HepaticStellateCellsLipocyteDonor1_CNhs11335_ctss_rev HepaticStellateCellsD1- Hepatic Stellate Cells (lipocyte), donor1_CNhs11335_11524-119I3_reverse Regulation 
HepaticStellateCellsLipocyteDonor1_CNhs11335_ctss_fwd HepaticStellateCellsD1+ Hepatic Stellate Cells (lipocyte), donor1_CNhs11335_11524-119I3_forward Regulation 
HepaticSinusoidalEndothelialCellsDonor3_CNhs12625_ctss_rev HepaticSinusoidalEndothelialCellsD3- Hepatic Sinusoidal Endothelial Cells, donor3_CNhs12625_11682-122H8_reverse Regulation 
HepaticSinusoidalEndothelialCellsDonor3_CNhs12625_ctss_fwd HepaticSinusoidalEndothelialCellsD3+ Hepatic Sinusoidal Endothelial Cells, donor3_CNhs12625_11682-122H8_forward Regulation 
HepaticSinusoidalEndothelialCellsDonor2_CNhs12092_ctss_rev HepaticSinusoidalEndothelialCellsD2- Hepatic Sinusoidal Endothelial Cells, donor2_CNhs12092_11601-120H8_reverse Regulation 
HepaticSinusoidalEndothelialCellsDonor2_CNhs12092_ctss_fwd HepaticSinusoidalEndothelialCellsD2+ Hepatic Sinusoidal Endothelial Cells, donor2_CNhs12092_11601-120H8_forward Regulation 
HepaticSinusoidalEndothelialCellsDonor1_CNhs12075_ctss_rev HepaticSinusoidalEndothelialCellsD1- Hepatic Sinusoidal Endothelial Cells, donor1_CNhs12075_11521-119H9_reverse Regulation 
HepaticSinusoidalEndothelialCellsDonor1_CNhs12075_ctss_fwd HepaticSinusoidalEndothelialCellsD1+ Hepatic Sinusoidal Endothelial Cells, donor1_CNhs12075_11521-119H9_forward Regulation 
HairFollicleOuterRootSheathCellsDonor2_CNhs12347_ctss_rev HairFollicleOuterRootSheathCellsD2- Hair Follicle Outer Root Sheath Cells, donor2_CNhs12347_11584-120F9_reverse Regulation 
HairFollicleOuterRootSheathCellsDonor2_CNhs12347_ctss_fwd HairFollicleOuterRootSheathCellsD2+ Hair Follicle Outer Root Sheath Cells, donor2_CNhs12347_11584-120F9_forward Regulation 
HairFollicleOuterRootSheathCellsDonor1_CNhs12339_ctss_rev HairFollicleOuterRootSheathCellsD1- Hair Follicle Outer Root Sheath Cells, donor1_CNhs12339_11504-119G1_reverse Regulation 
HairFollicleOuterRootSheathCellsDonor1_CNhs12339_ctss_fwd HairFollicleOuterRootSheathCellsD1+ Hair Follicle Outer Root Sheath Cells, donor1_CNhs12339_11504-119G1_forward Regulation 
HairFollicleDermalPapillaCellsDonor3_CNhs12030_ctss_rev HairFollicleDermalPapillaCellsD3- Hair Follicle Dermal Papilla Cells, donor3_CNhs12030_11420-118F7_reverse Regulation 
HairFollicleDermalPapillaCellsDonor3_CNhs12030_ctss_fwd HairFollicleDermalPapillaCellsD3+ Hair Follicle Dermal Papilla Cells, donor3_CNhs12030_11420-118F7_forward Regulation 
HairFollicleDermalPapillaCellsDonor2_CNhs11979_ctss_rev HairFollicleDermalPapillaCellsD2- Hair Follicle Dermal Papilla Cells, donor2_CNhs11979_11348-117G7_reverse Regulation 
HairFollicleDermalPapillaCellsDonor2_CNhs11979_ctss_fwd HairFollicleDermalPapillaCellsD2+ Hair Follicle Dermal Papilla Cells, donor2_CNhs11979_11348-117G7_forward Regulation 
HairFollicleDermalPapillaCellsDonor1_CNhs12501_ctss_rev HairFollicleDermalPapillaCellsD1- Hair Follicle Dermal Papilla Cells, donor1_CNhs12501_11271-116H2_reverse Regulation 
HairFollicleDermalPapillaCellsDonor1_CNhs12501_ctss_fwd HairFollicleDermalPapillaCellsD1+ Hair Follicle Dermal Papilla Cells, donor1_CNhs12501_11271-116H2_forward Regulation 
GingivalEpithelialCellsDonor3GEA15_CNhs11903_ctss_rev GingivalEpithelialCellsD3- Gingival epithelial cells, donor3 (GEA15)_CNhs11903_11379-118B2_reverse Regulation 
GingivalEpithelialCellsDonor3GEA15_CNhs11903_ctss_fwd GingivalEpithelialCellsD3+ Gingival epithelial cells, donor3 (GEA15)_CNhs11903_11379-118B2_forward Regulation 
GingivalEpithelialCellsDonor2GEA14_CNhs11896_ctss_rev GingivalEpithelialCellsD2- Gingival epithelial cells, donor2 (GEA14)_CNhs11896_11302-117B6_reverse Regulation 
GingivalEpithelialCellsDonor2GEA14_CNhs11896_ctss_fwd GingivalEpithelialCellsD2+ Gingival epithelial cells, donor2 (GEA14)_CNhs11896_11302-117B6_forward Regulation 
GingivalEpithelialCellsDonor1GEA11_CNhs11061_ctss_rev GingivalEpithelialCellsD1- Gingival epithelial cells, donor1 (GEA11)_CNhs11061_11221-116B6_reverse Regulation 
GingivalEpithelialCellsDonor1GEA11_CNhs11061_ctss_fwd GingivalEpithelialCellsD1+ Gingival epithelial cells, donor1 (GEA11)_CNhs11061_11221-116B6_forward Regulation 
GammaDeltaPositiveTCellsDonor2_CNhs13915_ctss_rev GammaDeltaTcellsD2- gamma delta positive T cells, donor2_CNhs13915_11938-126A3_reverse Regulation 
GammaDeltaPositiveTCellsDonor2_CNhs13915_ctss_fwd GammaDeltaTcellsD2+ gamma delta positive T cells, donor2_CNhs13915_11938-126A3_forward Regulation 
GammaDeltaPositiveTCellsDonor1_CNhs13914_ctss_rev GammaDeltaTcellsD1- gamma delta positive T cells, donor1_CNhs13914_11937-126A2_reverse Regulation 
GammaDeltaPositiveTCellsDonor1_CNhs13914_ctss_fwd GammaDeltaTcellsD1+ gamma delta positive T cells, donor1_CNhs13914_11937-126A2_forward Regulation 
FibroblastVillousMesenchymalDonor3_CNhs12920_ctss_rev FibroVillousMesenchymalD3- Fibroblast - Villous Mesenchymal, donor3_CNhs12920_11696-123A4_reverse Regulation 
FibroblastVillousMesenchymalDonor3_CNhs12920_ctss_fwd FibroVillousMesenchymalD3+ Fibroblast - Villous Mesenchymal, donor3_CNhs12920_11696-123A4_forward Regulation 
FibroblastVillousMesenchymalDonor2_CNhs12099_ctss_rev FibroVillousMesenchymalD2- Fibroblast - Villous Mesenchymal, donor2_CNhs12099_11615-122A4_reverse Regulation 
FibroblastVillousMesenchymalDonor2_CNhs12099_ctss_fwd FibroVillousMesenchymalD2+ Fibroblast - Villous Mesenchymal, donor2_CNhs12099_11615-122A4_forward Regulation 
FibroblastVillousMesenchymalDonor1_CNhs11343_ctss_rev FibroVillousMesenchymalD1- Fibroblast - Villous Mesenchymal, donor1_CNhs11343_11535-120A5_reverse Regulation 
FibroblastVillousMesenchymalDonor1_CNhs11343_ctss_fwd FibroVillousMesenchymalD1+ Fibroblast - Villous Mesenchymal, donor1_CNhs11343_11535-120A5_forward Regulation 
FibroblastSkinWalkerWarburgDonor1_CNhs11352_ctss_rev FibroSkinWalkerWarburgD1- Fibroblast - skin walker warburg, donor1_CNhs11352_11554-120C6_reverse Regulation 
FibroblastSkinWalkerWarburgDonor1_CNhs11352_ctss_fwd FibroSkinWalkerWarburgD1+ Fibroblast - skin walker warburg, donor1_CNhs11352_11554-120C6_forward Regulation 
FibroblastSkinSpinalMuscularAtrophyDonor3_CNhs11912_ctss_rev FibroSkinSpinalMuscularAtrophyNucfracD3- Fibroblast - skin spinal muscular atrophy, donor3_CNhs11912_11559-120D2_reverse Regulation 
FibroblastSkinSpinalMuscularAtrophyDonor3_CNhs11912_ctss_fwd FibroSkinSpinalMuscularAtrophyNucfracD3+ Fibroblast - skin spinal muscular atrophy, donor3_CNhs11912_11559-120D2_forward Regulation 
FibroblastSkinSpinalMuscularAtrophyDonor2_CNhs11911_ctss_rev FibroSkinSpinalMuscularAtrophyNucfracD2- Fibroblast - skin spinal muscular atrophy, donor2_CNhs11911_11558-120D1_reverse Regulation 
FibroblastSkinSpinalMuscularAtrophyDonor2_CNhs11911_ctss_fwd FibroSkinSpinalMuscularAtrophyNucfracD2+ Fibroblast - skin spinal muscular atrophy, donor2_CNhs11911_11558-120D1_forward Regulation 
FibroblastSkinSpinalMuscularAtrophyDonor1_CNhs11074_ctss_rev FibroSkinSpinalMuscularAtrophyNucfracD1- Fibroblast - skin spinal muscular atrophy, donor1_CNhs11074_11555-120C7_reverse Regulation 
FibroblastSkinSpinalMuscularAtrophyDonor1_CNhs11074_ctss_fwd FibroSkinSpinalMuscularAtrophyNucfracD1+ Fibroblast - skin spinal muscular atrophy, donor1_CNhs11074_11555-120C7_forward Regulation 
FibroblastSkinNormalDonor2_CNhs11914_ctss_rev FibroSkinNormalNucfracD2- Fibroblast - skin normal, donor2_CNhs11914_11561-120D4_reverse Regulation 
FibroblastSkinNormalDonor2_CNhs11914_ctss_fwd FibroSkinNormalNucfracD2+ Fibroblast - skin normal, donor2_CNhs11914_11561-120D4_forward Regulation 
FibroblastSkinNormalDonor1_CNhs11351_ctss_rev FibroSkinNormalNucfracD1- Fibroblast - skin normal, donor1_CNhs11351_11553-120C5_reverse Regulation 
FibroblastSkinNormalDonor1_CNhs11351_ctss_fwd FibroSkinNormalNucfracD1+ Fibroblast - skin normal, donor1_CNhs11351_11553-120C5_forward Regulation 
FibroblastSkinDystrophiaMyotonicaDonor3_CNhs11913_ctss_rev FibroSkinDystrophiaMyotonicaNucfracD3- Fibroblast - skin dystrophia myotonica, donor3_CNhs11913_11560-120D3_reverse Regulation 
FibroblastSkinDystrophiaMyotonicaDonor3_CNhs11913_ctss_fwd FibroSkinDystrophiaMyotonicaNucfracD3+ Fibroblast - skin dystrophia myotonica, donor3_CNhs11913_11560-120D3_forward Regulation 
FibroblastSkinDystrophiaMyotonicaDonor2_CNhs11354_ctss_rev FibroSkinDystrophiaMyotonicaNucfracD2- Fibroblast - skin dystrophia myotonica, donor2_CNhs11354_11557-120C9_reverse Regulation 
FibroblastSkinDystrophiaMyotonicaDonor2_CNhs11354_ctss_fwd FibroSkinDystrophiaMyotonicaNucfracD2+ Fibroblast - skin dystrophia myotonica, donor2_CNhs11354_11557-120C9_forward Regulation 
FibroblastSkinDystrophiaMyotonicaDonor1_CNhs11353_ctss_rev FibroSkinDystrophiaMyotonicaNucfracD1- Fibroblast - skin dystrophia myotonica, donor1_CNhs11353_11556-120C8_reverse Regulation 
FibroblastSkinDystrophiaMyotonicaDonor1_CNhs11353_ctss_fwd FibroSkinDystrophiaMyotonicaNucfracD1+ Fibroblast - skin dystrophia myotonica, donor1_CNhs11353_11556-120C8_forward Regulation 
FibroblastPulmonaryArteryDonor1_CNhs10878_ctss_rev FibroPulmonaryArteryD1- Fibroblast - Pulmonary Artery, donor1_CNhs10878_11250-116E8_reverse Regulation 
FibroblastPulmonaryArteryDonor1_CNhs10878_ctss_fwd FibroPulmonaryArteryD1+ Fibroblast - Pulmonary Artery, donor1_CNhs10878_11250-116E8_forward Regulation 
FibroblastPeriodontalLigamentDonor6PLH3_CNhs11996_ctss_rev FibroPeriodontalLigamentD6- Fibroblast - Periodontal Ligament, donor6 (PLH3)_CNhs11996_11380-118B3_reverse Regulation 
FibroblastPeriodontalLigamentDonor6PLH3_CNhs11996_ctss_fwd FibroPeriodontalLigamentD6+ Fibroblast - Periodontal Ligament, donor6 (PLH3)_CNhs11996_11380-118B3_forward Regulation 
FibroblastPeriodontalLigamentDonor5PL30_CNhs11953_ctss_rev FibroPeriodontalLigamentD5- Fibroblast - Periodontal Ligament, donor5 (PL30)_CNhs11953_11304-117B8_reverse Regulation 
FibroblastPeriodontalLigamentDonor5PL30_CNhs11953_ctss_fwd FibroPeriodontalLigamentD5+ Fibroblast - Periodontal Ligament, donor5 (PL30)_CNhs11953_11304-117B8_forward Regulation 
FibroblastPeriodontalLigamentDonor4PL29_CNhs12493_ctss_rev FibroPeriodontalLigamentD4- Fibroblast - Periodontal Ligament, donor4 (PL29)_CNhs12493_11223-116B8_reverse Regulation 
FibroblastPeriodontalLigamentDonor4PL29_CNhs12493_ctss_fwd FibroPeriodontalLigamentD4+ Fibroblast - Periodontal Ligament, donor4 (PL29)_CNhs12493_11223-116B8_forward Regulation 
FibroblastPeriodontalLigamentDonor3_CNhs11907_ctss_rev FibroPeriodontalLigamentD3- Fibroblast - Periodontal Ligament, donor3_CNhs11907_11395-118C9_reverse Regulation 
FibroblastPeriodontalLigamentDonor3_CNhs11907_ctss_fwd FibroPeriodontalLigamentD3+ Fibroblast - Periodontal Ligament, donor3_CNhs11907_11395-118C9_forward Regulation 
FibroblastPeriodontalLigamentDonor2_CNhs11962_ctss_rev FibroPeriodontalLigamentD2- Fibroblast - Periodontal Ligament, donor2_CNhs11962_11319-117D5_reverse Regulation 
FibroblastPeriodontalLigamentDonor2_CNhs11962_ctss_fwd FibroPeriodontalLigamentD2+ Fibroblast - Periodontal Ligament, donor2_CNhs11962_11319-117D5_forward Regulation 
FibroblastPeriodontalLigamentDonor1_CNhs10867_ctss_rev FibroPeriodontalLigamentD1- Fibroblast - Periodontal Ligament, donor1_CNhs10867_11238-116D5_reverse Regulation 
FibroblastPeriodontalLigamentDonor1_CNhs10867_ctss_fwd FibroPeriodontalLigamentD1+ Fibroblast - Periodontal Ligament, donor1_CNhs10867_11238-116D5_forward Regulation 
FibroblastMammaryDonor3_CNhs12128_ctss_rev FibroMammaryD3- Fibroblast - Mammary, donor3_CNhs12128_11701-123A9_reverse Regulation 
FibroblastMammaryDonor3_CNhs12128_ctss_fwd FibroMammaryD3+ Fibroblast - Mammary, donor3_CNhs12128_11701-123A9_forward Regulation 
FibroblastMammaryDonor2_CNhs12103_ctss_rev FibroMammaryD2- Fibroblast - Mammary, donor2_CNhs12103_11620-122A9_reverse Regulation 
FibroblastMammaryDonor2_CNhs12103_ctss_fwd FibroMammaryD2+ Fibroblast - Mammary, donor2_CNhs12103_11620-122A9_forward Regulation 
FibroblastMammaryDonor1_CNhs11348_ctss_rev FibroMammaryD1- Fibroblast - Mammary, donor1_CNhs11348_11540-120B1_reverse Regulation 
FibroblastMammaryDonor1_CNhs11348_ctss_fwd FibroMammaryD1+ Fibroblast - Mammary, donor1_CNhs11348_11540-120B1_forward Regulation 
FibroblastLymphaticDonor3_CNhs12118_ctss_rev FibroLymphaticD3- Fibroblast - Lymphatic, donor3_CNhs12118_11667-122G2_reverse Regulation 
FibroblastLymphaticDonor3_CNhs12118_ctss_fwd FibroLymphaticD3+ Fibroblast - Lymphatic, donor3_CNhs12118_11667-122G2_forward Regulation 
FibroblastLymphaticDonor2_CNhs12082_ctss_rev FibroLymphaticD2- Fibroblast - Lymphatic, donor2_CNhs12082_11586-120G2_reverse Regulation 
FibroblastLymphaticDonor2_CNhs12082_ctss_fwd FibroLymphaticD2+ Fibroblast - Lymphatic, donor2_CNhs12082_11586-120G2_forward Regulation 
FibroblastLymphaticDonor1_CNhs11322_ctss_rev FibroLymphaticD1- Fibroblast - Lymphatic, donor1_CNhs11322_11506-119G3_reverse Regulation 
FibroblastLymphaticDonor1_CNhs11322_ctss_fwd FibroLymphaticD1+ Fibroblast - Lymphatic, donor1_CNhs11322_11506-119G3_forward Regulation 
FibroblastLungDonor3_CNhs12029_ctss_rev FibroLungD3- Fibroblast - Lung, donor3_CNhs12029_11419-118F6_reverse Regulation 
FibroblastLungDonor3_CNhs12029_ctss_fwd FibroLungD3+ Fibroblast - Lung, donor3_CNhs12029_11419-118F6_forward Regulation 
FibroblastLungDonor2_CNhs11380_ctss_rev FibroLungD2- Fibroblast - Lung, donor2_CNhs11380_11347-117G6_reverse Regulation 
FibroblastLungDonor2_CNhs11380_ctss_fwd FibroLungD2+ Fibroblast - Lung, donor2_CNhs11380_11347-117G6_forward Regulation 
FibroblastLungDonor1_CNhs12500_ctss_rev FibroLungD1- Fibroblast - Lung, donor1_CNhs12500_11270-116H1_reverse Regulation 
FibroblastLungDonor1_CNhs12500_ctss_fwd FibroLungD1+ Fibroblast - Lung, donor1_CNhs12500_11270-116H1_forward Regulation 
FibroblastGingivalDonor9Control_CNhs14134_ctss_rev FibroGingivalD9- Fibroblast - Gingival, donor9 (control)_CNhs14134_11927-125I1_reverse Regulation 
FibroblastGingivalDonor9Control_CNhs14134_ctss_fwd FibroGingivalD9+ Fibroblast - Gingival, donor9 (control)_CNhs14134_11927-125I1_forward Regulation 
FibroblastGingivalDonor8ChronicPeriodontitis_CNhs14132_ctss_rev FibroGingivalD8- Fibroblast - Gingival, donor8 (chronic periodontitis)_CNhs14132_11925-125H8_reverse Regulation 
FibroblastGingivalDonor8Control_CNhs14133_ctss_rev FibroGingivalD8- Fibroblast - Gingival, donor8 (control)_CNhs14133_11926-125H9_reverse Regulation 
FibroblastGingivalDonor8ChronicPeriodontitis_CNhs14132_ctss_fwd FibroGingivalD8+ Fibroblast - Gingival, donor8 (chronic periodontitis)_CNhs14132_11925-125H8_forward Regulation 
FibroblastGingivalDonor8Control_CNhs14133_ctss_fwd FibroGingivalD8+ Fibroblast - Gingival, donor8 (control)_CNhs14133_11926-125H9_forward Regulation 
FibroblastGingivalDonor7Control_CNhs14131_ctss_rev FibroGingivalD7- Fibroblast - Gingival, donor7 (control)_CNhs14131_11924-125H7_reverse Regulation 
FibroblastGingivalDonor7AggressivePeriodontitis_CNhs14130_ctss_rev FibroGingivalD7- Fibroblast - Gingival, donor7 (aggressive periodontitis)_CNhs14130_11923-125H6_reverse Regulation 
FibroblastGingivalDonor7Control_CNhs14131_ctss_fwd FibroGingivalD7+ Fibroblast - Gingival, donor7 (control)_CNhs14131_11924-125H7_forward Regulation 
FibroblastGingivalDonor7AggressivePeriodontitis_CNhs14130_ctss_fwd FibroGingivalD7+ Fibroblast - Gingival, donor7 (aggressive periodontitis)_CNhs14130_11923-125H6_forward Regulation 
FibroblastGingivalDonor6Control_CNhs14129_ctss_rev FibroGingivalD6- Fibroblast - Gingival, donor6 (control)_CNhs14129_11922-125H5_reverse Regulation 
FibroblastGingivalDonor6AggressivePeriodontitis_CNhs14128_ctss_rev FibroGingivalD6- Fibroblast - Gingival, donor6 (aggressive periodontitis)_CNhs14128_11921-125H4_reverse Regulation 
FibroblastGingivalDonor6Control_CNhs14129_ctss_fwd FibroGingivalD6+ Fibroblast - Gingival, donor6 (control)_CNhs14129_11922-125H5_forward Regulation 
FibroblastGingivalDonor6AggressivePeriodontitis_CNhs14128_ctss_fwd FibroGingivalD6+ Fibroblast - Gingival, donor6 (aggressive periodontitis)_CNhs14128_11921-125H4_forward Regulation 
FibroblastGingivalDonor5GFH3_CNhs11952_ctss_rev FibroGingivalD5- Fibroblast - Gingival, donor5 (GFH3)_CNhs11952_11303-117B7_reverse Regulation 
FibroblastGingivalDonor5GFH3_CNhs11952_ctss_fwd FibroGingivalD5+ Fibroblast - Gingival, donor5 (GFH3)_CNhs11952_11303-117B7_forward Regulation 
FibroblastGingivalDonor4GFH2_CNhs10848_ctss_rev FibroGingivalD4- Fibroblast - Gingival, donor4 (GFH2)_CNhs10848_11222-116B7_reverse Regulation 
FibroblastGingivalDonor4GFH2_CNhs10848_ctss_fwd FibroGingivalD4+ Fibroblast - Gingival, donor4 (GFH2)_CNhs10848_11222-116B7_forward Regulation 
FibroblastGingivalDonor3_CNhs12006_ctss_rev FibroGingivalD3- Fibroblast - Gingival, donor3_CNhs12006_11394-118C8_reverse Regulation 
FibroblastGingivalDonor3_CNhs12006_ctss_fwd FibroGingivalD3+ Fibroblast - Gingival, donor3_CNhs12006_11394-118C8_forward Regulation 
FibroblastGingivalDonor2_CNhs11961_ctss_rev FibroGingivalD2- Fibroblast - Gingival, donor2_CNhs11961_11318-117D4_reverse Regulation 
FibroblastGingivalDonor2_CNhs11961_ctss_fwd FibroGingivalD2+ Fibroblast - Gingival, donor2_CNhs11961_11318-117D4_forward Regulation 
FibroblastGingivalDonor10Periodontitis_CNhs14135_ctss_rev FibroGingivalD10 (p- Fibroblast - Gingival, donor10 (periodontitis)_CNhs14135_11928-125I2_reverse Regulation 
FibroblastGingivalDonor10Periodontitis_CNhs14135_ctss_fwd FibroGingivalD10 (p+ Fibroblast - Gingival, donor10 (periodontitis)_CNhs14135_11928-125I2_forward Regulation 
FibroblastGingivalDonor1_CNhs10866_ctss_rev FibroGingivalD1- Fibroblast - Gingival, donor1_CNhs10866_11237-116D4_reverse Regulation 
FibroblastGingivalDonor1_CNhs10866_ctss_fwd FibroGingivalD1+ Fibroblast - Gingival, donor1_CNhs10866_11237-116D4_forward Regulation 
FibroblastDermalDonor6_CNhs12059_ctss_rev FibroDermalD6- Fibroblast - Dermal, donor6_CNhs12059_11458-119A9_reverse Regulation 
FibroblastDermalDonor6_CNhs12059_ctss_fwd FibroDermalD6+ Fibroblast - Dermal, donor6_CNhs12059_11458-119A9_forward Regulation 
FibroblastDermalDonor5_CNhs12055_ctss_rev FibroDermalD5- Fibroblast - Dermal, donor5_CNhs12055_11454-119A5_reverse Regulation 
FibroblastDermalDonor5_CNhs12055_ctss_fwd FibroDermalD5+ Fibroblast - Dermal, donor5_CNhs12055_11454-119A5_forward Regulation 
FibroblastDermalDonor4_CNhs12052_ctss_rev FibroDermalD4- Fibroblast - Dermal, donor4_CNhs12052_11450-119A1_reverse Regulation 
FibroblastDermalDonor4_CNhs12052_ctss_fwd FibroDermalD4+ Fibroblast - Dermal, donor4_CNhs12052_11450-119A1_forward Regulation 
FibroblastDermalDonor3_CNhs12028_ctss_rev FibroDermalD3- Fibroblast - Dermal, donor3_CNhs12028_11418-118F5_reverse Regulation 
FibroblastDermalDonor3_CNhs12028_ctss_fwd FibroDermalD3+ Fibroblast - Dermal, donor3_CNhs12028_11418-118F5_forward Regulation 
FibroblastDermalDonor2_CNhs11379_ctss_rev FibroDermalD2- Fibroblast - Dermal, donor2_CNhs11379_11346-117G5_reverse Regulation 
FibroblastDermalDonor2_CNhs11379_ctss_fwd FibroDermalD2+ Fibroblast - Dermal, donor2_CNhs11379_11346-117G5_forward Regulation 
FibroblastDermalDonor1_CNhs12499_ctss_rev FibroDermalD1- Fibroblast - Dermal, donor1_CNhs12499_11269-116G9_reverse Regulation 
FibroblastDermalDonor1_CNhs12499_ctss_fwd FibroDermalD1+ Fibroblast - Dermal, donor1_CNhs12499_11269-116G9_forward Regulation 
FibroblastConjunctivalDonor3_CNhs12734_ctss_rev FibroConjunctivalD3- Fibroblast - Conjunctival, donor3_CNhs12734_11692-122I9_reverse Regulation 
FibroblastConjunctivalDonor3_CNhs12734_ctss_fwd FibroConjunctivalD3+ Fibroblast - Conjunctival, donor3_CNhs12734_11692-122I9_forward Regulation 
FibroblastConjunctivalDonor1_CNhs11339_ctss_rev FibroConjunctivalD1- Fibroblast - Conjunctival, donor1_CNhs11339_11531-120A1_reverse Regulation 
FibroblastConjunctivalDonor1_CNhs11339_ctss_fwd FibroConjunctivalD1+ Fibroblast - Conjunctival, donor1_CNhs11339_11531-120A1_forward Regulation 
FibroblastChoroidPlexusDonor3_CNhs12620_ctss_rev FibroChoroidPlexusD3- Fibroblast - Choroid Plexus, donor3_CNhs12620_11653-122E6_reverse Regulation 
FibroblastChoroidPlexusDonor3_CNhs12620_ctss_fwd FibroChoroidPlexusD3+ Fibroblast - Choroid Plexus, donor3_CNhs12620_11653-122E6_forward Regulation 
FibroblastChoroidPlexusDonor2_CNhs12344_ctss_rev FibroChoroidPlexusD2- Fibroblast - Choroid Plexus, donor2_CNhs12344_11572-120E6_reverse Regulation 
FibroblastChoroidPlexusDonor2_CNhs12344_ctss_fwd FibroChoroidPlexusD2+ Fibroblast - Choroid Plexus, donor2_CNhs12344_11572-120E6_forward Regulation 
FibroblastChoroidPlexusDonor1_CNhs11319_ctss_rev FibroChoroidPlexusD1- Fibroblast - Choroid Plexus, donor1_CNhs11319_11492-119E7_reverse Regulation 
FibroblastChoroidPlexusDonor1_CNhs11319_ctss_fwd FibroChoroidPlexusD1+ Fibroblast - Choroid Plexus, donor1_CNhs11319_11492-119E7_forward Regulation 
FibroblastCardiacDonor6_CNhs12061_ctss_rev FibroCardiacD6- Fibroblast - Cardiac, donor6_CNhs12061_11460-119B2_reverse Regulation 
FibroblastCardiacDonor6_CNhs12061_ctss_fwd FibroCardiacD6+ Fibroblast - Cardiac, donor6_CNhs12061_11460-119B2_forward Regulation 
FibroblastCardiacDonor5_CNhs12057_ctss_rev FibroCardiacD5- Fibroblast - Cardiac, donor5_CNhs12057_11456-119A7_reverse Regulation 
FibroblastCardiacDonor5_CNhs12057_ctss_fwd FibroCardiacD5+ Fibroblast - Cardiac, donor5_CNhs12057_11456-119A7_forward Regulation 
FibroblastCardiacDonor4_CNhs11909_ctss_rev FibroCardiacD4- Fibroblast - Cardiac, donor4_CNhs11909_11452-119A3_reverse Regulation 
FibroblastCardiacDonor4_CNhs11909_ctss_fwd FibroCardiacD4+ Fibroblast - Cardiac, donor4_CNhs11909_11452-119A3_forward Regulation 
FibroblastCardiacDonor3_CNhs12027_ctss_rev FibroCardiacD3- Fibroblast - Cardiac, donor3_CNhs12027_11417-118F4_reverse Regulation 
FibroblastCardiacDonor3_CNhs12027_ctss_fwd FibroCardiacD3+ Fibroblast - Cardiac, donor3_CNhs12027_11417-118F4_forward Regulation 
FibroblastCardiacDonor2_CNhs11378_ctss_rev FibroCardiacD2- Fibroblast - Cardiac, donor2_CNhs11378_11345-117G4_reverse Regulation 
FibroblastCardiacDonor2_CNhs11378_ctss_fwd FibroCardiacD2+ Fibroblast - Cardiac, donor2_CNhs11378_11345-117G4_forward Regulation 
FibroblastCardiacDonor1_CNhs12498_ctss_rev FibroCardiacD1- Fibroblast - Cardiac, donor1_CNhs12498_11268-116G8_reverse Regulation 
FibroblastCardiacDonor1_CNhs12498_ctss_fwd FibroCardiacD1+ Fibroblast - Cardiac, donor1_CNhs12498_11268-116G8_forward Regulation 
FibroblastAorticAdventitialDonor3_CNhs12011_ctss_rev FibroAorticAdventitialD3- Fibroblast - Aortic Adventitial, donor3_CNhs12011_11401-118D6_reverse Regulation 
FibroblastAorticAdventitialDonor3_CNhs12011_ctss_fwd FibroAorticAdventitialD3+ Fibroblast - Aortic Adventitial, donor3_CNhs12011_11401-118D6_forward Regulation 
FibroblastAorticAdventitialDonor2_CNhs11968_ctss_rev FibroAorticAdventitialD2- Fibroblast - Aortic Adventitial, donor2_CNhs11968_11326-117E3_reverse Regulation 
FibroblastAorticAdventitialDonor2_CNhs11968_ctss_fwd FibroAorticAdventitialD2+ Fibroblast - Aortic Adventitial, donor2_CNhs11968_11326-117E3_forward Regulation 
FibroblastAorticAdventitialDonor1_CNhs10874_ctss_rev FibroAorticAdventitialD1- Fibroblast - Aortic Adventitial, donor1_CNhs10874_11245-116E3_reverse Regulation 
FibroblastAorticAdventitialDonor1_CNhs10874_ctss_fwd FibroAorticAdventitialD1+ Fibroblast - Aortic Adventitial, donor1_CNhs10874_11245-116E3_forward Regulation 
EsophagealEpithelialCellsDonor3_CNhs12622_ctss_rev EsophagealEpithelialCellsD3- Esophageal Epithelial Cells, donor3_CNhs12622_11668-122G3_reverse Regulation 
EsophagealEpithelialCellsDonor3_CNhs12622_ctss_fwd EsophagealEpithelialCellsD3+ Esophageal Epithelial Cells, donor3_CNhs12622_11668-122G3_forward Regulation 
EsophagealEpithelialCellsDonor2_CNhs12083_ctss_rev EsophagealEpithelialCellsD2- Esophageal Epithelial Cells, donor2_CNhs12083_11587-120G3_reverse Regulation 
EsophagealEpithelialCellsDonor2_CNhs12083_ctss_fwd EsophagealEpithelialCellsD2+ Esophageal Epithelial Cells, donor2_CNhs12083_11587-120G3_forward Regulation 
EsophagealEpithelialCellsDonor1_CNhs11323_ctss_rev EsophagealEpithelialCellsD1- Esophageal Epithelial Cells, donor1_CNhs11323_11507-119G4_reverse Regulation 
EsophagealEpithelialCellsDonor1_CNhs11323_ctss_fwd EsophagealEpithelialCellsD1+ Esophageal Epithelial Cells, donor1_CNhs11323_11507-119G4_forward Regulation 
EndothelialCellsVeinDonor3_CNhs12026_ctss_rev EndothelialCellsVeinD3- Endothelial Cells - Vein, donor3_CNhs12026_11416-118F3_reverse Regulation 
EndothelialCellsVeinDonor3_CNhs12026_ctss_fwd EndothelialCellsVeinD3+ Endothelial Cells - Vein, donor3_CNhs12026_11416-118F3_forward Regulation 
EndothelialCellsVeinDonor2_CNhs11377_ctss_rev EndothelialCellsVeinD2- Endothelial Cells - Vein, donor2_CNhs11377_11344-117G3_reverse Regulation 
EndothelialCellsVeinDonor2_CNhs11377_ctss_fwd EndothelialCellsVeinD2+ Endothelial Cells - Vein, donor2_CNhs11377_11344-117G3_forward Regulation 
EndothelialCellsVeinDonor1_CNhs12497_ctss_rev EndothelialCellsVeinD1- Endothelial Cells - Vein, donor1_CNhs12497_11267-116G7_reverse Regulation 
EndothelialCellsVeinDonor1_CNhs12497_ctss_fwd EndothelialCellsVeinD1+ Endothelial Cells - Vein, donor1_CNhs12497_11267-116G7_forward Regulation 
EndothelialCellsUmbilicalVeinDonor3_CNhs12010_ctss_rev EndothelialCellsUmbilicalVeinD3- Endothelial Cells - Umbilical vein, donor3_CNhs12010_11400-118D5_reverse Regulation 
EndothelialCellsUmbilicalVeinDonor3_CNhs12010_ctss_fwd EndothelialCellsUmbilicalVeinD3+ Endothelial Cells - Umbilical vein, donor3_CNhs12010_11400-118D5_forward Regulation 
EndothelialCellsUmbilicalVeinDonor2_CNhs11967_ctss_rev EndothelialCellsUmbilicalVeinD2- Endothelial Cells - Umbilical vein, donor2_CNhs11967_11324-117E1_reverse Regulation 
EndothelialCellsUmbilicalVeinDonor2_CNhs11967_ctss_fwd EndothelialCellsUmbilicalVeinD2+ Endothelial Cells - Umbilical vein, donor2_CNhs11967_11324-117E1_forward Regulation 
EndothelialCellsUmbilicalVeinDonor1_CNhs10872_ctss_rev EndothelialCellsUmbilicalVeinD1- Endothelial Cells - Umbilical vein, donor1_CNhs10872_11243-116E1_reverse Regulation 
EndothelialCellsUmbilicalVeinDonor1_CNhs10872_ctss_fwd EndothelialCellsUmbilicalVeinD1+ Endothelial Cells - Umbilical vein, donor1_CNhs10872_11243-116E1_forward Regulation 
EndothelialCellsThoracicDonor2_CNhs11978_ctss_rev EndothelialCellsThoracicD2- Endothelial Cells - Thoracic, donor2_CNhs11978_11343-117G2_reverse Regulation 
EndothelialCellsThoracicDonor2_CNhs11978_ctss_fwd EndothelialCellsThoracicD2+ Endothelial Cells - Thoracic, donor2_CNhs11978_11343-117G2_forward Regulation 
EndothelialCellsThoracicDonor1_CNhs11926_ctss_rev EndothelialCellsThoracicD1- Endothelial Cells - Thoracic, donor1_CNhs11926_11266-116G6_reverse Regulation 
EndothelialCellsThoracicDonor1_CNhs11926_ctss_fwd EndothelialCellsThoracicD1+ Endothelial Cells - Thoracic, donor1_CNhs11926_11266-116G6_forward Regulation 
EndothelialCellsMicrovascularDonor3_CNhs12024_ctss_rev EndothelialCellsMicrovascularD3- Endothelial Cells - Microvascular, donor3_CNhs12024_11414-118F1_reverse Regulation 
EndothelialCellsMicrovascularDonor3_CNhs12024_ctss_fwd EndothelialCellsMicrovascularD3+ Endothelial Cells - Microvascular, donor3_CNhs12024_11414-118F1_forward Regulation 
EndothelialCellsMicrovascularDonor2_CNhs11376_ctss_rev EndothelialCellsMicrovascularD2- Endothelial Cells - Microvascular, donor2_CNhs11376_11342-117G1_reverse Regulation 
EndothelialCellsMicrovascularDonor2_CNhs11376_ctss_fwd EndothelialCellsMicrovascularD2+ Endothelial Cells - Microvascular, donor2_CNhs11376_11342-117G1_forward Regulation 
EndothelialCellsMicrovascularDonor1_CNhs11925_ctss_rev EndothelialCellsMicrovascularD1- Endothelial Cells - Microvascular, donor1_CNhs11925_11265-116G5_reverse Regulation 
EndothelialCellsMicrovascularDonor1_CNhs11925_ctss_fwd EndothelialCellsMicrovascularD1+ Endothelial Cells - Microvascular, donor1_CNhs11925_11265-116G5_forward Regulation 
EndothelialCellsLymphaticDonor3_CNhs11906_ctss_rev EndothelialCellsLymphaticD3- Endothelial Cells - Lymphatic, donor3_CNhs11906_11393-118C7_reverse Regulation 
EndothelialCellsLymphaticDonor3_CNhs11906_ctss_fwd EndothelialCellsLymphaticD3+ Endothelial Cells - Lymphatic, donor3_CNhs11906_11393-118C7_forward Regulation 
EndothelialCellsLymphaticDonor2_CNhs11901_ctss_rev EndothelialCellsLymphaticD2- Endothelial Cells - Lymphatic, donor2_CNhs11901_11317-117D3_reverse Regulation 
EndothelialCellsLymphaticDonor2_CNhs11901_ctss_fwd EndothelialCellsLymphaticD2+ Endothelial Cells - Lymphatic, donor2_CNhs11901_11317-117D3_forward Regulation 
EndothelialCellsLymphaticDonor1_CNhs10865_ctss_rev EndothelialCellsLymphaticD1- Endothelial Cells - Lymphatic, donor1_CNhs10865_11236-116D3_reverse Regulation 
EndothelialCellsLymphaticDonor1_CNhs10865_ctss_fwd EndothelialCellsLymphaticD1+ Endothelial Cells - Lymphatic, donor1_CNhs10865_11236-116D3_forward Regulation 
EndothelialCellsArteryDonor3_CNhs12023_ctss_rev EndothelialCellsArteryD3- Endothelial Cells - Artery, donor3_CNhs12023_11413-118E9_reverse Regulation 
EndothelialCellsArteryDonor3_CNhs12023_ctss_fwd EndothelialCellsArteryD3+ Endothelial Cells - Artery, donor3_CNhs12023_11413-118E9_forward Regulation 
EndothelialCellsArteryDonor2_CNhs11977_ctss_rev EndothelialCellsArteryD2- Endothelial Cells - Artery, donor2_CNhs11977_11341-117F9_reverse Regulation 
EndothelialCellsArteryDonor2_CNhs11977_ctss_fwd EndothelialCellsArteryD2+ Endothelial Cells - Artery, donor2_CNhs11977_11341-117F9_forward Regulation 
EndothelialCellsArteryDonor1_CNhs12496_ctss_rev EndothelialCellsArteryD1- Endothelial Cells - Artery, donor1_CNhs12496_11264-116G4_reverse Regulation 
EndothelialCellsArteryDonor1_CNhs12496_ctss_fwd EndothelialCellsArteryD1+ Endothelial Cells - Artery, donor1_CNhs12496_11264-116G4_forward Regulation 
EndothelialCellsAorticDonor3_CNhs12022_ctss_rev EndothelialCellsAorticD3- Endothelial Cells - Aortic, donor3_CNhs12022_11412-118E8_reverse Regulation 
EndothelialCellsAorticDonor3_CNhs12022_ctss_fwd EndothelialCellsAorticD3+ Endothelial Cells - Aortic, donor3_CNhs12022_11412-118E8_forward Regulation 
EndothelialCellsAorticDonor2_CNhs11375_ctss_rev EndothelialCellsAorticD2- Endothelial Cells - Aortic, donor2_CNhs11375_11340-117F8_reverse Regulation 
EndothelialCellsAorticDonor2_CNhs11375_ctss_fwd EndothelialCellsAorticD2+ Endothelial Cells - Aortic, donor2_CNhs11375_11340-117F8_forward Regulation 
EndothelialCellsAorticDonor1_CNhs12495_ctss_rev EndothelialCellsAorticD1- Endothelial Cells - Aortic, donor1_CNhs12495_11263-116G3_reverse Regulation 
EndothelialCellsAorticDonor1_CNhs12495_ctss_fwd EndothelialCellsAorticD1+ Endothelial Cells - Aortic, donor1_CNhs12495_11263-116G3_forward Regulation 
EndothelialCellsAorticDonor0_CNhs10837_ctss_rev EndothelialCellsAorticD0- Endothelial Cells - Aortic, donor0_CNhs10837_11207-116A1_reverse Regulation 
EndothelialCellsAorticDonor0_CNhs10837_ctss_fwd EndothelialCellsAorticD0+ Endothelial Cells - Aortic, donor0_CNhs10837_11207-116A1_forward Regulation 
DendriticCellsPlasmacytoidDonor1_CNhs10857_ctss_rev DendriticCellsPlasmacytoidD1- Dendritic Cells - plasmacytoid, donor1_CNhs10857_11228-116C4_reverse Regulation 
DendriticCellsPlasmacytoidDonor1_CNhs10857_ctss_fwd DendriticCellsPlasmacytoidD1+ Dendritic Cells - plasmacytoid, donor1_CNhs10857_11228-116C4_forward Regulation 
DendriticCellsMonocyteImmatureDerivedDonor3_CNhs12000_ctss_rev DendriticCellsMonocyteImmatureD3- Dendritic Cells - monocyte immature derived, donor3_CNhs12000_11384-118B7_reverse Regulation 
DendriticCellsMonocyteImmatureDerivedDonor3_CNhs12000_ctss_fwd DendriticCellsMonocyteImmatureD3+ Dendritic Cells - monocyte immature derived, donor3_CNhs12000_11384-118B7_forward Regulation 
DendriticCellsMonocyteImmatureDerivedDonor1TechRep1_CNhs10855_ctss_rev DendriticCellsMonocyteImmatureD1Tr1- Dendritic Cells - monocyte immature derived, donor1, tech_rep1_CNhs10855_11227-116C3_reverse Regulation 
DendriticCellsMonocyteImmatureDerivedDonor1TechRep1_CNhs10855_ctss_fwd DendriticCellsMonocyteImmatureD1Tr1+ Dendritic Cells - monocyte immature derived, donor1, tech_rep1_CNhs10855_11227-116C3_forward Regulation 
CornealEpithelialCellsDonor3_CNhs12123_ctss_rev CornealEpithelialCellsD3- Corneal Epithelial Cells, donor3_CNhs12123_11687-122I4_reverse Regulation 
CornealEpithelialCellsDonor3_CNhs12123_ctss_fwd CornealEpithelialCellsD3+ Corneal Epithelial Cells, donor3_CNhs12123_11687-122I4_forward Regulation 
CornealEpithelialCellsDonor2_CNhs12094_ctss_rev CornealEpithelialCellsD2- Corneal Epithelial Cells, donor2_CNhs12094_11606-120I4_reverse Regulation 
CornealEpithelialCellsDonor2_CNhs12094_ctss_fwd CornealEpithelialCellsD2+ Corneal Epithelial Cells, donor2_CNhs12094_11606-120I4_forward Regulation 
CornealEpithelialCellsDonor1_CNhs11336_ctss_rev CornealEpithelialCellsD1- Corneal Epithelial Cells, donor1_CNhs11336_11526-119I5_reverse Regulation 
CornealEpithelialCellsDonor1_CNhs11336_ctss_fwd CornealEpithelialCellsD1+ Corneal Epithelial Cells, donor1_CNhs11336_11526-119I5_forward Regulation 
CiliaryEpithelialCellsDonor3_CNhs12009_ctss_rev CiliaryEpithelialCellsD3- Ciliary Epithelial Cells, donor3_CNhs12009_11399-118D4_reverse Regulation 
CiliaryEpithelialCellsDonor3_CNhs12009_ctss_fwd CiliaryEpithelialCellsD3+ Ciliary Epithelial Cells, donor3_CNhs12009_11399-118D4_forward Regulation 
CiliaryEpithelialCellsDonor2_CNhs11966_ctss_rev CiliaryEpithelialCellsD2- Ciliary Epithelial Cells, donor2_CNhs11966_11323-117D9_reverse Regulation 
CiliaryEpithelialCellsDonor2_CNhs11966_ctss_fwd CiliaryEpithelialCellsD2+ Ciliary Epithelial Cells, donor2_CNhs11966_11323-117D9_forward Regulation 
CiliaryEpithelialCellsDonor1_CNhs10871_ctss_rev CiliaryEpithelialCellsD1- Ciliary Epithelial Cells, donor1_CNhs10871_11242-116D9_reverse Regulation 
CiliaryEpithelialCellsDonor1_CNhs10871_ctss_fwd CiliaryEpithelialCellsD1+ Ciliary Epithelial Cells, donor1_CNhs10871_11242-116D9_forward Regulation 
ChorionicMembraneCellsDonor3_CNhs12380_ctss_rev ChorionicMembraneCellsD3- chorionic membrane cells, donor3_CNhs12380_12240-129G8_reverse Regulation 
ChorionicMembraneCellsDonor3_CNhs12380_ctss_fwd ChorionicMembraneCellsD3+ chorionic membrane cells, donor3_CNhs12380_12240-129G8_forward Regulation 
ChorionicMembraneCellsDonor2_CNhs12506_ctss_rev ChorionicMembraneCellsD2- chorionic membrane cells, donor2_CNhs12506_12239-129G7_reverse Regulation 
ChorionicMembraneCellsDonor2_CNhs12506_ctss_fwd ChorionicMembraneCellsD2+ chorionic membrane cells, donor2_CNhs12506_12239-129G7_forward Regulation 
ChorionicMembraneCellsDonor1_CNhs12504_ctss_rev ChorionicMembraneCellsD1- chorionic membrane cells, donor1_CNhs12504_12238-129G6_reverse Regulation 
ChorionicMembraneCellsDonor1_CNhs12504_ctss_fwd ChorionicMembraneCellsD1+ chorionic membrane cells, donor1_CNhs12504_12238-129G6_forward Regulation 
ChondrocyteReDiffDonor3_CNhs12021_ctss_rev ChondrocyteReDiffD3- Chondrocyte - re diff, donor3_CNhs12021_11411-118E7_reverse Regulation 
ChondrocyteReDiffDonor3_CNhs12021_ctss_fwd ChondrocyteReDiffD3+ Chondrocyte - re diff, donor3_CNhs12021_11411-118E7_forward Regulation 
ChondrocyteReDiffDonor2_CNhs11373_ctss_rev ChondrocyteReDiffD2- Chondrocyte - re diff, donor2_CNhs11373_11339-117F7_reverse Regulation 
ChondrocyteReDiffDonor2_CNhs11373_ctss_fwd ChondrocyteReDiffD2+ Chondrocyte - re diff, donor2_CNhs11373_11339-117F7_forward Regulation 
ChondrocyteDeDiffDonor3_CNhs12020_ctss_rev ChondrocyteDeDiffD3- Chondrocyte - de diff, donor3_CNhs12020_11410-118E6_reverse Regulation 
ChondrocyteDeDiffDonor3_CNhs12020_ctss_fwd ChondrocyteDeDiffD3+ Chondrocyte - de diff, donor3_CNhs12020_11410-118E6_forward Regulation 
ChondrocyteDeDiffDonor2_CNhs11372_ctss_rev ChondrocyteDeDiffD2- Chondrocyte - de diff, donor2_CNhs11372_11338-117F6_reverse Regulation 
ChondrocyteDeDiffDonor2_CNhs11372_ctss_fwd ChondrocyteDeDiffD2+ Chondrocyte - de diff, donor2_CNhs11372_11338-117F6_forward Regulation 
ChondrocyteDeDiffDonor1_CNhs11923_ctss_rev ChondrocyteDeDiffD1- Chondrocyte - de diff, donor1_CNhs11923_11261-116G1_reverse Regulation 
ChondrocyteDeDiffDonor1_CNhs11923_ctss_fwd ChondrocyteDeDiffD1+ Chondrocyte - de diff, donor1_CNhs11923_11261-116G1_forward Regulation 
CD8TCellsDonor3_CNhs11999_ctss_rev Cd8+TCellsD3- CD8+ T Cells, donor3_CNhs11999_11383-118B6_reverse Regulation 
CD8TCellsDonor3_CNhs11999_ctss_fwd Cd8+TCellsD3+ CD8+ T Cells, donor3_CNhs11999_11383-118B6_forward Regulation 
CD8TCellsDonor2_CNhs11956_ctss_rev Cd8+TCellsD2- CD8+ T Cells, donor2_CNhs11956_11307-117C2_reverse Regulation 
CD8TCellsDonor2_CNhs11956_ctss_fwd Cd8+TCellsD2+ CD8+ T Cells, donor2_CNhs11956_11307-117C2_forward Regulation 
CD8TCellsDonor1_CNhs10854_ctss_rev Cd8+TCellsD1- CD8+ T Cells, donor1_CNhs10854_11226-116C2_reverse Regulation 
CD8TCellsDonor1_CNhs10854_ctss_fwd Cd8+TCellsD1+ CD8+ T Cells, donor1_CNhs10854_11226-116C2_forward Regulation 
CD4TCellsDonor3_CNhs11998_ctss_rev Cd4+TCellsD3- CD4+ T Cells, donor3_CNhs11998_11382-118B5_reverse Regulation 
CD4TCellsDonor3_CNhs11998_ctss_fwd Cd4+TCellsD3+ CD4+ T Cells, donor3_CNhs11998_11382-118B5_forward Regulation 
CD4TCellsDonor2_CNhs11955_ctss_rev Cd4+TCellsD2- CD4+ T Cells, donor2_CNhs11955_11306-117C1_reverse Regulation 
CD4TCellsDonor2_CNhs11955_ctss_fwd Cd4+TCellsD2+ CD4+ T Cells, donor2_CNhs11955_11306-117C1_forward Regulation 
CD4TCellsDonor1_CNhs10853_ctss_rev Cd4+TCellsD1- CD4+ T Cells, donor1_CNhs10853_11225-116C1_reverse Regulation 
CD4TCellsDonor1_CNhs10853_ctss_fwd Cd4+TCellsD1+ CD4+ T Cells, donor1_CNhs10853_11225-116C1_forward Regulation 
CD4CD25CD45RAMemoryConventionalTCellsExpandedDonor3_CNhs13921_ctss_rev Cd4+cd25-cd45ra-ExpdD3- CD4+CD25-CD45RA- memory conventional T cells expanded, donor3_CNhs13921_11918-125H1_reverse Regulation 
CD4CD25CD45RAMemoryConventionalTCellsExpandedDonor3_CNhs13921_ctss_fwd Cd4+cd25-cd45ra-ExpdD3+ CD4+CD25-CD45RA- memory conventional T cells expanded, donor3_CNhs13921_11918-125H1_forward Regulation 
CD4CD25CD45RAMemoryConventionalTCellsExpandedDonor2_CNhs13920_ctss_rev Cd4+cd25-cd45ra-ExpdD2- CD4+CD25-CD45RA- memory conventional T cells expanded, donor2_CNhs13920_11914-125G6_reverse Regulation 
CD4CD25CD45RAMemoryConventionalTCellsExpandedDonor2_CNhs13920_ctss_fwd Cd4+cd25-cd45ra-ExpdD2+ CD4+CD25-CD45RA- memory conventional T cells expanded, donor2_CNhs13920_11914-125G6_forward Regulation 
CD4CD25CD45RAMemoryConventionalTCellsExpandedDonor1_CNhs13215_ctss_rev Cd4+cd25-cd45ra-ExpdD1- CD4+CD25-CD45RA- memory conventional T cells expanded, donor1_CNhs13215_11792-124C1_reverse Regulation 
CD4CD25CD45RAMemoryConventionalTCellsExpandedDonor1_CNhs13215_ctss_fwd Cd4+cd25-cd45ra-ExpdD1+ CD4+CD25-CD45RA- memory conventional T cells expanded, donor1_CNhs13215_11792-124C1_forward Regulation 
CD4CD25CD45RAMemoryConventionalTCellsDonor3_CNhs13539_ctss_rev Cd4+cd25-cd45ra-D3- CD4+CD25-CD45RA- memory conventional T cells, donor3_CNhs13539_11909-125G1_reverse Regulation 
CD4CD25CD45RAMemoryConventionalTCellsDonor3_CNhs13539_ctss_fwd Cd4+cd25-cd45ra-D3+ CD4+CD25-CD45RA- memory conventional T cells, donor3_CNhs13539_11909-125G1_forward Regulation 
CD4CD25CD45RANaiveConventionalTCellsExpandedDonor3_CNhs13814_ctss_rev Cd4+cd25-cd45ra+ExpdD3- CD4+CD25-CD45RA+ naive conventional T cells expanded, donor3_CNhs13814_11917-125G9_reverse Regulation 
CD4CD25CD45RANaiveConventionalTCellsExpandedDonor3_CNhs13814_ctss_fwd Cd4+cd25-cd45ra+ExpdD3+ CD4+CD25-CD45RA+ naive conventional T cells expanded, donor3_CNhs13814_11917-125G9_forward Regulation 
CD4CD25CD45RANaiveConventionalTCellsExpandedDonor2_CNhs13813_ctss_rev Cd4+cd25-cd45ra+ExpdD2- CD4+CD25-CD45RA+ naive conventional T cells expanded, donor2_CNhs13813_11913-125G5_reverse Regulation 
CD4CD25CD45RANaiveConventionalTCellsExpandedDonor2_CNhs13813_ctss_fwd Cd4+cd25-cd45ra+ExpdD2+ CD4+CD25-CD45RA+ naive conventional T cells expanded, donor2_CNhs13813_11913-125G5_forward Regulation 
CD4CD25CD45RANaiveConventionalTCellsExpandedDonor1_CNhs13202_ctss_rev Cd4+cd25-cd45ra+ExpdD1- CD4+CD25-CD45RA+ naive conventional T cells expanded, donor1_CNhs13202_11791-124B9_reverse Regulation 
CD4CD25CD45RANaiveConventionalTCellsExpandedDonor1_CNhs13202_ctss_fwd Cd4+cd25-cd45ra+ExpdD1+ CD4+CD25-CD45RA+ naive conventional T cells expanded, donor1_CNhs13202_11791-124B9_forward Regulation 
CD4CD25CD45RANaiveConventionalTCellsDonor3_CNhs13512_ctss_rev Cd4+cd25-cd45ra+D3- CD4+CD25-CD45RA+ naive conventional T cells, donor3_CNhs13512_11906-125F7_reverse Regulation 
CD4CD25CD45RANaiveConventionalTCellsDonor3_CNhs13512_ctss_fwd Cd4+cd25-cd45ra+D3+ CD4+CD25-CD45RA+ naive conventional T cells, donor3_CNhs13512_11906-125F7_forward Regulation 
CD4CD25CD45RANaiveConventionalTCellsDonor2_CNhs13205_ctss_rev Cd4+cd25-cd45ra+D2- CD4+CD25-CD45RA+ naive conventional T cells, donor2_CNhs13205_11795-124C4_reverse Regulation 
CD4CD25CD45RANaiveConventionalTCellsDonor2_CNhs13205_ctss_fwd Cd4+cd25-cd45ra+D2+ CD4+CD25-CD45RA+ naive conventional T cells, donor2_CNhs13205_11795-124C4_forward Regulation 
CD4CD25CD45RANaiveConventionalTCellsDonor1_CNhs13223_ctss_rev Cd4+cd25-cd45ra+D1- CD4+CD25-CD45RA+ naive conventional T cells, donor1_CNhs13223_11784-124B2_reverse Regulation 
CD4CD25CD45RANaiveConventionalTCellsDonor1_CNhs13223_ctss_fwd Cd4+cd25-cd45ra+D1+ CD4+CD25-CD45RA+ naive conventional T cells, donor1_CNhs13223_11784-124B2_forward Regulation 
CD4CD25CD45RAMemoryRegulatoryTCellsExpandedDonor3_CNhs13812_ctss_rev Cd4+cd25+cd45ra-ExpdD3- CD4+CD25+CD45RA- memory regulatory T cells expanded, donor3_CNhs13812_11920-125H3_reverse Regulation 
CD4CD25CD45RAMemoryRegulatoryTCellsExpandedDonor3_CNhs13812_ctss_fwd Cd4+cd25+cd45ra-ExpdD3+ CD4+CD25+CD45RA- memory regulatory T cells expanded, donor3_CNhs13812_11920-125H3_forward Regulation 
CD4CD25CD45RAMemoryRegulatoryTCellsExpandedDonor2_CNhs13811_ctss_rev Cd4+cd25+cd45ra-ExpdD2- CD4+CD25+CD45RA- memory regulatory T cells expanded, donor2_CNhs13811_11916-125G8_reverse Regulation 
CD4CD25CD45RAMemoryRegulatoryTCellsExpandedDonor2_CNhs13811_ctss_fwd Cd4+cd25+cd45ra-ExpdD2+ CD4+CD25+CD45RA- memory regulatory T cells expanded, donor2_CNhs13811_11916-125G8_forward Regulation 
CD4CD25CD45RAMemoryRegulatoryTCellsExpandedDonor1_CNhs13204_ctss_rev Cd4+cd25+cd45ra-ExpdD1- CD4+CD25+CD45RA- memory regulatory T cells expanded, donor1_CNhs13204_11794-124C3_reverse Regulation 
CD4CD25CD45RAMemoryRegulatoryTCellsExpandedDonor1_CNhs13204_ctss_fwd Cd4+cd25+cd45ra-ExpdD1+ CD4+CD25+CD45RA- memory regulatory T cells expanded, donor1_CNhs13204_11794-124C3_forward Regulation 
CD4CD25CD45RAMemoryRegulatoryTCellsDonor3_CNhs13538_ctss_rev Cd4+cd25+cd45ra-D3- CD4+CD25+CD45RA- memory regulatory T cells, donor3_CNhs13538_11908-125F9_reverse Regulation 
CD4CD25CD45RAMemoryRegulatoryTCellsDonor3_CNhs13538_ctss_fwd Cd4+cd25+cd45ra-D3+ CD4+CD25+CD45RA- memory regulatory T cells, donor3_CNhs13538_11908-125F9_forward Regulation 
CD4CD25CD45RAMemoryRegulatoryTCellsDonor2_CNhs13206_ctss_rev Cd4+cd25+cd45ra-D2- CD4+CD25+CD45RA- memory regulatory T cells, donor2_CNhs13206_11797-124C6_reverse Regulation 
CD4CD25CD45RAMemoryRegulatoryTCellsDonor2_CNhs13206_ctss_fwd Cd4+cd25+cd45ra-D2+ CD4+CD25+CD45RA- memory regulatory T cells, donor2_CNhs13206_11797-124C6_forward Regulation 
CD4CD25CD45RAMemoryRegulatoryTCellsDonor1_CNhs13195_ctss_rev Cd4+cd25+cd45ra-D1- CD4+CD25+CD45RA- memory regulatory T cells, donor1_CNhs13195_11782-124A9_reverse Regulation 
CD4CD25CD45RAMemoryRegulatoryTCellsDonor1_CNhs13195_ctss_fwd Cd4+cd25+cd45ra-D1+ CD4+CD25+CD45RA- memory regulatory T cells, donor1_CNhs13195_11782-124A9_forward Regulation 
CD4CD25CD45RANaiveRegulatoryTCellsExpandedDonor3_CNhs13919_ctss_rev Cd4+cd25+cd45ra+ExpdD3- CD4+CD25+CD45RA+ naive regulatory T cells expanded, donor3_CNhs13919_11919-125H2_reverse Regulation 
CD4CD25CD45RANaiveRegulatoryTCellsExpandedDonor3_CNhs13919_ctss_fwd Cd4+cd25+cd45ra+ExpdD3+ CD4+CD25+CD45RA+ naive regulatory T cells expanded, donor3_CNhs13919_11919-125H2_forward Regulation 
CD4CD25CD45RANaiveRegulatoryTCellsExpandedDonor2_CNhs13918_ctss_rev Cd4+cd25+cd45ra+ExpdD2- CD4+CD25+CD45RA+ naive regulatory T cells expanded, donor2_CNhs13918_11915-125G7_reverse Regulation 
CD4CD25CD45RANaiveRegulatoryTCellsExpandedDonor2_CNhs13918_ctss_fwd Cd4+cd25+cd45ra+ExpdD2+ CD4+CD25+CD45RA+ naive regulatory T cells expanded, donor2_CNhs13918_11915-125G7_forward Regulation 
CD4CD25CD45RANaiveRegulatoryTCellsExpandedDonor1_CNhs13203_ctss_rev Cd4+cd25+cd45ra+ExpdD1- CD4+CD25+CD45RA+ naive regulatory T cells expanded, donor1_CNhs13203_11793-124C2_reverse Regulation 
CD4CD25CD45RANaiveRegulatoryTCellsExpandedDonor1_CNhs13203_ctss_fwd Cd4+cd25+cd45ra+ExpdD1+ CD4+CD25+CD45RA+ naive regulatory T cells expanded, donor1_CNhs13203_11793-124C2_forward Regulation 
CD4CD25CD45RANaiveRegulatoryTCellsDonor3_CNhs13513_ctss_rev Cd4+cd25+cd45ra+D3- CD4+CD25+CD45RA+ naive regulatory T cells, donor3_CNhs13513_11907-125F8_reverse Regulation 
CD4CD25CD45RANaiveRegulatoryTCellsDonor3_CNhs13513_ctss_fwd Cd4+cd25+cd45ra+D3+ CD4+CD25+CD45RA+ naive regulatory T cells, donor3_CNhs13513_11907-125F8_forward Regulation 
CD34CellsDifferentiatedToErythrocyteLineageBiol_Rep2_CNhs13553_ctss_rev Cd34ErythrocyteBr2- CD34 cells differentiated to erythrocyte lineage, biol_ rep2_CNhs13553_11932-125I6_reverse Regulation 
CD34CellsDifferentiatedToErythrocyteLineageBiol_Rep2_CNhs13553_ctss_fwd Cd34ErythrocyteBr2+ CD34 cells differentiated to erythrocyte lineage, biol_ rep2_CNhs13553_11932-125I6_forward Regulation 
CD34CellsDifferentiatedToErythrocyteLineageBiol_Rep1_CNhs13552_ctss_rev Cd34ErythrocyteBr1- CD34 cells differentiated to erythrocyte lineage, biol_ rep1_CNhs13552_11931-125I5_reverse Regulation 
CD34CellsDifferentiatedToErythrocyteLineageBiol_Rep1_CNhs13552_ctss_fwd Cd34ErythrocyteBr1+ CD34 cells differentiated to erythrocyte lineage, biol_ rep1_CNhs13552_11931-125I5_forward Regulation 
CD34StemCellsAdultBoneMarrowDerivedDonor1TechRep1_CNhs12588_ctss_rev Cd34+StemCellsAdultBoneMarrowD1Tr1- CD34+ stem cells - adult bone marrow derived, donor1, tech_rep1_CNhs12588_12225-129F2_reverse Regulation 
CD34StemCellsAdultBoneMarrowDerivedDonor1TechRep1_CNhs12588_ctss_fwd Cd34+StemCellsAdultBoneMarrowD1Tr1+ CD34+ stem cells - adult bone marrow derived, donor1, tech_rep1_CNhs12588_12225-129F2_forward Regulation 
CD19BCellsDonor3_CNhs12354_ctss_rev Cd19+BCellsD3- CD19+ B Cells, donor3_CNhs12354_11705-123B4_reverse Regulation 
CD19BCellsDonor3_CNhs12354_ctss_fwd Cd19+BCellsD3+ CD19+ B Cells, donor3_CNhs12354_11705-123B4_forward Regulation 
CD19BCellsDonor2_CNhs12352_ctss_rev Cd19+BCellsD2- CD19+ B Cells, donor2_CNhs12352_11624-122B4_reverse Regulation 
CD19BCellsDonor2_CNhs12352_ctss_fwd Cd19+BCellsD2+ CD19+ B Cells, donor2_CNhs12352_11624-122B4_forward Regulation 
CD19BCellsDonor1_CNhs12343_ctss_rev Cd19+BCellsD1- CD19+ B Cells, donor1_CNhs12343_11544-120B5_reverse Regulation 
CD19BCellsDonor1_CNhs12343_ctss_fwd Cd19+BCellsD1+ CD19+ B Cells, donor1_CNhs12343_11544-120B5_forward Regulation 
CD14CD16MonocytesDonor3_CNhs13548_ctss_rev Cd14-cd16+MonocytesD3- CD14-CD16+ Monocytes, donor3_CNhs13548_11911-125G3_reverse Regulation 
CD14CD16MonocytesDonor3_CNhs13548_ctss_fwd Cd14-cd16+MonocytesD3+ CD14-CD16+ Monocytes, donor3_CNhs13548_11911-125G3_forward Regulation 
CD14CD16MonocytesDonor2_CNhs13207_ctss_rev Cd14-cd16+MonocytesD2- CD14-CD16+ Monocytes, donor2_CNhs13207_11800-124C9_reverse Regulation 
CD14CD16MonocytesDonor2_CNhs13207_ctss_fwd Cd14-cd16+MonocytesD2+ CD14-CD16+ Monocytes, donor2_CNhs13207_11800-124C9_forward Regulation 
CD14MonocytesTreatedWithTrehaloseDimycolateTDMDonor3_CNhs13544_ctss_rev Cd14+MoW/TrehaloseDimycolateD3- CD14+ monocytes - treated with Trehalose dimycolate (TDM), donor3_CNhs13544_11882-125D1_reverse Regulation 
CD14MonocytesTreatedWithTrehaloseDimycolateTDMDonor3_CNhs13544_ctss_fwd Cd14+MoW/TrehaloseDimycolateD3+ CD14+ monocytes - treated with Trehalose dimycolate (TDM), donor3_CNhs13544_11882-125D1_forward Regulation 
CD14MonocytesTreatedWithTrehaloseDimycolateTDMDonor2_CNhs13483_ctss_rev Cd14+MoW/TrehaloseDimycolateD2- CD14+ monocytes - treated with Trehalose dimycolate (TDM), donor2_CNhs13483_11872-125B9_reverse Regulation 
CD14MonocytesTreatedWithTrehaloseDimycolateTDMDonor2_CNhs13483_ctss_fwd Cd14+MoW/TrehaloseDimycolateD2+ CD14+ monocytes - treated with Trehalose dimycolate (TDM), donor2_CNhs13483_11872-125B9_forward Regulation 
CD14MonocytesTreatedWithTrehaloseDimycolateTDMDonor1_CNhs13467_ctss_rev Cd14+MoW/TrehaloseDimycolateD1- CD14+ monocytes - treated with Trehalose dimycolate (TDM), donor1_CNhs13467_11862-125A8_reverse Regulation 
CD14MonocytesTreatedWithTrehaloseDimycolateTDMDonor1_CNhs13467_ctss_fwd Cd14+MoW/TrehaloseDimycolateD1+ CD14+ monocytes - treated with Trehalose dimycolate (TDM), donor1_CNhs13467_11862-125A8_forward Regulation 
CD14MonocytesTreatedWithSalmonellaDonor3_CNhs13493_ctss_rev Cd14+MoW/SalmonellaD3- CD14+ monocytes - treated with Salmonella, donor3_CNhs13493_11886-125D5_reverse Regulation 
CD14MonocytesTreatedWithSalmonellaDonor3_CNhs13493_ctss_fwd Cd14+MoW/SalmonellaD3+ CD14+ monocytes - treated with Salmonella, donor3_CNhs13493_11886-125D5_forward Regulation 
CD14MonocytesTreatedWithSalmonellaDonor2_CNhs13485_ctss_rev Cd14+MoW/SalmonellaD2- CD14+ monocytes - treated with Salmonella, donor2_CNhs13485_11876-125C4_reverse Regulation 
CD14MonocytesTreatedWithSalmonellaDonor2_CNhs13485_ctss_fwd Cd14+MoW/SalmonellaD2+ CD14+ monocytes - treated with Salmonella, donor2_CNhs13485_11876-125C4_forward Regulation 
CD14MonocytesTreatedWithSalmonellaDonor1_CNhs13471_ctss_rev Cd14+MoW/SalmonellaD1- CD14+ monocytes - treated with Salmonella, donor1_CNhs13471_11866-125B3_reverse Regulation 
CD14MonocytesTreatedWithSalmonellaDonor1_CNhs13471_ctss_fwd Cd14+MoW/SalmonellaD1+ CD14+ monocytes - treated with Salmonella, donor1_CNhs13471_11866-125B3_forward Regulation 
CD14MonocytesTreatedWithLipopolysaccharideDonor3_CNhs13545_ctss_rev Cd14+MoW/LipopolysaccharideD3- CD14+ monocytes - treated with lipopolysaccharide, donor3_CNhs13545_11885-125D4_reverse Regulation 
CD14MonocytesTreatedWithLipopolysaccharideDonor3_CNhs13545_ctss_fwd Cd14+MoW/LipopolysaccharideD3+ CD14+ monocytes - treated with lipopolysaccharide, donor3_CNhs13545_11885-125D4_forward Regulation 
CD14MonocytesTreatedWithLipopolysaccharideDonor2_CNhs13533_ctss_rev Cd14+MoW/LipopolysaccharideD2- CD14+ monocytes - treated with lipopolysaccharide, donor2_CNhs13533_11875-125C3_reverse Regulation 
CD14MonocytesTreatedWithLipopolysaccharideDonor2_CNhs13533_ctss_fwd Cd14+MoW/LipopolysaccharideD2+ CD14+ monocytes - treated with lipopolysaccharide, donor2_CNhs13533_11875-125C3_forward Regulation 
CD14MonocytesTreatedWithLipopolysaccharideDonor1_CNhs13470_ctss_rev Cd14+MoW/LipopolysaccharideD1- CD14+ monocytes - treated with lipopolysaccharide, donor1_CNhs13470_11865-125B2_reverse Regulation 
CD14MonocytesTreatedWithLipopolysaccharideDonor1_CNhs13470_ctss_fwd Cd14+MoW/LipopolysaccharideD1+ CD14+ monocytes - treated with lipopolysaccharide, donor1_CNhs13470_11865-125B2_forward Regulation 
CD14MonocytesTreatedWithIFNNhexaneDonor3_CNhs13490_ctss_rev Cd14+MoW/Ifn+N-hexaneD3- CD14+ monocytes - treated with IFN + N-hexane, donor3_CNhs13490_11881-125C9_reverse Regulation 
CD14MonocytesTreatedWithIFNNhexaneDonor3_CNhs13490_ctss_fwd Cd14+MoW/Ifn+N-hexaneD3+ CD14+ monocytes - treated with IFN + N-hexane, donor3_CNhs13490_11881-125C9_forward Regulation 
CD14MonocytesTreatedWithIFNNhexaneDonor2_CNhs13476_ctss_rev Cd14+MoW/Ifn+N-hexaneD2- CD14+ monocytes - treated with IFN + N-hexane, donor2_CNhs13476_11871-125B8_reverse Regulation 
CD14MonocytesTreatedWithIFNNhexaneDonor2_CNhs13476_ctss_fwd Cd14+MoW/Ifn+N-hexaneD2+ CD14+ monocytes - treated with IFN + N-hexane, donor2_CNhs13476_11871-125B8_forward Regulation 
CD14MonocytesTreatedWithIFNNhexaneDonor1_CNhs13466_ctss_rev Cd14+MoW/Ifn+N-hexaneD1- CD14+ monocytes - treated with IFN + N-hexane, donor1_CNhs13466_11861-125A7_reverse Regulation 
CD14MonocytesTreatedWithIFNNhexaneDonor1_CNhs13466_ctss_fwd Cd14+MoW/Ifn+N-hexaneD1+ CD14+ monocytes - treated with IFN + N-hexane, donor1_CNhs13466_11861-125A7_forward Regulation 
CD14MonocytesTreatedWithGroupAStreptococciDonor3_CNhs13492_ctss_rev Cd14+MoW/GroupAStreptococciD3- CD14+ monocytes - treated with Group A streptococci, donor3_CNhs13492_11884-125D3_reverse Regulation 
CD14MonocytesTreatedWithGroupAStreptococciDonor3_CNhs13492_ctss_fwd Cd14+MoW/GroupAStreptococciD3+ CD14+ monocytes - treated with Group A streptococci, donor3_CNhs13492_11884-125D3_forward Regulation 
CD14MonocytesTreatedWithGroupAStreptococciDonor2_CNhs13532_ctss_rev Cd14+MoW/GroupAStreptococciD2- CD14+ monocytes - treated with Group A streptococci, donor2_CNhs13532_11874-125C2_reverse Regulation 
CD14MonocytesTreatedWithGroupAStreptococciDonor2_CNhs13532_ctss_fwd Cd14+MoW/GroupAStreptococciD2+ CD14+ monocytes - treated with Group A streptococci, donor2_CNhs13532_11874-125C2_forward Regulation 
CD14MonocytesTreatedWithGroupAStreptococciDonor1_CNhs13469_ctss_rev Cd14+MoW/GroupAStreptococciD1- CD14+ monocytes - treated with Group A streptococci, donor1_CNhs13469_11864-125B1_reverse Regulation 
CD14MonocytesTreatedWithGroupAStreptococciDonor1_CNhs13469_ctss_fwd Cd14+MoW/GroupAStreptococciD1+ CD14+ monocytes - treated with Group A streptococci, donor1_CNhs13469_11864-125B1_forward Regulation 
CD14MonocytesTreatedWithCryptococcusDonor3_CNhs13546_ctss_rev Cd14+MoW/CryptococcusD3- CD14+ monocytes - treated with Cryptococcus, donor3_CNhs13546_11887-125D6_reverse Regulation 
CD14MonocytesTreatedWithCryptococcusDonor3_CNhs13546_ctss_fwd Cd14+MoW/CryptococcusD3+ CD14+ monocytes - treated with Cryptococcus, donor3_CNhs13546_11887-125D6_forward Regulation 
CD14MonocytesTreatedWithCryptococcusDonor2_CNhs13487_ctss_rev Cd14+MoW/CryptococcusD2- CD14+ monocytes - treated with Cryptococcus, donor2_CNhs13487_11877-125C5_reverse Regulation 
CD14MonocytesTreatedWithCryptococcusDonor2_CNhs13487_ctss_fwd Cd14+MoW/CryptococcusD2+ CD14+ monocytes - treated with Cryptococcus, donor2_CNhs13487_11877-125C5_forward Regulation 
CD14MonocytesTreatedWithCryptococcusDonor1_CNhs13472_ctss_rev Cd14+MoW/CryptococcusD1- CD14+ monocytes - treated with Cryptococcus, donor1_CNhs13472_11867-125B4_reverse Regulation 
CD14MonocytesTreatedWithCryptococcusDonor1_CNhs13472_ctss_fwd Cd14+MoW/CryptococcusD1+ CD14+ monocytes - treated with Cryptococcus, donor1_CNhs13472_11867-125B4_forward Regulation 
CD14MonocytesTreatedWithCandidaDonor3_CNhs13494_ctss_rev Cd14+MoW/CandidaD3- CD14+ monocytes - treated with Candida, donor3_CNhs13494_11888-125D7_reverse Regulation 
CD14MonocytesTreatedWithCandidaDonor3_CNhs13494_ctss_fwd Cd14+MoW/CandidaD3+ CD14+ monocytes - treated with Candida, donor3_CNhs13494_11888-125D7_forward Regulation 
CD14MonocytesTreatedWithCandidaDonor2_CNhs13488_ctss_rev Cd14+MoW/CandidaD2- CD14+ monocytes - treated with Candida, donor2_CNhs13488_11878-125C6_reverse Regulation 
CD14MonocytesTreatedWithCandidaDonor2_CNhs13488_ctss_fwd Cd14+MoW/CandidaD2+ CD14+ monocytes - treated with Candida, donor2_CNhs13488_11878-125C6_forward Regulation 
CD14MonocytesTreatedWithCandidaDonor1_CNhs13473_ctss_rev Cd14+MoW/CandidaD1- CD14+ monocytes - treated with Candida, donor1_CNhs13473_11868-125B5_reverse Regulation 
CD14MonocytesTreatedWithCandidaDonor1_CNhs13473_ctss_fwd Cd14+MoW/CandidaD1+ CD14+ monocytes - treated with Candida, donor1_CNhs13473_11868-125B5_forward Regulation 
CD14MonocytesTreatedWithBCGDonor3_CNhs13543_ctss_rev Cd14+MoW/BcgD3- CD14+ monocytes - treated with BCG, donor3_CNhs13543_11880-125C8_reverse Regulation 
CD14MonocytesTreatedWithBCGDonor3_CNhs13543_ctss_fwd Cd14+MoW/BcgD3+ CD14+ monocytes - treated with BCG, donor3_CNhs13543_11880-125C8_forward Regulation 
CD14MonocytesTreatedWithBCGDonor2_CNhs13475_ctss_rev Cd14+MoW/BcgD2- CD14+ monocytes - treated with BCG, donor2_CNhs13475_11870-125B7_reverse Regulation 
CD14MonocytesTreatedWithBCGDonor2_CNhs13475_ctss_fwd Cd14+MoW/BcgD2+ CD14+ monocytes - treated with BCG, donor2_CNhs13475_11870-125B7_forward Regulation 
CD14MonocytesTreatedWithBCGDonor1_CNhs13465_ctss_rev Cd14+MoW/BcgD1- CD14+ monocytes - treated with BCG, donor1_CNhs13465_11860-125A6_reverse Regulation 
CD14MonocytesTreatedWithBCGDonor1_CNhs13465_ctss_fwd Cd14+MoW/BcgD1+ CD14+ monocytes - treated with BCG, donor1_CNhs13465_11860-125A6_forward Regulation 
CD14MonocytesTreatedWithBglucanDonor3_CNhs13495_ctss_rev Cd14+MoW/B-glucanD3- CD14+ monocytes - treated with B-glucan, donor3_CNhs13495_11889-125D8_reverse Regulation 
CD14MonocytesTreatedWithBglucanDonor3_CNhs13495_ctss_fwd Cd14+MoW/B-glucanD3+ CD14+ monocytes - treated with B-glucan, donor3_CNhs13495_11889-125D8_forward Regulation 
CD14MonocytesTreatedWithBglucanDonor2_CNhs13489_ctss_rev Cd14+MoW/B-glucanD2- CD14+ monocytes - treated with B-glucan, donor2_CNhs13489_11879-125C7_reverse Regulation 
CD14MonocytesTreatedWithBglucanDonor2_CNhs13489_ctss_fwd Cd14+MoW/B-glucanD2+ CD14+ monocytes - treated with B-glucan, donor2_CNhs13489_11879-125C7_forward Regulation 
CD14MonocytesTreatedWithBglucanDonor1_CNhs13474_ctss_rev Cd14+MoW/B-glucanD1- CD14+ monocytes - treated with B-glucan, donor1_CNhs13474_11869-125B6_reverse Regulation 
CD14MonocytesTreatedWithBglucanDonor1_CNhs13474_ctss_fwd Cd14+MoW/B-glucanD1+ CD14+ monocytes - treated with B-glucan, donor1_CNhs13474_11869-125B6_forward Regulation 
CD14MonocytesMockTreatedDonor3_CNhs13491_ctss_rev Cd14+MoMockTreatedD3- CD14+ monocytes - mock treated, donor3_CNhs13491_11883-125D2_reverse Regulation 
CD14MonocytesMockTreatedDonor3_CNhs13491_ctss_fwd Cd14+MoMockTreatedD3+ CD14+ monocytes - mock treated, donor3_CNhs13491_11883-125D2_forward Regulation 
CD14MonocytesMockTreatedDonor2_CNhs13484_ctss_rev Cd14+MoMockTreatedD2- CD14+ monocytes - mock treated, donor2_CNhs13484_11873-125C1_reverse Regulation 
CD14MonocytesMockTreatedDonor2_CNhs13484_ctss_fwd Cd14+MoMockTreatedD2+ CD14+ monocytes - mock treated, donor2_CNhs13484_11873-125C1_forward Regulation 
CD14MonocytesMockTreatedDonor1_CNhs13468_ctss_rev Cd14+MoMockTreatedD1- CD14+ monocytes - mock treated, donor1_CNhs13468_11863-125A9_reverse Regulation 
CD14MonocytesMockTreatedDonor1_CNhs13468_ctss_fwd Cd14+MoMockTreatedD1+ CD14+ monocytes - mock treated, donor1_CNhs13468_11863-125A9_forward Regulation 
CD14MonocyteDerivedEndothelialProgenitorCellsDonor3_CNhs11904_ctss_rev Cd14+MoEndothelialProgenitorCellsD3- CD14+ monocyte derived endothelial progenitor cells, donor3_CNhs11904_11386-118B9_reverse Regulation 
CD14MonocyteDerivedEndothelialProgenitorCellsDonor3_CNhs11904_ctss_fwd Cd14+MoEndothelialProgenitorCellsD3+ CD14+ monocyte derived endothelial progenitor cells, donor3_CNhs11904_11386-118B9_forward Regulation 
CD14MonocyteDerivedEndothelialProgenitorCellsDonor2_CNhs11897_ctss_rev Cd14+MoEndothelialProgenitorCellsD2- CD14+ monocyte derived endothelial progenitor cells, donor2_CNhs11897_11310-117C5_reverse Regulation 
CD14MonocyteDerivedEndothelialProgenitorCellsDonor2_CNhs11897_ctss_fwd Cd14+MoEndothelialProgenitorCellsD2+ CD14+ monocyte derived endothelial progenitor cells, donor2_CNhs11897_11310-117C5_forward Regulation 
CD14MonocyteDerivedEndothelialProgenitorCellsDonor1_CNhs10858_ctss_rev Cd14+MoEndothelialProgenitorCellsD1- CD14+ monocyte derived endothelial progenitor cells, donor1_CNhs10858_11229-116C5_reverse Regulation 
CD14MonocyteDerivedEndothelialProgenitorCellsDonor1_CNhs10858_ctss_fwd Cd14+MoEndothelialProgenitorCellsD1+ CD14+ monocyte derived endothelial progenitor cells, donor1_CNhs10858_11229-116C5_forward Regulation 
CD14MonocytesDonor3_CNhs11997_ctss_rev Cd14+MoD3- CD14+ Monocytes, donor3_CNhs11997_11381-118B4_reverse Regulation 
CD14MonocytesDonor3_CNhs11997_ctss_fwd Cd14+MoD3+ CD14+ Monocytes, donor3_CNhs11997_11381-118B4_forward Regulation 
CD14MonocytesDonor2_CNhs11954_ctss_rev Cd14+MoD2- CD14+ Monocytes, donor2_CNhs11954_11305-117B9_reverse Regulation 
CD14MonocytesDonor2_CNhs11954_ctss_fwd Cd14+MoD2+ CD14+ Monocytes, donor2_CNhs11954_11305-117B9_forward Regulation 
CD14MonocytesDonor1_CNhs10852_ctss_rev Cd14+MoD1- CD14+ Monocytes, donor1_CNhs10852_11224-116B9_reverse Regulation 
CD14MonocytesDonor1_CNhs10852_ctss_fwd Cd14+MoD1+ CD14+ Monocytes, donor1_CNhs10852_11224-116B9_forward Regulation 
CD14CD16MonocytesDonor3_CNhs13540_ctss_rev Cd14+cd16-MonocytesD3- CD14+CD16- Monocytes, donor3_CNhs13540_11910-125G2_reverse Regulation 
CD14CD16MonocytesDonor3_CNhs13540_ctss_fwd Cd14+cd16-MonocytesD3+ CD14+CD16- Monocytes, donor3_CNhs13540_11910-125G2_forward Regulation 
CD14CD16MonocytesDonor2_CNhs13216_ctss_rev Cd14+cd16-MonocytesD2- CD14+CD16- Monocytes, donor2_CNhs13216_11799-124C8_reverse Regulation 
CD14CD16MonocytesDonor2_CNhs13216_ctss_fwd Cd14+cd16-MonocytesD2+ CD14+CD16- Monocytes, donor2_CNhs13216_11799-124C8_forward Regulation 
CD14CD16MonocytesDonor1_CNhs13224_ctss_rev Cd14+cd16-MonocytesD1- CD14+CD16- Monocytes, donor1_CNhs13224_11788-124B6_reverse Regulation 
CD14CD16MonocytesDonor1_CNhs13224_ctss_fwd Cd14+cd16-MonocytesD1+ CD14+CD16- Monocytes, donor1_CNhs13224_11788-124B6_forward Regulation 
CD14CD16MonocytesDonor3_CNhs13549_ctss_rev Cd14+cd16+MonocytesD3- CD14+CD16+ Monocytes, donor3_CNhs13549_11912-125G4_reverse Regulation 
CD14CD16MonocytesDonor3_CNhs13549_ctss_fwd Cd14+cd16+MonocytesD3+ CD14+CD16+ Monocytes, donor3_CNhs13549_11912-125G4_forward Regulation 
CD14CD16MonocytesDonor2_CNhs13208_ctss_rev Cd14+cd16+MonocytesD2- CD14+CD16+ Monocytes, donor2_CNhs13208_11801-124D1_reverse Regulation 
CD14CD16MonocytesDonor2_CNhs13208_ctss_fwd Cd14+cd16+MonocytesD2+ CD14+CD16+ Monocytes, donor2_CNhs13208_11801-124D1_forward Regulation 
CD14CD16MonocytesDonor1_CNhs13541_ctss_rev Cd14+cd16+MonocytesD1- CD14+CD16+ Monocytes, donor1_CNhs13541_11789-124B7_reverse Regulation 
CD14CD16MonocytesDonor1_CNhs13541_ctss_fwd Cd14+cd16+MonocytesD1+ CD14+CD16+ Monocytes, donor1_CNhs13541_11789-124B7_forward Regulation 
MultipotentCordBloodUnrestrictedSomaticStemCellsDonor2_CNhs12105_ctss_rev CbStemCellsD2- Multipotent Cord Blood Unrestricted Somatic Stem Cells, donor2_CNhs12105_11629-122B9_reverse Regulation 
MultipotentCordBloodUnrestrictedSomaticStemCellsDonor2_CNhs12105_ctss_fwd CbStemCellsD2+ Multipotent Cord Blood Unrestricted Somatic Stem Cells, donor2_CNhs12105_11629-122B9_forward Regulation 
MultipotentCordBloodUnrestrictedSomaticStemCellsDonor1_CNhs11350_ctss_rev CbStemCellsD1- Multipotent Cord Blood Unrestricted Somatic Stem Cells, donor1_CNhs11350_11549-120C1_reverse Regulation 
MultipotentCordBloodUnrestrictedSomaticStemCellsDonor1_CNhs11350_ctss_fwd CbStemCellsD1+ Multipotent Cord Blood Unrestricted Somatic Stem Cells, donor1_CNhs11350_11549-120C1_forward Regulation 
CardiacMyocyteDonor3_CNhs12571_ctss_rev CardiacMyocyteD3- Cardiac Myocyte, donor3_CNhs12571_11686-122I3_reverse Regulation 
CardiacMyocyteDonor3_CNhs12571_ctss_fwd CardiacMyocyteD3+ Cardiac Myocyte, donor3_CNhs12571_11686-122I3_forward Regulation 
CardiacMyocyteDonor2_CNhs12350_ctss_rev CardiacMyocyteD2- Cardiac Myocyte, donor2_CNhs12350_11605-120I3_reverse Regulation 
CardiacMyocyteDonor2_CNhs12350_ctss_fwd CardiacMyocyteD2+ Cardiac Myocyte, donor2_CNhs12350_11605-120I3_forward Regulation 
CardiacMyocyteDonor1_CNhs12341_ctss_rev CardiacMyocyteD1- Cardiac Myocyte, donor1_CNhs12341_11525-119I4_reverse Regulation 
CardiacMyocyteDonor1_CNhs12341_ctss_fwd CardiacMyocyteD1+ Cardiac Myocyte, donor1_CNhs12341_11525-119I4_forward Regulation 
BronchialEpithelialCellDonor7_CNhs12642_ctss_rev BronchialEpithelialCellD7- Bronchial Epithelial Cell, donor7_CNhs12642_11769-123I5_reverse Regulation 
BronchialEpithelialCellDonor7_CNhs12642_ctss_fwd BronchialEpithelialCellD7+ Bronchial Epithelial Cell, donor7_CNhs12642_11769-123I5_forward Regulation 
BronchialEpithelialCellDonor6_CNhs12062_ctss_rev BronchialEpithelialCellD6- Bronchial Epithelial Cell, donor6_CNhs12062_11461-119B3_reverse Regulation 
BronchialEpithelialCellDonor6_CNhs12062_ctss_fwd BronchialEpithelialCellD6+ Bronchial Epithelial Cell, donor6_CNhs12062_11461-119B3_forward Regulation 
BronchialEpithelialCellDonor5_CNhs12058_ctss_rev BronchialEpithelialCellD5- Bronchial Epithelial Cell, donor5_CNhs12058_11457-119A8_reverse Regulation 
BronchialEpithelialCellDonor5_CNhs12058_ctss_fwd BronchialEpithelialCellD5+ Bronchial Epithelial Cell, donor5_CNhs12058_11457-119A8_forward Regulation 
BronchialEpithelialCellDonor4_CNhs12054_ctss_rev BronchialEpithelialCellD4- Bronchial Epithelial Cell, donor4_CNhs12054_11453-119A4_reverse Regulation 
BronchialEpithelialCellDonor4_CNhs12054_ctss_fwd BronchialEpithelialCellD4+ Bronchial Epithelial Cell, donor4_CNhs12054_11453-119A4_forward Regulation 
BronchialEpithelialCellDonor3_CNhs12623_ctss_rev BronchialEpithelialCellD3- Bronchial Epithelial Cell, donor3_CNhs12623_11672-122G7_reverse Regulation 
BronchialEpithelialCellDonor3_CNhs12623_ctss_fwd BronchialEpithelialCellD3+ Bronchial Epithelial Cell, donor3_CNhs12623_11672-122G7_forward Regulation 
BronchialEpithelialCellDonor2_CNhs12085_ctss_rev BronchialEpithelialCellD2- Bronchial Epithelial Cell, donor2_CNhs12085_11591-120G7_reverse Regulation 
BronchialEpithelialCellDonor2_CNhs12085_ctss_fwd BronchialEpithelialCellD2+ Bronchial Epithelial Cell, donor2_CNhs12085_11591-120G7_forward Regulation 
BronchialEpithelialCellDonor1_CNhs11327_ctss_rev BronchialEpithelialCellD1- Bronchial Epithelial Cell, donor1_CNhs11327_11511-119G8_reverse Regulation 
BronchialEpithelialCellDonor1_CNhs11327_ctss_fwd BronchialEpithelialCellD1+ Bronchial Epithelial Cell, donor1_CNhs11327_11511-119G8_forward Regulation 
BasophilsDonor3_CNhs12575_ctss_rev BasophilsD3- Basophils, donor3_CNhs12575_12243-129H2_reverse Regulation 
BasophilsDonor3_CNhs12575_ctss_fwd BasophilsD3+ Basophils, donor3_CNhs12575_12243-129H2_forward Regulation 
AstrocyteCerebralCortexDonor3_CNhs12005_ctss_rev AstrocyteCerebralCortexD3- Astrocyte - cerebral cortex, donor3_CNhs12005_11392-118C6_reverse Regulation 
AstrocyteCerebralCortexDonor3_CNhs12005_ctss_fwd AstrocyteCerebralCortexD3+ Astrocyte - cerebral cortex, donor3_CNhs12005_11392-118C6_forward Regulation 
AstrocyteCerebralCortexDonor2_CNhs11960_ctss_rev AstrocyteCerebralCortexD2- Astrocyte - cerebral cortex, donor2_CNhs11960_11316-117D2_reverse Regulation 
AstrocyteCerebralCortexDonor2_CNhs11960_ctss_fwd AstrocyteCerebralCortexD2+ Astrocyte - cerebral cortex, donor2_CNhs11960_11316-117D2_forward Regulation 
AstrocyteCerebralCortexDonor1_CNhs10864_ctss_rev AstrocyteCerebralCortexD1- Astrocyte - cerebral cortex, donor1_CNhs10864_11235-116D2_reverse Regulation 
AstrocyteCerebralCortexDonor1_CNhs10864_ctss_fwd AstrocyteCerebralCortexD1+ Astrocyte - cerebral cortex, donor1_CNhs10864_11235-116D2_forward Regulation 
AstrocyteCerebellumDonor3_CNhs12117_ctss_rev AstrocyteCerebellumD3- Astrocyte - cerebellum, donor3_CNhs12117_11661-122F5_reverse Regulation 
AstrocyteCerebellumDonor3_CNhs12117_ctss_fwd AstrocyteCerebellumD3+ Astrocyte - cerebellum, donor3_CNhs12117_11661-122F5_forward Regulation 
AstrocyteCerebellumDonor2_CNhs12081_ctss_rev AstrocyteCerebellumD2- Astrocyte - cerebellum, donor2_CNhs12081_11580-120F5_reverse Regulation 
AstrocyteCerebellumDonor2_CNhs12081_ctss_fwd AstrocyteCerebellumD2+ Astrocyte - cerebellum, donor2_CNhs12081_11580-120F5_forward Regulation 
AstrocyteCerebellumDonor1_CNhs11321_ctss_rev AstrocyteCerebellumD1- Astrocyte - cerebellum, donor1_CNhs11321_11500-119F6_reverse Regulation 
AstrocyteCerebellumDonor1_CNhs11321_ctss_fwd AstrocyteCerebellumD1+ Astrocyte - cerebellum, donor1_CNhs11321_11500-119F6_forward Regulation 
AnulusPulposusCellDonor2_CNhs12064_ctss_rev AnulusPulposusCellD2- Anulus Pulposus Cell, donor2_CNhs12064_11463-119B5_reverse Regulation 
AnulusPulposusCellDonor2_CNhs12064_ctss_fwd AnulusPulposusCellD2+ Anulus Pulposus Cell, donor2_CNhs12064_11463-119B5_forward Regulation 
AnulusPulposusCellDonor1_CNhs10876_ctss_rev AnulusPulposusCellD1- Anulus Pulposus Cell, donor1_CNhs10876_11248-116E6_reverse Regulation 
AnulusPulposusCellDonor1_CNhs10876_ctss_fwd AnulusPulposusCellD1+ Anulus Pulposus Cell, donor1_CNhs10876_11248-116E6_forward Regulation 
AmnioticMembraneCellsDonor3_CNhs12379_ctss_rev AmnioticMembraneCellsD3- amniotic membrane cells, donor3_CNhs12379_12237-129G5_reverse Regulation 
AmnioticMembraneCellsDonor3_CNhs12379_ctss_fwd AmnioticMembraneCellsD3+ amniotic membrane cells, donor3_CNhs12379_12237-129G5_forward Regulation 
AmnioticMembraneCellsDonor2_CNhs12503_ctss_rev AmnioticMembraneCellsD2- amniotic membrane cells, donor2_CNhs12503_12236-129G4_reverse Regulation 
AmnioticMembraneCellsDonor2_CNhs12503_ctss_fwd AmnioticMembraneCellsD2+ amniotic membrane cells, donor2_CNhs12503_12236-129G4_forward Regulation 
AmnioticMembraneCellsDonor1_CNhs12502_ctss_rev AmnioticMembraneCellsD1- amniotic membrane cells, donor1_CNhs12502_12235-129G3_reverse Regulation 
AmnioticMembraneCellsDonor1_CNhs12502_ctss_fwd AmnioticMembraneCellsD1+ amniotic membrane cells, donor1_CNhs12502_12235-129G3_forward Regulation 
AmnioticEpithelialCellsDonor3_CNhs12125_ctss_rev AmnioticEpithelialCellsD3- Amniotic Epithelial Cells, donor3_CNhs12125_11694-123A2_reverse Regulation 
AmnioticEpithelialCellsDonor3_CNhs12125_ctss_fwd AmnioticEpithelialCellsD3+ Amniotic Epithelial Cells, donor3_CNhs12125_11694-123A2_forward Regulation 
AmnioticEpithelialCellsDonor2_CNhs12098_ctss_rev AmnioticEpithelialCellsD2- Amniotic Epithelial Cells, donor2_CNhs12098_11613-122A2_reverse Regulation 
AmnioticEpithelialCellsDonor2_CNhs12098_ctss_fwd AmnioticEpithelialCellsD2+ Amniotic Epithelial Cells, donor2_CNhs12098_11613-122A2_forward Regulation 
AmnioticEpithelialCellsDonor1_CNhs11341_ctss_rev AmnioticEpithelialCellsD1- Amniotic Epithelial Cells, donor1_CNhs11341_11533-120A3_reverse Regulation 
AmnioticEpithelialCellsDonor1_CNhs11341_ctss_fwd AmnioticEpithelialCellsD1+ Amniotic Epithelial Cells, donor1_CNhs11341_11533-120A3_forward Regulation 
AlveolarEpithelialCellsDonor3_CNhs12119_ctss_rev AlveolarEpithelialCellsD3- Alveolar Epithelial Cells, donor3_CNhs12119_11671-122G6_reverse Regulation 
AlveolarEpithelialCellsDonor3_CNhs12119_ctss_fwd AlveolarEpithelialCellsD3+ Alveolar Epithelial Cells, donor3_CNhs12119_11671-122G6_forward Regulation 
AlveolarEpithelialCellsDonor2_CNhs12084_ctss_rev AlveolarEpithelialCellsD2- Alveolar Epithelial Cells, donor2_CNhs12084_11590-120G6_reverse Regulation 
AlveolarEpithelialCellsDonor2_CNhs12084_ctss_fwd AlveolarEpithelialCellsD2+ Alveolar Epithelial Cells, donor2_CNhs12084_11590-120G6_forward Regulation 
AlveolarEpithelialCellsDonor1_CNhs11325_ctss_rev AlveolarEpithelialCellsD1- Alveolar Epithelial Cells, donor1_CNhs11325_11510-119G7_reverse Regulation 
AlveolarEpithelialCellsDonor1_CNhs11325_ctss_fwd AlveolarEpithelialCellsD1+ Alveolar Epithelial Cells, donor1_CNhs11325_11510-119G7_forward Regulation 
AdipocyteSubcutaneousDonor3_CNhs12017_ctss_rev AdipocyteSubcutaneousD3- Adipocyte - subcutaneous, donor3_CNhs12017_11408-118E4_reverse Regulation 
AdipocyteSubcutaneousDonor3_CNhs12017_ctss_fwd AdipocyteSubcutaneousD3+ Adipocyte - subcutaneous, donor3_CNhs12017_11408-118E4_forward Regulation 
AdipocyteSubcutaneousDonor2_CNhs11371_ctss_rev AdipocyteSubcutaneousD2- Adipocyte - subcutaneous, donor2_CNhs11371_11336-117F4_reverse Regulation 
AdipocyteSubcutaneousDonor2_CNhs11371_ctss_fwd AdipocyteSubcutaneousD2+ Adipocyte - subcutaneous, donor2_CNhs11371_11336-117F4_forward Regulation 
AdipocyteSubcutaneousDonor1_CNhs12494_ctss_rev AdipocyteSubcutaneousD1- Adipocyte - subcutaneous, donor1_CNhs12494_11259-116F8_reverse Regulation 
AdipocyteSubcutaneousDonor1_CNhs12494_ctss_fwd AdipocyteSubcutaneousD1+ Adipocyte - subcutaneous, donor1_CNhs12494_11259-116F8_forward Regulation 
AdipocytePerirenalDonor1_CNhs12069_ctss_rev AdipocytePerirenalD1- Adipocyte - perirenal, donor1_CNhs12069_11476-119C9_reverse Regulation 
AdipocytePerirenalDonor1_CNhs12069_ctss_fwd AdipocytePerirenalD1+ Adipocyte - perirenal, donor1_CNhs12069_11476-119C9_forward Regulation 
AdipocyteOmentalDonor3_CNhs12068_ctss_rev AdipocyteOmentalD3- Adipocyte - omental, donor3_CNhs12068_11475-119C8_reverse Regulation 
AdipocyteOmentalDonor3_CNhs12068_ctss_fwd AdipocyteOmentalD3+ Adipocyte - omental, donor3_CNhs12068_11475-119C8_forward Regulation 
AdipocyteOmentalDonor2_CNhs12067_ctss_rev AdipocyteOmentalD2- Adipocyte - omental, donor2_CNhs12067_11474-119C7_reverse Regulation 
AdipocyteOmentalDonor2_CNhs12067_ctss_fwd AdipocyteOmentalD2+ Adipocyte - omental, donor2_CNhs12067_11474-119C7_forward Regulation 
AdipocyteOmentalDonor1_CNhs11054_ctss_rev AdipocyteOmentalD1- Adipocyte - omental, donor1_CNhs11054_11473-119C6_reverse Regulation 
AdipocyteOmentalDonor1_CNhs11054_ctss_fwd AdipocyteOmentalD1+ Adipocyte - omental, donor1_CNhs11054_11473-119C6_forward Regulation 
AdipocyteBreastDonor2_CNhs11969_ctss_rev AdipocyteBreastD2- Adipocyte - breast, donor2_CNhs11969_11327-117E4_reverse Regulation 
AdipocyteBreastDonor2_CNhs11969_ctss_fwd AdipocyteBreastD2+ Adipocyte - breast, donor2_CNhs11969_11327-117E4_forward Regulation 
AdipocyteBreastDonor1_CNhs11051_ctss_rev AdipocyteBreastD1- Adipocyte - breast, donor1_CNhs11051_11376-118A8_reverse Regulation 
AdipocyteBreastDonor1_CNhs11051_ctss_fwd AdipocyteBreastD1+ Adipocyte - breast, donor1_CNhs11051_11376-118A8_forward Regulation 
PromyelocytesmyelocytesPMCDonor3_CNhs12529_ctss_rev Promyelocytes/myelocytesPmcD3- promyelocytes/myelocytes PMC, donor3_CNhs12529_12140-128E7_reverse Regulation 
PromyelocytesmyelocytesPMCDonor3_CNhs12529_ctss_fwd Promyelocytes/myelocytesPmcD3+ promyelocytes/myelocytes PMC, donor3_CNhs12529_12140-128E7_forward Regulation 
PromyelocytesmyelocytesPMCDonor2_CNhs12525_ctss_rev Promyelocytes/myelocytesPmcD2- promyelocytes/myelocytes PMC, donor2_CNhs12525_12136-128E3_reverse Regulation 
PromyelocytesmyelocytesPMCDonor2_CNhs12525_ctss_fwd Promyelocytes/myelocytesPmcD2+ promyelocytes/myelocytes PMC, donor2_CNhs12525_12136-128E3_forward Regulation 
PromyelocytesmyelocytesPMCDonor1_CNhs12520_ctss_rev Promyelocytes/myelocytesPmcD1- promyelocytes/myelocytes PMC, donor1_CNhs12520_12132-128D8_reverse Regulation 
PromyelocytesmyelocytesPMCDonor1_CNhs12520_ctss_fwd Promyelocytes/myelocytesPmcD1+ promyelocytes/myelocytes PMC, donor1_CNhs12520_12132-128D8_forward Regulation 
NeutrophilPMNDonor3_CNhs12530_ctss_rev NeutrophilPmnD3- neutrophil PMN, donor3_CNhs12530_12141-128E8_reverse Regulation 
NeutrophilPMNDonor3_CNhs12530_ctss_fwd NeutrophilPmnD3+ neutrophil PMN, donor3_CNhs12530_12141-128E8_forward Regulation 
NeutrophilPMNDonor2_CNhs12526_ctss_rev NeutrophilPmnD2- neutrophil PMN, donor2_CNhs12526_12137-128E4_reverse Regulation 
NeutrophilPMNDonor2_CNhs12526_ctss_fwd NeutrophilPmnD2+ neutrophil PMN, donor2_CNhs12526_12137-128E4_forward Regulation 
NeutrophilPMNDonor1_CNhs12522_ctss_rev NeutrophilPmnD1- neutrophil PMN, donor1_CNhs12522_12133-128D9_reverse Regulation 
NeutrophilPMNDonor1_CNhs12522_ctss_fwd NeutrophilPmnD1+ neutrophil PMN, donor1_CNhs12522_12133-128D9_forward Regulation 
NasalEpithelialCellsDonor1TechRep2_CNhs12554_ctss_rev NasalEpithelialCellsD1Tr2- nasal epithelial cells, donor1, tech_rep2_CNhs12554_12226-129F3_reverse Regulation 
NasalEpithelialCellsDonor1TechRep2_CNhs12554_ctss_fwd NasalEpithelialCellsD1Tr2+ nasal epithelial cells, donor1, tech_rep2_CNhs12554_12226-129F3_forward Regulation 
MesothelialCellsDonor2_CNhs12197_ctss_rev MesothelialCellsD2- Mesothelial Cells, donor2_CNhs12197_12156-128G5_reverse Regulation 
MesothelialCellsDonor2_CNhs12197_ctss_fwd MesothelialCellsD2+ Mesothelial Cells, donor2_CNhs12197_12156-128G5_forward Regulation 
MatureAdipocyteDonor4_CNhs12562_ctss_rev MatureAdipocyteD4- mature adipocyte, donor4_CNhs12562_12234-129G2_reverse Regulation 
MatureAdipocyteDonor4_CNhs12562_ctss_fwd MatureAdipocyteD4+ mature adipocyte, donor4_CNhs12562_12234-129G2_forward Regulation 
MatureAdipocyteDonor3_CNhs12560_ctss_rev MatureAdipocyteD3- mature adipocyte, donor3_CNhs12560_12233-129G1_reverse Regulation 
MatureAdipocyteDonor3_CNhs12560_ctss_fwd MatureAdipocyteD3+ mature adipocyte, donor3_CNhs12560_12233-129G1_forward Regulation 
MatureAdipocyteDonor2_CNhs12559_ctss_rev MatureAdipocyteD2- mature adipocyte, donor2_CNhs12559_12232-129F9_reverse Regulation 
MatureAdipocyteDonor2_CNhs12559_ctss_fwd MatureAdipocyteD2+ mature adipocyte, donor2_CNhs12559_12232-129F9_forward Regulation 
MatureAdipocyteDonor1_CNhs12558_ctss_rev MatureAdipocyteD1- mature adipocyte, donor1_CNhs12558_12231-129F8_reverse Regulation 
MatureAdipocyteDonor1_CNhs12558_ctss_fwd MatureAdipocyteD1+ mature adipocyte, donor1_CNhs12558_12231-129F8_forward Regulation 
MallassezderivedCellsDonor1MZH3_CNhs12538_ctss_rev MallassezCellsD1- Mallassez-derived cells, donor1 (MZH3)_CNhs12538_12142-128E9_reverse Regulation 
MallassezderivedCellsDonor1MZH3_CNhs12538_ctss_fwd MallassezCellsD1+ Mallassez-derived cells, donor1 (MZH3)_CNhs12538_12142-128E9_forward Regulation 
GranulocyteMacrophageProgenitorDonor3_CNhs12528_ctss_rev GranulocyteMacrophageProgenitorD3- granulocyte macrophage progenitor, donor3_CNhs12528_12139-128E6_reverse Regulation 
GranulocyteMacrophageProgenitorDonor3_CNhs12528_ctss_fwd GranulocyteMacrophageProgenitorD3+ granulocyte macrophage progenitor, donor3_CNhs12528_12139-128E6_forward Regulation 
GranulocyteMacrophageProgenitorDonor2_CNhs12524_ctss_rev GranulocyteMacrophageProgenitorD2- granulocyte macrophage progenitor, donor2_CNhs12524_12135-128E2_reverse Regulation 
GranulocyteMacrophageProgenitorDonor2_CNhs12524_ctss_fwd GranulocyteMacrophageProgenitorD2+ granulocyte macrophage progenitor, donor2_CNhs12524_12135-128E2_forward Regulation 
GranulocyteMacrophageProgenitorDonor1_CNhs12519_ctss_rev GranulocyteMacrophageProgenitorD1- granulocyte macrophage progenitor, donor1_CNhs12519_12131-128D7_reverse Regulation 
GranulocyteMacrophageProgenitorDonor1_CNhs12519_ctss_fwd GranulocyteMacrophageProgenitorD1+ granulocyte macrophage progenitor, donor1_CNhs12519_12131-128D7_forward Regulation 
EosinophilsDonor3_CNhs12549_ctss_rev EosinophilsD3- Eosinophils, donor3_CNhs12549_12246-129H5_reverse Regulation 
EosinophilsDonor3_CNhs12549_ctss_fwd EosinophilsD3+ Eosinophils, donor3_CNhs12549_12246-129H5_forward Regulation 
EosinophilsDonor2_CNhs12548_ctss_rev EosinophilsD2- Eosinophils, donor2_CNhs12548_12245-129H4_reverse Regulation 
EosinophilsDonor2_CNhs12548_ctss_fwd EosinophilsD2+ Eosinophils, donor2_CNhs12548_12245-129H4_forward Regulation 
EosinophilsDonor1_CNhs12547_ctss_rev EosinophilsD1- Eosinophils, donor1_CNhs12547_12244-129H3_reverse Regulation 
EosinophilsDonor1_CNhs12547_ctss_fwd EosinophilsD1+ Eosinophils, donor1_CNhs12547_12244-129H3_forward Regulation 
DendriticCellsPlasmacytoidDonor3_CNhs12200_ctss_rev DendriticCellsPlasmacytoidD3- Dendritic Cells - plasmacytoid, donor3_CNhs12200_11385-118B8_reverse Regulation 
DendriticCellsPlasmacytoidDonor3_CNhs12200_ctss_fwd DendriticCellsPlasmacytoidD3+ Dendritic Cells - plasmacytoid, donor3_CNhs12200_11385-118B8_forward Regulation 
DendriticCellsPlasmacytoidDonor2_CNhs12196_ctss_rev DendriticCellsPlasmacytoidD2- Dendritic Cells - plasmacytoid, donor2_CNhs12196_11309-117C4_reverse Regulation 
DendriticCellsPlasmacytoidDonor2_CNhs12196_ctss_fwd DendriticCellsPlasmacytoidD2+ Dendritic Cells - plasmacytoid, donor2_CNhs12196_11309-117C4_forward Regulation 
DendriticCellsMonocyteImmatureDerivedDonor2_CNhs12195_ctss_rev DendriticCellsMonocyteImmatureD2- Dendritic Cells - monocyte immature derived, donor2_CNhs12195_11308-117C3_reverse Regulation 
DendriticCellsMonocyteImmatureDerivedDonor2_CNhs12195_ctss_fwd DendriticCellsMonocyteImmatureD2+ Dendritic Cells - monocyte immature derived, donor2_CNhs12195_11308-117C3_forward Regulation 
CommonMyeloidProgenitorCMPDonor2_CNhs12523_ctss_rev CommonMyeloidProgenitorCmpD2- common myeloid progenitor CMP, donor2_CNhs12523_12134-128E1_reverse Regulation 
CommonMyeloidProgenitorCMPDonor2_CNhs12523_ctss_fwd CommonMyeloidProgenitorCmpD2+ common myeloid progenitor CMP, donor2_CNhs12523_12134-128E1_forward Regulation 
CommonMyeloidProgenitorCMPDonor1_CNhs12518_ctss_rev CommonMyeloidProgenitorCmpD1- common myeloid progenitor CMP, donor1_CNhs12518_12130-128D6_reverse Regulation 
CommonMyeloidProgenitorCMPDonor1_CNhs12518_ctss_fwd CommonMyeloidProgenitorCmpD1+ common myeloid progenitor CMP, donor1_CNhs12518_12130-128D6_forward Regulation 
CD8TCellsPluriselectDonor090612Donation3_CNhs12187_ctss_rev Cd8+TCellsPluriD090612Dn3- CD8+ T Cells (pluriselect), donor090612, donation3_CNhs12187_12211-129D6_reverse Regulation 
CD8TCellsPluriselectDonor090612Donation3_CNhs12187_ctss_fwd Cd8+TCellsPluriD090612Dn3+ CD8+ T Cells (pluriselect), donor090612, donation3_CNhs12187_12211-129D6_forward Regulation 
CD8TCellsPluriselectDonor090612Donation2_CNhs12184_ctss_rev Cd8+TCellsPluriD090612Dn2- CD8+ T Cells (pluriselect), donor090612, donation2_CNhs12184_12206-129D1_reverse Regulation 
CD8TCellsPluriselectDonor090612Donation2_CNhs12184_ctss_fwd Cd8+TCellsPluriD090612Dn2+ CD8+ T Cells (pluriselect), donor090612, donation2_CNhs12184_12206-129D1_forward Regulation 
CD8TCellsPluriselectDonor090612Donation1_CNhs12182_ctss_rev Cd8+TCellsPluriD090612Dn1- CD8+ T Cells (pluriselect), donor090612, donation1_CNhs12182_12201-129C5_reverse Regulation 
CD8TCellsPluriselectDonor090612Donation1_CNhs12182_ctss_fwd Cd8+TCellsPluriD090612Dn1+ CD8+ T Cells (pluriselect), donor090612, donation1_CNhs12182_12201-129C5_forward Regulation 
CD8TCellsPluriselectDonor090325Donation2_CNhs12199_ctss_rev Cd8+TCellsPluriD090325Dn2- CD8+ T Cells (pluriselect), donor090325, donation2_CNhs12199_12171-128I2_reverse Regulation 
CD8TCellsPluriselectDonor090325Donation2_CNhs12199_ctss_fwd Cd8+TCellsPluriD090325Dn2+ CD8+ T Cells (pluriselect), donor090325, donation2_CNhs12199_12171-128I2_forward Regulation 
CD8TCellsPluriselectDonor090325Donation1_CNhs12201_ctss_rev Cd8+TCellsPluriD090325Dn1- CD8+ T Cells (pluriselect), donor090325, donation1_CNhs12201_12148-128F6_reverse Regulation 
CD8TCellsPluriselectDonor090325Donation1_CNhs12201_ctss_fwd Cd8+TCellsPluriD090325Dn1+ CD8+ T Cells (pluriselect), donor090325, donation1_CNhs12201_12148-128F6_forward Regulation 
CD8TCellsPluriselectDonor090309Donation3_CNhs12180_ctss_rev Cd8+TCellsPluriD090309Dn3- CD8+ T Cells (pluriselect), donor090309, donation3_CNhs12180_12196-129B9_reverse Regulation 
CD8TCellsPluriselectDonor090309Donation3_CNhs12180_ctss_fwd Cd8+TCellsPluriD090309Dn3+ CD8+ T Cells (pluriselect), donor090309, donation3_CNhs12180_12196-129B9_forward Regulation 
CD8TCellsPluriselectDonor090309Donation2_CNhs12178_ctss_rev Cd8+TCellsPluriD090309Dn2- CD8+ T Cells (pluriselect), donor090309, donation2_CNhs12178_12191-129B4_reverse Regulation 
CD8TCellsPluriselectDonor090309Donation2_CNhs12178_ctss_fwd Cd8+TCellsPluriD090309Dn2+ CD8+ T Cells (pluriselect), donor090309, donation2_CNhs12178_12191-129B4_forward Regulation 
CD8TCellsPluriselectDonor090309Donation1_CNhs12176_ctss_rev Cd8+TCellsPluriD090309Dn1- CD8+ T Cells (pluriselect), donor090309, donation1_CNhs12176_12186-129A8_reverse Regulation 
CD8TCellsPluriselectDonor090309Donation1_CNhs12176_ctss_fwd Cd8+TCellsPluriD090309Dn1+ CD8+ T Cells (pluriselect), donor090309, donation1_CNhs12176_12186-129A8_forward Regulation 
CD4CD25CD45RAMemoryConventionalTCellsDonor2_CNhs13237_ctss_rev Cd4+cd25-cd45ra-D2- CD4+CD25-CD45RA- memory conventional T cells, donor2_CNhs13237_11798-124C7_reverse Regulation 
CD4CD25CD45RAMemoryConventionalTCellsDonor2_CNhs13237_ctss_fwd Cd4+cd25-cd45ra-D2+ CD4+CD25-CD45RA- memory conventional T cells, donor2_CNhs13237_11798-124C7_forward Regulation 
CD4CD25CD45RAMemoryConventionalTCellsDonor1_CNhs13239_ctss_rev Cd4+cd25-cd45ra-D1- CD4+CD25-CD45RA- memory conventional T cells, donor1_CNhs13239_11786-124B4_reverse Regulation 
CD4CD25CD45RAMemoryConventionalTCellsDonor1_CNhs13239_ctss_fwd Cd4+cd25-cd45ra-D1+ CD4+CD25-CD45RA- memory conventional T cells, donor1_CNhs13239_11786-124B4_forward Regulation 
CD4CD25CD45RANaiveRegulatoryTCellsDonor2_CNhs13235_ctss_rev Cd4+cd25+cd45ra+D2- CD4+CD25+CD45RA+ naive regulatory T cells, donor2_CNhs13235_11796-124C5_reverse Regulation 
CD4CD25CD45RANaiveRegulatoryTCellsDonor2_CNhs13235_ctss_fwd Cd4+cd25+cd45ra+D2+ CD4+CD25+CD45RA+ naive regulatory T cells, donor2_CNhs13235_11796-124C5_forward Regulation 
CD4CD25CD45RANaiveRegulatoryTCellsDonor1_CNhs13238_ctss_rev Cd4+cd25+cd45ra+D1- CD4+CD25+CD45RA+ naive regulatory T cells, donor1_CNhs13238_11780-124A7_reverse Regulation 
CD4CD25CD45RANaiveRegulatoryTCellsDonor1_CNhs13238_ctss_fwd Cd4+cd25+cd45ra+D1+ CD4+CD25+CD45RA+ naive regulatory T cells, donor1_CNhs13238_11780-124A7_forward Regulation 
CD34StemCellsAdultBoneMarrowDerivedDonor1TechRep2_CNhs12553_ctss_rev Cd34+StemCellsAdultBoneMarrowD1Tr2- CD34+ stem cells - adult bone marrow derived, donor1, tech_rep2_CNhs12553_12225-129F2_reverse Regulation 
CD34StemCellsAdultBoneMarrowDerivedDonor1TechRep2_CNhs12553_ctss_fwd Cd34+StemCellsAdultBoneMarrowD1Tr2+ CD34+ stem cells - adult bone marrow derived, donor1, tech_rep2_CNhs12553_12225-129F2_forward Regulation 
CD34ProgenitorsDonor2_CNhs12205_ctss_rev Cd34+ProgenitorsD2- CD34+ Progenitors, donor2_CNhs12205_11625-122B5_reverse Regulation 
CD34ProgenitorsDonor2_CNhs12205_ctss_fwd Cd34+ProgenitorsD2+ CD34+ Progenitors, donor2_CNhs12205_11625-122B5_forward Regulation 
CD34ProgenitorsDonor1_CNhs13227_ctss_rev Cd34+ProgenitorsD1- CD34+ Progenitors, donor1_CNhs13227_11545-120B6_reverse Regulation 
CD34ProgenitorsDonor1_CNhs13227_ctss_fwd Cd34+ProgenitorsD1+ CD34+ Progenitors, donor1_CNhs13227_11545-120B6_forward Regulation 
CD19BCellsPluriselectDonor090612Donation3_CNhs12188_ctss_rev Cd19+BCellsPluriD090612Dn3- CD19+ B Cells (pluriselect), donor090612, donation3_CNhs12188_12214-129D9_reverse Regulation 
CD19BCellsPluriselectDonor090612Donation3_CNhs12188_ctss_fwd Cd19+BCellsPluriD090612Dn3+ CD19+ B Cells (pluriselect), donor090612, donation3_CNhs12188_12214-129D9_forward Regulation 
CD19BCellsPluriselectDonor090612Donation2_CNhs12185_ctss_rev Cd19+BCellsPluriD090612Dn2- CD19+ B Cells (pluriselect), donor090612, donation2_CNhs12185_12209-129D4_reverse Regulation 
CD19BCellsPluriselectDonor090612Donation2_CNhs12185_ctss_fwd Cd19+BCellsPluriD090612Dn2+ CD19+ B Cells (pluriselect), donor090612, donation2_CNhs12185_12209-129D4_forward Regulation 
CD19BCellsPluriselectDonor090612Donation1_CNhs12183_ctss_rev Cd19+BCellsPluriD090612Dn1- CD19+ B Cells (pluriselect), donor090612, donation1_CNhs12183_12204-129C8_reverse Regulation 
CD19BCellsPluriselectDonor090612Donation1_CNhs12183_ctss_fwd Cd19+BCellsPluriD090612Dn1+ CD19+ B Cells (pluriselect), donor090612, donation1_CNhs12183_12204-129C8_forward Regulation 
CD19BCellsPluriselectDonor090325Donation2_CNhs12175_ctss_rev Cd19+BCellsPluriD090325Dn2- CD19+ B Cells (pluriselect), donor090325, donation2_CNhs12175_12174-128I5_reverse Regulation 
CD19BCellsPluriselectDonor090325Donation2_CNhs12175_ctss_fwd Cd19+BCellsPluriD090325Dn2+ CD19+ B Cells (pluriselect), donor090325, donation2_CNhs12175_12174-128I5_forward Regulation 
CD19BCellsPluriselectDonor090325Donation1_CNhs12531_ctss_rev Cd19+BCellsPluriD090325Dn1- CD19+ B Cells (pluriselect), donor090325, donation1_CNhs12531_12151-128F9_reverse Regulation 
CD19BCellsPluriselectDonor090325Donation1_CNhs12531_ctss_fwd Cd19+BCellsPluriD090325Dn1+ CD19+ B Cells (pluriselect), donor090325, donation1_CNhs12531_12151-128F9_forward Regulation 
CD19BCellsPluriselectDonor090309Donation3_CNhs12181_ctss_rev Cd19+BCellsPluriD090309Dn3- CD19+ B Cells (pluriselect), donor090309, donation3_CNhs12181_12199-129C3_reverse Regulation 
CD19BCellsPluriselectDonor090309Donation3_CNhs12181_ctss_fwd Cd19+BCellsPluriD090309Dn3+ CD19+ B Cells (pluriselect), donor090309, donation3_CNhs12181_12199-129C3_forward Regulation 
CD19BCellsPluriselectDonor090309Donation2_CNhs12179_ctss_rev Cd19+BCellsPluriD090309Dn2- CD19+ B Cells (pluriselect), donor090309, donation2_CNhs12179_12194-129B7_reverse Regulation 
CD19BCellsPluriselectDonor090309Donation2_CNhs12179_ctss_fwd Cd19+BCellsPluriD090309Dn2+ CD19+ B Cells (pluriselect), donor090309, donation2_CNhs12179_12194-129B7_forward Regulation 
CD19BCellsPluriselectDonor090309Donation1_CNhs12177_ctss_rev Cd19+BCellsPluriD090309Dn1- CD19+ B Cells (pluriselect), donor090309, donation1_CNhs12177_12189-129B2_reverse Regulation 
CD19BCellsPluriselectDonor090309Donation1_CNhs12177_ctss_fwd Cd19+BCellsPluriD090309Dn1+ CD19+ B Cells (pluriselect), donor090309, donation1_CNhs12177_12189-129B2_forward Regulation 
CD14CD16MonocytesDonor1_CNhs13229_ctss_rev Cd14-cd16+MonocytesD1- CD14-CD16+ Monocytes, donor1_CNhs13229_11790-124B8_reverse Regulation 
CD14CD16MonocytesDonor1_CNhs13229_ctss_fwd Cd14-cd16+MonocytesD1+ CD14-CD16+ Monocytes, donor1_CNhs13229_11790-124B8_forward Regulation 
CD133StemCellsCordBloodDerivedPool1_CNhs12545_ctss_rev Cd133+StemCellsCordBloodPl1- CD133+ stem cells - cord blood derived, pool1_CNhs12545_12223-129E9_reverse Regulation 
CD133StemCellsCordBloodDerivedPool1_CNhs12545_ctss_fwd Cd133+StemCellsCordBloodPl1+ CD133+ stem cells - cord blood derived, pool1_CNhs12545_12223-129E9_forward Regulation 
CD133StemCellsAdultBoneMarrowDerivedPool1_CNhs12552_ctss_rev Cd133+StemCellsAdultBoneMarrowPl1- CD133+ stem cells - adult bone marrow derived, pool1_CNhs12552_12224-129F1_reverse Regulation 
CD133StemCellsAdultBoneMarrowDerivedPool1_CNhs12552_ctss_fwd Cd133+StemCellsAdultBoneMarrowPl1+ CD133+ stem cells - adult bone marrow derived, pool1_CNhs12552_12224-129F1_forward Regulation 
BasophilsDonor2_CNhs12563_ctss_rev BasophilsD2- Basophils, donor2_CNhs12563_12242-129H1_reverse Regulation 
BasophilsDonor2_CNhs12563_ctss_fwd BasophilsD2+ Basophils, donor2_CNhs12563_12242-129H1_forward Regulation 
BasophilsDonor1_CNhs12546_ctss_rev BasophilsD1- Basophils, donor1_CNhs12546_12241-129G9_reverse Regulation 
BasophilsDonor1_CNhs12546_ctss_fwd BasophilsD1+ Basophils, donor1_CNhs12546_12241-129G9_forward Regulation 
SmoothMuscleCellsAorticDonor0CytoplasmicFraction_CNhs12401_ctss_rev SmcAorticCytofracD0- Smooth Muscle Cells - Aortic, donor0 (cytoplasmic fraction)_CNhs12401_14313-155D2_reverse Regulation 
SmoothMuscleCellsAorticDonor0NuclearFraction_CNhs12402_ctss_rev SmcAorticCytofracD0- Smooth Muscle Cells - Aortic, donor0 (nuclear fraction)_CNhs12402_14314-155D3_reverse Regulation 
SmoothMuscleCellsAorticDonor0CytoplasmicFraction_CNhs12401_ctss_fwd SmcAorticCytofracD0+ Smooth Muscle Cells - Aortic, donor0 (cytoplasmic fraction)_CNhs12401_14313-155D2_forward Regulation 
SmoothMuscleCellsAorticDonor0NuclearFraction_CNhs12402_ctss_fwd SmcAorticCytofracD0+ Smooth Muscle Cells - Aortic, donor0 (nuclear fraction)_CNhs12402_14314-155D3_forward Regulation 
SmallAirwayEpithelialCellsDonor3CytoplasmicFraction_CNhs14563_ctss_rev SmallAirwayEpithelialCellsD3- Small Airway Epithelial Cells donor3 (cytoplasmic fraction)_CNhs14563_14316-155D5_reverse Regulation 
SmallAirwayEpithelialCellsDonor3NuclearFraction_CNhs12583_ctss_rev SmallAirwayEpithelialCellsD3- Small Airway Epithelial Cells, donor3 (nuclear fraction)_CNhs12583_14317-155D6_reverse Regulation 
SmallAirwayEpithelialCellsDonor3CytoplasmicFraction_CNhs14563_ctss_fwd SmallAirwayEpithelialCellsD3+ Small Airway Epithelial Cells donor3 (cytoplasmic fraction)_CNhs14563_14316-155D5_forward Regulation 
SmallAirwayEpithelialCellsDonor3NuclearFraction_CNhs12583_ctss_fwd SmallAirwayEpithelialCellsD3+ Small Airway Epithelial Cells, donor3 (nuclear fraction)_CNhs12583_14317-155D6_forward Regulation 
SmallAirwayEpithelialCellsDonor2NuclearFraction_CNhs14565_ctss_rev SmallAirwayEpithelialCellsD2- Small Airway Epithelial Cells donor2 (nuclear fraction)_CNhs14565_14335-155F6_reverse Regulation 
SmallAirwayEpithelialCellsDonor2CytoplasmicFraction_CNhs14564_ctss_rev SmallAirwayEpithelialCellsD2- Small Airway Epithelial Cells donor2 (cytoplasmic fraction)_CNhs14564_14334-155F5_reverse Regulation 
SmallAirwayEpithelialCellsDonor2NuclearFraction_CNhs14565_ctss_fwd SmallAirwayEpithelialCellsD2+ Small Airway Epithelial Cells donor2 (nuclear fraction)_CNhs14565_14335-155F6_forward Regulation 
SmallAirwayEpithelialCellsDonor2CytoplasmicFraction_CNhs14564_ctss_fwd SmallAirwayEpithelialCellsD2+ Small Airway Epithelial Cells donor2 (cytoplasmic fraction)_CNhs14564_14334-155F5_forward Regulation 
PreadipocyteBreastDonor2CytoplasmicFraction_CNhs14562_ctss_rev PreadipocyteBreastD2- Preadipocyte - breast donor2 (cytoplasmic fraction)_CNhs14562_14319-155D8_reverse Regulation 
PreadipocyteBreastDonor2NuclearFraction_CNhs12584_ctss_rev PreadipocyteBreastD2- Preadipocyte - breast, donor2 (nuclear fraction)_CNhs12584_14320-155D9_reverse Regulation 
PreadipocyteBreastDonor2CytoplasmicFraction_CNhs14562_ctss_fwd PreadipocyteBreastD2+ Preadipocyte - breast donor2 (cytoplasmic fraction)_CNhs14562_14319-155D8_forward Regulation 
PreadipocyteBreastDonor2NuclearFraction_CNhs12584_ctss_fwd PreadipocyteBreastD2+ Preadipocyte - breast, donor2 (nuclear fraction)_CNhs12584_14320-155D9_forward Regulation 
FibroblastSkinNormalDonor2CytoplasmicFraction_CNhs14561_ctss_rev FibrosSkinD2- Fibroblast - skin, normal donor2 (cytoplasmic fraction)_CNhs14561_14301-155B8_reverse Regulation 
FibroblastSkinNormalDonor2CytoplasmicFraction_CNhs14561_ctss_fwd FibrosSkinD2+ Fibroblast - skin, normal donor2 (cytoplasmic fraction)_CNhs14561_14301-155B8_forward Regulation 
FibroblastSkinNormalDonor1CytoplasmicFraction_CNhs14560_ctss_rev FibrosSkinD1- Fibroblast - skin, normal donor1 (cytoplasmic fraction)_CNhs14560_14322-155E2_reverse Regulation 
FibroblastSkinNormalDonor1CytoplasmicFraction_CNhs14560_ctss_fwd FibrosSkinD1+ Fibroblast - skin, normal donor1 (cytoplasmic fraction)_CNhs14560_14322-155E2_forward Regulation 
FibroblastSkinSpinalMuscularAtrophyDonor3NuclearFraction_CNhs12398_ctss_rev FibroSkinSpinalMuscularAtrophyNucfracD3- Fibroblast - skin spinal muscular atrophy, donor3 (nuclear fraction)_CNhs12398_14305-155C3_reverse Regulation 
FibroblastSkinSpinalMuscularAtrophyDonor3NuclearFraction_CNhs12398_ctss_fwd FibroSkinSpinalMuscularAtrophyNucfracD3+ Fibroblast - skin spinal muscular atrophy, donor3 (nuclear fraction)_CNhs12398_14305-155C3_forward Regulation 
FibroblastSkinSpinalMuscularAtrophyDonor1NuclearFraction_CNhs12404_ctss_rev FibroSkinSpinalMuscularAtrophyNucfracD1- Fibroblast - skin spinal muscular atrophy, donor1 (nuclear fraction)_CNhs12404_14326-155E6_reverse Regulation 
FibroblastSkinSpinalMuscularAtrophyDonor1NuclearFraction_CNhs12404_ctss_fwd FibroSkinSpinalMuscularAtrophyNucfracD1+ Fibroblast - skin spinal muscular atrophy, donor1 (nuclear fraction)_CNhs12404_14326-155E6_forward Regulation 
FibroblastSkinNormalDonor2NuclearFraction_CNhs12582_ctss_rev FibroSkinNormalNucfracD2- Fibroblast - skin normal, donor2 (nuclear fraction)_CNhs12582_14302-155B9_reverse Regulation 
FibroblastSkinNormalDonor2NuclearFraction_CNhs12582_ctss_fwd FibroSkinNormalNucfracD2+ Fibroblast - skin normal, donor2 (nuclear fraction)_CNhs12582_14302-155B9_forward Regulation 
FibroblastSkinNormalDonor1NuclearFraction_CNhs12403_ctss_rev FibroSkinNormalNucfracD1- Fibroblast - skin normal, donor1 (nuclear fraction)_CNhs12403_14323-155E3_reverse Regulation 
FibroblastSkinNormalDonor1NuclearFraction_CNhs12403_ctss_fwd FibroSkinNormalNucfracD1+ Fibroblast - skin normal, donor1 (nuclear fraction)_CNhs12403_14323-155E3_forward Regulation 
FibroblastSkinDystrophiaMyotonicaDonor3NuclearFraction_CNhs12399_ctss_rev FibroSkinDystrophiaMyotonicaNucfracD3- Fibroblast - skin dystrophia myotonica, donor3 (nuclear fraction)_CNhs12399_14308-155C6_reverse Regulation 
FibroblastSkinDystrophiaMyotonicaDonor3NuclearFraction_CNhs12399_ctss_fwd FibroSkinDystrophiaMyotonicaNucfracD3+ Fibroblast - skin dystrophia myotonica, donor3 (nuclear fraction)_CNhs12399_14308-155C6_forward Regulation 
FibroblastSkinDystrophiaMyotonicaDonor1NuclearFraction_CNhs12405_ctss_rev FibroSkinDystrophiaMyotonicaNucfracD1- Fibroblast - skin dystrophia myotonica, donor1 (nuclear fraction)_CNhs12405_14329-155E9_reverse Regulation 
FibroblastSkinDystrophiaMyotonicaDonor1NuclearFraction_CNhs12405_ctss_fwd FibroSkinDystrophiaMyotonicaNucfracD1+ Fibroblast - skin dystrophia myotonica, donor1 (nuclear fraction)_CNhs12405_14329-155E9_forward Regulation 
FibroblastAorticAdventitialDonor3NuclearFraction_CNhs12400_ctss_rev FibroAorticAdventitialD3- Fibroblast - Aortic Adventitial, donor3 (nuclear fraction)_CNhs12400_14311-155C9_reverse Regulation 
FibroblastAorticAdventitialDonor3CytoplasmicFraction_CNhs14559_ctss_rev FibroAorticAdventitialD3- Fibroblast - Aortic Adventitial donor3 (cytoplasmic fraction)_CNhs14559_14310-155C8_reverse Regulation 
FibroblastAorticAdventitialDonor3NuclearFraction_CNhs12400_ctss_fwd FibroAorticAdventitialD3+ Fibroblast - Aortic Adventitial, donor3 (nuclear fraction)_CNhs12400_14311-155C9_forward Regulation 
FibroblastAorticAdventitialDonor3CytoplasmicFraction_CNhs14559_ctss_fwd FibroAorticAdventitialD3+ Fibroblast - Aortic Adventitial donor3 (cytoplasmic fraction)_CNhs14559_14310-155C8_forward Regulation 
FibroblastAorticAdventitialDonor2NuclearFraction_CNhs12581_ctss_rev FibroAorticAdventitialD2- Fibroblast - Aortic Adventitial, donor2 (nuclear fraction)_CNhs12581_14332-155F3_reverse Regulation 
FibroblastAorticAdventitialDonor2CytoplasmicFraction_CNhs14558_ctss_rev FibroAorticAdventitialD2- Fibroblast - Aortic Adventitial donor2 (cytoplasmic fraction)_CNhs14558_14331-155F2_reverse Regulation 
FibroblastAorticAdventitialDonor2NuclearFraction_CNhs12581_ctss_fwd FibroAorticAdventitialD2+ Fibroblast - Aortic Adventitial, donor2 (nuclear fraction)_CNhs12581_14332-155F3_forward Regulation 
FibroblastAorticAdventitialDonor2CytoplasmicFraction_CNhs14558_ctss_fwd FibroAorticAdventitialD2+ Fibroblast - Aortic Adventitial donor2 (cytoplasmic fraction)_CNhs14558_14331-155F2_forward Regulation 
AcuteMyeloidLeukemiaFABM5CellLineTHP1CytoplasmicFraction_CNhs14556_ctss_rev Cl:THP-1cyto- acute myeloid leukemia (FAB M5) cell line:THP-1 (cytoplasmic fraction)_CNhs14556_14298-155B5_reverse Regulation 
AcuteMyeloidLeukemiaFABM5CellLineTHP1CytoplasmicFraction_CNhs14556_ctss_fwd Cl:THP-1cyto+ acute myeloid leukemia (FAB M5) cell line:THP-1 (cytoplasmic fraction)_CNhs14556_14298-155B5_forward Regulation 
Hep2CellsTreatedWithStreptococciStrainJRS4BiolRep3_CNhs13499_ctss_rev Hep2W/StreptococciJrs4Br3- Hep-2 cells treated with Streptococci strain JRS4, biol_rep3_CNhs13499_11896-125E6_reverse Regulation 
Hep2CellsTreatedWithStreptococciStrainJRS4BiolRep3_CNhs13499_ctss_fwd Hep2W/StreptococciJrs4Br3+ Hep-2 cells treated with Streptococci strain JRS4, biol_rep3_CNhs13499_11896-125E6_forward Regulation 
Hep2CellsTreatedWithStreptococciStrainJRS4BiolRep2_CNhs13498_ctss_rev Hep2W/StreptococciJrs4Br2- Hep-2 cells treated with Streptococci strain JRS4, biol_rep2_CNhs13498_11895-125E5_reverse Regulation 
Hep2CellsTreatedWithStreptococciStrainJRS4BiolRep2_CNhs13498_ctss_fwd Hep2W/StreptococciJrs4Br2+ Hep-2 cells treated with Streptococci strain JRS4, biol_rep2_CNhs13498_11895-125E5_forward Regulation 
Hep2CellsTreatedWithStreptococciStrainJRS4BiolRep1_CNhs13478_ctss_rev Hep2W/StreptococciJrs4Br1- Hep-2 cells treated with Streptococci strain JRS4, biol_rep1_CNhs13478_11894-125E4_reverse Regulation 
Hep2CellsTreatedWithStreptococciStrainJRS4BiolRep1_CNhs13478_ctss_fwd Hep2W/StreptococciJrs4Br1+ Hep-2 cells treated with Streptococci strain JRS4, biol_rep1_CNhs13478_11894-125E4_forward Regulation 
Hep2CellsTreatedWithStreptococciStrain5448BiolRep3_CNhs13497_ctss_rev Hep2W/Streptococci5448Br3- Hep-2 cells treated with Streptococci strain 5448, biol_rep3_CNhs13497_11892-125E2_reverse Regulation 
Hep2CellsTreatedWithStreptococciStrain5448BiolRep3_CNhs13497_ctss_fwd Hep2W/Streptococci5448Br3+ Hep-2 cells treated with Streptococci strain 5448, biol_rep3_CNhs13497_11892-125E2_forward Regulation 
Hep2CellsTreatedWithStreptococciStrain5448BiolRep2_CNhs13496_ctss_rev Hep2W/Streptococci5448Br2- Hep-2 cells treated with Streptococci strain 5448, biol_rep2_CNhs13496_11891-125E1_reverse Regulation 
Hep2CellsTreatedWithStreptococciStrain5448BiolRep2_CNhs13496_ctss_fwd Hep2W/Streptococci5448Br2+ Hep-2 cells treated with Streptococci strain 5448, biol_rep2_CNhs13496_11891-125E1_forward Regulation 
Hep2CellsTreatedWithStreptococciStrain5448BiolRep1_CNhs13477_ctss_rev Hep2W/Streptococci5448Br1- Hep-2 cells treated with Streptococci strain 5448, biol_rep1_CNhs13477_11890-125D9_reverse Regulation 
Hep2CellsTreatedWithStreptococciStrain5448BiolRep1_CNhs13477_ctss_fwd Hep2W/Streptococci5448Br1+ Hep-2 cells treated with Streptococci strain 5448, biol_rep1_CNhs13477_11890-125D9_forward Regulation 
Hep2CellsMockTreatedBiolRep3_CNhs13501_ctss_rev Hep2MockTreatedBr3- Hep-2 cells mock treated, biol_rep3_CNhs13501_11900-125F1_reverse Regulation 
Hep2CellsMockTreatedBiolRep3_CNhs13501_ctss_fwd Hep2MockTreatedBr3+ Hep-2 cells mock treated, biol_rep3_CNhs13501_11900-125F1_forward Regulation 
Hep2CellsMockTreatedBiolRep2_CNhs13500_ctss_rev Hep2MockTreatedBr2- Hep-2 cells mock treated, biol_rep2_CNhs13500_11899-125E9_reverse Regulation 
Hep2CellsMockTreatedBiolRep2_CNhs13500_ctss_fwd Hep2MockTreatedBr2+ Hep-2 cells mock treated, biol_rep2_CNhs13500_11899-125E9_forward Regulation 
Hep2CellsMockTreatedBiolRep1_CNhs13479_ctss_rev Hep2MockTreatedBr1- Hep-2 cells mock treated, biol_rep1_CNhs13479_11898-125E8_reverse Regulation 
Hep2CellsMockTreatedBiolRep1_CNhs13479_ctss_fwd Hep2MockTreatedBr1+ Hep-2 cells mock treated, biol_rep1_CNhs13479_11898-125E8_forward Regulation 
RetinoblastomaCellLineY79_CNhs11267_ctss_rev Cl:Y79- retinoblastoma cell line:Y79_CNhs11267_10475-106I7_reverse Regulation 
RetinoblastomaCellLineY79_CNhs11267_ctss_fwd Cl:Y79+ retinoblastoma cell line:Y79_CNhs11267_10475-106I7_forward Regulation 
XerodermaPigentosumBCellLineXPL17_CNhs11813_ctss_rev Cl:XPL17- xeroderma pigentosum b cell line:XPL 17_CNhs11813_10563-108A5_reverse Regulation 
XerodermaPigentosumBCellLineXPL17_CNhs11813_ctss_fwd Cl:XPL17+ xeroderma pigentosum b cell line:XPL 17_CNhs11813_10563-108A5_forward Regulation 
HereditarySpherocyticAnemiaCellLineWIL2NS_CNhs11891_ctss_rev Cl:WIL2-NS- hereditary spherocytic anemia cell line:WIL2-NS_CNhs11891_10808-111A7_reverse Regulation 
HereditarySpherocyticAnemiaCellLineWIL2NS_CNhs11891_ctss_fwd Cl:WIL2-NS+ hereditary spherocytic anemia cell line:WIL2-NS_CNhs11891_10808-111A7_forward Regulation 
SmallCellLungCarcinomaCellLineWAhT_CNhs11812_ctss_rev Cl:WA-hT- small cell lung carcinoma cell line:WA-hT_CNhs11812_10562-108A4_reverse Regulation 
SmallCellLungCarcinomaCellLineWAhT_CNhs11812_ctss_fwd Cl:WA-hT+ small cell lung carcinoma cell line:WA-hT_CNhs11812_10562-108A4_forward Regulation 
AcuteMyeloidLeukemiaFABM5CellLineU937DE4_CNhs13058_ctss_rev Cl:U-937DE-4- acute myeloid leukemia (FAB M5) cell line:U-937 DE-4_CNhs13058_10834-111D6_reverse Regulation 
AcuteMyeloidLeukemiaFABM5CellLineU937DE4_CNhs13058_ctss_fwd Cl:U-937DE-4+ acute myeloid leukemia (FAB M5) cell line:U-937 DE-4_CNhs13058_10834-111D6_forward Regulation 
ThymicCarcinomaCellLineTy82_CNhs14139_ctss_rev Cl:Ty-82- thymic carcinoma cell line:Ty-82_CNhs14139_10803-111A2_reverse Regulation 
ThymicCarcinomaCellLineTy82_CNhs14139_ctss_fwd Cl:Ty-82+ thymic carcinoma cell line:Ty-82_CNhs14139_10803-111A2_forward Regulation 
RenalCellCarcinomaCellLineTUHR10TKB_CNhs11257_ctss_rev Cl:TUHR10TKB- renal cell carcinoma cell line:TUHR10TKB_CNhs11257_10471-106I3_reverse Regulation 
RenalCellCarcinomaCellLineTUHR10TKB_CNhs11257_ctss_fwd Cl:TUHR10TKB+ renal cell carcinoma cell line:TUHR10TKB_CNhs11257_10471-106I3_forward Regulation 
RectalCancerCellLineTT1TKB_CNhs11255_ctss_rev Cl:TT1TKB- rectal cancer cell line:TT1TKB_CNhs11255_10469-106I1_reverse Regulation 
RectalCancerCellLineTT1TKB_CNhs11255_ctss_fwd Cl:TT1TKB+ rectal cancer cell line:TT1TKB_CNhs11255_10469-106I1_forward Regulation 
AstrocytomaCellLineTM31_CNhs10742_ctss_rev Cl:TM-31- astrocytoma cell line:TM-31_CNhs10742_10425-106D2_reverse Regulation 
AstrocytomaCellLineTM31_CNhs10742_ctss_fwd Cl:TM-31+ astrocytoma cell line:TM-31_CNhs10742_10425-106D2_forward Regulation 
AcuteMyeloidLeukemiaFABM5CellLineTHP1Thawed_CNhs10724_ctss_rev Cl:THP-1thawed- acute myeloid leukemia (FAB M5) cell line:THP-1 (thawed)_CNhs10724_10405-106A9_reverse Regulation 
AcuteMyeloidLeukemiaFABM5CellLineTHP1Thawed_CNhs10724_ctss_fwd Cl:THP-1thawed+ acute myeloid leukemia (FAB M5) cell line:THP-1 (thawed)_CNhs10724_10405-106A9_forward Regulation 
AcuteMyeloidLeukemiaFABM5CellLineTHP1Revived_CNhs10723_ctss_rev Cl:THP-1revived- acute myeloid leukemia (FAB M5) cell line:THP-1 (revived)_CNhs10723_10400-106A4_reverse Regulation 
AcuteMyeloidLeukemiaFABM5CellLineTHP1Revived_CNhs10723_ctss_fwd Cl:THP-1revived+ acute myeloid leukemia (FAB M5) cell line:THP-1 (revived)_CNhs10723_10400-106A4_forward Regulation 
AcuteMyeloidLeukemiaFABM5CellLineTHP1Fresh_CNhs10722_ctss_rev Cl:THP-1fresh- acute myeloid leukemia (FAB M5) cell line:THP-1 (fresh)_CNhs10722_10399-106A3_reverse Regulation 
AcuteMyeloidLeukemiaFABM5CellLineTHP1Fresh_CNhs10722_ctss_fwd Cl:THP-1fresh+ acute myeloid leukemia (FAB M5) cell line:THP-1 (fresh)_CNhs10722_10399-106A3_forward Regulation 
GallBladderCarcinomaCellLineTGBC2TKB_CNhs10733_ctss_rev Cl:TGBC2TKB- gall bladder carcinoma cell line:TGBC2TKB_CNhs10733_10415-106C1_reverse Regulation 
GallBladderCarcinomaCellLineTGBC2TKB_CNhs10733_ctss_fwd Cl:TGBC2TKB+ gall bladder carcinoma cell line:TGBC2TKB_CNhs10733_10415-106C1_forward Regulation 
PapillotubularAdenocarcinomaCellLineTGBC18TKB_CNhs10734_ctss_rev Cl:TGBC18TKB- papillotubular adenocarcinoma cell line:TGBC18TKB_CNhs10734_10417-106C3_reverse Regulation 
PapillotubularAdenocarcinomaCellLineTGBC18TKB_CNhs10734_ctss_fwd Cl:TGBC18TKB+ papillotubular adenocarcinoma cell line:TGBC18TKB_CNhs10734_10417-106C3_forward Regulation 
GallBladderCarcinomaCellLineTGBC14TKB_CNhs11256_ctss_rev Cl:TGBC14TKB- gall bladder carcinoma cell line:TGBC14TKB_CNhs11256_10470-106I2_reverse Regulation 
GallBladderCarcinomaCellLineTGBC14TKB_CNhs11256_ctss_fwd Cl:TGBC14TKB+ gall bladder carcinoma cell line:TGBC14TKB_CNhs11256_10470-106I2_forward Regulation 
BileDuctCarcinomaCellLineTFK1_CNhs11265_ctss_rev Cl:TFK-1- bile duct carcinoma cell line:TFK-1_CNhs11265_10496-107C1_reverse Regulation 
BileDuctCarcinomaCellLineTFK1_CNhs11265_ctss_fwd Cl:TFK-1+ bile duct carcinoma cell line:TFK-1_CNhs11265_10496-107C1_forward Regulation 
ClearCellCarcinomaCellLineTEN_CNhs11930_ctss_rev Cl:TEN- clear cell carcinoma cell line:TEN_CNhs11930_10636-108I6_reverse Regulation 
ClearCellCarcinomaCellLineTEN_CNhs11930_ctss_fwd Cl:TEN+ clear cell carcinoma cell line:TEN_CNhs11930_10636-108I6_forward Regulation 
BasalCellCarcinomaCellLineTE354_T_CNhs11932_ctss_rev Cl:TE354_T- basal cell carcinoma cell line:TE 354_T_CNhs11932_10702-109G9_reverse Regulation 
BasalCellCarcinomaCellLineTE354_T_CNhs11932_ctss_fwd Cl:TE354_T+ basal cell carcinoma cell line:TE 354_T_CNhs11932_10702-109G9_forward Regulation 
ThyroidCarcinomaCellLineTCO1_CNhs11872_ctss_rev Cl:TCO-1- thyroid carcinoma cell line:TCO-1_CNhs11872_10783-110G9_reverse Regulation 
ThyroidCarcinomaCellLineTCO1_CNhs11872_ctss_fwd Cl:TCO-1+ thyroid carcinoma cell line:TCO-1_CNhs11872_10783-110G9_forward Regulation 
ArgyrophilSmallCellCarcinomaCellLineTCYIK_CNhs11725_ctss_rev Cl:TC-YIK- argyrophil small cell carcinoma cell line:TC-YIK_CNhs11725_10589-108D4_reverse Regulation 
ArgyrophilSmallCellCarcinomaCellLineTCYIK_CNhs11725_ctss_fwd Cl:TC-YIK+ argyrophil small cell carcinoma cell line:TC-YIK_CNhs11725_10589-108D4_forward Regulation 
NeuroectodermalTumorCellLineTASK1_CNhs11866_ctss_rev Cl:TASK1- neuroectodermal tumor cell line:TASK1_CNhs11866_10774-110F9_reverse Regulation 
NeuroectodermalTumorCellLineTASK1_CNhs11866_ctss_fwd Cl:TASK1+ neuroectodermal tumor cell line:TASK1_CNhs11866_10774-110F9_forward Regulation 
GlioblastomaCellLineT98G_CNhs11272_ctss_rev Cl:T98G- glioblastoma cell line:T98G_CNhs11272_10485-107A8_reverse Regulation 
GlioblastomaCellLineT98G_CNhs11272_ctss_fwd Cl:T98G+ glioblastoma cell line:T98G_CNhs11272_10485-107A8_forward Regulation 
SquamousCellCarcinomaCellLineT3M5_CNhs11739_ctss_rev Cl:T3M-5- squamous cell carcinoma cell line:T3M-5_CNhs11739_10616-108G4_reverse Regulation 
SquamousCellCarcinomaCellLineT3M5_CNhs11739_ctss_fwd Cl:T3M-5+ squamous cell carcinoma cell line:T3M-5_CNhs11739_10616-108G4_forward Regulation 
ChoriocarcinomaCellLineT3M3_CNhs11820_ctss_rev Cl:T3M-3- choriocarcinoma cell line:T3M-3_CNhs11820_10618-108G6_reverse Regulation 
ChoriocarcinomaCellLineT3M3_CNhs11820_ctss_fwd Cl:T3M-3+ choriocarcinoma cell line:T3M-3_CNhs11820_10618-108G6_forward Regulation 
LiposarcomaCellLineSW872_CNhs11851_ctss_rev Cl:SW872- liposarcoma cell line:SW 872_CNhs11851_10726-110A6_reverse Regulation 
LiposarcomaCellLineSW872_CNhs11851_ctss_fwd Cl:SW872+ liposarcoma cell line:SW 872_CNhs11851_10726-110A6_forward Regulation 
AlveolarCellCarcinomaCellLineSW1573_CNhs11838_ctss_rev Cl:SW1573- alveolar cell carcinoma cell line:SW 1573_CNhs11838_10708-109H6_reverse Regulation 
AlveolarCellCarcinomaCellLineSW1573_CNhs11838_ctss_fwd Cl:SW1573+ alveolar cell carcinoma cell line:SW 1573_CNhs11838_10708-109H6_forward Regulation 
ChondrosarcomaCellLineSW1353_CNhs11833_ctss_rev Cl:SW1353- chondrosarcoma cell line:SW 1353_CNhs11833_10700-109G7_reverse Regulation 
ChondrosarcomaCellLineSW1353_CNhs11833_ctss_fwd Cl:SW1353+ chondrosarcoma cell line:SW 1353_CNhs11833_10700-109G7_forward Regulation 
AdrenalCortexAdenocarcinomaCellLineSW13_CNhs11893_ctss_rev Cl:SW-13- adrenal cortex adenocarcinoma cell line:SW-13_CNhs11893_10810-111A9_reverse Regulation 
AdrenalCortexAdenocarcinomaCellLineSW13_CNhs11893_ctss_fwd Cl:SW-13+ adrenal cortex adenocarcinoma cell line:SW-13_CNhs11893_10810-111A9_forward Regulation 
TubularAdenocarcinomaCellLineSUIT2_CNhs11883_ctss_rev Cl:SUIT-2- tubular adenocarcinoma cell line:SUIT-2_CNhs11883_10797-110I5_reverse Regulation 
TubularAdenocarcinomaCellLineSUIT2_CNhs11883_ctss_fwd Cl:SUIT-2+ tubular adenocarcinoma cell line:SUIT-2_CNhs11883_10797-110I5_forward Regulation 
BoneMarrowStromalCellLineStromaNKtert_CNhs11931_ctss_rev Cl:StromaNKtert- bone marrow stromal cell line:StromaNKtert_CNhs11931_10686-109F2_reverse Regulation 
BoneMarrowStromalCellLineStromaNKtert_CNhs11931_ctss_fwd Cl:StromaNKtert+ bone marrow stromal cell line:StromaNKtert_CNhs11931_10686-109F2_forward Regulation 
LensEpithelialCellLineSRA0104_CNhs11750_ctss_rev Cl:SRA01/04- lens epithelial cell line:SRA 01/04_CNhs11750_10647-109A8_reverse Regulation 
LensEpithelialCellLineSRA0104_CNhs11750_ctss_fwd Cl:SRA01/04+ lens epithelial cell line:SRA 01/04_CNhs11750_10647-109A8_forward Regulation 
PleomorphicHepatocellularCarcinomaCellLineSNU387_CNhs11933_ctss_rev Cl:SNU-387- pleomorphic hepatocellular carcinoma cell line:SNU-387_CNhs11933_10706-109H4_reverse Regulation 
PleomorphicHepatocellularCarcinomaCellLineSNU387_CNhs11933_ctss_fwd Cl:SNU-387+ pleomorphic hepatocellular carcinoma cell line:SNU-387_CNhs11933_10706-109H4_forward Regulation 
SplenicLymphomaWithVillousLymphocytesCellLineSLVL_CNhs10741_ctss_rev Cl:SLVL- splenic lymphoma with villous lymphocytes cell line:SLVL_CNhs10741_10424-106D1_reverse Regulation 
SplenicLymphomaWithVillousLymphocytesCellLineSLVL_CNhs10741_ctss_fwd Cl:SLVL+ splenic lymphoma with villous lymphocytes cell line:SLVL_CNhs10741_10424-106D1_forward Regulation 
ChronicLymphocyticLeukemiaTCLLCellLineSKW3_CNhs11714_ctss_rev Cl:SKW-3- chronic lymphocytic leukemia (T-CLL) cell line:SKW-3_CNhs11714_10416-106C2_reverse Regulation 
ChronicLymphocyticLeukemiaTCLLCellLineSKW3_CNhs11714_ctss_fwd Cl:SKW-3+ chronic lymphocytic leukemia (T-CLL) cell line:SKW-3_CNhs11714_10416-106C2_forward Regulation 
MyelodysplasticSyndromeCellLineSKM1_CNhs11934_ctss_rev Cl:SKM-1- myelodysplastic syndrome cell line:SKM-1_CNhs11934_10772-110F7_reverse Regulation 
MyelodysplasticSyndromeCellLineSKM1_CNhs11934_ctss_fwd Cl:SKM-1+ myelodysplastic syndrome cell line:SKM-1_CNhs11934_10772-110F7_forward Regulation 
LargeCellNonkeratinizingSquamousCarcinomaCellLineSKGIISF_CNhs11825_ctss_rev Cl:SKG-II-SF- large cell non-keratinizing squamous carcinoma cell line:SKG-II-SF_CNhs11825_10692-109F8_reverse Regulation 
LargeCellNonkeratinizingSquamousCarcinomaCellLineSKGIISF_CNhs11825_ctss_fwd Cl:SKG-II-SF+ large cell non-keratinizing squamous carcinoma cell line:SKG-II-SF_CNhs11825_10692-109F8_forward Regulation 
CarcinoidCellLineSKPNDW_CNhs11846_ctss_rev Cl:SK-PN-DW- carcinoid cell line:SK-PN-DW_CNhs11846_10719-109I8_reverse Regulation 
CarcinoidCellLineSKPNDW_CNhs11846_ctss_fwd Cl:SK-PN-DW+ carcinoid cell line:SK-PN-DW_CNhs11846_10719-109I8_forward Regulation 
SerousAdenocarcinomaCellLineSKOV3RAfterCocultureWithSOC5702GBiolRep1_CNhs13508_ctss_rev Cl:SK-OV-3-RwithSOC-57-02-GBr1- serous adenocarcinoma cell line:SK-OV-3-R after co-culture with SOC-57-02-G, biol_rep1_CNhs13508_11843-124H7_reverse Regulation 
SerousAdenocarcinomaCellLineSKOV3RAfterCocultureWithSOC5702GBiolRep1_CNhs13508_ctss_fwd Cl:SK-OV-3-RwithSOC-57-02-GBr1+ serous adenocarcinoma cell line:SK-OV-3-R after co-culture with SOC-57-02-G, biol_rep1_CNhs13508_11843-124H7_forward Regulation 
SerousAdenocarcinomaCellLineSKOV3RBiolRep1_CNhs13099_ctss_rev Cl:SK-OV-3-RBr1- serous adenocarcinoma cell line:SK-OV-3-R, biol_rep1_CNhs13099_11841-124H5_reverse Regulation 
SerousAdenocarcinomaCellLineSKOV3RBiolRep1_CNhs13099_ctss_fwd Cl:SK-OV-3-RBr1+ serous adenocarcinoma cell line:SK-OV-3-R, biol_rep1_CNhs13099_11841-124H5_forward Regulation 
NeuroepitheliomaCellLineSKNMC_CNhs11853_ctss_rev Cl:SK-N-MC- neuroepithelioma cell line:SK-N-MC_CNhs11853_10728-110A8_reverse Regulation 
NeuroepitheliomaCellLineSKNMC_CNhs11853_ctss_fwd Cl:SK-N-MC+ neuroepithelioma cell line:SK-N-MC_CNhs11853_10728-110A8_forward Regulation 
ChoriocarcinomaCellLineSCH_CNhs11875_ctss_rev Cl:SCH- choriocarcinoma cell line:SCH_CNhs11875_10785-110H2_reverse Regulation 
ChoriocarcinomaCellLineSCH_CNhs11875_ctss_fwd Cl:SCH+ choriocarcinoma cell line:SCH_CNhs11875_10785-110H2_forward Regulation 
OralSquamousCellCarcinomaCellLineSAS_CNhs11810_ctss_rev Cl:SAS- oral squamous cell carcinoma cell line:SAS_CNhs11810_10544-107H4_reverse Regulation 
OralSquamousCellCarcinomaCellLineSAS_CNhs11810_ctss_fwd Cl:SAS+ oral squamous cell carcinoma cell line:SAS_CNhs11810_10544-107H4_forward Regulation 
AnaplasticSquamousCellCarcinomaCellLineRPMI2650_CNhs11889_ctss_rev Cl:RPMI2650- anaplastic squamous cell carcinoma cell line:RPMI 2650_CNhs11889_10805-111A4_reverse Regulation 
AnaplasticSquamousCellCarcinomaCellLineRPMI2650_CNhs11889_ctss_fwd Cl:RPMI2650+ anaplastic squamous cell carcinoma cell line:RPMI 2650_CNhs11889_10805-111A4_forward Regulation 
BCellLineRPMI1788_CNhs10744_ctss_rev Cl:RPMI1788- b cell line:RPMI1788_CNhs10744_10427-106D4_reverse Regulation 
BCellLineRPMI1788_CNhs10744_ctss_fwd Cl:RPMI1788+ b cell line:RPMI1788_CNhs10744_10427-106D4_forward Regulation 
RhabdomyosarcomaCellLineRMSYM_CNhs11269_ctss_rev Cl:RMS-YM- rhabdomyosarcoma cell line:RMS-YM_CNhs11269_10477-106I9_reverse Regulation 
RhabdomyosarcomaCellLineRMSYM_CNhs11269_ctss_fwd Cl:RMS-YM+ rhabdomyosarcoma cell line:RMS-YM_CNhs11269_10477-106I9_forward Regulation 
SquamousCellLungCarcinomaCellLineRERFLCAI_CNhs14240_ctss_rev Cl:RERF-LC-AI- squamous cell lung carcinoma cell line:RERF-LC-AI_CNhs14240_10501-107C6_reverse Regulation 
SquamousCellLungCarcinomaCellLineRERFLCAI_CNhs14240_ctss_fwd Cl:RERF-LC-AI+ squamous cell lung carcinoma cell line:RERF-LC-AI_CNhs14240_10501-107C6_forward Regulation 
BurkittsLymphomaCellLineRAJI_CNhs11268_ctss_rev Cl:RAJI- Burkitt's lymphoma cell line:RAJI_CNhs11268_10476-106I8_reverse Regulation 
BurkittsLymphomaCellLineRAJI_CNhs11268_ctss_fwd Cl:RAJI+ Burkitt's lymphoma cell line:RAJI_CNhs11268_10476-106I8_forward Regulation 
SomatostatinomaCellLineQGP1_CNhs11869_ctss_rev Cl:QGP-1- somatostatinoma cell line:QGP-1_CNhs11869_10781-110G7_reverse Regulation 
SomatostatinomaCellLineQGP1_CNhs11869_ctss_fwd Cl:QGP-1+ somatostatinoma cell line:QGP-1_CNhs11869_10781-110G7_forward Regulation 
MyelomaCellLinePCM6_CNhs11258_ctss_rev Cl:PCM6- myeloma cell line:PCM6_CNhs11258_10474-106I6_reverse Regulation 
MyelomaCellLinePCM6_CNhs11258_ctss_fwd Cl:PCM6+ myeloma cell line:PCM6_CNhs11258_10474-106I6_forward Regulation 
ProstateCancerCellLinePC3_CNhs11243_ctss_rev Cl:PC-3- prostate cancer cell line:PC-3_CNhs11243_10439-106E7_reverse Regulation 
ProstateCancerCellLinePC3_CNhs11243_ctss_fwd Cl:PC-3+ prostate cancer cell line:PC-3_CNhs11243_10439-106E7_forward Regulation 
LungAdenocarcinomaCellLinePC14_CNhs10726_ctss_rev Cl:PC-14- lung adenocarcinoma cell line:PC-14_CNhs10726_10408-106B3_reverse Regulation 
LungAdenocarcinomaCellLinePC14_CNhs10726_ctss_fwd Cl:PC-14+ lung adenocarcinoma cell line:PC-14_CNhs10726_10408-106B3_forward Regulation 
TeratocarcinomaCellLinePA1_CNhs11890_ctss_rev Cl:PA-1- teratocarcinoma cell line:PA-1_CNhs11890_10807-111A6_reverse Regulation 
TeratocarcinomaCellLinePA1_CNhs11890_ctss_fwd Cl:PA-1+ teratocarcinoma cell line:PA-1_CNhs11890_10807-111A6_forward Regulation 
AcuteMyeloidLeukemiaFABM5CellLineP31FUJ_CNhs13051_ctss_rev Cl:P31/FUJ- acute myeloid leukemia (FAB M5) cell line:P31/FUJ_CNhs13051_10770-110F5_reverse Regulation 
AcuteMyeloidLeukemiaFABM5CellLineP31FUJ_CNhs13051_ctss_fwd Cl:P31/FUJ+ acute myeloid leukemia (FAB M5) cell line:P31/FUJ_CNhs13051_10770-110F5_forward Regulation 
NonTNonBAcuteLymphoblasticLeukemiaALLCellLineP30OHK_CNhs10747_ctss_rev Cl:P30/OHK- non T non B acute lymphoblastic leukemia (ALL) cell line:P30/OHK_CNhs10747_10430-106D7_reverse Regulation 
NonTNonBAcuteLymphoblasticLeukemiaALLCellLineP30OHK_CNhs10747_ctss_fwd Cl:P30/OHK+ non T non B acute lymphoblastic leukemia (ALL) cell line:P30/OHK_CNhs10747_10430-106D7_forward Regulation 
RenalCellCarcinomaCellLineOSRC2_CNhs10729_ctss_rev Cl:OS-RC-2- renal cell carcinoma cell line:OS-RC-2_CNhs10729_10411-106B6_reverse Regulation 
RenalCellCarcinomaCellLineOSRC2_CNhs10729_ctss_fwd Cl:OS-RC-2+ renal cell carcinoma cell line:OS-RC-2_CNhs10729_10411-106B6_forward Regulation 
MedulloblastomaCellLineONS76_CNhs11861_ctss_rev Cl:ONS-76- medulloblastoma cell line:ONS-76_CNhs11861_10759-110E3_reverse Regulation 
MedulloblastomaCellLineONS76_CNhs11861_ctss_fwd Cl:ONS-76+ medulloblastoma cell line:ONS-76_CNhs11861_10759-110E3_forward Regulation 
MesotheliomaCellLineONE58_CNhs13075_ctss_rev Cl:ONE58- mesothelioma cell line:ONE58_CNhs13075_10858-111G3_reverse Regulation 
MesotheliomaCellLineONE58_CNhs13075_ctss_fwd Cl:ONE58+ mesothelioma cell line:ONE58_CNhs13075_10858-111G3_forward Regulation 
EndometrialStromalSarcomaCellLineOMC9_CNhs11249_ctss_rev Cl:OMC-9- endometrial stromal sarcoma cell line:OMC-9_CNhs11249_10448-106F7_reverse Regulation 
EndometrialStromalSarcomaCellLineOMC9_CNhs11249_ctss_fwd Cl:OMC-9+ endometrial stromal sarcoma cell line:OMC-9_CNhs11249_10448-106F7_forward Regulation 
EndometrialCarcinomaCellLineOMC2_CNhs11266_ctss_rev Cl:OMC-2- endometrial carcinoma cell line:OMC-2_CNhs11266_10497-107C2_reverse Regulation 
EndometrialCarcinomaCellLineOMC2_CNhs11266_ctss_fwd Cl:OMC-2+ endometrial carcinoma cell line:OMC-2_CNhs11266_10497-107C2_forward Regulation 
SignetRingCarcinomaCellLineNUGC4_CNhs11270_ctss_rev Cl:NUGC-4- signet ring carcinoma cell line:NUGC-4_CNhs11270_10483-107A6_reverse Regulation 
SignetRingCarcinomaCellLineNUGC4_CNhs11270_ctss_fwd Cl:NUGC-4+ signet ring carcinoma cell line:NUGC-4_CNhs11270_10483-107A6_forward Regulation 
PancreaticCarcinomaCellLineNORP1_CNhs11832_ctss_rev Cl:NOR-P1- pancreatic carcinoma cell line:NOR-P1_CNhs11832_10698-109G5_reverse Regulation 
PancreaticCarcinomaCellLineNORP1_CNhs11832_ctss_fwd Cl:NOR-P1+ pancreatic carcinoma cell line:NOR-P1_CNhs11832_10698-109G5_forward Regulation 
AcuteMyeloidLeukemiaFABM5CellLineNOMO1_CNhs13050_ctss_rev Cl:NOMO-1- acute myeloid leukemia (FAB M5) cell line:NOMO-1_CNhs13050_10764-110E8_reverse Regulation 
AcuteMyeloidLeukemiaFABM5CellLineNOMO1_CNhs13050_ctss_fwd Cl:NOMO-1+ acute myeloid leukemia (FAB M5) cell line:NOMO-1_CNhs13050_10764-110E8_forward Regulation 
MesotheliomaCellLineNo36_CNhs13074_ctss_rev Cl:No36- mesothelioma cell line:No36_CNhs13074_10857-111G2_reverse Regulation 
MesotheliomaCellLineNo36_CNhs13074_ctss_fwd Cl:No36+ mesothelioma cell line:No36_CNhs13074_10857-111G2_forward Regulation 
MyxofibrosarcomaCellLineNMFH1_CNhs11821_ctss_rev Cl:NMFH-1- myxofibrosarcoma cell line:NMFH-1_CNhs11821_10684-109E9_reverse Regulation 
MyxofibrosarcomaCellLineNMFH1_CNhs11821_ctss_fwd Cl:NMFH-1+ myxofibrosarcoma cell line:NMFH-1_CNhs11821_10684-109E9_forward Regulation 
AcuteMyeloidLeukemiaFABM2CellLineNKM1_CNhs11864_ctss_rev Cl:NKM-1- acute myeloid leukemia (FAB M2) cell line:NKM-1_CNhs11864_10765-110E9_reverse Regulation 
AcuteMyeloidLeukemiaFABM2CellLineNKM1_CNhs11864_ctss_fwd Cl:NKM-1+ acute myeloid leukemia (FAB M2) cell line:NKM-1_CNhs11864_10765-110E9_forward Regulation 
NeuroblastomaCellLineNH12_CNhs11811_ctss_rev Cl:NH-12- neuroblastoma cell line:NH-12_CNhs11811_10555-107I6_reverse Regulation 
NeuroblastomaCellLineNH12_CNhs11811_ctss_fwd Cl:NH-12+ neuroblastoma cell line:NH-12_CNhs11811_10555-107I6_forward Regulation 
TesticularGermCellEmbryonalCarcinomaCellLineNEC8_CNhs11726_ctss_rev Cl:NEC8- testicular germ cell embryonal carcinoma cell line:NEC8_CNhs11726_10590-108D5_reverse Regulation 
TesticularGermCellEmbryonalCarcinomaCellLineNEC8_CNhs11726_ctss_fwd Cl:NEC8+ testicular germ cell embryonal carcinoma cell line:NEC8_CNhs11726_10590-108D5_forward Regulation 
TesticularGermCellEmbryonalCarcinomaCellLineNEC15_CNhs12362_ctss_rev Cl:NEC15- testicular germ cell embryonal carcinoma cell line:NEC15_CNhs12362_10593-108D8_reverse Regulation 
TesticularGermCellEmbryonalCarcinomaCellLineNEC15_CNhs12362_ctss_fwd Cl:NEC15+ testicular germ cell embryonal carcinoma cell line:NEC15_CNhs12362_10593-108D8_forward Regulation 
TesticularGermCellEmbryonalCarcinomaCellLineNEC14_CNhs12351_ctss_rev Cl:NEC14- testicular germ cell embryonal carcinoma cell line:NEC14_CNhs12351_10591-108D6_reverse Regulation 
TesticularGermCellEmbryonalCarcinomaCellLineNEC14_CNhs12351_ctss_fwd Cl:NEC14+ testicular germ cell embryonal carcinoma cell line:NEC14_CNhs12351_10591-108D6_forward Regulation 
TeratocarcinomaCellLineNCRG1_CNhs11884_ctss_rev Cl:NCR-G1- teratocarcinoma cell line:NCR-G1_CNhs11884_10798-110I6_reverse Regulation 
TeratocarcinomaCellLineNCRG1_CNhs11884_ctss_fwd Cl:NCR-G1+ teratocarcinoma cell line:NCR-G1_CNhs11884_10798-110I6_forward Regulation 
SmallCellLungCarcinomaCellLineNCIH82_CNhs12809_ctss_rev Cl:NCI-H82- small cell lung carcinoma cell line:NCI-H82_CNhs12809_10842-111E5_reverse Regulation 
SmallCellLungCarcinomaCellLineNCIH82_CNhs12809_ctss_fwd Cl:NCI-H82+ small cell lung carcinoma cell line:NCI-H82_CNhs12809_10842-111E5_forward Regulation 
CarcinoidCellLineNCIH727_CNhs14244_ctss_rev Cl:NCI-H727- carcinoid cell line:NCI-H727_CNhs14244_10735-110B6_reverse Regulation 
CarcinoidCellLineNCIH727_CNhs14244_ctss_fwd Cl:NCI-H727+ carcinoid cell line:NCI-H727_CNhs14244_10735-110B6_forward Regulation 
BronchioalveolarCarcinomaCellLineNCIH650_CNhs14138_ctss_rev Cl:NCI-H650- bronchioalveolar carcinoma cell line:NCI-H650_CNhs14138_10715-109I4_reverse Regulation 
BronchioalveolarCarcinomaCellLineNCIH650_CNhs14138_ctss_fwd Cl:NCI-H650+ bronchioalveolar carcinoma cell line:NCI-H650_CNhs14138_10715-109I4_forward Regulation 
LargeCellLungCarcinomaCellLineNCIH460_CNhs12806_ctss_rev Cl:NCI-H460- large cell lung carcinoma cell line:NCI-H460_CNhs12806_10839-111E2_reverse Regulation 
LargeCellLungCarcinomaCellLineNCIH460_CNhs12806_ctss_fwd Cl:NCI-H460+ large cell lung carcinoma cell line:NCI-H460_CNhs12806_10839-111E2_forward Regulation 
LungAdenocarcinomaPapillaryCellLineNCIH441_CNhs14245_ctss_rev Cl:NCI-H441- lung adenocarcinoma, papillary cell line:NCI-H441_CNhs14245_10742-110C4_reverse Regulation 
LungAdenocarcinomaPapillaryCellLineNCIH441_CNhs14245_ctss_fwd Cl:NCI-H441+ lung adenocarcinoma, papillary cell line:NCI-H441_CNhs14245_10742-110C4_forward Regulation 
BronchioalveolarCarcinomaCellLineNCIH358_CNhs11840_ctss_rev Cl:NCI-H358- bronchioalveolar carcinoma cell line:NCI-H358_CNhs11840_10709-109H7_reverse Regulation 
BronchioalveolarCarcinomaCellLineNCIH358_CNhs11840_ctss_fwd Cl:NCI-H358+ bronchioalveolar carcinoma cell line:NCI-H358_CNhs11840_10709-109H7_forward Regulation 
MesotheliomaCellLineNCIH28_CNhs13061_ctss_rev Cl:NCI-H28- mesothelioma cell line:NCI-H28_CNhs13061_10845-111E8_reverse Regulation 
MesotheliomaCellLineNCIH28_CNhs13061_ctss_fwd Cl:NCI-H28+ mesothelioma cell line:NCI-H28_CNhs13061_10845-111E8_forward Regulation 
MesotheliomaCellLineNCIH2452_CNhs13064_ctss_rev Cl:NCI-H2452- mesothelioma cell line:NCI-H2452_CNhs13064_10848-111F2_reverse Regulation 
MesotheliomaCellLineNCIH2452_CNhs13064_ctss_fwd Cl:NCI-H2452+ mesothelioma cell line:NCI-H2452_CNhs13064_10848-111F2_forward Regulation 
MesotheliomaCellLineNCIH226_CNhs13062_ctss_rev Cl:NCI-H226- mesothelioma cell line:NCI-H226_CNhs13062_10846-111E9_reverse Regulation 
MesotheliomaCellLineNCIH226_CNhs13062_ctss_fwd Cl:NCI-H226+ mesothelioma cell line:NCI-H226_CNhs13062_10846-111E9_forward Regulation 
MesotheliomaCellLineNCIH2052_CNhs13063_ctss_rev Cl:NCI-H2052- mesothelioma cell line:NCI-H2052_CNhs13063_10847-111F1_reverse Regulation 
MesotheliomaCellLineNCIH2052_CNhs13063_ctss_fwd Cl:NCI-H2052+ mesothelioma cell line:NCI-H2052_CNhs13063_10847-111F1_forward Regulation 
CarcinoidCellLineNCIH1770_CNhs11834_ctss_rev Cl:NCI-H1770- carcinoid cell line:NCI-H1770_CNhs11834_10703-109H1_reverse Regulation 
CarcinoidCellLineNCIH1770_CNhs11834_ctss_fwd Cl:NCI-H1770+ carcinoid cell line:NCI-H1770_CNhs11834_10703-109H1_forward Regulation 
TeratocarcinomaCellLineNCCITA3_CNhs11878_ctss_rev Cl:NCC-IT-A3- teratocarcinoma cell line:NCC-IT-A3_CNhs11878_10790-110H7_reverse Regulation 
TeratocarcinomaCellLineNCCITA3_CNhs11878_ctss_fwd Cl:NCC-IT-A3+ teratocarcinoma cell line:NCC-IT-A3_CNhs11878_10790-110H7_forward Regulation 
NeuroblastomaCellLineNBsusSR_CNhs11818_ctss_rev Cl:NBsusSR- neuroblastoma cell line:NBsusSR_CNhs11818_10607-108F4_reverse Regulation 
NeuroblastomaCellLineNBsusSR_CNhs11818_ctss_fwd Cl:NBsusSR+ neuroblastoma cell line:NBsusSR_CNhs11818_10607-108F4_forward Regulation 
NeuroblastomaCellLineNB1_CNhs11284_ctss_rev Cl:NB-1- neuroblastoma cell line:NB-1_CNhs11284_10539-107G8_reverse Regulation 
NeuroblastomaCellLineNB1_CNhs11284_ctss_fwd Cl:NB-1+ neuroblastoma cell line:NB-1_CNhs11284_10539-107G8_forward Regulation 
AcuteLymphoblasticLeukemiaBALLCellLineNALM6_CNhs11282_ctss_rev Cl:NALM-6- acute lymphoblastic leukemia (B-ALL) cell line:NALM-6_CNhs11282_10534-107G3_reverse Regulation 
AcuteLymphoblasticLeukemiaBALLCellLineNALM6_CNhs11282_ctss_fwd Cl:NALM-6+ acute lymphoblastic leukemia (B-ALL) cell line:NALM-6_CNhs11282_10534-107G3_forward Regulation 
BiphenotypicBMyelomonocyticLeukemiaCellLineMV411_CNhs11845_ctss_rev Cl:MV-4-11- biphenotypic B myelomonocytic leukemia cell line:MV-4-11_CNhs11845_10718-109I7_reverse Regulation 
BiphenotypicBMyelomonocyticLeukemiaCellLineMV411_CNhs11845_ctss_fwd Cl:MV-4-11+ biphenotypic B myelomonocytic leukemia cell line:MV-4-11_CNhs11845_10718-109I7_forward Regulation 
MerkelCellCarcinomaCellLineMS1_CNhs12839_ctss_rev Cl:MS-1- merkel cell carcinoma cell line:MS-1_CNhs12839_10844-111E7_reverse Regulation 
MerkelCellCarcinomaCellLineMS1_CNhs12839_ctss_fwd Cl:MS-1+ merkel cell carcinoma cell line:MS-1_CNhs12839_10844-111E7_forward Regulation 
HairyCellLeukemiaCellLineMo_CNhs11843_ctss_rev Cl:Mo- hairy cell leukemia cell line:Mo_CNhs11843_10712-109I1_reverse Regulation 
HairyCellLeukemiaCellLineMo_CNhs11843_ctss_fwd Cl:Mo+ hairy cell leukemia cell line:Mo_CNhs11843_10712-109I1_forward Regulation 
LymphomaMalignantHairyBcellCellLineMLMA_CNhs11935_ctss_rev Cl:MLMA- lymphoma, malignant, hairy B-cell cell line:MLMA_CNhs11935_10775-110G1_reverse Regulation 
LymphomaMalignantHairyBcellCellLineMLMA_CNhs11935_ctss_fwd Cl:MLMA+ lymphoma, malignant, hairy B-cell cell line:MLMA_CNhs11935_10775-110G1_forward Regulation 
AcuteMyeloidLeukemiaFABM7CellLineMKPL1_CNhs11888_ctss_rev Cl:MKPL-1- acute myeloid leukemia (FAB M7) cell line:MKPL-1_CNhs11888_10802-111A1_reverse Regulation 
AcuteMyeloidLeukemiaFABM7CellLineMKPL1_CNhs11888_ctss_fwd Cl:MKPL-1+ acute myeloid leukemia (FAB M7) cell line:MKPL-1_CNhs11888_10802-111A1_forward Regulation 
GastricAdenocarcinomaCellLineMKN45_CNhs11819_ctss_rev Cl:MKN45- gastric adenocarcinoma cell line:MKN45_CNhs11819_10612-108F9_reverse Regulation 
GastricAdenocarcinomaCellLineMKN45_CNhs11819_ctss_fwd Cl:MKN45+ gastric adenocarcinoma cell line:MKN45_CNhs11819_10612-108F9_forward Regulation 
GastricAdenocarcinomaCellLineMKN1_CNhs11737_ctss_rev Cl:MKN1- gastric adenocarcinoma cell line:MKN1_CNhs11737_10614-108G2_reverse Regulation 
GastricAdenocarcinomaCellLineMKN1_CNhs11737_ctss_fwd Cl:MKN1+ gastric adenocarcinoma cell line:MKN1_CNhs11737_10614-108G2_forward Regulation 
MerkelCellCarcinomaCellLineMKL1_CNhs12838_ctss_rev Cl:MKL-1- merkel cell carcinoma cell line:MKL-1_CNhs12838_10843-111E6_reverse Regulation 
MerkelCellCarcinomaCellLineMKL1_CNhs12838_ctss_fwd Cl:MKL-1+ merkel cell carcinoma cell line:MKL-1_CNhs12838_10843-111E6_forward Regulation 
DuctalCellCarcinomaCellLineMIAPaca2_CNhs11259_ctss_rev Cl:MIAPaca2- ductal cell carcinoma cell line:MIA Paca2_CNhs11259_10488-107B2_reverse Regulation 
DuctalCellCarcinomaCellLineMIAPaca2_CNhs11259_ctss_fwd Cl:MIAPaca2+ ductal cell carcinoma cell line:MIA Paca2_CNhs11259_10488-107B2_forward Regulation 
MyxofibrosarcomaCellLineMFHino_CNhs11729_ctss_rev Cl:MFH-ino- myxofibrosarcoma cell line:MFH-ino_CNhs11729_10600-108E6_reverse Regulation 
MyxofibrosarcomaCellLineMFHino_CNhs11729_ctss_fwd Cl:MFH-ino+ myxofibrosarcoma cell line:MFH-ino_CNhs11729_10600-108E6_forward Regulation 
MesotheliomaCellLineMero95_CNhs13073_ctss_rev Cl:Mero-95- mesothelioma cell line:Mero-95_CNhs13073_10856-111G1_reverse Regulation 
MesotheliomaCellLineMero95_CNhs13073_ctss_fwd Cl:Mero-95+ mesothelioma cell line:Mero-95_CNhs13073_10856-111G1_forward Regulation 
MesotheliomaCellLineMero84_CNhs13072_ctss_rev Cl:Mero-84- mesothelioma cell line:Mero-84_CNhs13072_10855-111F9_reverse Regulation 
MesotheliomaCellLineMero84_CNhs13072_ctss_fwd Cl:Mero-84+ mesothelioma cell line:Mero-84_CNhs13072_10855-111F9_forward Regulation 
MesotheliomaCellLineMero83_CNhs13070_ctss_rev Cl:Mero-83- mesothelioma cell line:Mero-83_CNhs13070_10854-111F8_reverse Regulation 
MesotheliomaCellLineMero83_CNhs13070_ctss_fwd Cl:Mero-83+ mesothelioma cell line:Mero-83_CNhs13070_10854-111F8_forward Regulation 
MesotheliomaCellLineMero82_CNhs13069_ctss_rev Cl:Mero-82- mesothelioma cell line:Mero-82_CNhs13069_10853-111F7_reverse Regulation 
MesotheliomaCellLineMero82_CNhs13069_ctss_fwd Cl:Mero-82+ mesothelioma cell line:Mero-82_CNhs13069_10853-111F7_forward Regulation 
MesotheliomaCellLineMero48a_CNhs13068_ctss_rev Cl:Mero-48a- mesothelioma cell line:Mero-48a_CNhs13068_10852-111F6_reverse Regulation 
MesotheliomaCellLineMero48a_CNhs13068_ctss_fwd Cl:Mero-48a+ mesothelioma cell line:Mero-48a_CNhs13068_10852-111F6_forward Regulation 
MesotheliomaCellLineMero41_CNhs13067_ctss_rev Cl:Mero-41- mesothelioma cell line:Mero-41_CNhs13067_10851-111F5_reverse Regulation 
MesotheliomaCellLineMero41_CNhs13067_ctss_fwd Cl:Mero-41+ mesothelioma cell line:Mero-41_CNhs13067_10851-111F5_forward Regulation 
MesotheliomaCellLineMero25_CNhs13066_ctss_rev Cl:Mero-25- mesothelioma cell line:Mero-25_CNhs13066_10850-111F4_reverse Regulation 
MesotheliomaCellLineMero25_CNhs13066_ctss_fwd Cl:Mero-25+ mesothelioma cell line:Mero-25_CNhs13066_10850-111F4_forward Regulation 
MesotheliomaCellLineMero14TechRep1_CNhs13065_ctss_rev Cl:Mero-14Tr1- mesothelioma cell line:Mero-14, tech_rep1_CNhs13065_10849-111F3_reverse Regulation 
MesotheliomaCellLineMero14TechRep1_CNhs13065_ctss_fwd Cl:Mero-14Tr1+ mesothelioma cell line:Mero-14, tech_rep1_CNhs13065_10849-111F3_forward Regulation 
ChronicMyelogenousLeukemiaCMLCellLineMEGA2_CNhs11865_ctss_rev Cl:MEG-A2- chronic myelogenous leukemia (CML) cell line:MEG-A2_CNhs11865_10766-110F1_reverse Regulation 
ChronicMyelogenousLeukemiaCMLCellLineMEGA2_CNhs11865_ctss_fwd Cl:MEG-A2+ chronic myelogenous leukemia (CML) cell line:MEG-A2_CNhs11865_10766-110F1_forward Regulation 
LeukemiaChronicMegakaryoblasticCellLineMEG01_CNhs11859_ctss_rev Cl:MEG-01- leukemia, chronic megakaryoblastic cell line:MEG-01_CNhs11859_10752-110D5_reverse Regulation 
LeukemiaChronicMegakaryoblasticCellLineMEG01_CNhs11859_ctss_fwd Cl:MEG-01+ leukemia, chronic megakaryoblastic cell line:MEG-01_CNhs11859_10752-110D5_forward Regulation 
CervicalCancerCellLineME180_CNhs11289_ctss_rev Cl:ME-180- cervical cancer cell line:ME-180_CNhs11289_10553-107I4_reverse Regulation 
CervicalCancerCellLineME180_CNhs11289_ctss_fwd Cl:ME-180+ cervical cancer cell line:ME-180_CNhs11289_10553-107I4_forward Regulation 
BreastCarcinomaCellLineMDAMB453_CNhs10736_ctss_rev Cl:MDA-MB-453- breast carcinoma cell line:MDA-MB-453_CNhs10736_10419-106C5_reverse Regulation 
BreastCarcinomaCellLineMDAMB453_CNhs10736_ctss_fwd Cl:MDA-MB-453+ breast carcinoma cell line:MDA-MB-453_CNhs10736_10419-106C5_forward Regulation 
BreastCarcinomaCellLineMCF7_CNhs11943_ctss_rev Cl:MCF7- breast carcinoma cell line:MCF7_CNhs11943_10482-107A5_reverse Regulation 
BreastCarcinomaCellLineMCF7_CNhs11943_ctss_fwd Cl:MCF7+ breast carcinoma cell line:MCF7_CNhs11943_10482-107A5_forward Regulation 
MucinousCystadenocarcinomaCellLineMCAS_CNhs11873_ctss_rev Cl:MCAS- mucinous cystadenocarcinoma cell line:MCAS_CNhs11873_10784-110H1_reverse Regulation 
MucinousCystadenocarcinomaCellLineMCAS_CNhs11873_ctss_fwd Cl:MCAS+ mucinous cystadenocarcinoma cell line:MCAS_CNhs11873_10784-110H1_forward Regulation 
AcuteMyeloidLeukemiaFABM7CellLineMMOK_CNhs13049_ctss_rev Cl:M-MOK- acute myeloid leukemia (FAB M7) cell line:M-MOK_CNhs13049_10699-109G6_reverse Regulation 
AcuteMyeloidLeukemiaFABM7CellLineMMOK_CNhs13049_ctss_fwd Cl:M-MOK+ acute myeloid leukemia (FAB M7) cell line:M-MOK_CNhs13049_10699-109G6_forward Regulation 
GiantCellCarcinomaCellLineLu99B_CNhs10751_ctss_rev Cl:Lu99B- giant cell carcinoma cell line:Lu99B_CNhs10751_10433-106E1_reverse Regulation 
GiantCellCarcinomaCellLineLu99B_CNhs10751_ctss_fwd Cl:Lu99B+ giant cell carcinoma cell line:Lu99B_CNhs10751_10433-106E1_forward Regulation 
GiantCellCarcinomaCellLineLU65_CNhs11274_ctss_rev Cl:LU65- giant cell carcinoma cell line:LU65_CNhs11274_10487-107B1_reverse Regulation 
GiantCellCarcinomaCellLineLU65_CNhs11274_ctss_fwd Cl:LU65+ giant cell carcinoma cell line:LU65_CNhs11274_10487-107B1_forward Regulation 
SmallCellLungCarcinomaCellLineLK2_CNhs11285_ctss_rev Cl:LK-2- small cell lung carcinoma cell line:LK-2_CNhs11285_10541-107H1_reverse Regulation 
SmallCellLungCarcinomaCellLineLK2_CNhs11285_ctss_fwd Cl:LK-2+ small cell lung carcinoma cell line:LK-2_CNhs11285_10541-107H1_forward Regulation 
HepaticMesenchymalTumorCellLineLI90_CNhs11868_ctss_rev Cl:LI90- hepatic mesenchymal tumor cell line:LI90_CNhs11868_10778-110G4_reverse Regulation 
HepaticMesenchymalTumorCellLineLI90_CNhs11868_ctss_fwd Cl:LI90+ hepatic mesenchymal tumor cell line:LI90_CNhs11868_10778-110G4_forward Regulation 
HepatomaCellLineLi7_CNhs11271_ctss_rev Cl:Li-7- hepatoma cell line:Li-7_CNhs11271_10484-107A7_reverse Regulation 
HepatomaCellLineLi7_CNhs11271_ctss_fwd Cl:Li-7+ hepatoma cell line:Li-7_CNhs11271_10484-107A7_forward Regulation 
SquamousCellLungCarcinomaCellLineLC1F_CNhs14238_ctss_rev Cl:LC-1F- squamous cell lung carcinoma cell line:LC-1F_CNhs14238_10457-106G7_reverse Regulation 
SquamousCellLungCarcinomaCellLineLC1F_CNhs14238_ctss_fwd Cl:LC-1F+ squamous cell lung carcinoma cell line:LC-1F_CNhs14238_10457-106G7_forward Regulation 
RhabdomyosarcomaCellLineKYM1_CNhs11877_ctss_rev Cl:KYM-1- rhabdomyosarcoma cell line:KYM-1_CNhs11877_10787-110H4_reverse Regulation 
RhabdomyosarcomaCellLineKYM1_CNhs11877_ctss_fwd Cl:KYM-1+ rhabdomyosarcoma cell line:KYM-1_CNhs11877_10787-110H4_forward Regulation 
ChronicMyelogenousLeukemiaCellLineKU812_CNhs10727_ctss_rev Cl:KU812- chronic myelogenous leukemia cell line:KU812_CNhs10727_10409-106B4_reverse Regulation 
ChronicMyelogenousLeukemiaCellLineKU812_CNhs10727_ctss_fwd Cl:KU812+ chronic myelogenous leukemia cell line:KU812_CNhs10727_10409-106B4_forward Regulation 
PeripheralNeuroectodermalTumorCellLineKUSN_CNhs11830_ctss_rev Cl:KU-SN- peripheral neuroectodermal tumor cell line:KU-SN_CNhs11830_10697-109G4_reverse Regulation 
PeripheralNeuroectodermalTumorCellLineKUSN_CNhs11830_ctss_fwd Cl:KU-SN+ peripheral neuroectodermal tumor cell line:KU-SN_CNhs11830_10697-109G4_forward Regulation 
BronchialSquamousCellCarcinomaCellLineKNS62_CNhs11862_ctss_rev Cl:KNS-62- bronchial squamous cell carcinoma cell line:KNS-62_CNhs11862_10760-110E4_reverse Regulation 
BronchialSquamousCellCarcinomaCellLineKNS62_CNhs11862_ctss_fwd Cl:KNS-62+ bronchial squamous cell carcinoma cell line:KNS-62_CNhs11862_10760-110E4_forward Regulation 
LiposarcomaCellLineKMLS1_CNhs11870_ctss_rev Cl:KMLS-1- liposarcoma cell line:KMLS-1_CNhs11870_10782-110G8_reverse Regulation 
LiposarcomaCellLineKMLS1_CNhs11870_ctss_fwd Cl:KMLS-1+ liposarcoma cell line:KMLS-1_CNhs11870_10782-110G8_forward Regulation 
DuctalCellCarcinomaCellLineKLM1_CNhs11100_ctss_rev Cl:KLM-1- ductal cell carcinoma cell line:KLM-1_CNhs11100_10438-106E6_reverse Regulation 
DuctalCellCarcinomaCellLineKLM1_CNhs11100_ctss_fwd Cl:KLM-1+ ductal cell carcinoma cell line:KLM-1_CNhs11100_10438-106E6_forward Regulation 
AnaplasticLargeCellLymphomaCellLineKiJK_CNhs11881_ctss_rev Cl:Ki-JK- anaplastic large cell lymphoma cell line:Ki-JK_CNhs11881_10795-110I3_reverse Regulation 
AnaplasticLargeCellLymphomaCellLineKiJK_CNhs11881_ctss_fwd Cl:Ki-JK+ anaplastic large cell lymphoma cell line:Ki-JK_CNhs11881_10795-110I3_forward Regulation 
NKTCellLeukemiaCellLineKHYG1_CNhs11867_ctss_rev Cl:KHYG-1- NK T cell leukemia cell line:KHYG-1_CNhs11867_10777-110G3_reverse Regulation 
NKTCellLeukemiaCellLineKHYG1_CNhs11867_ctss_fwd Cl:KHYG-1+ NK T cell leukemia cell line:KHYG-1_CNhs11867_10777-110G3_forward Regulation 
ThyroidCarcinomaCellLineKHM5M_CNhs14140_ctss_rev Cl:KHM-5M- thyroid carcinoma cell line:KHM-5M_CNhs14140_10776-110G2_reverse Regulation 
ThyroidCarcinomaCellLineKHM5M_CNhs14140_ctss_fwd Cl:KHM-5M+ thyroid carcinoma cell line:KHM-5M_CNhs14140_10776-110G2_forward Regulation 
GranulosaCellTumorCellLineKGN_CNhs11740_ctss_rev Cl:KGN- granulosa cell tumor cell line:KGN_CNhs11740_10624-108H3_reverse Regulation 
GranulosaCellTumorCellLineKGN_CNhs11740_ctss_fwd Cl:KGN+ granulosa cell tumor cell line:KGN_CNhs11740_10624-108H3_forward Regulation 
AcuteMyeloidLeukemiaFABM0CellLineKG1_CNhs13053_ctss_rev Cl:KG-1- acute myeloid leukemia (FAB M0) cell line:KG-1_CNhs13053_10827-111C8_reverse Regulation 
AcuteMyeloidLeukemiaFABM0CellLineKG1_CNhs13053_ctss_fwd Cl:KG-1+ acute myeloid leukemia (FAB M0) cell line:KG-1_CNhs13053_10827-111C8_forward Regulation 
ChronicMyeloblasticLeukemiaCMLCellLineKCL22_CNhs11886_ctss_rev Cl:KCL-22- chronic myeloblastic leukemia (CML) cell line:KCL-22_CNhs11886_10801-110I9_reverse Regulation 
ChronicMyeloblasticLeukemiaCMLCellLineKCL22_CNhs11886_ctss_fwd Cl:KCL-22+ chronic myeloblastic leukemia (CML) cell line:KCL-22_CNhs11886_10801-110I9_forward Regulation 
SignetRingCarcinomaCellLineKatoIII_CNhs10753_ctss_rev Cl:KatoIII- signet ring carcinoma cell line:Kato III_CNhs10753_10436-106E4_reverse Regulation 
SignetRingCarcinomaCellLineKatoIII_CNhs10753_ctss_fwd Cl:KatoIII+ signet ring carcinoma cell line:Kato III_CNhs10753_10436-106E4_forward Regulation 
AcuteMyeloidLeukemiaFABM2CellLineKasumi6_CNhs13052_ctss_rev Cl:Kasumi-6- acute myeloid leukemia (FAB M2) cell line:Kasumi-6_CNhs13052_10792-110H9_reverse Regulation 
AcuteMyeloidLeukemiaFABM2CellLineKasumi6_CNhs13052_ctss_fwd Cl:Kasumi-6+ acute myeloid leukemia (FAB M2) cell line:Kasumi-6_CNhs13052_10792-110H9_forward Regulation 
AcuteMyeloidLeukemiaFABM2CellLineKasumi1_CNhs13502_ctss_rev Cl:Kasumi-1- acute myeloid leukemia (FAB M2) cell line:Kasumi-1_CNhs13502_10788-110H5_reverse Regulation 
AcuteMyeloidLeukemiaFABM2CellLineKasumi1_CNhs13502_ctss_fwd Cl:Kasumi-1+ acute myeloid leukemia (FAB M2) cell line:Kasumi-1_CNhs13502_10788-110H5_forward Regulation 
ChronicMyelogenousLeukemiaCellLineK562ENCODEBiolRep3_CNhs12336_ctss_rev Cl:K562Br3- chronic myelogenous leukemia cell line:K562 ENCODE, biol_rep3_CNhs12336_10826-111C7_reverse Regulation 
ChronicMyelogenousLeukemiaCellLineK562ENCODEBiolRep3_CNhs12336_ctss_fwd Cl:K562Br3+ chronic myelogenous leukemia cell line:K562 ENCODE, biol_rep3_CNhs12336_10826-111C7_forward Regulation 
ChronicMyelogenousLeukemiaCellLineK562ENCODEBiolRep2_CNhs12335_ctss_rev Cl:K562Br2- chronic myelogenous leukemia cell line:K562 ENCODE, biol_rep2_CNhs12335_10825-111C6_reverse Regulation 
ChronicMyelogenousLeukemiaCellLineK562ENCODEBiolRep2_CNhs12335_ctss_fwd Cl:K562Br2+ chronic myelogenous leukemia cell line:K562 ENCODE, biol_rep2_CNhs12335_10825-111C6_forward Regulation 
ChronicMyelogenousLeukemiaCellLineK562ENCODEBiolRep1_CNhs12334_ctss_rev Cl:K562Br1- chronic myelogenous leukemia cell line:K562 ENCODE, biol_rep1_CNhs12334_10824-111C5_reverse Regulation 
ChronicMyelogenousLeukemiaCellLineK562ENCODEBiolRep1_CNhs12334_ctss_fwd Cl:K562Br1+ chronic myelogenous leukemia cell line:K562 ENCODE, biol_rep1_CNhs12334_10824-111C5_forward Regulation 
ChronicMyelogenousLeukemiaCellLineK562_CNhs11250_ctss_rev Cl:K562- chronic myelogenous leukemia cell line:K562_CNhs11250_10454-106G4_reverse Regulation 
ChronicMyelogenousLeukemiaCellLineK562_CNhs11250_ctss_fwd Cl:K562+ chronic myelogenous leukemia cell line:K562_CNhs11250_10454-106G4_forward Regulation 
AcuteLymphoblasticLeukemiaTALLCellLineJurkat_CNhs11253_ctss_rev Cl:Jurkat- acute lymphoblastic leukemia (T-ALL) cell line:Jurkat_CNhs11253_10464-106H5_reverse Regulation 
AcuteLymphoblasticLeukemiaTALLCellLineJurkat_CNhs11253_ctss_fwd Cl:Jurkat+ acute lymphoblastic leukemia (T-ALL) cell line:Jurkat_CNhs11253_10464-106H5_forward Regulation 
TransitionalcellCarcinomaCellLineJMSU1_CNhs11261_ctss_rev Cl:JMSU1- transitional-cell carcinoma cell line:JMSU1_CNhs11261_10492-107B6_reverse Regulation 
TransitionalcellCarcinomaCellLineJMSU1_CNhs11261_ctss_fwd Cl:JMSU1+ transitional-cell carcinoma cell line:JMSU1_CNhs11261_10492-107B6_forward Regulation 
SquamousCellCarcinomaCellLineJHUSnk1_CNhs11749_ctss_rev Cl:JHUS-nk1- squamous cell carcinoma cell line:JHUS-nk1_CNhs11749_10646-109A7_reverse Regulation 
SquamousCellCarcinomaCellLineJHUSnk1_CNhs11749_ctss_fwd Cl:JHUS-nk1+ squamous cell carcinoma cell line:JHUS-nk1_CNhs11749_10646-109A7_forward Regulation 
EndometrioidAdenocarcinomaCellLineJHUEM1_CNhs11748_ctss_rev Cl:JHUEM-1- endometrioid adenocarcinoma cell line:JHUEM-1_CNhs11748_10643-109A4_reverse Regulation 
EndometrioidAdenocarcinomaCellLineJHUEM1_CNhs11748_ctss_fwd Cl:JHUEM-1+ endometrioid adenocarcinoma cell line:JHUEM-1_CNhs11748_10643-109A4_forward Regulation 
CarcinosarcomaCellLineJHUCS1_CNhs11747_ctss_rev Cl:JHUCS-1- carcinosarcoma cell line:JHUCS-1_CNhs11747_10642-109A3_reverse Regulation 
CarcinosarcomaCellLineJHUCS1_CNhs11747_ctss_fwd Cl:JHUCS-1+ carcinosarcoma cell line:JHUCS-1_CNhs11747_10642-109A3_forward Regulation 
SerousAdenocarcinomaCellLineJHOS2_CNhs11746_ctss_rev Cl:JHOS-2- serous adenocarcinoma cell line:JHOS-2_CNhs11746_10639-108I9_reverse Regulation 
SerousAdenocarcinomaCellLineJHOS2_CNhs11746_ctss_fwd Cl:JHOS-2+ serous adenocarcinoma cell line:JHOS-2_CNhs11746_10639-108I9_forward Regulation 
MucinousAdenocarcinomaCellLineJHOM1_CNhs11752_ctss_rev Cl:JHOM-1- mucinous adenocarcinoma cell line:JHOM-1_CNhs11752_10648-109A9_reverse Regulation 
MucinousAdenocarcinomaCellLineJHOM1_CNhs11752_ctss_fwd Cl:JHOM-1+ mucinous adenocarcinoma cell line:JHOM-1_CNhs11752_10648-109A9_forward Regulation 
ClearCellCarcinomaCellLineJHOC5_CNhs11745_ctss_rev Cl:JHOC-5- clear cell carcinoma cell line:JHOC-5_CNhs11745_10638-108I8_reverse Regulation 
ClearCellCarcinomaCellLineJHOC5_CNhs11745_ctss_fwd Cl:JHOC-5+ clear cell carcinoma cell line:JHOC-5_CNhs11745_10638-108I8_forward Regulation 
TesticularGermCellEmbryonalCarcinomaCellLineITOII_CNhs11876_ctss_rev Cl:ITO-II- testicular germ cell embryonal carcinoma cell line:ITO-II_CNhs11876_10786-110H3_reverse Regulation 
TesticularGermCellEmbryonalCarcinomaCellLineITOII_CNhs11876_ctss_fwd Cl:ITO-II+ testicular germ cell embryonal carcinoma cell line:ITO-II_CNhs11876_10786-110H3_forward Regulation 
AdenocarcinomaCellLineIM95m_CNhs11882_ctss_rev Cl:IM95m- adenocarcinoma cell line:IM95m_CNhs11882_10796-110I4_reverse Regulation 
AdenocarcinomaCellLineIM95m_CNhs11882_ctss_fwd Cl:IM95m+ adenocarcinoma cell line:IM95m_CNhs11882_10796-110I4_forward Regulation 
LargeCellLungCarcinomaCellLineIALM_CNhs11277_ctss_rev Cl:IA-LM- large cell lung carcinoma cell line:IA-LM_CNhs11277_10509-107D5_reverse Regulation 
LargeCellLungCarcinomaCellLineIALM_CNhs11277_ctss_fwd Cl:IA-LM+ large cell lung carcinoma cell line:IA-LM_CNhs11277_10509-107D5_forward Regulation 
AcuteMyeloidLeukemiaFABM1CellLineHYT1_CNhs13054_ctss_rev Cl:HYT-1- acute myeloid leukemia (FAB M1) cell line:HYT-1_CNhs13054_10828-111C9_reverse Regulation 
AcuteMyeloidLeukemiaFABM1CellLineHYT1_CNhs13054_ctss_fwd Cl:HYT-1+ acute myeloid leukemia (FAB M1) cell line:HYT-1_CNhs13054_10828-111C9_forward Regulation 
MycosisFungoidesTCellLymphomaCellLineHuT102TIB162_CNhs11858_ctss_rev Cl:HuT102TIB-162- mycosis fungoides, T cell lymphoma cell line:HuT 102 TIB-162_CNhs11858_10744-110C6_reverse Regulation 
MycosisFungoidesTCellLymphomaCellLineHuT102TIB162_CNhs11858_ctss_fwd Cl:HuT102TIB-162+ mycosis fungoides, T cell lymphoma cell line:HuT 102 TIB-162_CNhs11858_10744-110C6_forward Regulation 
HepatoblastomaCellLineHuH6_CNhs11742_ctss_rev Cl:HuH-6- hepatoblastoma cell line:HuH-6_CNhs11742_10633-108I3_reverse Regulation 
HepatoblastomaCellLineHuH6_CNhs11742_ctss_fwd Cl:HuH-6+ hepatoblastoma cell line:HuH-6_CNhs11742_10633-108I3_forward Regulation 
CholangiocellularCarcinomaCellLineHuH28_CNhs11283_ctss_rev Cl:HuH-28- cholangiocellular carcinoma cell line:HuH-28_CNhs11283_10536-107G5_reverse Regulation 
CholangiocellularCarcinomaCellLineHuH28_CNhs11283_ctss_fwd Cl:HuH-28+ cholangiocellular carcinoma cell line:HuH-28_CNhs11283_10536-107G5_forward Regulation 
BileDuctCarcinomaCellLineHuCCT1_CNhs10750_ctss_rev Cl:HuCCT1- bile duct carcinoma cell line:HuCCT1_CNhs10750_10432-106D9_reverse Regulation 
BileDuctCarcinomaCellLineHuCCT1_CNhs10750_ctss_fwd Cl:HuCCT1+ bile duct carcinoma cell line:HuCCT1_CNhs10750_10432-106D9_forward Regulation 
MesenchymalStemCellLineHu5E18_CNhs11718_ctss_rev Cl:Hu5/E18- mesenchymal stem cell line:Hu5/E18_CNhs11718_10568-108B1_reverse Regulation 
MesenchymalStemCellLineHu5E18_CNhs11718_ctss_fwd Cl:Hu5/E18+ mesenchymal stem cell line:Hu5/E18_CNhs11718_10568-108B1_forward Regulation 
SacrococcigealTeratomaCellLineHTST_CNhs11829_ctss_rev Cl:HTST- sacrococcigeal teratoma cell line:HTST_CNhs11829_10695-109G2_reverse Regulation 
SacrococcigealTeratomaCellLineHTST_CNhs11829_ctss_fwd Cl:HTST+ sacrococcigeal teratoma cell line:HTST_CNhs11829_10695-109G2_forward Regulation 
SerousCystadenocarcinomaCellLineHTOA_CNhs11827_ctss_rev Cl:HTOA- serous cystadenocarcinoma cell line:HTOA_CNhs11827_10693-109F9_reverse Regulation 
SerousCystadenocarcinomaCellLineHTOA_CNhs11827_ctss_fwd Cl:HTOA+ serous cystadenocarcinoma cell line:HTOA_CNhs11827_10693-109F9_forward Regulation 
MixedMullerianTumorCellLineHTMMT_CNhs11944_ctss_rev Cl:HTMMT- mixed mullerian tumor cell line:HTMMT_CNhs11944_10689-109F5_reverse Regulation 
MixedMullerianTumorCellLineHTMMT_CNhs11944_ctss_fwd Cl:HTMMT+ mixed mullerian tumor cell line:HTMMT_CNhs11944_10689-109F5_forward Regulation 
FibrosarcomaCellLineHT1080_CNhs11860_ctss_rev Cl:HT-1080- fibrosarcoma cell line:HT-1080_CNhs11860_10758-110E2_reverse Regulation 
FibrosarcomaCellLineHT1080_CNhs11860_ctss_fwd Cl:HT-1080+ fibrosarcoma cell line:HT-1080_CNhs11860_10758-110E2_forward Regulation 
MaxillarySinusTumorCellLineHSQ89_CNhs10732_ctss_rev Cl:HSQ-89- maxillary sinus tumor cell line:HSQ-89_CNhs10732_10414-106B9_reverse Regulation 
MaxillarySinusTumorCellLineHSQ89_CNhs10732_ctss_fwd Cl:HSQ-89+ maxillary sinus tumor cell line:HSQ-89_CNhs10732_10414-106B9_forward Regulation 
KrukenbergTumorCellLineHSKTC_CNhs11822_ctss_rev Cl:HSKTC- Krukenberg tumor cell line:HSKTC_CNhs11822_10687-109F3_reverse Regulation 
KrukenbergTumorCellLineHSKTC_CNhs11822_ctss_fwd Cl:HSKTC+ Krukenberg tumor cell line:HSKTC_CNhs11822_10687-109F3_forward Regulation 
OralSquamousCellCarcinomaCellLineHSC3_CNhs11717_ctss_rev Cl:HSC-3- oral squamous cell carcinoma cell line:HSC-3_CNhs11717_10545-107H5_reverse Regulation 
OralSquamousCellCarcinomaCellLineHSC3_CNhs11717_ctss_fwd Cl:HSC-3+ oral squamous cell carcinoma cell line:HSC-3_CNhs11717_10545-107H5_forward Regulation 
PagetoidSarcomaCellLineHs925_T_CNhs11856_ctss_rev Cl:Hs925_T- pagetoid sarcoma cell line:Hs 925_T_CNhs11856_10732-110B3_reverse Regulation 
PagetoidSarcomaCellLineHs925_T_CNhs11856_ctss_fwd Cl:Hs925_T+ pagetoid sarcoma cell line:Hs 925_T_CNhs11856_10732-110B3_forward Regulation 
EwingsSarcomaCellLineHs863_T_CNhs11836_ctss_rev Cl:Hs863_T- Ewing's sarcoma cell line:Hs 863_T_CNhs11836_10705-109H3_reverse Regulation 
EwingsSarcomaCellLineHs863_T_CNhs11836_ctss_fwd Cl:Hs863_T+ Ewing's sarcoma cell line:Hs 863_T_CNhs11836_10705-109H3_forward Regulation 
TransitionalCellCarcinomaCellLineHs769_T_CNhs11837_ctss_rev Cl:Hs769_T- transitional cell carcinoma cell line:Hs 769_T_CNhs11837_10707-109H5_reverse Regulation 
TransitionalCellCarcinomaCellLineHs769_T_CNhs11837_ctss_fwd Cl:Hs769_T+ transitional cell carcinoma cell line:Hs 769_T_CNhs11837_10707-109H5_forward Regulation 
OsteoclastomaCellLineHs706_T_CNhs11835_ctss_rev Cl:Hs706_T- osteoclastoma cell line:Hs 706_T_CNhs11835_10704-109H2_reverse Regulation 
OsteoclastomaCellLineHs706_T_CNhs11835_ctss_fwd Cl:Hs706_T+ osteoclastoma cell line:Hs 706_T_CNhs11835_10704-109H2_forward Regulation 
NeurofibromaCellLineHs53_T_CNhs11854_ctss_rev Cl:Hs53_T- neurofibroma cell line:Hs 53_T_CNhs11854_10729-110A9_reverse Regulation 
NeurofibromaCellLineHs53_T_CNhs11854_ctss_fwd Cl:Hs53_T+ neurofibroma cell line:Hs 53_T_CNhs11854_10729-110A9_forward Regulation 
SpindleCellSarcomaCellLineHs132_T_CNhs11857_ctss_rev Cl:Hs132_T- spindle cell sarcoma cell line:Hs 132_T_CNhs11857_10737-110B8_reverse Regulation 
SpindleCellSarcomaCellLineHs132_T_CNhs11857_ctss_fwd Cl:Hs132_T+ spindle cell sarcoma cell line:Hs 132_T_CNhs11857_10737-110B8_forward Regulation 
SynovialSarcomaCellLineHSSYII_CNhs11244_ctss_rev Cl:HS-SY-II- synovial sarcoma cell line:HS-SY-II_CNhs11244_10441-106E9_reverse Regulation 
SynovialSarcomaCellLineHSSYII_CNhs11244_ctss_fwd Cl:HS-SY-II+ synovial sarcoma cell line:HS-SY-II_CNhs11244_10441-106E9_forward Regulation 
SchwannomaCellLineHSPSSTechRep2_CNhs11245_ctss_rev Cl:HS-PSSTr2- schwannoma cell line:HS-PSS, tech_rep2_CNhs11245_10442-106F1_reverse Regulation 
SchwannomaCellLineHSPSSTechRep2_CNhs11245_ctss_fwd Cl:HS-PSSTr2+ schwannoma cell line:HS-PSS, tech_rep2_CNhs11245_10442-106F1_forward Regulation 
OsteosarcomaCellLineHSOs1_CNhs11290_ctss_rev Cl:HS-Os-1- osteosarcoma cell line:HS-Os-1_CNhs11290_10558-107I9_reverse Regulation 
OsteosarcomaCellLineHSOs1_CNhs11290_ctss_fwd Cl:HS-Os-1+ osteosarcoma cell line:HS-Os-1_CNhs11290_10558-107I9_forward Regulation 
EpithelioidSarcomaCellLineHSES2R_CNhs14239_ctss_rev Cl:HS-ES-2R- epithelioid sarcoma cell line:HS-ES-2R_CNhs14239_10495-107B9_reverse Regulation 
EpithelioidSarcomaCellLineHSES2R_CNhs14239_ctss_fwd Cl:HS-ES-2R+ epithelioid sarcoma cell line:HS-ES-2R_CNhs14239_10495-107B9_forward Regulation 
EpithelioidSarcomaCellLineHSES1_CNhs11247_ctss_rev Cl:HS-ES-1- epithelioid sarcoma cell line:HS-ES-1_CNhs11247_10443-106F2_reverse Regulation 
EpithelioidSarcomaCellLineHSES1_CNhs11247_ctss_fwd Cl:HS-ES-1+ epithelioid sarcoma cell line:HS-ES-1_CNhs11247_10443-106F2_forward Regulation 
AcuteLymphoblasticLeukemiaTALLCellLineHPBALL_CNhs10746_ctss_rev Cl:HPB-ALL- acute lymphoblastic leukemia (T-ALL) cell line:HPB-ALL_CNhs10746_10429-106D6_reverse Regulation 
AcuteLymphoblasticLeukemiaTALLCellLineHPBALL_CNhs10746_ctss_fwd Cl:HPB-ALL+ acute lymphoblastic leukemia (T-ALL) cell line:HPB-ALL_CNhs10746_10429-106D6_forward Regulation 
GlassyCellCarcinomaCellLineHOKUG_CNhs11824_ctss_rev Cl:HOKUG- glassy cell carcinoma cell line:HOKUG_CNhs11824_10688-109F4_reverse Regulation 
GlassyCellCarcinomaCellLineHOKUG_CNhs11824_ctss_fwd Cl:HOKUG+ glassy cell carcinoma cell line:HOKUG_CNhs11824_10688-109F4_forward Regulation 
OralSquamousCellCarcinomaCellLineHO1u1_CNhs11287_ctss_rev Cl:HO-1-u-1- oral squamous cell carcinoma cell line:HO-1-u-1_CNhs11287_10550-107I1_reverse Regulation 
OralSquamousCellCarcinomaCellLineHO1u1_CNhs11287_ctss_fwd Cl:HO-1-u-1+ oral squamous cell carcinoma cell line:HO-1-u-1_CNhs11287_10550-107I1_forward Regulation 
AcuteMyeloidLeukemiaFABM4CellLineHNT34_CNhs13504_ctss_rev Cl:HNT-34- acute myeloid leukemia (FAB M4) cell line:HNT-34_CNhs13504_10831-111D3_reverse Regulation 
AcuteMyeloidLeukemiaFABM4CellLineHNT34_CNhs13504_ctss_fwd Cl:HNT-34+ acute myeloid leukemia (FAB M4) cell line:HNT-34_CNhs13504_10831-111D3_forward Regulation 
AcuteMyeloidLeukemiaFABM3CellLineHL60_CNhs13055_ctss_rev Cl:HL60- acute myeloid leukemia (FAB M3) cell line:HL60_CNhs13055_10829-111D1_reverse Regulation 
AcuteMyeloidLeukemiaFABM3CellLineHL60_CNhs13055_ctss_fwd Cl:HL60+ acute myeloid leukemia (FAB M3) cell line:HL60_CNhs13055_10829-111D1_forward Regulation 
MeningiomaCellLineHKBMM_CNhs11945_ctss_rev Cl:HKBMM- meningioma cell line:HKBMM_CNhs11945_10691-109F7_reverse Regulation 
MeningiomaCellLineHKBMM_CNhs11945_ctss_fwd Cl:HKBMM+ meningioma cell line:HKBMM_CNhs11945_10691-109F7_forward Regulation 
KeratoacanthomaCellLineHKA1_CNhs11880_ctss_rev Cl:HKA-1- keratoacanthoma cell line:HKA-1_CNhs11880_10791-110H8_reverse Regulation 
KeratoacanthomaCellLineHKA1_CNhs11880_ctss_fwd Cl:HKA-1+ keratoacanthoma cell line:HKA-1_CNhs11880_10791-110H8_forward Regulation 
TridermalTeratomaCellLineHGRT_CNhs11828_ctss_rev Cl:HGRT- tridermal teratoma cell line:HGRT_CNhs11828_10694-109G1_reverse Regulation 
TridermalTeratomaCellLineHGRT_CNhs11828_ctss_fwd Cl:HGRT+ tridermal teratoma cell line:HGRT_CNhs11828_10694-109G1_forward Regulation 
WilmsTumorCellLineHFWT_CNhs11728_ctss_rev Cl:HFWT- Wilms' tumor cell line:HFWT_CNhs11728_10597-108E3_reverse Regulation 
WilmsTumorCellLineHFWT_CNhs11728_ctss_fwd Cl:HFWT+ Wilms' tumor cell line:HFWT_CNhs11728_10597-108E3_forward Regulation 
NormalEmbryonicPalatalMesenchymalCellLineHEPM_CNhs11894_ctss_rev Cl:HEPM- normal embryonic palatal mesenchymal cell line:HEPM_CNhs11894_10813-111B3_reverse Regulation 
NormalEmbryonicPalatalMesenchymalCellLineHEPM_CNhs11894_ctss_fwd Cl:HEPM+ normal embryonic palatal mesenchymal cell line:HEPM_CNhs11894_10813-111B3_forward Regulation 
HepatocellularCarcinomaCellLineHepG2ENCODEBiolRep3_CNhs12330_ctss_rev Cl:HepG2Br3- hepatocellular carcinoma cell line: HepG2 ENCODE, biol_rep3_CNhs12330_10820-111C1_reverse Regulation 
HepatocellularCarcinomaCellLineHepG2ENCODEBiolRep3_CNhs12330_ctss_fwd Cl:HepG2Br3+ hepatocellular carcinoma cell line: HepG2 ENCODE, biol_rep3_CNhs12330_10820-111C1_forward Regulation 
HepatocellularCarcinomaCellLineHepG2ENCODEBiolRep2_CNhs12329_ctss_rev Cl:HepG2Br2- hepatocellular carcinoma cell line: HepG2 ENCODE, biol_rep2_CNhs12329_10819-111B9_reverse Regulation 
HepatocellularCarcinomaCellLineHepG2ENCODEBiolRep2_CNhs12329_ctss_fwd Cl:HepG2Br2+ hepatocellular carcinoma cell line: HepG2 ENCODE, biol_rep2_CNhs12329_10819-111B9_forward Regulation 
HepatocellularCarcinomaCellLineHepG2ENCODEBiolRep1_CNhs12328_ctss_rev Cl:HepG2Br1- hepatocellular carcinoma cell line: HepG2 ENCODE, biol_rep1_CNhs12328_10818-111B8_reverse Regulation 
HepatocellularCarcinomaCellLineHepG2ENCODEBiolRep1_CNhs12328_ctss_fwd Cl:HepG2Br1+ hepatocellular carcinoma cell line: HepG2 ENCODE, biol_rep1_CNhs12328_10818-111B8_forward Regulation 
EpitheloidCarcinomaCellLineHelaS3ENCODEBiolRep3_CNhs12327_ctss_rev Cl:HelaS3Br3- epitheloid carcinoma cell line: HelaS3 ENCODE, biol_rep3_CNhs12327_10817-111B7_reverse Regulation 
EpitheloidCarcinomaCellLineHelaS3ENCODEBiolRep3_CNhs12327_ctss_fwd Cl:HelaS3Br3+ epitheloid carcinoma cell line: HelaS3 ENCODE, biol_rep3_CNhs12327_10817-111B7_forward Regulation 
EpitheloidCarcinomaCellLineHelaS3ENCODEBiolRep2_CNhs12326_ctss_rev Cl:HelaS3Br2- epitheloid carcinoma cell line: HelaS3 ENCODE, biol_rep2_CNhs12326_10816-111B6_reverse Regulation 
EpitheloidCarcinomaCellLineHelaS3ENCODEBiolRep2_CNhs12326_ctss_fwd Cl:HelaS3Br2+ epitheloid carcinoma cell line: HelaS3 ENCODE, biol_rep2_CNhs12326_10816-111B6_forward Regulation 
EpitheloidCarcinomaCellLineHelaS3ENCODEBiolRep1_CNhs12325_ctss_rev Cl:HelaS3Br1- epitheloid carcinoma cell line: HelaS3 ENCODE, biol_rep1_CNhs12325_10815-111B5_reverse Regulation 
EpitheloidCarcinomaCellLineHelaS3ENCODEBiolRep1_CNhs12325_ctss_fwd Cl:HelaS3Br1+ epitheloid carcinoma cell line: HelaS3 ENCODE, biol_rep1_CNhs12325_10815-111B5_forward Regulation 
EmbryonicKidneyCellLineHEK293SLAMUntreated_CNhs11046_ctss_rev Cl:HEK293/SLAMuntreated- embryonic kidney cell line: HEK293/SLAM untreated_CNhs11046_10450-106F9_reverse Regulation 
EmbryonicKidneyCellLineHEK293SLAMUntreated_CNhs11046_ctss_fwd Cl:HEK293/SLAMuntreated+ embryonic kidney cell line: HEK293/SLAM untreated_CNhs11046_10450-106F9_forward Regulation 
EmbryonicKidneyCellLineHEK293SLAMInfection24hr_CNhs11047_ctss_rev Cl:HEK293/SLAMinfection,24hr- embryonic kidney cell line: HEK293/SLAM infection, 24hr_CNhs11047_10451-106G1_reverse Regulation 
EmbryonicKidneyCellLineHEK293SLAMInfection24hr_CNhs11047_ctss_fwd Cl:HEK293/SLAMinfection,24hr+ embryonic kidney cell line: HEK293/SLAM infection, 24hr_CNhs11047_10451-106G1_forward Regulation 
HodgkinsLymphomaCellLineHDMar2_CNhs11715_ctss_rev Cl:HD-Mar2- Hodgkin's lymphoma cell line:HD-Mar2_CNhs11715_10435-106E3_reverse Regulation 
HodgkinsLymphomaCellLineHDMar2_CNhs11715_ctss_fwd Cl:HD-Mar2+ Hodgkin's lymphoma cell line:HD-Mar2_CNhs11715_10435-106E3_forward Regulation 
SmallCellCervicalCancerCellLineHCSC1_CNhs11885_ctss_rev Cl:HCSC-1- small cell cervical cancer cell line:HCSC-1_CNhs11885_10800-110I8_reverse Regulation 
SmallCellCervicalCancerCellLineHCSC1_CNhs11885_ctss_fwd Cl:HCSC-1+ small cell cervical cancer cell line:HCSC-1_CNhs11885_10800-110I8_forward Regulation 
AcantholyticSquamousCarcinomaCellLineHCC1806_CNhs11844_ctss_rev Cl:HCC1806- acantholytic squamous carcinoma cell line:HCC1806_CNhs11844_10717-109I6_reverse Regulation 
AcantholyticSquamousCarcinomaCellLineHCC1806_CNhs11844_ctss_fwd Cl:HCC1806+ acantholytic squamous carcinoma cell line:HCC1806_CNhs11844_10717-109I6_forward Regulation 
ExtraskeletalMyxoidChondrosarcomaCellLineHEMCSS_CNhs10728_ctss_rev Cl:H-EMC-SS- extraskeletal myxoid chondrosarcoma cell line:H-EMC-SS_CNhs10728_10410-106B5_reverse Regulation 
ExtraskeletalMyxoidChondrosarcomaCellLineHEMCSS_CNhs10728_ctss_fwd Cl:H-EMC-SS+ extraskeletal myxoid chondrosarcoma cell line:H-EMC-SS_CNhs10728_10410-106B5_forward Regulation 
GastricCancerCellLineGSS_CNhs14241_ctss_rev Cl:GSS- gastric cancer cell line:GSS_CNhs14241_10560-108A2_reverse Regulation 
GastricCancerCellLineGSS_CNhs14241_ctss_fwd Cl:GSS+ gastric cancer cell line:GSS_CNhs14241_10560-108A2_forward Regulation 
BLymphoblastoidCellLineGM12878ENCODEBiolRep3_CNhs12333_ctss_rev Cl:GM12878Br3- B lymphoblastoid cell line: GM12878 ENCODE, biol_rep3_CNhs12333_10823-111C4_reverse Regulation 
BLymphoblastoidCellLineGM12878ENCODEBiolRep3_CNhs12333_ctss_fwd Cl:GM12878Br3+ B lymphoblastoid cell line: GM12878 ENCODE, biol_rep3_CNhs12333_10823-111C4_forward Regulation 
BLymphoblastoidCellLineGM12878ENCODEBiolRep2_CNhs12332_ctss_rev Cl:GM12878Br2- B lymphoblastoid cell line: GM12878 ENCODE, biol_rep2_CNhs12332_10822-111C3_reverse Regulation 
BLymphoblastoidCellLineGM12878ENCODEBiolRep2_CNhs12332_ctss_fwd Cl:GM12878Br2+ B lymphoblastoid cell line: GM12878 ENCODE, biol_rep2_CNhs12332_10822-111C3_forward Regulation 
BLymphoblastoidCellLineGM12878ENCODEBiolRep1_CNhs12331_ctss_rev Cl:GM12878Br1- B lymphoblastoid cell line: GM12878 ENCODE, biol_rep1_CNhs12331_10821-111C2_reverse Regulation 
BLymphoblastoidCellLineGM12878ENCODEBiolRep1_CNhs12331_ctss_fwd Cl:GM12878Br1+ B lymphoblastoid cell line: GM12878 ENCODE, biol_rep1_CNhs12331_10821-111C2_forward Regulation 
GliomaCellLineGI1_CNhs10731_ctss_rev Cl:GI-1- glioma cell line:GI-1_CNhs10731_10413-106B8_reverse Regulation 
GliomaCellLineGI1_CNhs10731_ctss_fwd Cl:GI-1+ glioma cell line:GI-1_CNhs10731_10413-106B8_forward Regulation 
FibrousHistiocytomaCellLineGCTTIB223_CNhs11842_ctss_rev Cl:GCTTIB-223- fibrous histiocytoma cell line:GCT TIB-223_CNhs11842_10711-109H9_reverse Regulation 
FibrousHistiocytomaCellLineGCTTIB223_CNhs11842_ctss_fwd Cl:GCTTIB-223+ fibrous histiocytoma cell line:GCT TIB-223_CNhs11842_10711-109H9_forward Regulation 
LeiomyoblastomaCellLineG402_CNhs11848_ctss_rev Cl:G-402- leiomyoblastoma cell line:G-402_CNhs11848_10721-110A1_reverse Regulation 
LeiomyoblastomaCellLineG402_CNhs11848_ctss_fwd Cl:G-402+ leiomyoblastoma cell line:G-402_CNhs11848_10721-110A1_forward Regulation 
WilmsTumorCellLineG401_CNhs11892_ctss_rev Cl:G-401- Wilms' tumor cell line:G-401_CNhs11892_10809-111A8_reverse Regulation 
WilmsTumorCellLineG401_CNhs11892_ctss_fwd Cl:G-401+ Wilms' tumor cell line:G-401_CNhs11892_10809-111A8_forward Regulation 
MelanomaCellLineG361_CNhs11254_ctss_rev Cl:G-361- melanoma cell line:G-361_CNhs11254_10465-106H6_reverse Regulation 
MelanomaCellLineG361_CNhs11254_ctss_fwd Cl:G-361+ melanoma cell line:G-361_CNhs11254_10465-106H6_forward Regulation 
NeuroectodermalTumorCellLineFURPNT2_CNhs11753_ctss_rev Cl:FU-RPNT-2- neuroectodermal tumor cell line:FU-RPNT-2_CNhs11753_10663-109C6_reverse Regulation 
NeuroectodermalTumorCellLineFURPNT2_CNhs11753_ctss_fwd Cl:FU-RPNT-2+ neuroectodermal tumor cell line:FU-RPNT-2_CNhs11753_10663-109C6_forward Regulation 
NeuroectodermalTumorCellLineFURPNT1_CNhs11744_ctss_rev Cl:FU-RPNT-1- neuroectodermal tumor cell line:FU-RPNT-1_CNhs11744_10637-108I7_reverse Regulation 
NeuroectodermalTumorCellLineFURPNT1_CNhs11744_ctss_fwd Cl:FU-RPNT-1+ neuroectodermal tumor cell line:FU-RPNT-1_CNhs11744_10637-108I7_forward Regulation 
AcuteMyeloidLeukemiaFABM4CellLineFKH1_CNhs13503_ctss_rev Cl:FKH-1- acute myeloid leukemia (FAB M4) cell line:FKH-1_CNhs13503_10830-111D2_reverse Regulation 
AcuteMyeloidLeukemiaFABM4CellLineFKH1_CNhs13503_ctss_fwd Cl:FKH-1+ acute myeloid leukemia (FAB M4) cell line:FKH-1_CNhs13503_10830-111D2_forward Regulation 
NormalIntestinalEpithelialCellLineFHs74Int_CNhs11950_ctss_rev Cl:FHs74Int- normal intestinal epithelial cell line:FHs 74 Int_CNhs11950_10812-111B2_reverse Regulation 
NormalIntestinalEpithelialCellLineFHs74Int_CNhs11950_ctss_fwd Cl:FHs74Int+ normal intestinal epithelial cell line:FHs 74 Int_CNhs11950_10812-111B2_forward Regulation 
AcuteMyeloidLeukemiaFABM6CellLineF36P_CNhs13505_ctss_rev Cl:F-36P- acute myeloid leukemia (FAB M6) cell line:F-36P_CNhs13505_10837-111D9_reverse Regulation 
AcuteMyeloidLeukemiaFABM6CellLineF36P_CNhs13505_ctss_fwd Cl:F-36P+ acute myeloid leukemia (FAB M6) cell line:F-36P_CNhs13505_10837-111D9_forward Regulation 
AcuteMyeloidLeukemiaFABM6CellLineF36E_CNhs13060_ctss_rev Cl:F-36E- acute myeloid leukemia (FAB M6) cell line:F-36E_CNhs13060_10836-111D8_reverse Regulation 
AcuteMyeloidLeukemiaFABM6CellLineF36E_CNhs13060_ctss_fwd Cl:F-36E+ acute myeloid leukemia (FAB M6) cell line:F-36E_CNhs13060_10836-111D8_forward Regulation 
AcuteMyeloidLeukemiaFABM4eoCellLineEoL3_CNhs13057_ctss_rev Cl:EoL-3- acute myeloid leukemia (FAB M4eo) cell line:EoL-3_CNhs13057_10833-111D5_reverse Regulation 
AcuteMyeloidLeukemiaFABM4eoCellLineEoL3_CNhs13057_ctss_fwd Cl:EoL-3+ acute myeloid leukemia (FAB M4eo) cell line:EoL-3_CNhs13057_10833-111D5_forward Regulation 
AcuteMyeloidLeukemiaFABM4eoCellLineEoL1_CNhs13056_ctss_rev Cl:EoL-1- acute myeloid leukemia (FAB M4eo) cell line:EoL-1_CNhs13056_10832-111D4_reverse Regulation 
AcuteMyeloidLeukemiaFABM4eoCellLineEoL1_CNhs13056_ctss_fwd Cl:EoL-1+ acute myeloid leukemia (FAB M4eo) cell line:EoL-1_CNhs13056_10832-111D4_forward Regulation 
AcuteMyeloidLeukemiaFABM6CellLineEEB_CNhs13059_ctss_rev Cl:EEB- acute myeloid leukemia (FAB M6) cell line:EEB_CNhs13059_10835-111D7_reverse Regulation 
AcuteMyeloidLeukemiaFABM6CellLineEEB_CNhs13059_ctss_fwd Cl:EEB+ acute myeloid leukemia (FAB M6) cell line:EEB_CNhs13059_10835-111D7_forward Regulation 
SmallcellGastrointestinalCarcinomaCellLineECC4_CNhs11734_ctss_rev Cl:ECC4- small-cell gastrointestinal carcinoma cell line:ECC4_CNhs11734_10609-108F6_reverse Regulation 
SmallcellGastrointestinalCarcinomaCellLineECC4_CNhs11734_ctss_fwd Cl:ECC4+ small-cell gastrointestinal carcinoma cell line:ECC4_CNhs11734_10609-108F6_forward Regulation 
GastrointestinalCarcinomaCellLineECC12_CNhs11738_ctss_rev Cl:ECC12- gastrointestinal carcinoma cell line:ECC12_CNhs11738_10615-108G3_reverse Regulation 
GastrointestinalCarcinomaCellLineECC12_CNhs11738_ctss_fwd Cl:ECC12+ gastrointestinal carcinoma cell line:ECC12_CNhs11738_10615-108G3_forward Regulation 
SmallCellGastrointestinalCarcinomaCellLineECC10_CNhs11736_ctss_rev Cl:ECC10- small cell gastrointestinal carcinoma cell line:ECC10_CNhs11736_10610-108F7_reverse Regulation 
SmallCellGastrointestinalCarcinomaCellLineECC10_CNhs11736_ctss_fwd Cl:ECC10+ small cell gastrointestinal carcinoma cell line:ECC10_CNhs11736_10610-108F7_forward Regulation 
SquamousCellCarcinomaCellLineECGI10_CNhs11252_ctss_rev Cl:EC-GI-10- squamous cell carcinoma cell line:EC-GI-10_CNhs11252_10463-106H4_reverse Regulation 
SquamousCellCarcinomaCellLineECGI10_CNhs11252_ctss_fwd Cl:EC-GI-10+ squamous cell carcinoma cell line:EC-GI-10_CNhs11252_10463-106H4_forward Regulation 
SquamousCellLungCarcinomaCellLineEBC1_CNhs11273_ctss_rev Cl:EBC-1- squamous cell lung carcinoma cell line:EBC-1_CNhs11273_10486-107A9_reverse Regulation 
SquamousCellLungCarcinomaCellLineEBC1_CNhs11273_ctss_fwd Cl:EBC-1+ squamous cell lung carcinoma cell line:EBC-1_CNhs11273_10486-107A9_forward Regulation 
ProstateCancerCellLineDU145_CNhs11260_ctss_rev Cl:DU145- prostate cancer cell line:DU145_CNhs11260_10490-107B4_reverse Regulation 
ProstateCancerCellLineDU145_CNhs11260_ctss_fwd Cl:DU145+ prostate cancer cell line:DU145_CNhs11260_10490-107B4_forward Regulation 
LymphangiectasiaCellLineDS1_CNhs11852_ctss_rev Cl:DS-1- lymphangiectasia cell line:DS-1_CNhs11852_10727-110A7_reverse Regulation 
LymphangiectasiaCellLineDS1_CNhs11852_ctss_fwd Cl:DS-1+ lymphangiectasia cell line:DS-1_CNhs11852_10727-110A7_forward Regulation 
SmallCellLungCarcinomaCellLineDMS144_CNhs12808_ctss_rev Cl:DMS144- small cell lung carcinoma cell line:DMS 144_CNhs12808_10841-111E4_reverse Regulation 
SmallCellLungCarcinomaCellLineDMS144_CNhs12808_ctss_fwd Cl:DMS144+ small cell lung carcinoma cell line:DMS 144_CNhs12808_10841-111E4_forward Regulation 
MalignantTrichilemmalCystCellLineDJM1_CNhs10730_ctss_rev Cl:DJM-1- malignant trichilemmal cyst cell line:DJM-1_CNhs10730_10412-106B7_reverse Regulation 
MalignantTrichilemmalCystCellLineDJM1_CNhs10730_ctss_fwd Cl:DJM-1+ malignant trichilemmal cyst cell line:DJM-1_CNhs10730_10412-106B7_forward Regulation 
PharyngealCarcinomaCellLineDetroit562_CNhs11849_ctss_rev Cl:Detroit562- pharyngeal carcinoma cell line:Detroit 562_CNhs11849_10723-110A3_reverse Regulation 
PharyngealCarcinomaCellLineDetroit562_CNhs11849_ctss_fwd Cl:Detroit562+ pharyngeal carcinoma cell line:Detroit 562_CNhs11849_10723-110A3_forward Regulation 
BurkittsLymphomaCellLineDAUDI_CNhs10739_ctss_rev Cl:DAUDI- Burkitt's lymphoma cell line:DAUDI_CNhs10739_10422-106C8_reverse Regulation 
BurkittsLymphomaCellLineDAUDI_CNhs10739_ctss_fwd Cl:DAUDI+ Burkitt's lymphoma cell line:DAUDI_CNhs10739_10422-106C8_forward Regulation 
CervicalCancerCellLineD98AH2_CNhs11288_ctss_rev Cl:D98-AH2- cervical cancer cell line:D98-AH2_CNhs11288_10552-107I3_reverse Regulation 
CervicalCancerCellLineD98AH2_CNhs11288_ctss_fwd Cl:D98-AH2+ cervical cancer cell line:D98-AH2_CNhs11288_10552-107I3_forward Regulation 
MedulloblastomaCellLineD283Med_CNhs12805_ctss_rev Cl:D283Med- medulloblastoma cell line:D283 Med_CNhs12805_10838-111E1_reverse Regulation 
MedulloblastomaCellLineD283Med_CNhs12805_ctss_fwd Cl:D283Med+ medulloblastoma cell line:D283 Med_CNhs12805_10838-111E1_forward Regulation 
DiffuseLargeBcellLymphomaCellLineCTB1_CNhs11741_ctss_rev Cl:CTB-1- diffuse large B-cell lymphoma cell line:CTB-1_CNhs11741_10631-108I1_reverse Regulation 
DiffuseLargeBcellLymphomaCellLineCTB1_CNhs11741_ctss_fwd Cl:CTB-1+ diffuse large B-cell lymphoma cell line:CTB-1_CNhs11741_10631-108I1_forward Regulation 
MelanomaCellLineCOLO679_CNhs11281_ctss_rev Cl:COLO679- melanoma cell line:COLO 679_CNhs11281_10514-107E1_reverse Regulation 
MelanomaCellLineCOLO679_CNhs11281_ctss_fwd Cl:COLO679+ melanoma cell line:COLO 679_CNhs11281_10514-107E1_forward Regulation 
ColonCarcinomaCellLineCOLO320_CNhs10737_ctss_rev Cl:COLO-320- colon carcinoma cell line:COLO-320_CNhs10737_10420-106C6_reverse Regulation 
ColonCarcinomaCellLineCOLO320_CNhs10737_ctss_fwd Cl:COLO-320+ colon carcinoma cell line:COLO-320_CNhs10737_10420-106C6_forward Regulation 
CordBloodDerivedCellLineCOBLaUntreated_CNhs11045_ctss_rev Cl:COBL-auntreated- cord blood derived cell line:COBL-a untreated_CNhs11045_10449-106F8_reverse Regulation 
CordBloodDerivedCellLineCOBLaUntreated_CNhs11045_ctss_fwd Cl:COBL-auntreated+ cord blood derived cell line:COBL-a untreated_CNhs11045_10449-106F8_forward Regulation 
CordBloodDerivedCellLineCOBLa24hInfection_CNhs11050_ctss_rev Cl:COBL-a24hinfection- cord blood derived cell line:COBL-a 24h infection_CNhs11050_10453-106G3_reverse Regulation 
CordBloodDerivedCellLineCOBLa24hInfection_CNhs11050_ctss_fwd Cl:COBL-a24hinfection+ cord blood derived cell line:COBL-a 24h infection_CNhs11050_10453-106G3_forward Regulation 
CordBloodDerivedCellLineCOBLa24hInfectionC_CNhs11049_ctss_rev Cl:COBL-a24hinfection(-C)- cord blood derived cell line:COBL-a 24h infection(-C)_CNhs11049_10452-106G2_reverse Regulation 
CordBloodDerivedCellLineCOBLa24hInfectionC_CNhs11049_ctss_fwd Cl:COBL-a24hinfection(-C)+ cord blood derived cell line:COBL-a 24h infection(-C)_CNhs11049_10452-106G2_forward Regulation 
NeuroblastomaCellLineCHP134_CNhs11276_ctss_rev Cl:CHP-134- neuroblastoma cell line:CHP-134_CNhs11276_10508-107D4_reverse Regulation 
NeuroblastomaCellLineCHP134_CNhs11276_ctss_fwd Cl:CHP-134+ neuroblastoma cell line:CHP-134_CNhs11276_10508-107D4_forward Regulation 
BronchogenicCarcinomaCellLineChaGoK1_CNhs11841_ctss_rev Cl:ChaGo-K-1- bronchogenic carcinoma cell line:ChaGo-K-1_CNhs11841_10710-109H8_reverse Regulation 
BronchogenicCarcinomaCellLineChaGoK1_CNhs11841_ctss_fwd Cl:ChaGo-K-1+ bronchogenic carcinoma cell line:ChaGo-K-1_CNhs11841_10710-109H8_forward Regulation 
EpidermoidCarcinomaCellLineCaSki_CNhs10748_ctss_rev Cl:CaSki- epidermoid carcinoma cell line:Ca Ski_CNhs10748_10431-106D8_reverse Regulation 
EpidermoidCarcinomaCellLineCaSki_CNhs10748_ctss_fwd Cl:CaSki+ epidermoid carcinoma cell line:Ca Ski_CNhs10748_10431-106D8_forward Regulation 
ColonCarcinomaCellLineCACO2_CNhs11280_ctss_rev Cl:CACO-2- colon carcinoma cell line:CACO-2_CNhs11280_10513-107D9_reverse Regulation 
ColonCarcinomaCellLineCACO2_CNhs11280_ctss_fwd Cl:CACO-2+ colon carcinoma cell line:CACO-2_CNhs11280_10513-107D9_forward Regulation 
OralSquamousCellCarcinomaCellLineCa922_CNhs10752_ctss_rev Cl:Ca9-22- oral squamous cell carcinoma cell line:Ca9-22_CNhs10752_10434-106E2_reverse Regulation 
OralSquamousCellCarcinomaCellLineCa922_CNhs10752_ctss_fwd Cl:Ca9-22+ oral squamous cell carcinoma cell line:Ca9-22_CNhs10752_10434-106E2_forward Regulation 
ChoriocarcinomaCellLineBeWo_CNhs10740_ctss_rev Cl:BeWo- choriocarcinoma cell line:BeWo_CNhs10740_10423-106C9_reverse Regulation 
ChoriocarcinomaCellLineBeWo_CNhs10740_ctss_fwd Cl:BeWo+ choriocarcinoma cell line:BeWo_CNhs10740_10423-106C9_forward Regulation 
AcuteLymphoblasticLeukemiaBALLCellLineBALL1_CNhs11251_ctss_rev Cl:BALL-1- acute lymphoblastic leukemia (B-ALL) cell line:BALL-1_CNhs11251_10455-106G5_reverse Regulation 
AcuteLymphoblasticLeukemiaBALLCellLineBALL1_CNhs11251_ctss_fwd Cl:BALL-1+ acute lymphoblastic leukemia (B-ALL) cell line:BALL-1_CNhs11251_10455-106G5_forward Regulation 
GastricCancerCellLineAZ521_CNhs11286_ctss_rev Cl:AZ521- gastric cancer cell line:AZ521_CNhs11286_10549-107H9_reverse Regulation 
GastricCancerCellLineAZ521_CNhs11286_ctss_fwd Cl:AZ521+ gastric cancer cell line:AZ521_CNhs11286_10549-107H9_forward Regulation 
AdultTcellLeukemiaCellLineATN1_CNhs10738_ctss_rev Cl:ATN-1- adult T-cell leukemia cell line:ATN-1_CNhs10738_10421-106C7_reverse Regulation 
AdultTcellLeukemiaCellLineATN1_CNhs10738_ctss_fwd Cl:ATN-1+ adult T-cell leukemia cell line:ATN-1_CNhs10738_10421-106C7_forward Regulation 
PlasmaCellLeukemiaCellLineARH77_CNhs12807_ctss_rev Cl:ARH-77- plasma cell leukemia cell line:ARH-77_CNhs12807_10840-111E3_reverse Regulation 
PlasmaCellLeukemiaCellLineARH77_CNhs12807_ctss_fwd Cl:ARH-77+ plasma cell leukemia cell line:ARH-77_CNhs12807_10840-111E3_forward Regulation 
MesotheliomaCellLineACCMESO4_CNhs11264_ctss_rev Cl:ACC-MESO-4- mesothelioma cell line:ACC-MESO-4_CNhs11264_10494-107B8_reverse Regulation 
MesotheliomaCellLineACCMESO4_CNhs11264_ctss_fwd Cl:ACC-MESO-4+ mesothelioma cell line:ACC-MESO-4_CNhs11264_10494-107B8_forward Regulation 
MesotheliomaCellLineACCMESO1_CNhs11263_ctss_rev Cl:ACC-MESO-1- mesothelioma cell line:ACC-MESO-1_CNhs11263_10493-107B7_reverse Regulation 
MesotheliomaCellLineACCMESO1_CNhs11263_ctss_fwd Cl:ACC-MESO-1+ mesothelioma cell line:ACC-MESO-1_CNhs11263_10493-107B7_forward Regulation 
LungAdenocarcinomaCellLineA549_CNhs11275_ctss_rev Cl:A549- lung adenocarcinoma cell line:A549_CNhs11275_10499-107C4_reverse Regulation 
LungAdenocarcinomaCellLineA549_CNhs11275_ctss_fwd Cl:A549+ lung adenocarcinoma cell line:A549_CNhs11275_10499-107C4_forward Regulation 
EpidermoidCarcinomaCellLineA431_CNhs10743_ctss_rev Cl:A431- epidermoid carcinoma cell line:A431_CNhs10743_10426-106D3_reverse Regulation 
EpidermoidCarcinomaCellLineA431_CNhs10743_ctss_fwd Cl:A431+ epidermoid carcinoma cell line:A431_CNhs10743_10426-106D3_forward Regulation 
GlioblastomaCellLineA172TechRep2_CNhs11248_ctss_rev Cl:A172Tr2- glioblastoma cell line:A172, tech_rep2_CNhs11248_10444-106F3_reverse Regulation 
GlioblastomaCellLineA172TechRep2_CNhs11248_ctss_fwd Cl:A172Tr2+ glioblastoma cell line:A172, tech_rep2_CNhs11248_10444-106F3_forward Regulation 
PapillaryAdenocarcinomaCellLine8505C_CNhs11716_ctss_rev Cl:8505C- papillary adenocarcinoma cell line:8505C_CNhs11716_10437-106E5_reverse Regulation 
PapillaryAdenocarcinomaCellLine8505C_CNhs11716_ctss_fwd Cl:8505C+ papillary adenocarcinoma cell line:8505C_CNhs11716_10437-106E5_forward Regulation 
AnaplasticCarcinomaCellLine8305C_CNhs10745_ctss_rev Cl:8305C- anaplastic carcinoma cell line:8305C_CNhs10745_10428-106D5_reverse Regulation 
AnaplasticCarcinomaCellLine8305C_CNhs10745_ctss_fwd Cl:8305C+ anaplastic carcinoma cell line:8305C_CNhs10745_10428-106D5_forward Regulation 
TransitionalcellCarcinomaCellLine5637_CNhs10735_ctss_rev Cl:5637- transitional-cell carcinoma cell line:5637_CNhs10735_10418-106C4_reverse Regulation 
TransitionalcellCarcinomaCellLine5637_CNhs10735_ctss_fwd Cl:5637+ transitional-cell carcinoma cell line:5637_CNhs10735_10418-106C4_forward Regulation 
EmbryonicPancreasCellLine2C6_CNhs11814_ctss_rev Cl:2C6- embryonic pancreas cell line:2C6_CNhs11814_10603-108E9_reverse Regulation 
EmbryonicPancreasCellLine2C6_CNhs11814_ctss_fwd Cl:2C6+ embryonic pancreas cell line:2C6_CNhs11814_10603-108E9_forward Regulation 
EmbryonicPancreasCellLine1C3IKEI_CNhs11733_ctss_rev Cl:1C3IKEI- embryonic pancreas cell line:1C3IKEI_CNhs11733_10606-108F3_reverse Regulation 
EmbryonicPancreasCellLine1C3IKEI_CNhs11733_ctss_fwd Cl:1C3IKEI+ embryonic pancreas cell line:1C3IKEI_CNhs11733_10606-108F3_forward Regulation 
EmbryonicPancreasCellLine1C3D3_CNhs11732_ctss_rev Cl:1C3D3- embryonic pancreas cell line:1C3D3_CNhs11732_10605-108F2_reverse Regulation 
EmbryonicPancreasCellLine1C3D3_CNhs11732_ctss_fwd Cl:1C3D3+ embryonic pancreas cell line:1C3D3_CNhs11732_10605-108F2_forward Regulation 
EmbryonicPancreasCellLine1B2C6_CNhs11731_ctss_rev Cl:1B2C6- embryonic pancreas cell line:1B2C6_CNhs11731_10604-108F1_reverse Regulation 
EmbryonicPancreasCellLine1B2C6_CNhs11731_ctss_fwd Cl:1B2C6+ embryonic pancreas cell line:1B2C6_CNhs11731_10604-108F1_forward Regulation 
LeiomyomaCellLine15425_CNhs11724_ctss_rev Cl:15425- leiomyoma cell line:15425_CNhs11724_10571-108B4_reverse Regulation 
LeiomyomaCellLine15425_CNhs11724_ctss_fwd Cl:15425+ leiomyoma cell line:15425_CNhs11724_10571-108B4_forward Regulation 
LeiomyomaCellLine15242A_CNhs11723_ctss_rev Cl:15242A- leiomyoma cell line:15242A_CNhs11723_10570-108B3_reverse Regulation 
LeiomyomaCellLine15242A_CNhs11723_ctss_fwd Cl:15242A+ leiomyoma cell line:15242A_CNhs11723_10570-108B3_forward Regulation 
OsteosarcomaCellLine143BTKneoR_CNhs11279_ctss_rev Cl:143B/TK^(-)neo^(R)- osteosarcoma cell line:143B/TK^(-)neo^(R)_CNhs11279_10510-107D6_reverse Regulation 
OsteosarcomaCellLine143BTKneoR_CNhs11279_ctss_fwd Cl:143B/TK^(-)neo^(R)+ osteosarcoma cell line:143B/TK^(-)neo^(R)_CNhs11279_10510-107D6_forward Regulation 
LeiomyomaCellLine10964C_CNhs11722_ctss_rev Cl:10964C- leiomyoma cell line:10964C_CNhs11722_10569-108B2_reverse Regulation 
LeiomyomaCellLine10964C_CNhs11722_ctss_fwd Cl:10964C+ leiomyoma cell line:10964C_CNhs11722_10569-108B2_forward Regulation 
NonsmallCellLungCancerCellLineNCIH1385_CNhs12193_ctss_rev Cl:NCI-H1385- non-small cell lung cancer cell line:NCI-H1385_CNhs12193_10730-110B1_reverse Regulation 
NonsmallCellLungCancerCellLineNCIH1385_CNhs12193_ctss_fwd Cl:NCI-H1385+ non-small cell lung cancer cell line:NCI-H1385_CNhs12193_10730-110B1_forward Regulation 
MesotheliomaCellLineMero14TechRep2_CNhs14376_ctss_rev Cl:Mero-14Tr2- mesothelioma cell line:Mero-14, tech_rep2_CNhs14376_10849-111F3_reverse Regulation 
MesotheliomaCellLineMero14TechRep2_CNhs14376_ctss_fwd Cl:Mero-14Tr2+ mesothelioma cell line:Mero-14, tech_rep2_CNhs14376_10849-111F3_forward Regulation 
AcuteMyeloidLeukemiaFABM0CellLineKasumi3_CNhs13241_ctss_rev Cl:Kasumi-3- acute myeloid leukemia (FAB M0) cell line:Kasumi-3_CNhs13241_10789-110H6_reverse Regulation 
AcuteMyeloidLeukemiaFABM0CellLineKasumi3_CNhs13241_ctss_fwd Cl:Kasumi-3+ acute myeloid leukemia (FAB M0) cell line:Kasumi-3_CNhs13241_10789-110H6_forward Regulation 
LeiomyosarcomaCellLineHs5_T_CNhs12192_ctss_rev Cl:Hs5_T- leiomyosarcoma cell line:Hs 5_T_CNhs12192_10722-110A2_reverse Regulation 
LeiomyosarcomaCellLineHs5_T_CNhs12192_ctss_fwd Cl:Hs5_T+ leiomyosarcoma cell line:Hs 5_T_CNhs12192_10722-110A2_forward Regulation 
MesodermalTumorCellLineHIRSBM_CNhs12191_ctss_rev Cl:HIRS-BM- mesodermal tumor cell line:HIRS-BM_CNhs12191_10696-109G3_reverse Regulation 
MesodermalTumorCellLineHIRSBM_CNhs12191_ctss_fwd Cl:HIRS-BM+ mesodermal tumor cell line:HIRS-BM_CNhs12191_10696-109G3_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcificationDay28BiolRep3A3T17_CNhs12892_ctss_rev Saos-2W/AscorbicAcidBgp_Day28Br3- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, day28, biol_rep3 (A3 T17)_CNhs12892_12875-137F4_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcificationDay28BiolRep3A3T17_CNhs12892_ctss_fwd Saos-2W/AscorbicAcidBgp_Day28Br3+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, day28, biol_rep3 (A3 T17)_CNhs12892_12875-137F4_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcificationDay28BiolRep2A2T17_CNhs12876_ctss_rev Saos-2W/AscorbicAcidBgp_Day28Br2- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, day28, biol_rep2 (A2 T17)_CNhs12876_12777-136D5_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcificationDay28BiolRep2A2T17_CNhs12876_ctss_fwd Saos-2W/AscorbicAcidBgp_Day28Br2+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, day28, biol_rep2 (A2 T17)_CNhs12876_12777-136D5_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcificationDay28BiolRep1A1T17_CNhs11919_ctss_rev Saos-2W/AscorbicAcidBgp_Day28Br1- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, day28, biol_rep1 (A1 T17)_CNhs11919_12679-135B6_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcificationDay28BiolRep1A1T17_CNhs11919_ctss_fwd Saos-2W/AscorbicAcidBgp_Day28Br1+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, day28, biol_rep1 (A1 T17)_CNhs11919_12679-135B6_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcificationDay21BiolRep3A3T16_CNhs12891_ctss_rev Saos-2W/AscorbicAcidBgp_Day21Br3- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, day21, biol_rep3 (A3 T16)_CNhs12891_12874-137F3_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcificationDay21BiolRep3A3T16_CNhs12891_ctss_fwd Saos-2W/AscorbicAcidBgp_Day21Br3+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, day21, biol_rep3 (A3 T16)_CNhs12891_12874-137F3_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcificationDay21BiolRep2A2T16_CNhs12875_ctss_rev Saos-2W/AscorbicAcidBgp_Day21Br2- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, day21, biol_rep2 (A2 T16)_CNhs12875_12776-136D4_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcificationDay21BiolRep2A2T16_CNhs12875_ctss_fwd Saos-2W/AscorbicAcidBgp_Day21Br2+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, day21, biol_rep2 (A2 T16)_CNhs12875_12776-136D4_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcificationDay21BiolRep1A1T16_CNhs12397_ctss_rev Saos-2W/AscorbicAcidBgp_Day21Br1- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, day21, biol_rep1 (A1 T16)_CNhs12397_12678-135B5_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcificationDay21BiolRep1A1T16_CNhs12397_ctss_fwd Saos-2W/AscorbicAcidBgp_Day21Br1+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, day21, biol_rep1 (A1 T16)_CNhs12397_12678-135B5_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcificationDay14BiolRep3A3T15_CNhs12890_ctss_rev Saos-2W/AscorbicAcidBgp_Day14Br3- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, day14, biol_rep3 (A3 T15)_CNhs12890_12873-137F2_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcificationDay14BiolRep3A3T15_CNhs12890_ctss_fwd Saos-2W/AscorbicAcidBgp_Day14Br3+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, day14, biol_rep3 (A3 T15)_CNhs12890_12873-137F2_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcificationDay14BiolRep2A2T15_CNhs12953_ctss_rev Saos-2W/AscorbicAcidBgp_Day14Br2- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, day14, biol_rep2 (A2 T15)_CNhs12953_12775-136D3_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcificationDay14BiolRep2A2T15_CNhs12953_ctss_fwd Saos-2W/AscorbicAcidBgp_Day14Br2+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, day14, biol_rep2 (A2 T15)_CNhs12953_12775-136D3_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcificationDay14BiolRep1A1T15_CNhs12396_ctss_rev Saos-2W/AscorbicAcidBgp_Day14Br1- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, day14, biol_rep1 (A1 T15)_CNhs12396_12677-135B4_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcificationDay14BiolRep1A1T15_CNhs12396_ctss_fwd Saos-2W/AscorbicAcidBgp_Day14Br1+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, day14, biol_rep1 (A1 T15)_CNhs12396_12677-135B4_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcificationDay07BiolRep3A3T14_CNhs12888_ctss_rev Saos-2W/AscorbicAcidBgp_Day07Br3- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, day07, biol_rep3 (A3 T14)_CNhs12888_12872-137F1_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcificationDay07BiolRep3A3T14_CNhs12888_ctss_fwd Saos-2W/AscorbicAcidBgp_Day07Br3+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, day07, biol_rep3 (A3 T14)_CNhs12888_12872-137F1_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcificationDay07BiolRep2A2T14_CNhs12874_ctss_rev Saos-2W/AscorbicAcidBgp_Day07Br2- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, day07, biol_rep2 (A2 T14)_CNhs12874_12774-136D2_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcificationDay07BiolRep2A2T14_CNhs12874_ctss_fwd Saos-2W/AscorbicAcidBgp_Day07Br2+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, day07, biol_rep2 (A2 T14)_CNhs12874_12774-136D2_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcificationDay07BiolRep1A1T14_CNhs12395_ctss_rev Saos-2W/AscorbicAcidBgp_Day07Br1- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, day07, biol_rep1 (A1 T14)_CNhs12395_12676-135B3_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcificationDay07BiolRep1A1T14_CNhs12395_ctss_fwd Saos-2W/AscorbicAcidBgp_Day07Br1+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, day07, biol_rep1 (A1 T14)_CNhs12395_12676-135B3_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcificationDay04BiolRep3A3T13_CNhs12887_ctss_rev Saos-2W/AscorbicAcidBgp_Day04Br3- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, day04, biol_rep3 (A3 T13)_CNhs12887_12871-137E9_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcificationDay04BiolRep3A3T13_CNhs12887_ctss_fwd Saos-2W/AscorbicAcidBgp_Day04Br3+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, day04, biol_rep3 (A3 T13)_CNhs12887_12871-137E9_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcificationDay04BiolRep2A2T13_CNhs12873_ctss_rev Saos-2W/AscorbicAcidBgp_Day04Br2- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, day04, biol_rep2 (A2 T13)_CNhs12873_12773-136D1_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcificationDay04BiolRep2A2T13_CNhs12873_ctss_fwd Saos-2W/AscorbicAcidBgp_Day04Br2+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, day04, biol_rep2 (A2 T13)_CNhs12873_12773-136D1_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcificationDay04BiolRep1A1T13_CNhs12394_ctss_rev Saos-2W/AscorbicAcidBgp_Day04Br1- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, day04, biol_rep1 (A1 T13)_CNhs12394_12675-135B2_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcificationDay04BiolRep1A1T13_CNhs12394_ctss_fwd Saos-2W/AscorbicAcidBgp_Day04Br1+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, day04, biol_rep1 (A1 T13)_CNhs12394_12675-135B2_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification24hrBiolRep3A3T12_CNhs12886_ctss_rev Saos-2W/AscorbicAcidBgp_24hrBr3- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 24hr, biol_rep3 (A3 T12)_CNhs12886_12870-137E8_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification24hrBiolRep3A3T12_CNhs12886_ctss_fwd Saos-2W/AscorbicAcidBgp_24hrBr3+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 24hr, biol_rep3 (A3 T12)_CNhs12886_12870-137E8_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification24hrBiolRep2A2T12_CNhs12872_ctss_rev Saos-2W/AscorbicAcidBgp_24hrBr2- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 24hr, biol_rep2 (A2 T12)_CNhs12872_12772-136C9_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification24hrBiolRep2A2T12_CNhs12872_ctss_fwd Saos-2W/AscorbicAcidBgp_24hrBr2+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 24hr, biol_rep2 (A2 T12)_CNhs12872_12772-136C9_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification24hrBiolRep1A1T12_CNhs12393_ctss_rev Saos-2W/AscorbicAcidBgp_24hrBr1- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 24hr, biol_rep1 (A1 T12)_CNhs12393_12674-135B1_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification24hrBiolRep1A1T12_CNhs12393_ctss_fwd Saos-2W/AscorbicAcidBgp_24hrBr1+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 24hr, biol_rep1 (A1 T12)_CNhs12393_12674-135B1_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification08hrBiolRep3A3T11_CNhs12885_ctss_rev Saos-2W/AscorbicAcidBgp_08hrBr3- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 08hr, biol_rep3 (A3 T11)_CNhs12885_12869-137E7_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification08hrBiolRep3A3T11_CNhs12885_ctss_fwd Saos-2W/AscorbicAcidBgp_08hrBr3+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 08hr, biol_rep3 (A3 T11)_CNhs12885_12869-137E7_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification08hrBiolRep2A2T11_CNhs12871_ctss_rev Saos-2W/AscorbicAcidBgp_08hrBr2- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 08hr, biol_rep2 (A2 T11)_CNhs12871_12771-136C8_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification08hrBiolRep2A2T11_CNhs12871_ctss_fwd Saos-2W/AscorbicAcidBgp_08hrBr2+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 08hr, biol_rep2 (A2 T11)_CNhs12871_12771-136C8_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification08hrBiolRep1A1T11_CNhs12392_ctss_rev Saos-2W/AscorbicAcidBgp_08hrBr1- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 08hr, biol_rep1 (A1 T11)_CNhs12392_12673-135A9_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification08hrBiolRep1A1T11_CNhs12392_ctss_fwd Saos-2W/AscorbicAcidBgp_08hrBr1+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 08hr, biol_rep1 (A1 T11)_CNhs12392_12673-135A9_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification04hrBiolRep3A3T10_CNhs12884_ctss_rev Saos-2W/AscorbicAcidBgp_04hrBr3- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 04hr, biol_rep3 (A3 T10)_CNhs12884_12868-137E6_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification04hrBiolRep3A3T10_CNhs12884_ctss_fwd Saos-2W/AscorbicAcidBgp_04hrBr3+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 04hr, biol_rep3 (A3 T10)_CNhs12884_12868-137E6_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification04hrBiolRep2A2T10_CNhs12870_ctss_rev Saos-2W/AscorbicAcidBgp_04hrBr2- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 04hr, biol_rep2 (A2 T10)_CNhs12870_12770-136C7_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification04hrBiolRep2A2T10_CNhs12870_ctss_fwd Saos-2W/AscorbicAcidBgp_04hrBr2+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 04hr, biol_rep2 (A2 T10)_CNhs12870_12770-136C7_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification04hrBiolRep1A1T10_CNhs12391_ctss_rev Saos-2W/AscorbicAcidBgp_04hrBr1- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 04hr, biol_rep1 (A1 T10)_CNhs12391_12672-135A8_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification04hrBiolRep1A1T10_CNhs12391_ctss_fwd Saos-2W/AscorbicAcidBgp_04hrBr1+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 04hr, biol_rep1 (A1 T10)_CNhs12391_12672-135A8_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification03hrBiolRep3A3T9_CNhs12883_ctss_rev Saos-2W/AscorbicAcidBgp_03hrBr3- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 03hr, biol_rep3 (A3 T9)_CNhs12883_12867-137E5_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification03hrBiolRep3A3T9_CNhs12883_ctss_fwd Saos-2W/AscorbicAcidBgp_03hrBr3+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 03hr, biol_rep3 (A3 T9)_CNhs12883_12867-137E5_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification03hrBiolRep2A2T9_CNhs12869_ctss_rev Saos-2W/AscorbicAcidBgp_03hrBr2- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 03hr, biol_rep2 (A2 T9)_CNhs12869_12769-136C6_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification03hrBiolRep2A2T9_CNhs12869_ctss_fwd Saos-2W/AscorbicAcidBgp_03hrBr2+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 03hr, biol_rep2 (A2 T9)_CNhs12869_12769-136C6_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification03hrBiolRep1A1T9_CNhs12390_ctss_rev Saos-2W/AscorbicAcidBgp_03hrBr1- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 03hr, biol_rep1 (A1 T9)_CNhs12390_12671-135A7_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification03hrBiolRep1A1T9_CNhs12390_ctss_fwd Saos-2W/AscorbicAcidBgp_03hrBr1+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 03hr, biol_rep1 (A1 T9)_CNhs12390_12671-135A7_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification02hr30minBiolRep3A3T8_CNhs12882_ctss_rev Saos-2W/AscorbicAcidBgp_02hr30minBr3- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 02hr30min, biol_rep3 (A3 T8)_CNhs12882_12866-137E4_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification02hr30minBiolRep3A3T8_CNhs12882_ctss_fwd Saos-2W/AscorbicAcidBgp_02hr30minBr3+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 02hr30min, biol_rep3 (A3 T8)_CNhs12882_12866-137E4_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification02hr30minBiolRep2A2T8_CNhs12868_ctss_rev Saos-2W/AscorbicAcidBgp_02hr30minBr2- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 02hr30min, biol_rep2 (A2 T8)_CNhs12868_12768-136C5_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification02hr30minBiolRep2A2T8_CNhs12868_ctss_fwd Saos-2W/AscorbicAcidBgp_02hr30minBr2+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 02hr30min, biol_rep2 (A2 T8)_CNhs12868_12768-136C5_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification02hr30minBiolRep1A1T8_CNhs12389_ctss_rev Saos-2W/AscorbicAcidBgp_02hr30minBr1- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 02hr30min, biol_rep1 (A1 T8)_CNhs12389_12670-135A6_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification02hr30minBiolRep1A1T8_CNhs12389_ctss_fwd Saos-2W/AscorbicAcidBgp_02hr30minBr1+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 02hr30min, biol_rep1 (A1 T8)_CNhs12389_12670-135A6_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification02hr00minBiolRep3A3T7_CNhs12881_ctss_rev Saos-2W/AscorbicAcidBgp_02hr00minBr3- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 02hr00min, biol_rep3 (A3 T7)_CNhs12881_12865-137E3_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification02hr00minBiolRep3A3T7_CNhs12881_ctss_fwd Saos-2W/AscorbicAcidBgp_02hr00minBr3+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 02hr00min, biol_rep3 (A3 T7)_CNhs12881_12865-137E3_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification02hr00minBiolRep2A2T7_CNhs12867_ctss_rev Saos-2W/AscorbicAcidBgp_02hr00minBr2- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 02hr00min, biol_rep2 (A2 T7)_CNhs12867_12767-136C4_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification02hr00minBiolRep2A2T7_CNhs12867_ctss_fwd Saos-2W/AscorbicAcidBgp_02hr00minBr2+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 02hr00min, biol_rep2 (A2 T7)_CNhs12867_12767-136C4_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification02hr00minBiolRep1A1T7_CNhs12388_ctss_rev Saos-2W/AscorbicAcidBgp_02hr00minBr1- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 02hr00min, biol_rep1 (A1 T7)_CNhs12388_12669-135A5_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification02hr00minBiolRep1A1T7_CNhs12388_ctss_fwd Saos-2W/AscorbicAcidBgp_02hr00minBr1+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 02hr00min, biol_rep1 (A1 T7)_CNhs12388_12669-135A5_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification01hr40minBiolRep3A3T6_CNhs12880_ctss_rev Saos-2W/AscorbicAcidBgp_01hr40minBr3- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 01hr40min, biol_rep3 (A3 T6)_CNhs12880_12864-137E2_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification01hr40minBiolRep3A3T6_CNhs12880_ctss_fwd Saos-2W/AscorbicAcidBgp_01hr40minBr3+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 01hr40min, biol_rep3 (A3 T6)_CNhs12880_12864-137E2_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification01hr40minBiolRep2A2T6_CNhs12866_ctss_rev Saos-2W/AscorbicAcidBgp_01hr40minBr2- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 01hr40min, biol_rep2 (A2 T6)_CNhs12866_12766-136C3_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification01hr40minBiolRep2A2T6_CNhs12866_ctss_fwd Saos-2W/AscorbicAcidBgp_01hr40minBr2+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 01hr40min, biol_rep2 (A2 T6)_CNhs12866_12766-136C3_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification01hr40minBiolRep1A1T6_CNhs12387_ctss_rev Saos-2W/AscorbicAcidBgp_01hr40minBr1- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 01hr40min, biol_rep1 (A1 T6)_CNhs12387_12668-135A4_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification01hr40minBiolRep1A1T6_CNhs12387_ctss_fwd Saos-2W/AscorbicAcidBgp_01hr40minBr1+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 01hr40min, biol_rep1 (A1 T6)_CNhs12387_12668-135A4_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification01hr20minBiolRep3A3T5_CNhs12879_ctss_rev Saos-2W/AscorbicAcidBgp_01hr20minBr3- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 01hr20min, biol_rep3 (A3 T5)_CNhs12879_12863-137E1_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification01hr20minBiolRep3A3T5_CNhs12879_ctss_fwd Saos-2W/AscorbicAcidBgp_01hr20minBr3+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 01hr20min, biol_rep3 (A3 T5)_CNhs12879_12863-137E1_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification01hr20minBiolRep2A2T5_CNhs12864_ctss_rev Saos-2W/AscorbicAcidBgp_01hr20minBr2- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 01hr20min, biol_rep2 (A2 T5)_CNhs12864_12765-136C2_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification01hr20minBiolRep2A2T5_CNhs12864_ctss_fwd Saos-2W/AscorbicAcidBgp_01hr20minBr2+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 01hr20min, biol_rep2 (A2 T5)_CNhs12864_12765-136C2_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification01hr20minBiolRep1A1T5_CNhs12386_ctss_rev Saos-2W/AscorbicAcidBgp_01hr20minBr1- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 01hr20min, biol_rep1 (A1 T5)_CNhs12386_12667-135A3_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification01hr20minBiolRep1A1T5_CNhs12386_ctss_fwd Saos-2W/AscorbicAcidBgp_01hr20minBr1+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 01hr20min, biol_rep1 (A1 T5)_CNhs12386_12667-135A3_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification01hr00minBiolRep3A3T4_CNhs12955_ctss_rev Saos-2W/AscorbicAcidBgp_01hr00minBr3- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 01hr00min, biol_rep3 (A3 T4)_CNhs12955_12862-137D9_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification01hr00minBiolRep3A3T4_CNhs12955_ctss_fwd Saos-2W/AscorbicAcidBgp_01hr00minBr3+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 01hr00min, biol_rep3 (A3 T4)_CNhs12955_12862-137D9_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification01hr00minBiolRep2A2T4_CNhs12863_ctss_rev Saos-2W/AscorbicAcidBgp_01hr00minBr2- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 01hr00min, biol_rep2 (A2 T4)_CNhs12863_12764-136C1_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification01hr00minBiolRep2A2T4_CNhs12863_ctss_fwd Saos-2W/AscorbicAcidBgp_01hr00minBr2+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 01hr00min, biol_rep2 (A2 T4)_CNhs12863_12764-136C1_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification01hr00minBiolRep1A1T4_CNhs12384_ctss_rev Saos-2W/AscorbicAcidBgp_01hr00minBr1- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 01hr00min, biol_rep1 (A1 T4)_CNhs12384_12666-135A2_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification01hr00minBiolRep1A1T4_CNhs12384_ctss_fwd Saos-2W/AscorbicAcidBgp_01hr00minBr1+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 01hr00min, biol_rep1 (A1 T4)_CNhs12384_12666-135A2_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification00hr45minBiolRep3A3T3_CNhs12878_ctss_rev Saos-2W/AscorbicAcidBgp_00hr45minBr3- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 00hr45min, biol_rep3 (A3 T3)_CNhs12878_12861-137D8_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification00hr45minBiolRep3A3T3_CNhs12878_ctss_fwd Saos-2W/AscorbicAcidBgp_00hr45minBr3+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 00hr45min, biol_rep3 (A3 T3)_CNhs12878_12861-137D8_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification00hr45minBiolRep2A2T3_CNhs12862_ctss_rev Saos-2W/AscorbicAcidBgp_00hr45minBr2- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 00hr45min, biol_rep2 (A2 T3)_CNhs12862_12763-136B9_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification00hr45minBiolRep2A2T3_CNhs12862_ctss_fwd Saos-2W/AscorbicAcidBgp_00hr45minBr2+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 00hr45min, biol_rep2 (A2 T3)_CNhs12862_12763-136B9_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification00hr45minBiolRep1A1T3_CNhs12383_ctss_rev Saos-2W/AscorbicAcidBgp_00hr45minBr1- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 00hr45min, biol_rep1 (A1 T3)_CNhs12383_12665-135A1_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification00hr45minBiolRep1A1T3_CNhs12383_ctss_fwd Saos-2W/AscorbicAcidBgp_00hr45minBr1+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 00hr45min, biol_rep1 (A1 T3)_CNhs12383_12665-135A1_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification00hr30minBiolRep3A3T2_CNhs12954_ctss_rev Saos-2W/AscorbicAcidBgp_00hr30minBr3- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 00hr30min, biol_rep3 (A3 T2)_CNhs12954_12860-137D7_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification00hr30minBiolRep3A3T2_CNhs12954_ctss_fwd Saos-2W/AscorbicAcidBgp_00hr30minBr3+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 00hr30min, biol_rep3 (A3 T2)_CNhs12954_12860-137D7_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification00hr30minBiolRep2A2T2_CNhs12861_ctss_rev Saos-2W/AscorbicAcidBgp_00hr30minBr2- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 00hr30min, biol_rep2 (A2 T2)_CNhs12861_12762-136B8_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification00hr30minBiolRep2A2T2_CNhs12861_ctss_fwd Saos-2W/AscorbicAcidBgp_00hr30minBr2+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 00hr30min, biol_rep2 (A2 T2)_CNhs12861_12762-136B8_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification00hr30minBiolRep1A1T2_CNhs12382_ctss_rev Saos-2W/AscorbicAcidBgp_00hr30minBr1- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 00hr30min, biol_rep1 (A1 T2)_CNhs12382_12664-134I9_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification00hr30minBiolRep1A1T2_CNhs12382_ctss_fwd Saos-2W/AscorbicAcidBgp_00hr30minBr1+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 00hr30min, biol_rep1 (A1 T2)_CNhs12382_12664-134I9_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification00hr15minBiolRep3A3T1_CNhs12877_ctss_rev Saos-2W/AscorbicAcidBgp_00hr15minBr3- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 00hr15min, biol_rep3 (A3 T1)_CNhs12877_12859-137D6_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification00hr15minBiolRep3A3T1_CNhs12877_ctss_fwd Saos-2W/AscorbicAcidBgp_00hr15minBr3+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 00hr15min, biol_rep3 (A3 T1)_CNhs12877_12859-137D6_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification00hr15minBiolRep2A2T1_CNhs12860_ctss_rev Saos-2W/AscorbicAcidBgp_00hr15minBr2- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 00hr15min, biol_rep2 (A2 T1)_CNhs12860_12761-136B7_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification00hr15minBiolRep2A2T1_CNhs12860_ctss_fwd Saos-2W/AscorbicAcidBgp_00hr15minBr2+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 00hr15min, biol_rep2 (A2 T1)_CNhs12860_12761-136B7_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification00hr15minBiolRep1A1T1_CNhs12381_ctss_rev Saos-2W/AscorbicAcidBgp_00hr15minBr1- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 00hr15min, biol_rep1 (A1 T1)_CNhs12381_12663-134I8_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification00hr15minBiolRep1A1T1_CNhs12381_ctss_fwd Saos-2W/AscorbicAcidBgp_00hr15minBr1+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 00hr15min, biol_rep1 (A1 T1)_CNhs12381_12663-134I8_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification00hr00minBiolRep3A3T0_CNhs12952_ctss_rev Saos-2W/AscorbicAcidBgp_00hr00minBr3- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 00hr00min, biol_rep3 (A3 T0)_CNhs12952_12858-137D5_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification00hr00minBiolRep3A3T0_CNhs12952_ctss_fwd Saos-2W/AscorbicAcidBgp_00hr00minBr3+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 00hr00min, biol_rep3 (A3 T0)_CNhs12952_12858-137D5_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification00hr00minBiolRep2A2T0_CNhs12859_ctss_rev Saos-2W/AscorbicAcidBgp_00hr00minBr2- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 00hr00min, biol_rep2 (A2 T0)_CNhs12859_12760-136B6_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification00hr00minBiolRep2A2T0_CNhs12859_ctss_fwd Saos-2W/AscorbicAcidBgp_00hr00minBr2+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 00hr00min, biol_rep2 (A2 T0)_CNhs12859_12760-136B6_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification00hr00minBiolRep1A1T0_CNhs11918_ctss_rev Saos-2W/AscorbicAcidBgp_00hr00minBr1- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 00hr00min, biol_rep1 (A1 T0)_CNhs11918_12662-134I7_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification00hr00minBiolRep1A1T0_CNhs11918_ctss_fwd Saos-2W/AscorbicAcidBgp_00hr00minBr1+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 00hr00min, biol_rep1 (A1 T0)_CNhs11918_12662-134I7_forward Regulation 
COBLaRinderpestInfection48hrBiolRep3_CNhs14434_ctss_rev Tc:COBL-aRinderpest_48hrBr3- COBL-a rinderpest infection, 48hr, biol_rep3_CNhs14434_13567-146B3_reverse Regulation 
COBLaRinderpestInfection48hrBiolRep3_CNhs14434_ctss_fwd Tc:COBL-aRinderpest_48hrBr3+ COBL-a rinderpest infection, 48hr, biol_rep3_CNhs14434_13567-146B3_forward Regulation 
COBLaRinderpestInfection48hrBiolRep2_CNhs14432_ctss_rev Tc:COBL-aRinderpest_48hrBr2- COBL-a rinderpest infection, 48hr, biol_rep2_CNhs14432_13566-146B2_reverse Regulation 
COBLaRinderpestInfection48hrBiolRep2_CNhs14432_ctss_fwd Tc:COBL-aRinderpest_48hrBr2+ COBL-a rinderpest infection, 48hr, biol_rep2_CNhs14432_13566-146B2_forward Regulation 
COBLaRinderpestInfection48hrBiolRep1_CNhs14431_ctss_rev Tc:COBL-aRinderpest_48hrBr1- COBL-a rinderpest infection, 48hr, biol_rep1_CNhs14431_13565-146B1_reverse Regulation 
COBLaRinderpestInfection48hrBiolRep1_CNhs14431_ctss_fwd Tc:COBL-aRinderpest_48hrBr1+ COBL-a rinderpest infection, 48hr, biol_rep1_CNhs14431_13565-146B1_forward Regulation 
COBLaRinderpestInfection24hrBiolRep3_CNhs14430_ctss_rev Tc:COBL-aRinderpest_24hrBr3- COBL-a rinderpest infection, 24hr, biol_rep3_CNhs14430_13564-146A9_reverse Regulation 
COBLaRinderpestInfection24hrBiolRep3_CNhs14430_ctss_fwd Tc:COBL-aRinderpest_24hrBr3+ COBL-a rinderpest infection, 24hr, biol_rep3_CNhs14430_13564-146A9_forward Regulation 
COBLaRinderpestInfection24hrBiolRep2_CNhs14429_ctss_rev Tc:COBL-aRinderpest_24hrBr2- COBL-a rinderpest infection, 24hr, biol_rep2_CNhs14429_13563-146A8_reverse Regulation 
COBLaRinderpestInfection24hrBiolRep2_CNhs14429_ctss_fwd Tc:COBL-aRinderpest_24hrBr2+ COBL-a rinderpest infection, 24hr, biol_rep2_CNhs14429_13563-146A8_forward Regulation 
COBLaRinderpestInfection24hrBiolRep1_CNhs14428_ctss_rev Tc:COBL-aRinderpest_24hrBr1- COBL-a rinderpest infection, 24hr, biol_rep1_CNhs14428_13562-146A7_reverse Regulation 
COBLaRinderpestInfection24hrBiolRep1_CNhs14428_ctss_fwd Tc:COBL-aRinderpest_24hrBr1+ COBL-a rinderpest infection, 24hr, biol_rep1_CNhs14428_13562-146A7_forward Regulation 
COBLaRinderpestInfection12hrBiolRep3_CNhs14427_ctss_rev Tc:COBL-aRinderpest_12hrBr3- COBL-a rinderpest infection, 12hr, biol_rep3_CNhs14427_13561-146A6_reverse Regulation 
COBLaRinderpestInfection12hrBiolRep3_CNhs14427_ctss_fwd Tc:COBL-aRinderpest_12hrBr3+ COBL-a rinderpest infection, 12hr, biol_rep3_CNhs14427_13561-146A6_forward Regulation 
COBLaRinderpestInfection12hrBiolRep2_CNhs14426_ctss_rev Tc:COBL-aRinderpest_12hrBr2- COBL-a rinderpest infection, 12hr, biol_rep2_CNhs14426_13560-146A5_reverse Regulation 
COBLaRinderpestInfection12hrBiolRep2_CNhs14426_ctss_fwd Tc:COBL-aRinderpest_12hrBr2+ COBL-a rinderpest infection, 12hr, biol_rep2_CNhs14426_13560-146A5_forward Regulation 
COBLaRinderpestInfection12hrBiolRep1_CNhs14425_ctss_rev Tc:COBL-aRinderpest_12hrBr1- COBL-a rinderpest infection, 12hr, biol_rep1_CNhs14425_13559-146A4_reverse Regulation 
COBLaRinderpestInfection12hrBiolRep1_CNhs14425_ctss_fwd Tc:COBL-aRinderpest_12hrBr1+ COBL-a rinderpest infection, 12hr, biol_rep1_CNhs14425_13559-146A4_forward Regulation 
COBLaRinderpestInfection06hrBiolRep3_CNhs14424_ctss_rev Tc:COBL-aRinderpest_06hrBr3- COBL-a rinderpest infection, 06hr, biol_rep3_CNhs14424_13558-146A3_reverse Regulation 
COBLaRinderpestInfection06hrBiolRep3_CNhs14424_ctss_fwd Tc:COBL-aRinderpest_06hrBr3+ COBL-a rinderpest infection, 06hr, biol_rep3_CNhs14424_13558-146A3_forward Regulation 
COBLaRinderpestInfection06hrBiolRep2_CNhs14423_ctss_rev Tc:COBL-aRinderpest_06hrBr2- COBL-a rinderpest infection, 06hr, biol_rep2_CNhs14423_13557-146A2_reverse Regulation 
COBLaRinderpestInfection06hrBiolRep2_CNhs14423_ctss_fwd Tc:COBL-aRinderpest_06hrBr2+ COBL-a rinderpest infection, 06hr, biol_rep2_CNhs14423_13557-146A2_forward Regulation 
COBLaRinderpestInfection06hrBiolRep1_CNhs14422_ctss_rev Tc:COBL-aRinderpest_06hrBr1- COBL-a rinderpest infection, 06hr, biol_rep1_CNhs14422_13556-146A1_reverse Regulation 
COBLaRinderpestInfection06hrBiolRep1_CNhs14422_ctss_fwd Tc:COBL-aRinderpest_06hrBr1+ COBL-a rinderpest infection, 06hr, biol_rep1_CNhs14422_13556-146A1_forward Regulation 
COBLaRinderpestInfection00hrBiolRep3_CNhs14421_ctss_rev Tc:COBL-aRinderpest_00hrBr3- COBL-a rinderpest infection, 00hr, biol_rep3_CNhs14421_13555-145I9_reverse Regulation 
COBLaRinderpestInfection00hrBiolRep3_CNhs14421_ctss_fwd Tc:COBL-aRinderpest_00hrBr3+ COBL-a rinderpest infection, 00hr, biol_rep3_CNhs14421_13555-145I9_forward Regulation 
COBLaRinderpestInfection00hrBiolRep2_CNhs14420_ctss_rev Tc:COBL-aRinderpest_00hrBr2- COBL-a rinderpest infection, 00hr, biol_rep2_CNhs14420_13554-145I8_reverse Regulation 
COBLaRinderpestInfection00hrBiolRep2_CNhs14420_ctss_fwd Tc:COBL-aRinderpest_00hrBr2+ COBL-a rinderpest infection, 00hr, biol_rep2_CNhs14420_13554-145I8_forward Regulation 
COBLaRinderpestInfection00hrBiolRep1_CNhs14419_ctss_rev Tc:COBL-aRinderpest_00hrBr1- COBL-a rinderpest infection, 00hr, biol_rep1_CNhs14419_13553-145I7_reverse Regulation 
COBLaRinderpestInfection00hrBiolRep1_CNhs14419_ctss_fwd Tc:COBL-aRinderpest_00hrBr1+ COBL-a rinderpest infection, 00hr, biol_rep1_CNhs14419_13553-145I7_forward Regulation 
COBLaRinderpestCInfection48hrBiolRep3_CNhs14446_ctss_rev Tc:COBL-aRinderpest(-C)_48hrBr3- COBL-a rinderpest(-C) infection, 48hr, biol_rep3_CNhs14446_13579-146C6_reverse Regulation 
COBLaRinderpestCInfection48hrBiolRep3_CNhs14446_ctss_fwd Tc:COBL-aRinderpest(-C)_48hrBr3+ COBL-a rinderpest(-C) infection, 48hr, biol_rep3_CNhs14446_13579-146C6_forward Regulation 
COBLaRinderpestCInfection48hrBiolRep2_CNhs14445_ctss_rev Tc:COBL-aRinderpest(-C)_48hrBr2- COBL-a rinderpest(-C) infection, 48hr, biol_rep2_CNhs14445_13578-146C5_reverse Regulation 
COBLaRinderpestCInfection48hrBiolRep2_CNhs14445_ctss_fwd Tc:COBL-aRinderpest(-C)_48hrBr2+ COBL-a rinderpest(-C) infection, 48hr, biol_rep2_CNhs14445_13578-146C5_forward Regulation 
COBLaRinderpestCInfection48hrBiolRep1_CNhs14444_ctss_rev Tc:COBL-aRinderpest(-C)_48hrBr1- COBL-a rinderpest(-C) infection, 48hr, biol_rep1_CNhs14444_13577-146C4_reverse Regulation 
COBLaRinderpestCInfection48hrBiolRep1_CNhs14444_ctss_fwd Tc:COBL-aRinderpest(-C)_48hrBr1+ COBL-a rinderpest(-C) infection, 48hr, biol_rep1_CNhs14444_13577-146C4_forward Regulation 
COBLaRinderpestCInfection24hrBiolRep3_CNhs14443_ctss_rev Tc:COBL-aRinderpest(-C)_24hrBr3- COBL-a rinderpest(-C) infection, 24hr, biol_rep3_CNhs14443_13576-146C3_reverse Regulation 
COBLaRinderpestCInfection24hrBiolRep3_CNhs14443_ctss_fwd Tc:COBL-aRinderpest(-C)_24hrBr3+ COBL-a rinderpest(-C) infection, 24hr, biol_rep3_CNhs14443_13576-146C3_forward Regulation 
COBLaRinderpestCInfection24hrBiolRep2_CNhs14442_ctss_rev Tc:COBL-aRinderpest(-C)_24hrBr2- COBL-a rinderpest(-C) infection, 24hr, biol_rep2_CNhs14442_13575-146C2_reverse Regulation 
COBLaRinderpestCInfection24hrBiolRep2_CNhs14442_ctss_fwd Tc:COBL-aRinderpest(-C)_24hrBr2+ COBL-a rinderpest(-C) infection, 24hr, biol_rep2_CNhs14442_13575-146C2_forward Regulation 
COBLaRinderpestCInfection24hrBiolRep1_CNhs14441_ctss_rev Tc:COBL-aRinderpest(-C)_24hrBr1- COBL-a rinderpest(-C) infection, 24hr, biol_rep1_CNhs14441_13574-146C1_reverse Regulation 
COBLaRinderpestCInfection24hrBiolRep1_CNhs14441_ctss_fwd Tc:COBL-aRinderpest(-C)_24hrBr1+ COBL-a rinderpest(-C) infection, 24hr, biol_rep1_CNhs14441_13574-146C1_forward Regulation 
COBLaRinderpestCInfection12hrBiolRep3_CNhs14440_ctss_rev Tc:COBL-aRinderpest(-C)_12hrBr3- COBL-a rinderpest(-C) infection, 12hr, biol_rep3_CNhs14440_13573-146B9_reverse Regulation 
COBLaRinderpestCInfection12hrBiolRep3_CNhs14440_ctss_fwd Tc:COBL-aRinderpest(-C)_12hrBr3+ COBL-a rinderpest(-C) infection, 12hr, biol_rep3_CNhs14440_13573-146B9_forward Regulation 
COBLaRinderpestCInfection12hrBiolRep2_CNhs14439_ctss_rev Tc:COBL-aRinderpest(-C)_12hrBr2- COBL-a rinderpest(-C) infection, 12hr, biol_rep2_CNhs14439_13572-146B8_reverse Regulation 
COBLaRinderpestCInfection12hrBiolRep2_CNhs14439_ctss_fwd Tc:COBL-aRinderpest(-C)_12hrBr2+ COBL-a rinderpest(-C) infection, 12hr, biol_rep2_CNhs14439_13572-146B8_forward Regulation 
COBLaRinderpestCInfection12hrBiolRep1_CNhs14438_ctss_rev Tc:COBL-aRinderpest(-C)_12hrBr1- COBL-a rinderpest(-C) infection, 12hr, biol_rep1_CNhs14438_13571-146B7_reverse Regulation 
COBLaRinderpestCInfection12hrBiolRep1_CNhs14438_ctss_fwd Tc:COBL-aRinderpest(-C)_12hrBr1+ COBL-a rinderpest(-C) infection, 12hr, biol_rep1_CNhs14438_13571-146B7_forward Regulation 
COBLaRinderpestCInfection06hrBiolRep3_CNhs14437_ctss_rev Tc:COBL-aRinderpest(-C)_06hrBr3- COBL-a rinderpest(-C) infection, 06hr, biol_rep3_CNhs14437_13570-146B6_reverse Regulation 
COBLaRinderpestCInfection06hrBiolRep3_CNhs14437_ctss_fwd Tc:COBL-aRinderpest(-C)_06hrBr3+ COBL-a rinderpest(-C) infection, 06hr, biol_rep3_CNhs14437_13570-146B6_forward Regulation 
COBLaRinderpestCInfection06hrBiolRep2_CNhs14436_ctss_rev Tc:COBL-aRinderpest(-C)_06hrBr2- COBL-a rinderpest(-C) infection, 06hr, biol_rep2_CNhs14436_13569-146B5_reverse Regulation 
COBLaRinderpestCInfection06hrBiolRep2_CNhs14436_ctss_fwd Tc:COBL-aRinderpest(-C)_06hrBr2+ COBL-a rinderpest(-C) infection, 06hr, biol_rep2_CNhs14436_13569-146B5_forward Regulation 
COBLaRinderpestCInfection06hrBiolRep1_CNhs14435_ctss_rev Tc:COBL-aRinderpest(-C)_06hrBr1- COBL-a rinderpest(-C) infection, 06hr, biol_rep1_CNhs14435_13568-146B4_reverse Regulation 
COBLaRinderpestCInfection06hrBiolRep1_CNhs14435_ctss_fwd Tc:COBL-aRinderpest(-C)_06hrBr1+ COBL-a rinderpest(-C) infection, 06hr, biol_rep1_CNhs14435_13568-146B4_forward Regulation 
293SLAMRinderpestInfection24hrBiolRep3_CNhs14418_ctss_rev Tc:293SlamRinderpest_24hrBr3- 293SLAM rinderpest infection, 24hr, biol_rep3_CNhs14418_13552-145I6_reverse Regulation 
293SLAMRinderpestInfection24hrBiolRep3_CNhs14418_ctss_fwd Tc:293SlamRinderpest_24hrBr3+ 293SLAM rinderpest infection, 24hr, biol_rep3_CNhs14418_13552-145I6_forward Regulation 
293SLAMRinderpestInfection24hrBiolRep2_CNhs14417_ctss_rev Tc:293SlamRinderpest_24hrBr2- 293SLAM rinderpest infection, 24hr, biol_rep2_CNhs14417_13551-145I5_reverse Regulation 
293SLAMRinderpestInfection24hrBiolRep2_CNhs14417_ctss_fwd Tc:293SlamRinderpest_24hrBr2+ 293SLAM rinderpest infection, 24hr, biol_rep2_CNhs14417_13551-145I5_forward Regulation 
293SLAMRinderpestInfection24hrBiolRep1_CNhs14416_ctss_rev Tc:293SlamRinderpest_24hrBr1- 293SLAM rinderpest infection, 24hr, biol_rep1_CNhs14416_13550-145I4_reverse Regulation 
293SLAMRinderpestInfection24hrBiolRep1_CNhs14416_ctss_fwd Tc:293SlamRinderpest_24hrBr1+ 293SLAM rinderpest infection, 24hr, biol_rep1_CNhs14416_13550-145I4_forward Regulation 
293SLAMRinderpestInfection12hrBiolRep3_CNhs14415_ctss_rev Tc:293SlamRinderpest_12hrBr3- 293SLAM rinderpest infection, 12hr, biol_rep3_CNhs14415_13549-145I3_reverse Regulation 
293SLAMRinderpestInfection12hrBiolRep3_CNhs14415_ctss_fwd Tc:293SlamRinderpest_12hrBr3+ 293SLAM rinderpest infection, 12hr, biol_rep3_CNhs14415_13549-145I3_forward Regulation 
293SLAMRinderpestInfection12hrBiolRep2_CNhs14414_ctss_rev Tc:293SlamRinderpest_12hrBr2- 293SLAM rinderpest infection, 12hr, biol_rep2_CNhs14414_13548-145I2_reverse Regulation 
293SLAMRinderpestInfection12hrBiolRep2_CNhs14414_ctss_fwd Tc:293SlamRinderpest_12hrBr2+ 293SLAM rinderpest infection, 12hr, biol_rep2_CNhs14414_13548-145I2_forward Regulation 
293SLAMRinderpestInfection12hrBiolRep1_CNhs14413_ctss_rev Tc:293SlamRinderpest_12hrBr1- 293SLAM rinderpest infection, 12hr, biol_rep1_CNhs14413_13547-145I1_reverse Regulation 
293SLAMRinderpestInfection12hrBiolRep1_CNhs14413_ctss_fwd Tc:293SlamRinderpest_12hrBr1+ 293SLAM rinderpest infection, 12hr, biol_rep1_CNhs14413_13547-145I1_forward Regulation 
293SLAMRinderpestInfection06hrBiolRep3_CNhs14412_ctss_rev Tc:293SlamRinderpest_06hrBr3- 293SLAM rinderpest infection, 06hr, biol_rep3_CNhs14412_13546-145H9_reverse Regulation 
293SLAMRinderpestInfection06hrBiolRep3_CNhs14412_ctss_fwd Tc:293SlamRinderpest_06hrBr3+ 293SLAM rinderpest infection, 06hr, biol_rep3_CNhs14412_13546-145H9_forward Regulation 
293SLAMRinderpestInfection06hrBiolRep2_CNhs14411_ctss_rev Tc:293SlamRinderpest_06hrBr2- 293SLAM rinderpest infection, 06hr, biol_rep2_CNhs14411_13545-145H8_reverse Regulation 
293SLAMRinderpestInfection06hrBiolRep2_CNhs14411_ctss_fwd Tc:293SlamRinderpest_06hrBr2+ 293SLAM rinderpest infection, 06hr, biol_rep2_CNhs14411_13545-145H8_forward Regulation 
293SLAMRinderpestInfection06hrBiolRep1_CNhs14410_ctss_rev Tc:293SlamRinderpest_06hrBr1- 293SLAM rinderpest infection, 06hr, biol_rep1_CNhs14410_13544-145H7_reverse Regulation 
293SLAMRinderpestInfection06hrBiolRep1_CNhs14410_ctss_fwd Tc:293SlamRinderpest_06hrBr1+ 293SLAM rinderpest infection, 06hr, biol_rep1_CNhs14410_13544-145H7_forward Regulation 
293SLAMRinderpestInfection00hrBiolRep3_CNhs14408_ctss_rev Tc:293SlamRinderpest_00hrBr3- 293SLAM rinderpest infection, 00hr, biol_rep3_CNhs14408_13543-145H6_reverse Regulation 
293SLAMRinderpestInfection00hrBiolRep3_CNhs14408_ctss_fwd Tc:293SlamRinderpest_00hrBr3+ 293SLAM rinderpest infection, 00hr, biol_rep3_CNhs14408_13543-145H6_forward Regulation 
293SLAMRinderpestInfection00hrBiolRep2_CNhs14407_ctss_rev Tc:293SlamRinderpest_00hrBr2- 293SLAM rinderpest infection, 00hr, biol_rep2_CNhs14407_13542-145H5_reverse Regulation 
293SLAMRinderpestInfection00hrBiolRep2_CNhs14407_ctss_fwd Tc:293SlamRinderpest_00hrBr2+ 293SLAM rinderpest infection, 00hr, biol_rep2_CNhs14407_13542-145H5_forward Regulation 
293SLAMRinderpestInfection00hrBiolRep1_CNhs14406_ctss_rev Tc:293SlamRinderpest_00hrBr1- 293SLAM rinderpest infection, 00hr, biol_rep1_CNhs14406_13541-145H4_reverse Regulation 
293SLAMRinderpestInfection00hrBiolRep1_CNhs14406_ctss_fwd Tc:293SlamRinderpest_00hrBr1+ 293SLAM rinderpest infection, 00hr, biol_rep1_CNhs14406_13541-145H4_forward Regulation 
AdipocyteDifferentiationDay12Donor4_CNhs13419_ctss_rev Tc:AdipoDiff_Day12D4- Adipocyte differentiation, day12, donor4_CNhs13419_13030-139E6_reverse Regulation 
AdipocyteDifferentiationDay12Donor4_CNhs13419_ctss_fwd Tc:AdipoDiff_Day12D4+ Adipocyte differentiation, day12, donor4_CNhs13419_13030-139E6_forward Regulation 
AdipocyteDifferentiationDay12Donor3_CNhs13416_ctss_rev Tc:AdipoDiff_Day12D3- Adipocyte differentiation, day12, donor3_CNhs13416_13027-139E3_reverse Regulation 
AdipocyteDifferentiationDay12Donor3_CNhs13416_ctss_fwd Tc:AdipoDiff_Day12D3+ Adipocyte differentiation, day12, donor3_CNhs13416_13027-139E3_forward Regulation 
AdipocyteDifferentiationDay12Donor2_CNhs13412_ctss_rev Tc:AdipoDiff_Day12D2- Adipocyte differentiation, day12, donor2_CNhs13412_13024-139D9_reverse Regulation 
AdipocyteDifferentiationDay12Donor2_CNhs13412_ctss_fwd Tc:AdipoDiff_Day12D2+ Adipocyte differentiation, day12, donor2_CNhs13412_13024-139D9_forward Regulation 
AdipocyteDifferentiationDay12Donor1_CNhs13336_ctss_rev Tc:AdipoDiff_Day12D1- Adipocyte differentiation, day12, donor1_CNhs13336_13021-139D6_reverse Regulation 
AdipocyteDifferentiationDay12Donor1_CNhs13336_ctss_fwd Tc:AdipoDiff_Day12D1+ Adipocyte differentiation, day12, donor1_CNhs13336_13021-139D6_forward Regulation 
AdipocyteDifferentiationDay08Donor4_CNhs13418_ctss_rev Tc:AdipoDiff_Day08D4- Adipocyte differentiation, day08, donor4_CNhs13418_13029-139E5_reverse Regulation 
AdipocyteDifferentiationDay08Donor4_CNhs13418_ctss_fwd Tc:AdipoDiff_Day08D4+ Adipocyte differentiation, day08, donor4_CNhs13418_13029-139E5_forward Regulation 
AdipocyteDifferentiationDay08Donor3_CNhs13415_ctss_rev Tc:AdipoDiff_Day08D3- Adipocyte differentiation, day08, donor3_CNhs13415_13026-139E2_reverse Regulation 
AdipocyteDifferentiationDay08Donor3_CNhs13415_ctss_fwd Tc:AdipoDiff_Day08D3+ Adipocyte differentiation, day08, donor3_CNhs13415_13026-139E2_forward Regulation 
AdipocyteDifferentiationDay08Donor2_CNhs13411_ctss_rev Tc:AdipoDiff_Day08D2- Adipocyte differentiation, day08, donor2_CNhs13411_13023-139D8_reverse Regulation 
AdipocyteDifferentiationDay08Donor2_CNhs13411_ctss_fwd Tc:AdipoDiff_Day08D2+ Adipocyte differentiation, day08, donor2_CNhs13411_13023-139D8_forward Regulation 
AdipocyteDifferentiationDay08Donor1_CNhs12517_ctss_rev Tc:AdipoDiff_Day08D1- Adipocyte differentiation, day08, donor1_CNhs12517_13020-139D5_reverse Regulation 
AdipocyteDifferentiationDay08Donor1_CNhs12517_ctss_fwd Tc:AdipoDiff_Day08D1+ Adipocyte differentiation, day08, donor1_CNhs12517_13020-139D5_forward Regulation 
AdipocyteDifferentiationDay04Donor4_CNhs13417_ctss_rev Tc:AdipoDiff_Day04D4- Adipocyte differentiation, day04, donor4_CNhs13417_13028-139E4_reverse Regulation 
AdipocyteDifferentiationDay04Donor4_CNhs13417_ctss_fwd Tc:AdipoDiff_Day04D4+ Adipocyte differentiation, day04, donor4_CNhs13417_13028-139E4_forward Regulation 
AdipocyteDifferentiationDay04Donor3_CNhs13413_ctss_rev Tc:AdipoDiff_Day04D3- Adipocyte differentiation, day04, donor3_CNhs13413_13025-139E1_reverse Regulation 
AdipocyteDifferentiationDay04Donor3_CNhs13413_ctss_fwd Tc:AdipoDiff_Day04D3+ Adipocyte differentiation, day04, donor3_CNhs13413_13025-139E1_forward Regulation 
AdipocyteDifferentiationDay04Donor2_CNhs13410_ctss_rev Tc:AdipoDiff_Day04D2- Adipocyte differentiation, day04, donor2_CNhs13410_13022-139D7_reverse Regulation 
AdipocyteDifferentiationDay04Donor2_CNhs13410_ctss_fwd Tc:AdipoDiff_Day04D2+ Adipocyte differentiation, day04, donor2_CNhs13410_13022-139D7_forward Regulation 
AdipocyteDifferentiationDay04Donor1_CNhs12516_ctss_rev Tc:AdipoDiff_Day04D1- Adipocyte differentiation, day04, donor1_CNhs12516_13019-139D4_reverse Regulation 
AdipocyteDifferentiationDay04Donor1_CNhs12516_ctss_fwd Tc:AdipoDiff_Day04D1+ Adipocyte differentiation, day04, donor1_CNhs12516_13019-139D4_forward Regulation 
MyoblastDifferentiationToMyotubesDay12ControlDonor3_CNhs14585_ctss_rev MyoblastToMyotubes_Day12D3- Myoblast differentiation to myotubes, day12, control donor3_CNhs14585_13495-145C3_reverse Regulation 
MyoblastDifferentiationToMyotubesDay12DuchenneMuscularDystrophyDonor3_CNhs14613_ctss_rev MyoblastToMyotubes_Day12D3- Myoblast differentiation to myotubes, day12, Duchenne Muscular Dystrophy donor3_CNhs14613_13522-145F3_reverse Regulation 
MyoblastDifferentiationToMyotubesDay12ControlDonor3_CNhs14585_ctss_fwd MyoblastToMyotubes_Day12D3+ Myoblast differentiation to myotubes, day12, control donor3_CNhs14585_13495-145C3_forward Regulation 
MyoblastDifferentiationToMyotubesDay12DuchenneMuscularDystrophyDonor3_CNhs14613_ctss_fwd MyoblastToMyotubes_Day12D3+ Myoblast differentiation to myotubes, day12, Duchenne Muscular Dystrophy donor3_CNhs14613_13522-145F3_forward Regulation 
MyoblastDifferentiationToMyotubesDay12DuchenneMuscularDystrophyDonor2_CNhs14604_ctss_rev MyoblastToMyotubes_Day12D2- Myoblast differentiation to myotubes, day12, Duchenne Muscular Dystrophy donor2_CNhs14604_13513-145E3_reverse Regulation 
MyoblastDifferentiationToMyotubesDay12ControlDonor2_CNhs14576_ctss_rev MyoblastToMyotubes_Day12D2- Myoblast differentiation to myotubes, day12, control donor2_CNhs14576_13486-145B3_reverse Regulation 
MyoblastDifferentiationToMyotubesDay12DuchenneMuscularDystrophyDonor2_CNhs14604_ctss_fwd MyoblastToMyotubes_Day12D2+ Myoblast differentiation to myotubes, day12, Duchenne Muscular Dystrophy donor2_CNhs14604_13513-145E3_forward Regulation 
MyoblastDifferentiationToMyotubesDay12ControlDonor2_CNhs14576_ctss_fwd MyoblastToMyotubes_Day12D2+ Myoblast differentiation to myotubes, day12, control donor2_CNhs14576_13486-145B3_forward Regulation 
MyoblastDifferentiationToMyotubesDay12DuchenneMuscularDystrophyDonor1_CNhs14595_ctss_rev MyoblastToMyotubes_Day12D1- Myoblast differentiation to myotubes, day12, Duchenne Muscular Dystrophy donor1_CNhs14595_13504-145D3_reverse Regulation 
MyoblastDifferentiationToMyotubesDay12ControlDonor1_CNhs14566_ctss_rev MyoblastToMyotubes_Day12D1- Myoblast differentiation to myotubes, day12, control donor1_CNhs14566_13477-145A3_reverse Regulation 
MyoblastDifferentiationToMyotubesDay12DuchenneMuscularDystrophyDonor1_CNhs14595_ctss_fwd MyoblastToMyotubes_Day12D1+ Myoblast differentiation to myotubes, day12, Duchenne Muscular Dystrophy donor1_CNhs14595_13504-145D3_forward Regulation 
MyoblastDifferentiationToMyotubesDay12ControlDonor1_CNhs14566_ctss_fwd MyoblastToMyotubes_Day12D1+ Myoblast differentiation to myotubes, day12, control donor1_CNhs14566_13477-145A3_forward Regulation 
MyoblastDifferentiationToMyotubesDay10DuchenneMuscularDystrophyDonor3_CNhs14612_ctss_rev MyoblastToMyotubes_Day10D3- Myoblast differentiation to myotubes, day10, Duchenne Muscular Dystrophy donor3_CNhs14612_13521-145F2_reverse Regulation 
MyoblastDifferentiationToMyotubesDay10DuchenneMuscularDystrophyDonor3_CNhs14612_ctss_fwd MyoblastToMyotubes_Day10D3+ Myoblast differentiation to myotubes, day10, Duchenne Muscular Dystrophy donor3_CNhs14612_13521-145F2_forward Regulation 
MyoblastDifferentiationToMyotubesDay10DuchenneMuscularDystrophyDonor2_CNhs14603_ctss_rev MyoblastToMyotubes_Day10D2- Myoblast differentiation to myotubes, day10, Duchenne Muscular Dystrophy donor2_CNhs14603_13512-145E2_reverse Regulation 
MyoblastDifferentiationToMyotubesDay10ControlDonor2_CNhs14575_ctss_rev MyoblastToMyotubes_Day10D2- Myoblast differentiation to myotubes, day10, control donor2_CNhs14575_13485-145B2_reverse Regulation 
MyoblastDifferentiationToMyotubesDay10DuchenneMuscularDystrophyDonor2_CNhs14603_ctss_fwd MyoblastToMyotubes_Day10D2+ Myoblast differentiation to myotubes, day10, Duchenne Muscular Dystrophy donor2_CNhs14603_13512-145E2_forward Regulation 
MyoblastDifferentiationToMyotubesDay10ControlDonor2_CNhs14575_ctss_fwd MyoblastToMyotubes_Day10D2+ Myoblast differentiation to myotubes, day10, control donor2_CNhs14575_13485-145B2_forward Regulation 
MyoblastDifferentiationToMyotubesDay10ControlDonor1_CNhs13854_ctss_rev MyoblastToMyotubes_Day10D1- Myoblast differentiation to myotubes, day10, control donor1_CNhs13854_13476-145A2_reverse Regulation 
MyoblastDifferentiationToMyotubesDay10DuchenneMuscularDystrophyDonor1_CNhs14594_ctss_rev MyoblastToMyotubes_Day10D1- Myoblast differentiation to myotubes, day10, Duchenne Muscular Dystrophy donor1_CNhs14594_13503-145D2_reverse Regulation 
MyoblastDifferentiationToMyotubesDay10ControlDonor1_CNhs13854_ctss_fwd MyoblastToMyotubes_Day10D1+ Myoblast differentiation to myotubes, day10, control donor1_CNhs13854_13476-145A2_forward Regulation 
MyoblastDifferentiationToMyotubesDay10DuchenneMuscularDystrophyDonor1_CNhs14594_ctss_fwd MyoblastToMyotubes_Day10D1+ Myoblast differentiation to myotubes, day10, Duchenne Muscular Dystrophy donor1_CNhs14594_13503-145D2_forward Regulation 
MyoblastDifferentiationToMyotubesDay08DuchenneMuscularDystrophyDonor3_CNhs14611_ctss_rev MyoblastToMyotubes_Day08D3- Myoblast differentiation to myotubes, day08, Duchenne Muscular Dystrophy donor3_CNhs14611_13520-145F1_reverse Regulation 
MyoblastDifferentiationToMyotubesDay08ControlDonor3_CNhs14583_ctss_rev MyoblastToMyotubes_Day08D3- Myoblast differentiation to myotubes, day08, control donor3_CNhs14583_13493-145C1_reverse Regulation 
MyoblastDifferentiationToMyotubesDay08DuchenneMuscularDystrophyDonor3_CNhs14611_ctss_fwd MyoblastToMyotubes_Day08D3+ Myoblast differentiation to myotubes, day08, Duchenne Muscular Dystrophy donor3_CNhs14611_13520-145F1_forward Regulation 
MyoblastDifferentiationToMyotubesDay08ControlDonor3_CNhs14583_ctss_fwd MyoblastToMyotubes_Day08D3+ Myoblast differentiation to myotubes, day08, control donor3_CNhs14583_13493-145C1_forward Regulation 
MyoblastDifferentiationToMyotubesDay08ControlDonor2_CNhs14574_ctss_rev MyoblastToMyotubes_Day08D2- Myoblast differentiation to myotubes, day08, control donor2_CNhs14574_13484-145B1_reverse Regulation 
MyoblastDifferentiationToMyotubesDay08DuchenneMuscularDystrophyDonor2_CNhs14602_ctss_rev MyoblastToMyotubes_Day08D2- Myoblast differentiation to myotubes, day08, Duchenne Muscular Dystrophy donor2_CNhs14602_13511-145E1_reverse Regulation 
MyoblastDifferentiationToMyotubesDay08ControlDonor2_CNhs14574_ctss_fwd MyoblastToMyotubes_Day08D2+ Myoblast differentiation to myotubes, day08, control donor2_CNhs14574_13484-145B1_forward Regulation 
MyoblastDifferentiationToMyotubesDay08DuchenneMuscularDystrophyDonor2_CNhs14602_ctss_fwd MyoblastToMyotubes_Day08D2+ Myoblast differentiation to myotubes, day08, Duchenne Muscular Dystrophy donor2_CNhs14602_13511-145E1_forward Regulation 
MyoblastDifferentiationToMyotubesDay08DuchenneMuscularDystrophyDonor1_CNhs14592_ctss_rev MyoblastToMyotubes_Day08D1- Myoblast differentiation to myotubes, day08, Duchenne Muscular Dystrophy donor1_CNhs14592_13502-145D1_reverse Regulation 
MyoblastDifferentiationToMyotubesDay08ControlDonor1_CNhs13853_ctss_rev MyoblastToMyotubes_Day08D1- Myoblast differentiation to myotubes, day08, control donor1_CNhs13853_13475-145A1_reverse Regulation 
MyoblastDifferentiationToMyotubesDay08DuchenneMuscularDystrophyDonor1_CNhs14592_ctss_fwd MyoblastToMyotubes_Day08D1+ Myoblast differentiation to myotubes, day08, Duchenne Muscular Dystrophy donor1_CNhs14592_13502-145D1_forward Regulation 
MyoblastDifferentiationToMyotubesDay08ControlDonor1_CNhs13853_ctss_fwd MyoblastToMyotubes_Day08D1+ Myoblast differentiation to myotubes, day08, control donor1_CNhs13853_13475-145A1_forward Regulation 
MyoblastDifferentiationToMyotubesDay06ControlDonor3_CNhs14582_ctss_rev MyoblastToMyotubes_Day06D3- Myoblast differentiation to myotubes, day06, control donor3_CNhs14582_13492-145B9_reverse Regulation 
MyoblastDifferentiationToMyotubesDay06DuchenneMuscularDystrophyDonor3_CNhs14610_ctss_rev MyoblastToMyotubes_Day06D3- Myoblast differentiation to myotubes, day06, Duchenne Muscular Dystrophy donor3_CNhs14610_13519-145E9_reverse Regulation 
MyoblastDifferentiationToMyotubesDay06ControlDonor3_CNhs14582_ctss_fwd MyoblastToMyotubes_Day06D3+ Myoblast differentiation to myotubes, day06, control donor3_CNhs14582_13492-145B9_forward Regulation 
MyoblastDifferentiationToMyotubesDay06DuchenneMuscularDystrophyDonor3_CNhs14610_ctss_fwd MyoblastToMyotubes_Day06D3+ Myoblast differentiation to myotubes, day06, Duchenne Muscular Dystrophy donor3_CNhs14610_13519-145E9_forward Regulation 
MyoblastDifferentiationToMyotubesDay06ControlDonor2_CNhs14573_ctss_rev MyoblastToMyotubes_Day06D2- Myoblast differentiation to myotubes, day06, control donor2_CNhs14573_13483-145A9_reverse Regulation 
MyoblastDifferentiationToMyotubesDay06ControlDonor2_CNhs14573_ctss_fwd MyoblastToMyotubes_Day06D2+ Myoblast differentiation to myotubes, day06, control donor2_CNhs14573_13483-145A9_forward Regulation 
MyoblastDifferentiationToMyotubesDay06DuchenneMuscularDystrophyDonor1_CNhs14591_ctss_rev MyoblastToMyotubes_Day06D1- Myoblast differentiation to myotubes, day06, Duchenne Muscular Dystrophy donor1_CNhs14591_13501-145C9_reverse Regulation 
MyoblastDifferentiationToMyotubesDay06ControlDonor1_CNhs13852_ctss_rev MyoblastToMyotubes_Day06D1- Myoblast differentiation to myotubes, day06, control donor1_CNhs13852_13474-144I9_reverse Regulation 
MyoblastDifferentiationToMyotubesDay06DuchenneMuscularDystrophyDonor1_CNhs14591_ctss_fwd MyoblastToMyotubes_Day06D1+ Myoblast differentiation to myotubes, day06, Duchenne Muscular Dystrophy donor1_CNhs14591_13501-145C9_forward Regulation 
MyoblastDifferentiationToMyotubesDay06ControlDonor1_CNhs13852_ctss_fwd MyoblastToMyotubes_Day06D1+ Myoblast differentiation to myotubes, day06, control donor1_CNhs13852_13474-144I9_forward Regulation 
MyoblastDifferentiationToMyotubesDay04DuchenneMuscularDystrophyDonor3_CNhs14609_ctss_rev MyoblastToMyotubes_Day04D3- Myoblast differentiation to myotubes, day04, Duchenne Muscular Dystrophy donor3_CNhs14609_13518-145E8_reverse Regulation 
MyoblastDifferentiationToMyotubesDay04ControlDonor3_CNhs14581_ctss_rev MyoblastToMyotubes_Day04D3- Myoblast differentiation to myotubes, day04, control donor3_CNhs14581_13491-145B8_reverse Regulation 
MyoblastDifferentiationToMyotubesDay04DuchenneMuscularDystrophyDonor3_CNhs14609_ctss_fwd MyoblastToMyotubes_Day04D3+ Myoblast differentiation to myotubes, day04, Duchenne Muscular Dystrophy donor3_CNhs14609_13518-145E8_forward Regulation 
MyoblastDifferentiationToMyotubesDay04ControlDonor3_CNhs14581_ctss_fwd MyoblastToMyotubes_Day04D3+ Myoblast differentiation to myotubes, day04, control donor3_CNhs14581_13491-145B8_forward Regulation 
MyoblastDifferentiationToMyotubesDay04DuchenneMuscularDystrophyDonor2_CNhs14600_ctss_rev MyoblastToMyotubes_Day04D2- Myoblast differentiation to myotubes, day04, Duchenne Muscular Dystrophy donor2_CNhs14600_13509-145D8_reverse Regulation 
MyoblastDifferentiationToMyotubesDay04ControlDonor2_CNhs14572_ctss_rev MyoblastToMyotubes_Day04D2- Myoblast differentiation to myotubes, day04, control donor2_CNhs14572_13482-145A8_reverse Regulation 
MyoblastDifferentiationToMyotubesDay04DuchenneMuscularDystrophyDonor2_CNhs14600_ctss_fwd MyoblastToMyotubes_Day04D2+ Myoblast differentiation to myotubes, day04, Duchenne Muscular Dystrophy donor2_CNhs14600_13509-145D8_forward Regulation 
MyoblastDifferentiationToMyotubesDay04ControlDonor2_CNhs14572_ctss_fwd MyoblastToMyotubes_Day04D2+ Myoblast differentiation to myotubes, day04, control donor2_CNhs14572_13482-145A8_forward Regulation 
MyoblastDifferentiationToMyotubesDay04DuchenneMuscularDystrophyDonor1_CNhs14590_ctss_rev MyoblastToMyotubes_Day04D1- Myoblast differentiation to myotubes, day04, Duchenne Muscular Dystrophy donor1_CNhs14590_13500-145C8_reverse Regulation 
MyoblastDifferentiationToMyotubesDay04ControlDonor1_CNhs13851_ctss_rev MyoblastToMyotubes_Day04D1- Myoblast differentiation to myotubes, day04, control donor1_CNhs13851_13473-144I8_reverse Regulation 
MyoblastDifferentiationToMyotubesDay04DuchenneMuscularDystrophyDonor1_CNhs14590_ctss_fwd MyoblastToMyotubes_Day04D1+ Myoblast differentiation to myotubes, day04, Duchenne Muscular Dystrophy donor1_CNhs14590_13500-145C8_forward Regulation 
MyoblastDifferentiationToMyotubesDay04ControlDonor1_CNhs13851_ctss_fwd MyoblastToMyotubes_Day04D1+ Myoblast differentiation to myotubes, day04, control donor1_CNhs13851_13473-144I8_forward Regulation 
MyoblastDifferentiationToMyotubesDay03ControlDonor3_CNhs14580_ctss_rev MyoblastToMyotubes_Day03D3- Myoblast differentiation to myotubes, day03, control donor3_CNhs14580_13490-145B7_reverse Regulation 
MyoblastDifferentiationToMyotubesDay03ControlDonor3_CNhs14580_ctss_fwd MyoblastToMyotubes_Day03D3+ Myoblast differentiation to myotubes, day03, control donor3_CNhs14580_13490-145B7_forward Regulation 
MyoblastDifferentiationToMyotubesDay03DuchenneMuscularDystrophyDonor2_CNhs14599_ctss_rev MyoblastToMyotubes_Day03D2- Myoblast differentiation to myotubes, day03, Duchenne Muscular Dystrophy donor2_CNhs14599_13508-145D7_reverse Regulation 
MyoblastDifferentiationToMyotubesDay03ControlDonor2_CNhs14571_ctss_rev MyoblastToMyotubes_Day03D2- Myoblast differentiation to myotubes, day03, control donor2_CNhs14571_13481-145A7_reverse Regulation 
MyoblastDifferentiationToMyotubesDay03DuchenneMuscularDystrophyDonor2_CNhs14599_ctss_fwd MyoblastToMyotubes_Day03D2+ Myoblast differentiation to myotubes, day03, Duchenne Muscular Dystrophy donor2_CNhs14599_13508-145D7_forward Regulation 
MyoblastDifferentiationToMyotubesDay03ControlDonor2_CNhs14571_ctss_fwd MyoblastToMyotubes_Day03D2+ Myoblast differentiation to myotubes, day03, control donor2_CNhs14571_13481-145A7_forward Regulation 
MyoblastDifferentiationToMyotubesDay03ControlDonor1_CNhs13850_ctss_rev MyoblastToMyotubes_Day03D1- Myoblast differentiation to myotubes, day03, control donor1_CNhs13850_13472-144I7_reverse Regulation 
MyoblastDifferentiationToMyotubesDay03DuchenneMuscularDystrophyDonor1_CNhs14589_ctss_rev MyoblastToMyotubes_Day03D1- Myoblast differentiation to myotubes, day03, Duchenne Muscular Dystrophy donor1_CNhs14589_13499-145C7_reverse Regulation 
MyoblastDifferentiationToMyotubesDay03ControlDonor1_CNhs13850_ctss_fwd MyoblastToMyotubes_Day03D1+ Myoblast differentiation to myotubes, day03, control donor1_CNhs13850_13472-144I7_forward Regulation 
MyoblastDifferentiationToMyotubesDay03DuchenneMuscularDystrophyDonor1_CNhs14589_ctss_fwd MyoblastToMyotubes_Day03D1+ Myoblast differentiation to myotubes, day03, Duchenne Muscular Dystrophy donor1_CNhs14589_13499-145C7_forward Regulation 
MyoblastDifferentiationToMyotubesDay02DuchenneMuscularDystrophyDonor3_CNhs14607_ctss_rev MyoblastToMyotubes_Day02D3- Myoblast differentiation to myotubes, day02, Duchenne Muscular Dystrophy donor3_CNhs14607_13516-145E6_reverse Regulation 
MyoblastDifferentiationToMyotubesDay02ControlDonor3_CNhs14579_ctss_rev MyoblastToMyotubes_Day02D3- Myoblast differentiation to myotubes, day02, control donor3_CNhs14579_13489-145B6_reverse Regulation 
MyoblastDifferentiationToMyotubesDay02DuchenneMuscularDystrophyDonor3_CNhs14607_ctss_fwd MyoblastToMyotubes_Day02D3+ Myoblast differentiation to myotubes, day02, Duchenne Muscular Dystrophy donor3_CNhs14607_13516-145E6_forward Regulation 
MyoblastDifferentiationToMyotubesDay02ControlDonor3_CNhs14579_ctss_fwd MyoblastToMyotubes_Day02D3+ Myoblast differentiation to myotubes, day02, control donor3_CNhs14579_13489-145B6_forward Regulation 
MyoblastDifferentiationToMyotubesDay02DuchenneMuscularDystrophyDonor2_CNhs14598_ctss_rev MyoblastToMyotubes_Day02D2- Myoblast differentiation to myotubes, day02, Duchenne Muscular Dystrophy donor2_CNhs14598_13507-145D6_reverse Regulation 
MyoblastDifferentiationToMyotubesDay02ControlDonor2_CNhs14570_ctss_rev MyoblastToMyotubes_Day02D2- Myoblast differentiation to myotubes, day02, control donor2_CNhs14570_13480-145A6_reverse Regulation 
MyoblastDifferentiationToMyotubesDay02DuchenneMuscularDystrophyDonor2_CNhs14598_ctss_fwd MyoblastToMyotubes_Day02D2+ Myoblast differentiation to myotubes, day02, Duchenne Muscular Dystrophy donor2_CNhs14598_13507-145D6_forward Regulation 
MyoblastDifferentiationToMyotubesDay02ControlDonor2_CNhs14570_ctss_fwd MyoblastToMyotubes_Day02D2+ Myoblast differentiation to myotubes, day02, control donor2_CNhs14570_13480-145A6_forward Regulation 
MyoblastDifferentiationToMyotubesDay02DuchenneMuscularDystrophyDonor1_CNhs14588_ctss_rev MyoblastToMyotubes_Day02D1- Myoblast differentiation to myotubes, day02, Duchenne Muscular Dystrophy donor1_CNhs14588_13498-145C6_reverse Regulation 
MyoblastDifferentiationToMyotubesDay02ControlDonor1_CNhs13849_ctss_rev MyoblastToMyotubes_Day02D1- Myoblast differentiation to myotubes, day02, control donor1_CNhs13849_13471-144I6_reverse Regulation 
MyoblastDifferentiationToMyotubesDay02DuchenneMuscularDystrophyDonor1_CNhs14588_ctss_fwd MyoblastToMyotubes_Day02D1+ Myoblast differentiation to myotubes, day02, Duchenne Muscular Dystrophy donor1_CNhs14588_13498-145C6_forward Regulation 
MyoblastDifferentiationToMyotubesDay02ControlDonor1_CNhs13849_ctss_fwd MyoblastToMyotubes_Day02D1+ Myoblast differentiation to myotubes, day02, control donor1_CNhs13849_13471-144I6_forward Regulation 
MyoblastDifferentiationToMyotubesDay01ControlDonor3_CNhs14578_ctss_rev MyoblastToMyotubes_Day01D3- Myoblast differentiation to myotubes, day01, control donor3_CNhs14578_13488-145B5_reverse Regulation 
MyoblastDifferentiationToMyotubesDay01DuchenneMuscularDystrophyDonor3_CNhs14606_ctss_rev MyoblastToMyotubes_Day01D3- Myoblast differentiation to myotubes, day01, Duchenne Muscular Dystrophy donor3_CNhs14606_13515-145E5_reverse Regulation 
MyoblastDifferentiationToMyotubesDay01DuchenneMuscularDystrophyDonor3_CNhs14606_ctss_fwd MyoblastToMyotubes_Day01D3+ Myoblast differentiation to myotubes, day01, Duchenne Muscular Dystrophy donor3_CNhs14606_13515-145E5_forward Regulation 
MyoblastDifferentiationToMyotubesDay01ControlDonor3_CNhs14578_ctss_fwd MyoblastToMyotubes_Day01D3+ Myoblast differentiation to myotubes, day01, control donor3_CNhs14578_13488-145B5_forward Regulation 
MyoblastDifferentiationToMyotubesDay01DuchenneMuscularDystrophyDonor2_CNhs14597_ctss_rev MyoblastToMyotubes_Day01D2- Myoblast differentiation to myotubes, day01, Duchenne Muscular Dystrophy donor2_CNhs14597_13506-145D5_reverse Regulation 
MyoblastDifferentiationToMyotubesDay01DuchenneMuscularDystrophyDonor2_CNhs14597_ctss_fwd MyoblastToMyotubes_Day01D2+ Myoblast differentiation to myotubes, day01, Duchenne Muscular Dystrophy donor2_CNhs14597_13506-145D5_forward Regulation 
MyoblastDifferentiationToMyotubesDay01ControlDonor1_CNhs13848_ctss_rev MyoblastToMyotubes_Day01D1- Myoblast differentiation to myotubes, day01, control donor1_CNhs13848_13470-144I5_reverse Regulation 
MyoblastDifferentiationToMyotubesDay01DuchenneMuscularDystrophyDonor1_CNhs14587_ctss_rev MyoblastToMyotubes_Day01D1- Myoblast differentiation to myotubes, day01, Duchenne Muscular Dystrophy donor1_CNhs14587_13497-145C5_reverse Regulation 
MyoblastDifferentiationToMyotubesDay01ControlDonor1_CNhs13848_ctss_fwd MyoblastToMyotubes_Day01D1+ Myoblast differentiation to myotubes, day01, control donor1_CNhs13848_13470-144I5_forward Regulation 
MyoblastDifferentiationToMyotubesDay01DuchenneMuscularDystrophyDonor1_CNhs14587_ctss_fwd MyoblastToMyotubes_Day01D1+ Myoblast differentiation to myotubes, day01, Duchenne Muscular Dystrophy donor1_CNhs14587_13497-145C5_forward Regulation 
MyoblastDifferentiationToMyotubesDay00ControlDonor3_CNhs14577_ctss_rev MyoblastToMyotubes_Day00D3- Myoblast differentiation to myotubes, day00, control donor3_CNhs14577_13487-145B4_reverse Regulation 
MyoblastDifferentiationToMyotubesDay00DuchenneMuscularDystrophyDonor3_CNhs14605_ctss_rev MyoblastToMyotubes_Day00D3- Myoblast differentiation to myotubes, day00, Duchenne Muscular Dystrophy donor3_CNhs14605_13514-145E4_reverse Regulation 
MyoblastDifferentiationToMyotubesDay00ControlDonor3_CNhs14577_ctss_fwd MyoblastToMyotubes_Day00D3+ Myoblast differentiation to myotubes, day00, control donor3_CNhs14577_13487-145B4_forward Regulation 
MyoblastDifferentiationToMyotubesDay00DuchenneMuscularDystrophyDonor3_CNhs14605_ctss_fwd MyoblastToMyotubes_Day00D3+ Myoblast differentiation to myotubes, day00, Duchenne Muscular Dystrophy donor3_CNhs14605_13514-145E4_forward Regulation 
MyoblastDifferentiationToMyotubesDay00DuchenneMuscularDystrophyDonor2_CNhs14596_ctss_rev MyoblastToMyotubes_Day00D2- Myoblast differentiation to myotubes, day00, Duchenne Muscular Dystrophy donor2_CNhs14596_13505-145D4_reverse Regulation 
MyoblastDifferentiationToMyotubesDay00ControlDonor2_CNhs14567_ctss_rev MyoblastToMyotubes_Day00D2- Myoblast differentiation to myotubes, day00, control donor2_CNhs14567_13478-145A4_reverse Regulation 
MyoblastDifferentiationToMyotubesDay00DuchenneMuscularDystrophyDonor2_CNhs14596_ctss_fwd MyoblastToMyotubes_Day00D2+ Myoblast differentiation to myotubes, day00, Duchenne Muscular Dystrophy donor2_CNhs14596_13505-145D4_forward Regulation 
MyoblastDifferentiationToMyotubesDay00ControlDonor2_CNhs14567_ctss_fwd MyoblastToMyotubes_Day00D2+ Myoblast differentiation to myotubes, day00, control donor2_CNhs14567_13478-145A4_forward Regulation 
MyoblastDifferentiationToMyotubesDay00DuchenneMuscularDystrophyDonor1_CNhs14586_ctss_rev MyoblastToMyotubes_Day00D1- Myoblast differentiation to myotubes, day00, Duchenne Muscular Dystrophy donor1_CNhs14586_13496-145C4_reverse Regulation 
MyoblastDifferentiationToMyotubesDay00ControlDonor1_CNhs13847_ctss_rev MyoblastToMyotubes_Day00D1- Myoblast differentiation to myotubes, day00, control donor1_CNhs13847_13469-144I4_reverse Regulation 
MyoblastDifferentiationToMyotubesDay00DuchenneMuscularDystrophyDonor1_CNhs14586_ctss_fwd MyoblastToMyotubes_Day00D1+ Myoblast differentiation to myotubes, day00, Duchenne Muscular Dystrophy donor1_CNhs14586_13496-145C4_forward Regulation 
MyoblastDifferentiationToMyotubesDay00ControlDonor1_CNhs13847_ctss_fwd MyoblastToMyotubes_Day00D1+ Myoblast differentiation to myotubes, day00, control donor1_CNhs13847_13469-144I4_forward Regulation 
MonocytederivedMacrophagesResponseToLPS48hrDonor2T26Subject2_CNhs13405_ctss_rev Tc:MdmToLps_48hrD2- Monocyte-derived macrophages response to LPS, 48hr, donor2 (t26 Subject2)_CNhs13405_12821-136I4_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS48hrDonor2T26Subject2_CNhs13405_ctss_fwd Tc:MdmToLps_48hrD2+ Monocyte-derived macrophages response to LPS, 48hr, donor2 (t26 Subject2)_CNhs13405_12821-136I4_forward Regulation 
MonocytederivedMacrophagesResponseToLPS48hrDonor1T26Subject1_CNhs11942_ctss_rev Tc:MdmToLps_48hrD1- Monocyte-derived macrophages response to LPS, 48hr, donor1 (t26 Subject1)_CNhs11942_12723-135G5_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS48hrDonor1T26Subject1_CNhs11942_ctss_fwd Tc:MdmToLps_48hrD1+ Monocyte-derived macrophages response to LPS, 48hr, donor1 (t26 Subject1)_CNhs11942_12723-135G5_forward Regulation 
MonocytederivedMacrophagesResponseToLPS36hrDonor3T25Subject3_CNhs13335_ctss_rev Tc:MdmToLps_36hrD3- Monocyte-derived macrophages response to LPS, 36hr, donor3 (t25 Subject3)_CNhs13335_12918-138B2_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS36hrDonor3T25Subject3_CNhs13335_ctss_fwd Tc:MdmToLps_36hrD3+ Monocyte-derived macrophages response to LPS, 36hr, donor3 (t25 Subject3)_CNhs13335_12918-138B2_forward Regulation 
MonocytederivedMacrophagesResponseToLPS36hrDonor2T25Subject2_CNhs13404_ctss_rev Tc:MdmToLps_36hrD2- Monocyte-derived macrophages response to LPS, 36hr, donor2 (t25 Subject2)_CNhs13404_12820-136I3_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS36hrDonor2T25Subject2_CNhs13404_ctss_fwd Tc:MdmToLps_36hrD2+ Monocyte-derived macrophages response to LPS, 36hr, donor2 (t25 Subject2)_CNhs13404_12820-136I3_forward Regulation 
MonocytederivedMacrophagesResponseToLPS36hrDonor1T25Subject1_CNhs12933_ctss_rev Tc:MdmToLps_36hrD1- Monocyte-derived macrophages response to LPS, 36hr, donor1 (t25 Subject1)_CNhs12933_12722-135G4_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS36hrDonor1T25Subject1_CNhs12933_ctss_fwd Tc:MdmToLps_36hrD1+ Monocyte-derived macrophages response to LPS, 36hr, donor1 (t25 Subject1)_CNhs12933_12722-135G4_forward Regulation 
MonocytederivedMacrophagesResponseToLPS24hrDonor3T24Subject3_CNhs13334_ctss_rev Tc:MdmToLps_24hrD3- Monocyte-derived macrophages response to LPS, 24hr, donor3 (t24 Subject3)_CNhs13334_12917-138B1_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS24hrDonor3T24Subject3_CNhs13334_ctss_fwd Tc:MdmToLps_24hrD3+ Monocyte-derived macrophages response to LPS, 24hr, donor3 (t24 Subject3)_CNhs13334_12917-138B1_forward Regulation 
MonocytederivedMacrophagesResponseToLPS24hrDonor2T24Subject2_CNhs13403_ctss_rev Tc:MdmToLps_24hrD2- Monocyte-derived macrophages response to LPS, 24hr, donor2 (t24 Subject2)_CNhs13403_12819-136I2_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS24hrDonor2T24Subject2_CNhs13403_ctss_fwd Tc:MdmToLps_24hrD2+ Monocyte-derived macrophages response to LPS, 24hr, donor2 (t24 Subject2)_CNhs13403_12819-136I2_forward Regulation 
MonocytederivedMacrophagesResponseToLPS24hrDonor1T24Subject1_CNhs12932_ctss_rev Tc:MdmToLps_24hrD1- Monocyte-derived macrophages response to LPS, 24hr, donor1 (t24 Subject1)_CNhs12932_12721-135G3_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS24hrDonor1T24Subject1_CNhs12932_ctss_fwd Tc:MdmToLps_24hrD1+ Monocyte-derived macrophages response to LPS, 24hr, donor1 (t24 Subject1)_CNhs12932_12721-135G3_forward Regulation 
MonocytederivedMacrophagesResponseToLPS22hrDonor3T23Subject3_CNhs13333_ctss_rev Tc:MdmToLps_22hrD3- Monocyte-derived macrophages response to LPS, 22hr, donor3 (t23 Subject3)_CNhs13333_12916-138A9_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS22hrDonor3T23Subject3_CNhs13333_ctss_fwd Tc:MdmToLps_22hrD3+ Monocyte-derived macrophages response to LPS, 22hr, donor3 (t23 Subject3)_CNhs13333_12916-138A9_forward Regulation 
MonocytederivedMacrophagesResponseToLPS22hrDonor2T23Subject2_CNhs13402_ctss_rev Tc:MdmToLps_22hrD2- Monocyte-derived macrophages response to LPS, 22hr, donor2 (t23 Subject2)_CNhs13402_12818-136I1_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS22hrDonor2T23Subject2_CNhs13402_ctss_fwd Tc:MdmToLps_22hrD2+ Monocyte-derived macrophages response to LPS, 22hr, donor2 (t23 Subject2)_CNhs13402_12818-136I1_forward Regulation 
MonocytederivedMacrophagesResponseToLPS22hrDonor1T23Subject1_CNhs12815_ctss_rev Tc:MdmToLps_22hrD1- Monocyte-derived macrophages response to LPS, 22hr, donor1 (t23 Subject1)_CNhs12815_12720-135G2_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS22hrDonor1T23Subject1_CNhs12815_ctss_fwd Tc:MdmToLps_22hrD1+ Monocyte-derived macrophages response to LPS, 22hr, donor1 (t23 Subject1)_CNhs12815_12720-135G2_forward Regulation 
MonocytederivedMacrophagesResponseToLPS20hrDonor3T22Subject3_CNhs13332_ctss_rev Tc:MdmToLps_20hrD3- Monocyte-derived macrophages response to LPS, 20hr, donor3 (t22 Subject3)_CNhs13332_12915-138A8_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS20hrDonor3T22Subject3_CNhs13332_ctss_fwd Tc:MdmToLps_20hrD3+ Monocyte-derived macrophages response to LPS, 20hr, donor3 (t22 Subject3)_CNhs13332_12915-138A8_forward Regulation 
MonocytederivedMacrophagesResponseToLPS20hrDonor2T22Subject2_CNhs13401_ctss_rev Tc:MdmToLps_20hrD2- Monocyte-derived macrophages response to LPS, 20hr, donor2 (t22 Subject2)_CNhs13401_12817-136H9_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS20hrDonor2T22Subject2_CNhs13401_ctss_fwd Tc:MdmToLps_20hrD2+ Monocyte-derived macrophages response to LPS, 20hr, donor2 (t22 Subject2)_CNhs13401_12817-136H9_forward Regulation 
MonocytederivedMacrophagesResponseToLPS20hrDonor1T22Subject1_CNhs12931_ctss_rev Tc:MdmToLps_20hrD1- Monocyte-derived macrophages response to LPS, 20hr, donor1 (t22 Subject1)_CNhs12931_12719-135G1_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS20hrDonor1T22Subject1_CNhs12931_ctss_fwd Tc:MdmToLps_20hrD1+ Monocyte-derived macrophages response to LPS, 20hr, donor1 (t22 Subject1)_CNhs12931_12719-135G1_forward Regulation 
MonocytederivedMacrophagesResponseToLPS18hrDonor3T21Subject3_CNhs13331_ctss_rev Tc:MdmToLps_18hrD3- Monocyte-derived macrophages response to LPS, 18hr, donor3 (t21 Subject3)_CNhs13331_12914-138A7_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS18hrDonor3T21Subject3_CNhs13331_ctss_fwd Tc:MdmToLps_18hrD3+ Monocyte-derived macrophages response to LPS, 18hr, donor3 (t21 Subject3)_CNhs13331_12914-138A7_forward Regulation 
MonocytederivedMacrophagesResponseToLPS18hrDonor2T21Subject2_CNhs13400_ctss_rev Tc:MdmToLps_18hrD2- Monocyte-derived macrophages response to LPS, 18hr, donor2 (t21 Subject2)_CNhs13400_12816-136H8_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS18hrDonor2T21Subject2_CNhs13400_ctss_fwd Tc:MdmToLps_18hrD2+ Monocyte-derived macrophages response to LPS, 18hr, donor2 (t21 Subject2)_CNhs13400_12816-136H8_forward Regulation 
MonocytederivedMacrophagesResponseToLPS18hrDonor1T21Subject1_CNhs12814_ctss_rev Tc:MdmToLps_18hrD1- Monocyte-derived macrophages response to LPS, 18hr, donor1 (t21 Subject1)_CNhs12814_12718-135F9_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS18hrDonor1T21Subject1_CNhs12814_ctss_fwd Tc:MdmToLps_18hrD1+ Monocyte-derived macrophages response to LPS, 18hr, donor1 (t21 Subject1)_CNhs12814_12718-135F9_forward Regulation 
MonocytederivedMacrophagesResponseToLPS16hrDonor3T20Subject3_CNhs13330_ctss_rev Tc:MdmToLps_16hrD3- Monocyte-derived macrophages response to LPS, 16hr, donor3 (t20 Subject3)_CNhs13330_12913-138A6_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS16hrDonor3T20Subject3_CNhs13330_ctss_fwd Tc:MdmToLps_16hrD3+ Monocyte-derived macrophages response to LPS, 16hr, donor3 (t20 Subject3)_CNhs13330_12913-138A6_forward Regulation 
MonocytederivedMacrophagesResponseToLPS16hrDonor2T20Subject2_CNhs13399_ctss_rev Tc:MdmToLps_16hrD2- Monocyte-derived macrophages response to LPS, 16hr, donor2 (t20 Subject2)_CNhs13399_12815-136H7_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS16hrDonor2T20Subject2_CNhs13399_ctss_fwd Tc:MdmToLps_16hrD2+ Monocyte-derived macrophages response to LPS, 16hr, donor2 (t20 Subject2)_CNhs13399_12815-136H7_forward Regulation 
MonocytederivedMacrophagesResponseToLPS14hrDonor3T19Subject3_CNhs13329_ctss_rev Tc:MdmToLps_14hrD3- Monocyte-derived macrophages response to LPS, 14hr, donor3 (t19 Subject3)_CNhs13329_12912-138A5_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS14hrDonor3T19Subject3_CNhs13329_ctss_fwd Tc:MdmToLps_14hrD3+ Monocyte-derived macrophages response to LPS, 14hr, donor3 (t19 Subject3)_CNhs13329_12912-138A5_forward Regulation 
MonocytederivedMacrophagesResponseToLPS14hrDonor2T19Subject2_CNhs13398_ctss_rev Tc:MdmToLps_14hrD2- Monocyte-derived macrophages response to LPS, 14hr, donor2 (t19 Subject2)_CNhs13398_12814-136H6_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS14hrDonor2T19Subject2_CNhs13398_ctss_fwd Tc:MdmToLps_14hrD2+ Monocyte-derived macrophages response to LPS, 14hr, donor2 (t19 Subject2)_CNhs13398_12814-136H6_forward Regulation 
MonocytederivedMacrophagesResponseToLPS14hrDonor1T19Subject1_CNhs12929_ctss_rev Tc:MdmToLps_14hrD1- Monocyte-derived macrophages response to LPS, 14hr, donor1 (t19 Subject1)_CNhs12929_12716-135F7_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS14hrDonor1T19Subject1_CNhs12929_ctss_fwd Tc:MdmToLps_14hrD1+ Monocyte-derived macrophages response to LPS, 14hr, donor1 (t19 Subject1)_CNhs12929_12716-135F7_forward Regulation 
MonocytederivedMacrophagesResponseToLPS12hrDonor3T18Subject3_CNhs13328_ctss_rev Tc:MdmToLps_12hrD3- Monocyte-derived macrophages response to LPS, 12hr, donor3 (t18 Subject3)_CNhs13328_12911-138A4_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS12hrDonor3T18Subject3_CNhs13328_ctss_fwd Tc:MdmToLps_12hrD3+ Monocyte-derived macrophages response to LPS, 12hr, donor3 (t18 Subject3)_CNhs13328_12911-138A4_forward Regulation 
MonocytederivedMacrophagesResponseToLPS12hrDonor2T18Subject2_CNhs13397_ctss_rev Tc:MdmToLps_12hrD2- Monocyte-derived macrophages response to LPS, 12hr, donor2 (t18 Subject2)_CNhs13397_12813-136H5_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS12hrDonor2T18Subject2_CNhs13397_ctss_fwd Tc:MdmToLps_12hrD2+ Monocyte-derived macrophages response to LPS, 12hr, donor2 (t18 Subject2)_CNhs13397_12813-136H5_forward Regulation 
MonocytederivedMacrophagesResponseToLPS12hrDonor1T18Subject1_CNhs12813_ctss_rev Tc:MdmToLps_12hrD1- Monocyte-derived macrophages response to LPS, 12hr, donor1 (t18 Subject1)_CNhs12813_12715-135F6_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS12hrDonor1T18Subject1_CNhs12813_ctss_fwd Tc:MdmToLps_12hrD1+ Monocyte-derived macrophages response to LPS, 12hr, donor1 (t18 Subject1)_CNhs12813_12715-135F6_forward Regulation 
MonocytederivedMacrophagesResponseToLPS10hrDonor3T17Subject3_CNhs13327_ctss_rev Tc:MdmToLps_10hrD3- Monocyte-derived macrophages response to LPS, 10hr, donor3 (t17 Subject3)_CNhs13327_12910-138A3_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS10hrDonor3T17Subject3_CNhs13327_ctss_fwd Tc:MdmToLps_10hrD3+ Monocyte-derived macrophages response to LPS, 10hr, donor3 (t17 Subject3)_CNhs13327_12910-138A3_forward Regulation 
MonocytederivedMacrophagesResponseToLPS10hrDonor2T17Subject2_CNhs13396_ctss_rev Tc:MdmToLps_10hrD2- Monocyte-derived macrophages response to LPS, 10hr, donor2 (t17 Subject2)_CNhs13396_12812-136H4_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS10hrDonor2T17Subject2_CNhs13396_ctss_fwd Tc:MdmToLps_10hrD2+ Monocyte-derived macrophages response to LPS, 10hr, donor2 (t17 Subject2)_CNhs13396_12812-136H4_forward Regulation 
MonocytederivedMacrophagesResponseToLPS08hrDonor3T16Subject3_CNhs13326_ctss_rev Tc:MdmToLps_08hrD3- Monocyte-derived macrophages response to LPS, 08hr, donor3 (t16 Subject3)_CNhs13326_12909-138A2_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS08hrDonor3T16Subject3_CNhs13326_ctss_fwd Tc:MdmToLps_08hrD3+ Monocyte-derived macrophages response to LPS, 08hr, donor3 (t16 Subject3)_CNhs13326_12909-138A2_forward Regulation 
MonocytederivedMacrophagesResponseToLPS08hrDonor2T16Subject2_CNhs13395_ctss_rev Tc:MdmToLps_08hrD2- Monocyte-derived macrophages response to LPS, 08hr, donor2 (t16 Subject2)_CNhs13395_12811-136H3_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS08hrDonor2T16Subject2_CNhs13395_ctss_fwd Tc:MdmToLps_08hrD2+ Monocyte-derived macrophages response to LPS, 08hr, donor2 (t16 Subject2)_CNhs13395_12811-136H3_forward Regulation 
MonocytederivedMacrophagesResponseToLPS08hrDonor1T16Subject1_CNhs12927_ctss_rev Tc:MdmToLps_08hrD1- Monocyte-derived macrophages response to LPS, 08hr, donor1 (t16 Subject1)_CNhs12927_12713-135F4_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS08hrDonor1T16Subject1_CNhs12927_ctss_fwd Tc:MdmToLps_08hrD1+ Monocyte-derived macrophages response to LPS, 08hr, donor1 (t16 Subject1)_CNhs12927_12713-135F4_forward Regulation 
MonocytederivedMacrophagesResponseToLPS05hrDonor3T13Subject3_CNhs13186_ctss_rev Tc:MdmToLps_05hrD3- Monocyte-derived macrophages response to LPS, 05hr, donor3 (t13 Subject3)_CNhs13186_12906-137I8_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS05hrDonor3T13Subject3_CNhs13186_ctss_fwd Tc:MdmToLps_05hrD3+ Monocyte-derived macrophages response to LPS, 05hr, donor3 (t13 Subject3)_CNhs13186_12906-137I8_forward Regulation 
MonocytederivedMacrophagesResponseToLPS05hrDonor2T13Subject2_CNhs13392_ctss_rev Tc:MdmToLps_05hrD2- Monocyte-derived macrophages response to LPS, 05hr, donor2 (t13 Subject2)_CNhs13392_12808-136G9_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS05hrDonor2T13Subject2_CNhs13392_ctss_fwd Tc:MdmToLps_05hrD2+ Monocyte-derived macrophages response to LPS, 05hr, donor2 (t13 Subject2)_CNhs13392_12808-136G9_forward Regulation 
MonocytederivedMacrophagesResponseToLPS05hrDonor1T13Subject1_CNhs13155_ctss_rev Tc:MdmToLps_05hrD1- Monocyte-derived macrophages response to LPS, 05hr, donor1 (t13 Subject1)_CNhs13155_12710-135F1_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS05hrDonor1T13Subject1_CNhs13155_ctss_fwd Tc:MdmToLps_05hrD1+ Monocyte-derived macrophages response to LPS, 05hr, donor1 (t13 Subject1)_CNhs13155_12710-135F1_forward Regulation 
MonocytederivedMacrophagesResponseToLPS04hrDonor3T12Subject3_CNhs13185_ctss_rev Tc:MdmToLps_04hrD3- Monocyte-derived macrophages response to LPS, 04hr, donor3 (t12 Subject3)_CNhs13185_12905-137I7_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS04hrDonor3T12Subject3_CNhs13185_ctss_fwd Tc:MdmToLps_04hrD3+ Monocyte-derived macrophages response to LPS, 04hr, donor3 (t12 Subject3)_CNhs13185_12905-137I7_forward Regulation 
MonocytederivedMacrophagesResponseToLPS04hrDonor2T12Subject2_CNhs13391_ctss_rev Tc:MdmToLps_04hrD2- Monocyte-derived macrophages response to LPS, 04hr, donor2 (t12 Subject2)_CNhs13391_12807-136G8_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS04hrDonor2T12Subject2_CNhs13391_ctss_fwd Tc:MdmToLps_04hrD2+ Monocyte-derived macrophages response to LPS, 04hr, donor2 (t12 Subject2)_CNhs13391_12807-136G8_forward Regulation 
MonocytederivedMacrophagesResponseToLPS03hr30minDonor3T11Subject3_CNhs13184_ctss_rev Tc:MdmToLps_03hr30minD3- Monocyte-derived macrophages response to LPS, 03hr30min, donor3 (t11 Subject3)_CNhs13184_12904-137I6_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS03hr30minDonor3T11Subject3_CNhs13184_ctss_fwd Tc:MdmToLps_03hr30minD3+ Monocyte-derived macrophages response to LPS, 03hr30min, donor3 (t11 Subject3)_CNhs13184_12904-137I6_forward Regulation 
MonocytederivedMacrophagesResponseToLPS03hr30minDonor2T11Subject2_CNhs13389_ctss_rev Tc:MdmToLps_03hr30minD2- Monocyte-derived macrophages response to LPS, 03hr30min, donor2 (t11 Subject2)_CNhs13389_12806-136G7_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS03hr30minDonor2T11Subject2_CNhs13389_ctss_fwd Tc:MdmToLps_03hr30minD2+ Monocyte-derived macrophages response to LPS, 03hr30min, donor2 (t11 Subject2)_CNhs13389_12806-136G7_forward Regulation 
MonocytederivedMacrophagesResponseToLPS03hr00minDonor3T10Subject3_CNhs13183_ctss_rev Tc:MdmToLps_03hr00minD3- Monocyte-derived macrophages response to LPS, 03hr00min, donor3 (t10 Subject3)_CNhs13183_12903-137I5_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS03hr00minDonor3T10Subject3_CNhs13183_ctss_fwd Tc:MdmToLps_03hr00minD3+ Monocyte-derived macrophages response to LPS, 03hr00min, donor3 (t10 Subject3)_CNhs13183_12903-137I5_forward Regulation 
MonocytederivedMacrophagesResponseToLPS03hr00minDonor2T10Subject2_CNhs13388_ctss_rev Tc:MdmToLps_03hr00minD2- Monocyte-derived macrophages response to LPS, 03hr00min, donor2 (t10 Subject2)_CNhs13388_12805-136G6_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS03hr00minDonor2T10Subject2_CNhs13388_ctss_fwd Tc:MdmToLps_03hr00minD2+ Monocyte-derived macrophages response to LPS, 03hr00min, donor2 (t10 Subject2)_CNhs13388_12805-136G6_forward Regulation 
MonocytederivedMacrophagesResponseToLPS03hr00minDonor1T10Subject1_CNhs12924_ctss_rev Tc:MdmToLps_03hr00minD1- Monocyte-derived macrophages response to LPS, 03hr00min, donor1 (t10 Subject1)_CNhs12924_12707-135E7_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS03hr00minDonor1T10Subject1_CNhs12924_ctss_fwd Tc:MdmToLps_03hr00minD1+ Monocyte-derived macrophages response to LPS, 03hr00min, donor1 (t10 Subject1)_CNhs12924_12707-135E7_forward Regulation 
MonocytederivedMacrophagesResponseToLPS02hr30minDonor3T9Subject3_CNhs13182_ctss_rev Tc:MdmToLps_02hr30minD3- Monocyte-derived macrophages response to LPS, 02hr30min, donor3 (t9 Subject3)_CNhs13182_12902-137I4_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS02hr30minDonor3T9Subject3_CNhs13182_ctss_fwd Tc:MdmToLps_02hr30minD3+ Monocyte-derived macrophages response to LPS, 02hr30min, donor3 (t9 Subject3)_CNhs13182_12902-137I4_forward Regulation 
MonocytederivedMacrophagesResponseToLPS02hr30minDonor2T9Subject2_CNhs13387_ctss_rev Tc:MdmToLps_02hr30minD2- Monocyte-derived macrophages response to LPS, 02hr30min, donor2 (t9 Subject2)_CNhs13387_12804-136G5_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS02hr30minDonor2T9Subject2_CNhs13387_ctss_fwd Tc:MdmToLps_02hr30minD2+ Monocyte-derived macrophages response to LPS, 02hr30min, donor2 (t9 Subject2)_CNhs13387_12804-136G5_forward Regulation 
MonocytederivedMacrophagesResponseToLPS02hr30minDonor1T9Subject1_CNhs13152_ctss_rev Tc:MdmToLps_02hr30minD1- Monocyte-derived macrophages response to LPS, 02hr30min, donor1 (t9 Subject1)_CNhs13152_12706-135E6_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS02hr30minDonor1T9Subject1_CNhs13152_ctss_fwd Tc:MdmToLps_02hr30minD1+ Monocyte-derived macrophages response to LPS, 02hr30min, donor1 (t9 Subject1)_CNhs13152_12706-135E6_forward Regulation 
MonocytederivedMacrophagesResponseToLPS02hr00minDonor3T8Subject3_CNhs13181_ctss_rev Tc:MdmToLps_02hr00minD3- Monocyte-derived macrophages response to LPS, 02hr00min, donor3 (t8 Subject3)_CNhs13181_12901-137I3_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS02hr00minDonor3T8Subject3_CNhs13181_ctss_fwd Tc:MdmToLps_02hr00minD3+ Monocyte-derived macrophages response to LPS, 02hr00min, donor3 (t8 Subject3)_CNhs13181_12901-137I3_forward Regulation 
MonocytederivedMacrophagesResponseToLPS02hr00minDonor2T8Subject2_CNhs13386_ctss_rev Tc:MdmToLps_02hr00minD2- Monocyte-derived macrophages response to LPS, 02hr00min, donor2 (t8 Subject2)_CNhs13386_12803-136G4_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS02hr00minDonor2T8Subject2_CNhs13386_ctss_fwd Tc:MdmToLps_02hr00minD2+ Monocyte-derived macrophages response to LPS, 02hr00min, donor2 (t8 Subject2)_CNhs13386_12803-136G4_forward Regulation 
MonocytederivedMacrophagesResponseToLPS01hr20minDonor3T6Subject3_CNhs13179_ctss_rev Tc:MdmToLps_01hr20minD3- Monocyte-derived macrophages response to LPS, 01hr20min, donor3 (t6 Subject3)_CNhs13179_12899-137I1_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS01hr20minDonor3T6Subject3_CNhs13179_ctss_fwd Tc:MdmToLps_01hr20minD3+ Monocyte-derived macrophages response to LPS, 01hr20min, donor3 (t6 Subject3)_CNhs13179_12899-137I1_forward Regulation 
MonocytederivedMacrophagesResponseToLPS01hr20minDonor2T6Subject2_CNhs13384_ctss_rev Tc:MdmToLps_01hr20minD2- Monocyte-derived macrophages response to LPS, 01hr20min, donor2 (t6 Subject2)_CNhs13384_12801-136G2_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS01hr20minDonor2T6Subject2_CNhs13384_ctss_fwd Tc:MdmToLps_01hr20minD2+ Monocyte-derived macrophages response to LPS, 01hr20min, donor2 (t6 Subject2)_CNhs13384_12801-136G2_forward Regulation 
MonocytederivedMacrophagesResponseToLPS01hr00minDonor3T5Subject3_CNhs13178_ctss_rev Tc:MdmToLps_01hr00minD3- Monocyte-derived macrophages response to LPS, 01hr00min, donor3 (t5 Subject3)_CNhs13178_12898-137H9_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS01hr00minDonor3T5Subject3_CNhs13178_ctss_fwd Tc:MdmToLps_01hr00minD3+ Monocyte-derived macrophages response to LPS, 01hr00min, donor3 (t5 Subject3)_CNhs13178_12898-137H9_forward Regulation 
MonocytederivedMacrophagesResponseToLPS01hr00minDonor2T5Subject2_CNhs13383_ctss_rev Tc:MdmToLps_01hr00minD2- Monocyte-derived macrophages response to LPS, 01hr00min, donor2 (t5 Subject2)_CNhs13383_12800-136G1_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS01hr00minDonor2T5Subject2_CNhs13383_ctss_fwd Tc:MdmToLps_01hr00minD2+ Monocyte-derived macrophages response to LPS, 01hr00min, donor2 (t5 Subject2)_CNhs13383_12800-136G1_forward Regulation 
MonocytederivedMacrophagesResponseToLPS00hr45minDonor3T4Subject3_CNhs13177_ctss_rev Tc:MdmToLps_00hr45minD3- Monocyte-derived macrophages response to LPS, 00hr45min, donor3 (t4 Subject3)_CNhs13177_12897-137H8_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS00hr45minDonor3T4Subject3_CNhs13177_ctss_fwd Tc:MdmToLps_00hr45minD3+ Monocyte-derived macrophages response to LPS, 00hr45min, donor3 (t4 Subject3)_CNhs13177_12897-137H8_forward Regulation 
MonocytederivedMacrophagesResponseToLPS00hr45minDonor2T4Subject2_CNhs13382_ctss_rev Tc:MdmToLps_00hr45minD2- Monocyte-derived macrophages response to LPS, 00hr45min, donor2 (t4 Subject2)_CNhs13382_12799-136F9_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS00hr45minDonor2T4Subject2_CNhs13382_ctss_fwd Tc:MdmToLps_00hr45minD2+ Monocyte-derived macrophages response to LPS, 00hr45min, donor2 (t4 Subject2)_CNhs13382_12799-136F9_forward Regulation 
MonocytederivedMacrophagesResponseToLPS00hr30minDonor3T3Subject3_CNhs13176_ctss_rev Tc:MdmToLps_00hr30minD3- Monocyte-derived macrophages response to LPS, 00hr30min, donor3 (t3 Subject3)_CNhs13176_12896-137H7_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS00hr30minDonor3T3Subject3_CNhs13176_ctss_fwd Tc:MdmToLps_00hr30minD3+ Monocyte-derived macrophages response to LPS, 00hr30min, donor3 (t3 Subject3)_CNhs13176_12896-137H7_forward Regulation 
MonocytederivedMacrophagesResponseToLPS00hr30minDonor2T3Subject2_CNhs13381_ctss_rev Tc:MdmToLps_00hr30minD2- Monocyte-derived macrophages response to LPS, 00hr30min, donor2 (t3 Subject2)_CNhs13381_12798-136F8_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS00hr30minDonor2T3Subject2_CNhs13381_ctss_fwd Tc:MdmToLps_00hr30minD2+ Monocyte-derived macrophages response to LPS, 00hr30min, donor2 (t3 Subject2)_CNhs13381_12798-136F8_forward Regulation 
MonocytederivedMacrophagesResponseToLPS00hr15minDonor3T2Subject3_CNhs13175_ctss_rev Tc:MdmToLps_00hr15minD3- Monocyte-derived macrophages response to LPS, 00hr15min, donor3 (t2 Subject3)_CNhs13175_12895-137H6_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS00hr15minDonor3T2Subject3_CNhs13175_ctss_fwd Tc:MdmToLps_00hr15minD3+ Monocyte-derived macrophages response to LPS, 00hr15min, donor3 (t2 Subject3)_CNhs13175_12895-137H6_forward Regulation 
MonocytederivedMacrophagesResponseToLPS00hr15minDonor2T2Subject2_CNhs13380_ctss_rev Tc:MdmToLps_00hr15minD2- Monocyte-derived macrophages response to LPS, 00hr15min, donor2 (t2 Subject2)_CNhs13380_12797-136F7_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS00hr15minDonor2T2Subject2_CNhs13380_ctss_fwd Tc:MdmToLps_00hr15minD2+ Monocyte-derived macrophages response to LPS, 00hr15min, donor2 (t2 Subject2)_CNhs13380_12797-136F7_forward Regulation 
MonocytederivedMacrophagesResponseToLPS00hr00minDonor3T1Subject3_CNhs13174_ctss_rev Tc:MdmToLps_00hr00minD3- Monocyte-derived macrophages response to LPS, 00hr00min, donor3 (t1 Subject3)_CNhs13174_12894-137H5_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS00hr00minDonor3T1Subject3_CNhs13174_ctss_fwd Tc:MdmToLps_00hr00minD3+ Monocyte-derived macrophages response to LPS, 00hr00min, donor3 (t1 Subject3)_CNhs13174_12894-137H5_forward Regulation 
MonocytederivedMacrophagesResponseToLPS00hr00minDonor2T1Subject2_CNhs13379_ctss_rev Tc:MdmToLps_00hr00minD2- Monocyte-derived macrophages response to LPS, 00hr00min, donor2 (t1 Subject2)_CNhs13379_12796-136F6_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS00hr00minDonor2T1Subject2_CNhs13379_ctss_fwd Tc:MdmToLps_00hr00minD2+ Monocyte-derived macrophages response to LPS, 00hr00min, donor2 (t1 Subject2)_CNhs13379_12796-136F6_forward Regulation 
MonocytederivedMacrophagesResponseToLPS00hr00minDonor1T1Subject1_CNhs11941_ctss_rev Tc:MdmToLps_00hr00minD1- Monocyte-derived macrophages response to LPS, 00hr00min, donor1 (t1 Subject1)_CNhs11941_12698-135D7_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS00hr00minDonor1T1Subject1_CNhs11941_ctss_fwd Tc:MdmToLps_00hr00minD1+ Monocyte-derived macrophages response to LPS, 00hr00min, donor1 (t1 Subject1)_CNhs11941_12698-135D7_forward Regulation 
MonocytederivedMacrophagesResponseToMockInfluenzaInfection24hr00minDonor4227_121MI_24h_CNhs13644_ctss_rev Tc:MdmToMock_24hr00minD4- Monocyte-derived macrophages response to mock influenza infection, 24hr00min, donor4 (227_121:MI_24h)_CNhs13644_13315-143A3_reverse Regulation 
MonocytederivedMacrophagesResponseToMockInfluenzaInfection24hr00minDonor4227_121MI_24h_CNhs13644_ctss_fwd Tc:MdmToMock_24hr00minD4+ Monocyte-derived macrophages response to mock influenza infection, 24hr00min, donor4 (227_121:MI_24h)_CNhs13644_13315-143A3_forward Regulation 
MonocytederivedMacrophagesResponseToMockInfluenzaInfection24hr00minDonor3536_119MI_24h_CNhs13652_ctss_rev Tc:MdmToMock_24hr00minD3- Monocyte-derived macrophages response to mock influenza infection, 24hr00min, donor3 (536_119:MI_24h)_CNhs13652_13327-143B6_reverse Regulation 
MonocytederivedMacrophagesResponseToMockInfluenzaInfection24hr00minDonor3536_119MI_24h_CNhs13652_ctss_fwd Tc:MdmToMock_24hr00minD3+ Monocyte-derived macrophages response to mock influenza infection, 24hr00min, donor3 (536_119:MI_24h)_CNhs13652_13327-143B6_forward Regulation 
MonocytederivedMacrophagesResponseToMockInfluenzaInfection24hr00minDonor2150_120MI_24h_CNhs13648_ctss_rev Tc:MdmToMock_24hr00minD2- Monocyte-derived macrophages response to mock influenza infection, 24hr00min, donor2 (150_120:MI_24h)_CNhs13648_13321-143A9_reverse Regulation 
MonocytederivedMacrophagesResponseToMockInfluenzaInfection24hr00minDonor2150_120MI_24h_CNhs13648_ctss_fwd Tc:MdmToMock_24hr00minD2+ Monocyte-derived macrophages response to mock influenza infection, 24hr00min, donor2 (150_120:MI_24h)_CNhs13648_13321-143A9_forward Regulation 
MonocytederivedMacrophagesResponseToMockInfluenzaInfection24hr00minDonor1868_121MI_24h_CNhs13693_ctss_rev Tc:MdmToMock_24hr00minD1- Monocyte-derived macrophages response to mock influenza infection, 24hr00min, donor1 (868_121:MI_24h)_CNhs13693_13309-142I6_reverse Regulation 
MonocytederivedMacrophagesResponseToMockInfluenzaInfection24hr00minDonor1868_121MI_24h_CNhs13693_ctss_fwd Tc:MdmToMock_24hr00minD1+ Monocyte-derived macrophages response to mock influenza infection, 24hr00min, donor1 (868_121:MI_24h)_CNhs13693_13309-142I6_forward Regulation 
MonocytederivedMacrophagesResponseToMockInfluenzaInfection00hr00minDonor4227_121MI_0h_CNhs13638_ctss_rev Tc:MdmToMock_00hr00minD4- Monocyte-derived macrophages response to mock influenza infection, 00hr00min, donor4 (227_121:MI_0h)_CNhs13638_13310-142I7_reverse Regulation 
MonocytederivedMacrophagesResponseToMockInfluenzaInfection00hr00minDonor4227_121MI_0h_CNhs13638_ctss_fwd Tc:MdmToMock_00hr00minD4+ Monocyte-derived macrophages response to mock influenza infection, 00hr00min, donor4 (227_121:MI_0h)_CNhs13638_13310-142I7_forward Regulation 
MonocytederivedMacrophagesResponseToMockInfluenzaInfection00hr00minDonor3536_119MI_0h_CNhs13649_ctss_rev Tc:MdmToMock_00hr00minD3- Monocyte-derived macrophages response to mock influenza infection, 00hr00min, donor3 (536_119:MI_0h)_CNhs13649_13322-143B1_reverse Regulation 
MonocytederivedMacrophagesResponseToMockInfluenzaInfection00hr00minDonor3536_119MI_0h_CNhs13649_ctss_fwd Tc:MdmToMock_00hr00minD3+ Monocyte-derived macrophages response to mock influenza infection, 00hr00min, donor3 (536_119:MI_0h)_CNhs13649_13322-143B1_forward Regulation 
MonocytederivedMacrophagesResponseToMockInfluenzaInfection00hr00minDonor2150_120MI_0h_CNhs13645_ctss_rev Tc:MdmToMock_00hr00minD2- Monocyte-derived macrophages response to mock influenza infection, 00hr00min, donor2 (150_120:MI_0h)_CNhs13645_13316-143A4_reverse Regulation 
MonocytederivedMacrophagesResponseToMockInfluenzaInfection00hr00minDonor2150_120MI_0h_CNhs13645_ctss_fwd Tc:MdmToMock_00hr00minD2+ Monocyte-derived macrophages response to mock influenza infection, 00hr00min, donor2 (150_120:MI_0h)_CNhs13645_13316-143A4_forward Regulation 
MonocytederivedMacrophagesResponseToUdornInfluenzaInfection24hr00minDonor3536_119Ud_24h_CNhs13562_ctss_rev MonocyteMacrophageUdornInfluenza_24hr00minD3- Monocyte-derived macrophages response to udorn influenza infection, 24hr00min, donor3 (536_119:Ud_24h)_CNhs13562_13326-143B5_reverse Regulation 
MonocytederivedMacrophagesResponseToUdornInfluenzaInfection24hr00minDonor3536_119Ud_24h_CNhs13562_ctss_fwd MonocyteMacrophageUdornInfluenza_24hr00minD3+ Monocyte-derived macrophages response to udorn influenza infection, 24hr00min, donor3 (536_119:Ud_24h)_CNhs13562_13326-143B5_forward Regulation 
MonocytederivedMacrophagesResponseToUdornInfluenzaInfection24hr00minDonor2150_120Ud_24h_CNhs13560_ctss_rev MonocyteMacrophageUdornInfluenza_24hr00minD2- Monocyte-derived macrophages response to udorn influenza infection, 24hr00min, donor2 (150_120:Ud_24h)_CNhs13560_13320-143A8_reverse Regulation 
MonocytederivedMacrophagesResponseToUdornInfluenzaInfection24hr00minDonor2150_120Ud_24h_CNhs13560_ctss_fwd MonocyteMacrophageUdornInfluenza_24hr00minD2+ Monocyte-derived macrophages response to udorn influenza infection, 24hr00min, donor2 (150_120:Ud_24h)_CNhs13560_13320-143A8_forward Regulation 
MonocytederivedMacrophagesResponseToUdornInfluenzaInfection24hr00minDonor1868_121Ud_24h_CNhs13557_ctss_rev MonocyteMacrophageUdornInfluenza_24hr00minD1- Monocyte-derived macrophages response to udorn influenza infection, 24hr00min, donor1 (868_121:Ud_24h)_CNhs13557_13308-142I5_reverse Regulation 
MonocytederivedMacrophagesResponseToUdornInfluenzaInfection24hr00minDonor1868_121Ud_24h_CNhs13557_ctss_fwd MonocyteMacrophageUdornInfluenza_24hr00minD1+ Monocyte-derived macrophages response to udorn influenza infection, 24hr00min, donor1 (868_121:Ud_24h)_CNhs13557_13308-142I5_forward Regulation 
MonocytederivedMacrophagesResponseToUdornInfluenzaInfection07hr00minDonor4227_121Ud_7h_CNhs13641_ctss_rev MonocyteMacrophageUdornInfluenza_07hr00minD4- Monocyte-derived macrophages response to udorn influenza infection, 07hr00min, donor4 (227_121:Ud_7h)_CNhs13641_13313-143A1_reverse Regulation 
MonocytederivedMacrophagesResponseToUdornInfluenzaInfection07hr00minDonor4227_121Ud_7h_CNhs13641_ctss_fwd MonocyteMacrophageUdornInfluenza_07hr00minD4+ Monocyte-derived macrophages response to udorn influenza infection, 07hr00min, donor4 (227_121:Ud_7h)_CNhs13641_13313-143A1_forward Regulation 
MonocytederivedMacrophagesResponseToUdornInfluenzaInfection07hr00minDonor3536_119Ud_7h_CNhs13561_ctss_rev MonocyteMacrophageUdornInfluenza_07hr00minD3- Monocyte-derived macrophages response to udorn influenza infection, 07hr00min, donor3 (536_119:Ud_7h)_CNhs13561_13325-143B4_reverse Regulation 
MonocytederivedMacrophagesResponseToUdornInfluenzaInfection07hr00minDonor3536_119Ud_7h_CNhs13561_ctss_fwd MonocyteMacrophageUdornInfluenza_07hr00minD3+ Monocyte-derived macrophages response to udorn influenza infection, 07hr00min, donor3 (536_119:Ud_7h)_CNhs13561_13325-143B4_forward Regulation 
MonocytederivedMacrophagesResponseToUdornInfluenzaInfection07hr00minDonor2150_120Ud_7h_CNhs13559_ctss_rev MonocyteMacrophageUdornInfluenza_07hr00minD2- Monocyte-derived macrophages response to udorn influenza infection, 07hr00min, donor2 (150_120:Ud_7h)_CNhs13559_13319-143A7_reverse Regulation 
MonocytederivedMacrophagesResponseToUdornInfluenzaInfection07hr00minDonor2150_120Ud_7h_CNhs13559_ctss_fwd MonocyteMacrophageUdornInfluenza_07hr00minD2+ Monocyte-derived macrophages response to udorn influenza infection, 07hr00min, donor2 (150_120:Ud_7h)_CNhs13559_13319-143A7_forward Regulation 
MonocytederivedMacrophagesResponseToUdornInfluenzaInfection07hr00minDonor1868_121Ud_7h_CNhs13556_ctss_rev MonocyteMacrophageUdornInfluenza_07hr00minD1- Monocyte-derived macrophages response to udorn influenza infection, 07hr00min, donor1 (868_121:Ud_7h)_CNhs13556_13307-142I4_reverse Regulation 
MonocytederivedMacrophagesResponseToUdornInfluenzaInfection07hr00minDonor1868_121Ud_7h_CNhs13556_ctss_fwd MonocyteMacrophageUdornInfluenza_07hr00minD1+ Monocyte-derived macrophages response to udorn influenza infection, 07hr00min, donor1 (868_121:Ud_7h)_CNhs13556_13307-142I4_forward Regulation 
MonocytederivedMacrophagesResponseToUdornInfluenzaInfection02hr00minDonor4227_121Ud_2h_CNhs13640_ctss_rev MonocyteMacrophageUdornInfluenza_02hr00minD4- Monocyte-derived macrophages response to udorn influenza infection, 02hr00min, donor4 (227_121:Ud_2h)_CNhs13640_13312-142I9_reverse Regulation 
MonocytederivedMacrophagesResponseToUdornInfluenzaInfection02hr00minDonor4227_121Ud_2h_CNhs13640_ctss_fwd MonocyteMacrophageUdornInfluenza_02hr00minD4+ Monocyte-derived macrophages response to udorn influenza infection, 02hr00min, donor4 (227_121:Ud_2h)_CNhs13640_13312-142I9_forward Regulation 
MonocytederivedMacrophagesResponseToUdornInfluenzaInfection02hr00minDonor3536_119Ud_2h_CNhs13651_ctss_rev MonocyteMacrophageUdornInfluenza_02hr00minD3- Monocyte-derived macrophages response to udorn influenza infection, 02hr00min, donor3 (536_119:Ud_2h)_CNhs13651_13324-143B3_reverse Regulation 
MonocytederivedMacrophagesResponseToUdornInfluenzaInfection02hr00minDonor3536_119Ud_2h_CNhs13651_ctss_fwd MonocyteMacrophageUdornInfluenza_02hr00minD3+ Monocyte-derived macrophages response to udorn influenza infection, 02hr00min, donor3 (536_119:Ud_2h)_CNhs13651_13324-143B3_forward Regulation 
MonocytederivedMacrophagesResponseToUdornInfluenzaInfection02hr00minDonor1868_121Ud_2h_CNhs13555_ctss_rev MonocyteMacrophageUdornInfluenza_02hr00minD1- Monocyte-derived macrophages response to udorn influenza infection, 02hr00min, donor1 (868_121:Ud_2h)_CNhs13555_13306-142I3_reverse Regulation 
MonocytederivedMacrophagesResponseToUdornInfluenzaInfection02hr00minDonor1868_121Ud_2h_CNhs13555_ctss_fwd MonocyteMacrophageUdornInfluenza_02hr00minD1+ Monocyte-derived macrophages response to udorn influenza infection, 02hr00min, donor1 (868_121:Ud_2h)_CNhs13555_13306-142I3_forward Regulation 
MonocytederivedMacrophagesResponseToUdornInfluenzaInfection00hr00minDonor4227_121Ud_0h_CNhs13639_ctss_rev MonocyteMacrophageUdornInfluenza_00hr00minD4- Monocyte-derived macrophages response to udorn influenza infection, 00hr00min, donor4 (227_121:Ud_0h)_CNhs13639_13311-142I8_reverse Regulation 
MonocytederivedMacrophagesResponseToUdornInfluenzaInfection00hr00minDonor4227_121Ud_0h_CNhs13639_ctss_fwd MonocyteMacrophageUdornInfluenza_00hr00minD4+ Monocyte-derived macrophages response to udorn influenza infection, 00hr00min, donor4 (227_121:Ud_0h)_CNhs13639_13311-142I8_forward Regulation 
MonocytederivedMacrophagesResponseToUdornInfluenzaInfection00hr00minDonor3536_119Ud_0h_CNhs13650_ctss_rev MonocyteMacrophageUdornInfluenza_00hr00minD3- Monocyte-derived macrophages response to udorn influenza infection, 00hr00min, donor3 (536_119:Ud_0h)_CNhs13650_13323-143B2_reverse Regulation 
MonocytederivedMacrophagesResponseToUdornInfluenzaInfection00hr00minDonor3536_119Ud_0h_CNhs13650_ctss_fwd MonocyteMacrophageUdornInfluenza_00hr00minD3+ Monocyte-derived macrophages response to udorn influenza infection, 00hr00min, donor3 (536_119:Ud_0h)_CNhs13650_13323-143B2_forward Regulation 
MonocytederivedMacrophagesResponseToUdornInfluenzaInfection00hr00minDonor2150_120Ud_0h_CNhs13646_ctss_rev MonocyteMacrophageUdornInfluenza_00hr00minD2- Monocyte-derived macrophages response to udorn influenza infection, 00hr00min, donor2 (150_120:Ud_0h)_CNhs13646_13317-143A5_reverse Regulation 
MonocytederivedMacrophagesResponseToUdornInfluenzaInfection00hr00minDonor2150_120Ud_0h_CNhs13646_ctss_fwd MonocyteMacrophageUdornInfluenza_00hr00minD2+ Monocyte-derived macrophages response to udorn influenza infection, 00hr00min, donor2 (150_120:Ud_0h)_CNhs13646_13317-143A5_forward Regulation 
MonocytederivedMacrophagesResponseToUdornInfluenzaInfection00hr00minDonor1868_121Ud_0h_CNhs13554_ctss_rev MonocyteMacrophageUdornInfluenza_00hr00minD1- Monocyte-derived macrophages response to udorn influenza infection, 00hr00min, donor1 (868_121:Ud_0h)_CNhs13554_13305-142I2_reverse Regulation 
MonocytederivedMacrophagesResponseToUdornInfluenzaInfection00hr00minDonor1868_121Ud_0h_CNhs13554_ctss_fwd MonocyteMacrophageUdornInfluenza_00hr00minD1+ Monocyte-derived macrophages response to udorn influenza infection, 00hr00min, donor1 (868_121:Ud_0h)_CNhs13554_13305-142I2_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay14BiolRep3_CNhs13632_ctss_rev MscAdipogenicInduction_Day14Br3- mesenchymal stem cells (adipose derived), adipogenic induction, day14, biol_rep3_CNhs13632_13279-142F3_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay14BiolRep3_CNhs13632_ctss_fwd MscAdipogenicInduction_Day14Br3+ mesenchymal stem cells (adipose derived), adipogenic induction, day14, biol_rep3_CNhs13632_13279-142F3_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay14BiolRep1_CNhs13338_ctss_rev MscAdipogenicInduction_Day14Br1- mesenchymal stem cells (adipose derived), adipogenic induction, day14, biol_rep1_CNhs13338_13277-142F1_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay14BiolRep1_CNhs13338_ctss_fwd MscAdipogenicInduction_Day14Br1+ mesenchymal stem cells (adipose derived), adipogenic induction, day14, biol_rep1_CNhs13338_13277-142F1_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay12BiolRep3_CNhs13630_ctss_rev MscAdipogenicInduction_Day12Br3- mesenchymal stem cells (adipose derived), adipogenic induction, day12, biol_rep3_CNhs13630_13276-142E9_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay12BiolRep3_CNhs13630_ctss_fwd MscAdipogenicInduction_Day12Br3+ mesenchymal stem cells (adipose derived), adipogenic induction, day12, biol_rep3_CNhs13630_13276-142E9_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay12BiolRep2_CNhs13629_ctss_rev MscAdipogenicInduction_Day12Br2- mesenchymal stem cells (adipose derived), adipogenic induction, day12, biol_rep2_CNhs13629_13275-142E8_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay12BiolRep2_CNhs13629_ctss_fwd MscAdipogenicInduction_Day12Br2+ mesenchymal stem cells (adipose derived), adipogenic induction, day12, biol_rep2_CNhs13629_13275-142E8_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay12BiolRep1_CNhs13628_ctss_rev MscAdipogenicInduction_Day12Br1- mesenchymal stem cells (adipose derived), adipogenic induction, day12, biol_rep1_CNhs13628_13274-142E7_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay12BiolRep1_CNhs13628_ctss_fwd MscAdipogenicInduction_Day12Br1+ mesenchymal stem cells (adipose derived), adipogenic induction, day12, biol_rep1_CNhs13628_13274-142E7_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay08BiolRep3_CNhs13627_ctss_rev MscAdipogenicInduction_Day08Br3- mesenchymal stem cells (adipose derived), adipogenic induction, day08, biol_rep3_CNhs13627_13273-142E6_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay08BiolRep3_CNhs13627_ctss_fwd MscAdipogenicInduction_Day08Br3+ mesenchymal stem cells (adipose derived), adipogenic induction, day08, biol_rep3_CNhs13627_13273-142E6_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay08BiolRep2_CNhs13626_ctss_rev MscAdipogenicInduction_Day08Br2- mesenchymal stem cells (adipose derived), adipogenic induction, day08, biol_rep2_CNhs13626_13272-142E5_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay08BiolRep2_CNhs13626_ctss_fwd MscAdipogenicInduction_Day08Br2+ mesenchymal stem cells (adipose derived), adipogenic induction, day08, biol_rep2_CNhs13626_13272-142E5_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay08BiolRep1_CNhs13625_ctss_rev MscAdipogenicInduction_Day08Br1- mesenchymal stem cells (adipose derived), adipogenic induction, day08, biol_rep1_CNhs13625_13271-142E4_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay08BiolRep1_CNhs13625_ctss_fwd MscAdipogenicInduction_Day08Br1+ mesenchymal stem cells (adipose derived), adipogenic induction, day08, biol_rep1_CNhs13625_13271-142E4_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay04BiolRep3_CNhs13624_ctss_rev MscAdipogenicInduction_Day04Br3- mesenchymal stem cells (adipose derived), adipogenic induction, day04, biol_rep3_CNhs13624_13270-142E3_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay04BiolRep3_CNhs13624_ctss_fwd MscAdipogenicInduction_Day04Br3+ mesenchymal stem cells (adipose derived), adipogenic induction, day04, biol_rep3_CNhs13624_13270-142E3_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay04BiolRep1_CNhs13622_ctss_rev MscAdipogenicInduction_Day04Br1- mesenchymal stem cells (adipose derived), adipogenic induction, day04, biol_rep1_CNhs13622_13268-142E1_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay04BiolRep1_CNhs13622_ctss_fwd MscAdipogenicInduction_Day04Br1+ mesenchymal stem cells (adipose derived), adipogenic induction, day04, biol_rep1_CNhs13622_13268-142E1_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay02BiolRep3_CNhs13621_ctss_rev MscAdipogenicInduction_Day02Br3- mesenchymal stem cells (adipose derived), adipogenic induction, day02, biol_rep3_CNhs13621_13267-142D9_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay02BiolRep3_CNhs13621_ctss_fwd MscAdipogenicInduction_Day02Br3+ mesenchymal stem cells (adipose derived), adipogenic induction, day02, biol_rep3_CNhs13621_13267-142D9_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay02BiolRep2_CNhs13620_ctss_rev MscAdipogenicInduction_Day02Br2- mesenchymal stem cells (adipose derived), adipogenic induction, day02, biol_rep2_CNhs13620_13266-142D8_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay02BiolRep2_CNhs13620_ctss_fwd MscAdipogenicInduction_Day02Br2+ mesenchymal stem cells (adipose derived), adipogenic induction, day02, biol_rep2_CNhs13620_13266-142D8_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay02BiolRep1_CNhs13619_ctss_rev MscAdipogenicInduction_Day02Br1- mesenchymal stem cells (adipose derived), adipogenic induction, day02, biol_rep1_CNhs13619_13265-142D7_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay02BiolRep1_CNhs13619_ctss_fwd MscAdipogenicInduction_Day02Br1+ mesenchymal stem cells (adipose derived), adipogenic induction, day02, biol_rep1_CNhs13619_13265-142D7_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay01BiolRep3_CNhs13617_ctss_rev MscAdipogenicInduction_Day01Br3- mesenchymal stem cells (adipose derived), adipogenic induction, day01, biol_rep3_CNhs13617_13264-142D6_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay01BiolRep3_CNhs13617_ctss_fwd MscAdipogenicInduction_Day01Br3+ mesenchymal stem cells (adipose derived), adipogenic induction, day01, biol_rep3_CNhs13617_13264-142D6_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay01BiolRep2_CNhs13616_ctss_rev MscAdipogenicInduction_Day01Br2- mesenchymal stem cells (adipose derived), adipogenic induction, day01, biol_rep2_CNhs13616_13263-142D5_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay01BiolRep2_CNhs13616_ctss_fwd MscAdipogenicInduction_Day01Br2+ mesenchymal stem cells (adipose derived), adipogenic induction, day01, biol_rep2_CNhs13616_13263-142D5_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction03hr00minBiolRep3_CNhs13611_ctss_rev MscAdipogenicInduction_03hr00minBr3- mesenchymal stem cells (adipose derived), adipogenic induction, 03hr00min, biol_rep3_CNhs13611_13258-142C9_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction03hr00minBiolRep3_CNhs13611_ctss_fwd MscAdipogenicInduction_03hr00minBr3+ mesenchymal stem cells (adipose derived), adipogenic induction, 03hr00min, biol_rep3_CNhs13611_13258-142C9_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction03hr00minBiolRep1_CNhs13609_ctss_rev MscAdipogenicInduction_03hr00minBr1- mesenchymal stem cells (adipose derived), adipogenic induction, 03hr00min, biol_rep1_CNhs13609_13256-142C7_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction03hr00minBiolRep1_CNhs13609_ctss_fwd MscAdipogenicInduction_03hr00minBr1+ mesenchymal stem cells (adipose derived), adipogenic induction, 03hr00min, biol_rep1_CNhs13609_13256-142C7_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction02hr30minBiolRep3_CNhs13608_ctss_rev MscAdipogenicInduction_02hr30minBr3- mesenchymal stem cells (adipose derived), adipogenic induction, 02hr30min, biol_rep3_CNhs13608_13255-142C6_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction02hr30minBiolRep3_CNhs13608_ctss_fwd MscAdipogenicInduction_02hr30minBr3+ mesenchymal stem cells (adipose derived), adipogenic induction, 02hr30min, biol_rep3_CNhs13608_13255-142C6_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction02hr30minBiolRep1_CNhs13606_ctss_rev MscAdipogenicInduction_02hr30minBr1- mesenchymal stem cells (adipose derived), adipogenic induction, 02hr30min, biol_rep1_CNhs13606_13253-142C4_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction02hr30minBiolRep1_CNhs13606_ctss_fwd MscAdipogenicInduction_02hr30minBr1+ mesenchymal stem cells (adipose derived), adipogenic induction, 02hr30min, biol_rep1_CNhs13606_13253-142C4_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction02hr00minBiolRep2_CNhs13604_ctss_rev MscAdipogenicInduction_02hr00minBr2- mesenchymal stem cells (adipose derived), adipogenic induction, 02hr00min, biol_rep2_CNhs13604_13251-142C2_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction02hr00minBiolRep2_CNhs13604_ctss_fwd MscAdipogenicInduction_02hr00minBr2+ mesenchymal stem cells (adipose derived), adipogenic induction, 02hr00min, biol_rep2_CNhs13604_13251-142C2_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction02hr00minBiolRep1_CNhs13603_ctss_rev MscAdipogenicInduction_02hr00minBr1- mesenchymal stem cells (adipose derived), adipogenic induction, 02hr00min, biol_rep1_CNhs13603_13250-142C1_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction02hr00minBiolRep1_CNhs13603_ctss_fwd MscAdipogenicInduction_02hr00minBr1+ mesenchymal stem cells (adipose derived), adipogenic induction, 02hr00min, biol_rep1_CNhs13603_13250-142C1_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction01hr40minBiolRep3_CNhs13602_ctss_rev MscAdipogenicInduction_01hr40minBr3- mesenchymal stem cells (adipose derived), adipogenic induction, 01hr40min, biol_rep3_CNhs13602_13249-142B9_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction01hr40minBiolRep3_CNhs13602_ctss_fwd MscAdipogenicInduction_01hr40minBr3+ mesenchymal stem cells (adipose derived), adipogenic induction, 01hr40min, biol_rep3_CNhs13602_13249-142B9_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction01hr40minBiolRep2_CNhs13601_ctss_rev MscAdipogenicInduction_01hr40minBr2- mesenchymal stem cells (adipose derived), adipogenic induction, 01hr40min, biol_rep2_CNhs13601_13248-142B8_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction01hr40minBiolRep2_CNhs13601_ctss_fwd MscAdipogenicInduction_01hr40minBr2+ mesenchymal stem cells (adipose derived), adipogenic induction, 01hr40min, biol_rep2_CNhs13601_13248-142B8_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction01hr40minBiolRep1_CNhs13600_ctss_rev MscAdipogenicInduction_01hr40minBr1- mesenchymal stem cells (adipose derived), adipogenic induction, 01hr40min, biol_rep1_CNhs13600_13247-142B7_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction01hr40minBiolRep1_CNhs13600_ctss_fwd MscAdipogenicInduction_01hr40minBr1+ mesenchymal stem cells (adipose derived), adipogenic induction, 01hr40min, biol_rep1_CNhs13600_13247-142B7_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction01hr00minBiolRep3_CNhs13433_ctss_rev MscAdipogenicInduction_01hr00minBr3- mesenchymal stem cells (adipose derived), adipogenic induction, 01hr00min, biol_rep3_CNhs13433_13243-142B3_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction01hr00minBiolRep3_CNhs13433_ctss_fwd MscAdipogenicInduction_01hr00minBr3+ mesenchymal stem cells (adipose derived), adipogenic induction, 01hr00min, biol_rep3_CNhs13433_13243-142B3_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction01hr00minBiolRep2_CNhs13432_ctss_rev MscAdipogenicInduction_01hr00minBr2- mesenchymal stem cells (adipose derived), adipogenic induction, 01hr00min, biol_rep2_CNhs13432_13242-142B2_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction01hr00minBiolRep2_CNhs13432_ctss_fwd MscAdipogenicInduction_01hr00minBr2+ mesenchymal stem cells (adipose derived), adipogenic induction, 01hr00min, biol_rep2_CNhs13432_13242-142B2_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction01hr00minBiolRep1_CNhs13431_ctss_rev MscAdipogenicInduction_01hr00minBr1- mesenchymal stem cells (adipose derived), adipogenic induction, 01hr00min, biol_rep1_CNhs13431_13241-142B1_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction01hr00minBiolRep1_CNhs13431_ctss_fwd MscAdipogenicInduction_01hr00minBr1+ mesenchymal stem cells (adipose derived), adipogenic induction, 01hr00min, biol_rep1_CNhs13431_13241-142B1_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction00hr45minBiolRep3_CNhs13430_ctss_rev MscAdipogenicInduction_00hr45minBr3- mesenchymal stem cells (adipose derived), adipogenic induction, 00hr45min, biol_rep3_CNhs13430_13240-142A9_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction00hr45minBiolRep3_CNhs13430_ctss_fwd MscAdipogenicInduction_00hr45minBr3+ mesenchymal stem cells (adipose derived), adipogenic induction, 00hr45min, biol_rep3_CNhs13430_13240-142A9_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction00hr45minBiolRep2_CNhs13429_ctss_rev MscAdipogenicInduction_00hr45minBr2- mesenchymal stem cells (adipose derived), adipogenic induction, 00hr45min, biol_rep2_CNhs13429_13239-142A8_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction00hr45minBiolRep2_CNhs13429_ctss_fwd MscAdipogenicInduction_00hr45minBr2+ mesenchymal stem cells (adipose derived), adipogenic induction, 00hr45min, biol_rep2_CNhs13429_13239-142A8_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction00hr45minBiolRep1_CNhs13428_ctss_rev MscAdipogenicInduction_00hr45minBr1- mesenchymal stem cells (adipose derived), adipogenic induction, 00hr45min, biol_rep1_CNhs13428_13238-142A7_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction00hr45minBiolRep1_CNhs13428_ctss_fwd MscAdipogenicInduction_00hr45minBr1+ mesenchymal stem cells (adipose derived), adipogenic induction, 00hr45min, biol_rep1_CNhs13428_13238-142A7_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction00hr30minBiolRep2_CNhs13426_ctss_rev MscAdipogenicInduction_00hr30minBr2- mesenchymal stem cells (adipose derived), adipogenic induction, 00hr30min, biol_rep2_CNhs13426_13236-142A5_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction00hr30minBiolRep2_CNhs13426_ctss_fwd MscAdipogenicInduction_00hr30minBr2+ mesenchymal stem cells (adipose derived), adipogenic induction, 00hr30min, biol_rep2_CNhs13426_13236-142A5_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction00hr30minBiolRep1_CNhs13425_ctss_rev MscAdipogenicInduction_00hr30minBr1- mesenchymal stem cells (adipose derived), adipogenic induction, 00hr30min, biol_rep1_CNhs13425_13235-142A4_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction00hr30minBiolRep1_CNhs13425_ctss_fwd MscAdipogenicInduction_00hr30minBr1+ mesenchymal stem cells (adipose derived), adipogenic induction, 00hr30min, biol_rep1_CNhs13425_13235-142A4_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction00hr15minBiolRep3_CNhs13424_ctss_rev MscAdipogenicInduction_00hr15minBr3- mesenchymal stem cells (adipose derived), adipogenic induction, 00hr15min, biol_rep3_CNhs13424_13234-142A3_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction00hr15minBiolRep3_CNhs13424_ctss_fwd MscAdipogenicInduction_00hr15minBr3+ mesenchymal stem cells (adipose derived), adipogenic induction, 00hr15min, biol_rep3_CNhs13424_13234-142A3_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction00hr15minBiolRep2_CNhs13423_ctss_rev MscAdipogenicInduction_00hr15minBr2- mesenchymal stem cells (adipose derived), adipogenic induction, 00hr15min, biol_rep2_CNhs13423_13233-142A2_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction00hr15minBiolRep2_CNhs13423_ctss_fwd MscAdipogenicInduction_00hr15minBr2+ mesenchymal stem cells (adipose derived), adipogenic induction, 00hr15min, biol_rep2_CNhs13423_13233-142A2_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction00hr15minBiolRep1_CNhs13422_ctss_rev MscAdipogenicInduction_00hr15minBr1- mesenchymal stem cells (adipose derived), adipogenic induction, 00hr15min, biol_rep1_CNhs13422_13232-142A1_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction00hr15minBiolRep1_CNhs13422_ctss_fwd MscAdipogenicInduction_00hr15minBr1+ mesenchymal stem cells (adipose derived), adipogenic induction, 00hr15min, biol_rep1_CNhs13422_13232-142A1_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction00hr00minBiolRep3_CNhs13421_ctss_rev MscAdipogenicInduction_00hr00minBr3- mesenchymal stem cells (adipose derived), adipogenic induction, 00hr00min, biol_rep3_CNhs13421_13231-141I9_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction00hr00minBiolRep3_CNhs13421_ctss_fwd MscAdipogenicInduction_00hr00minBr3+ mesenchymal stem cells (adipose derived), adipogenic induction, 00hr00min, biol_rep3_CNhs13421_13231-141I9_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction00hr00minBiolRep2_CNhs13420_ctss_rev MscAdipogenicInduction_00hr00minBr2- mesenchymal stem cells (adipose derived), adipogenic induction, 00hr00min, biol_rep2_CNhs13420_13230-141I8_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction00hr00minBiolRep2_CNhs13420_ctss_fwd MscAdipogenicInduction_00hr00minBr2+ mesenchymal stem cells (adipose derived), adipogenic induction, 00hr00min, biol_rep2_CNhs13420_13230-141I8_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction00hr00minBiolRep1_CNhs13337_ctss_rev MscAdipogenicInduction_00hr00minBr1- mesenchymal stem cells (adipose derived), adipogenic induction, 00hr00min, biol_rep1_CNhs13337_13229-141I7_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction00hr00minBiolRep1_CNhs13337_ctss_fwd MscAdipogenicInduction_00hr00minBr1+ mesenchymal stem cells (adipose derived), adipogenic induction, 00hr00min, biol_rep1_CNhs13337_13229-141I7_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG08hrBiolRep3_CNhs12768_ctss_rev Tc:Mcf7ToHrg_08hrBr3- MCF7 breast cancer cell line response to HRG, 08hr, biol_rep3_CNhs12768_13194-141E8_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG08hrBiolRep3_CNhs12768_ctss_fwd Tc:Mcf7ToHrg_08hrBr3+ MCF7 breast cancer cell line response to HRG, 08hr, biol_rep3_CNhs12768_13194-141E8_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG08hrBiolRep2_CNhs12667_ctss_rev Tc:Mcf7ToHrg_08hrBr2- MCF7 breast cancer cell line response to HRG, 08hr, biol_rep2_CNhs12667_13128-140G5_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG08hrBiolRep2_CNhs12667_ctss_fwd Tc:Mcf7ToHrg_08hrBr2+ MCF7 breast cancer cell line response to HRG, 08hr, biol_rep2_CNhs12667_13128-140G5_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG08hrBiolRep1_CNhs12740_ctss_rev Tc:Mcf7ToHrg_08hrBr1- MCF7 breast cancer cell line response to HRG, 08hr, biol_rep1_CNhs12740_13062-139I2_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG08hrBiolRep1_CNhs12740_ctss_fwd Tc:Mcf7ToHrg_08hrBr1+ MCF7 breast cancer cell line response to HRG, 08hr, biol_rep1_CNhs12740_13062-139I2_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG07hrBiolRep3_CNhs12767_ctss_rev Tc:Mcf7ToHrg_07hrBr3- MCF7 breast cancer cell line response to HRG, 07hr, biol_rep3_CNhs12767_13193-141E7_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG07hrBiolRep3_CNhs12767_ctss_fwd Tc:Mcf7ToHrg_07hrBr3+ MCF7 breast cancer cell line response to HRG, 07hr, biol_rep3_CNhs12767_13193-141E7_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG07hrBiolRep2_CNhs12666_ctss_rev Tc:Mcf7ToHrg_07hrBr2- MCF7 breast cancer cell line response to HRG, 07hr, biol_rep2_CNhs12666_13127-140G4_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG07hrBiolRep2_CNhs12666_ctss_fwd Tc:Mcf7ToHrg_07hrBr2+ MCF7 breast cancer cell line response to HRG, 07hr, biol_rep2_CNhs12666_13127-140G4_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG07hrBiolRep1_CNhs12448_ctss_rev Tc:Mcf7ToHrg_07hrBr1- MCF7 breast cancer cell line response to HRG, 07hr, biol_rep1_CNhs12448_13061-139I1_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG07hrBiolRep1_CNhs12448_ctss_fwd Tc:Mcf7ToHrg_07hrBr1+ MCF7 breast cancer cell line response to HRG, 07hr, biol_rep1_CNhs12448_13061-139I1_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG06hrBiolRep3_CNhs12766_ctss_rev Tc:Mcf7ToHrg_06hrBr3- MCF7 breast cancer cell line response to HRG, 06hr, biol_rep3_CNhs12766_13192-141E6_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG06hrBiolRep3_CNhs12766_ctss_fwd Tc:Mcf7ToHrg_06hrBr3+ MCF7 breast cancer cell line response to HRG, 06hr, biol_rep3_CNhs12766_13192-141E6_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG06hrBiolRep2_CNhs12665_ctss_rev Tc:Mcf7ToHrg_06hrBr2- MCF7 breast cancer cell line response to HRG, 06hr, biol_rep2_CNhs12665_13126-140G3_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG06hrBiolRep2_CNhs12665_ctss_fwd Tc:Mcf7ToHrg_06hrBr2+ MCF7 breast cancer cell line response to HRG, 06hr, biol_rep2_CNhs12665_13126-140G3_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG06hrBiolRep1_CNhs12447_ctss_rev Tc:Mcf7ToHrg_06hrBr1- MCF7 breast cancer cell line response to HRG, 06hr, biol_rep1_CNhs12447_13060-139H9_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG06hrBiolRep1_CNhs12447_ctss_fwd Tc:Mcf7ToHrg_06hrBr1+ MCF7 breast cancer cell line response to HRG, 06hr, biol_rep1_CNhs12447_13060-139H9_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG05hrBiolRep3_CNhs12765_ctss_rev Tc:Mcf7ToHrg_05hrBr3- MCF7 breast cancer cell line response to HRG, 05hr, biol_rep3_CNhs12765_13191-141E5_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG05hrBiolRep3_CNhs12765_ctss_fwd Tc:Mcf7ToHrg_05hrBr3+ MCF7 breast cancer cell line response to HRG, 05hr, biol_rep3_CNhs12765_13191-141E5_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG05hrBiolRep2_CNhs12664_ctss_rev Tc:Mcf7ToHrg_05hrBr2- MCF7 breast cancer cell line response to HRG, 05hr, biol_rep2_CNhs12664_13125-140G2_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG05hrBiolRep2_CNhs12664_ctss_fwd Tc:Mcf7ToHrg_05hrBr2+ MCF7 breast cancer cell line response to HRG, 05hr, biol_rep2_CNhs12664_13125-140G2_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG05hrBiolRep1_CNhs12446_ctss_rev Tc:Mcf7ToHrg_05hrBr1- MCF7 breast cancer cell line response to HRG, 05hr, biol_rep1_CNhs12446_13059-139H8_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG05hrBiolRep1_CNhs12446_ctss_fwd Tc:Mcf7ToHrg_05hrBr1+ MCF7 breast cancer cell line response to HRG, 05hr, biol_rep1_CNhs12446_13059-139H8_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG04hrBiolRep3_CNhs12764_ctss_rev Tc:Mcf7ToHrg_04hrBr3- MCF7 breast cancer cell line response to HRG, 04hr, biol_rep3_CNhs12764_13190-141E4_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG04hrBiolRep3_CNhs12764_ctss_fwd Tc:Mcf7ToHrg_04hrBr3+ MCF7 breast cancer cell line response to HRG, 04hr, biol_rep3_CNhs12764_13190-141E4_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG04hrBiolRep2_CNhs12663_ctss_rev Tc:Mcf7ToHrg_04hrBr2- MCF7 breast cancer cell line response to HRG, 04hr, biol_rep2_CNhs12663_13124-140G1_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG04hrBiolRep2_CNhs12663_ctss_fwd Tc:Mcf7ToHrg_04hrBr2+ MCF7 breast cancer cell line response to HRG, 04hr, biol_rep2_CNhs12663_13124-140G1_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG04hrBiolRep1_CNhs12445_ctss_rev Tc:Mcf7ToHrg_04hrBr1- MCF7 breast cancer cell line response to HRG, 04hr, biol_rep1_CNhs12445_13058-139H7_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG04hrBiolRep1_CNhs12445_ctss_fwd Tc:Mcf7ToHrg_04hrBr1+ MCF7 breast cancer cell line response to HRG, 04hr, biol_rep1_CNhs12445_13058-139H7_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG03hr30minBiolRep3_CNhs12763_ctss_rev Tc:Mcf7ToHrg_03hr30minBr3- MCF7 breast cancer cell line response to HRG, 03hr30min, biol_rep3_CNhs12763_13189-141E3_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG03hr30minBiolRep3_CNhs12763_ctss_fwd Tc:Mcf7ToHrg_03hr30minBr3+ MCF7 breast cancer cell line response to HRG, 03hr30min, biol_rep3_CNhs12763_13189-141E3_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG03hr30minBiolRep2_CNhs12662_ctss_rev Tc:Mcf7ToHrg_03hr30minBr2- MCF7 breast cancer cell line response to HRG, 03hr30min, biol_rep2_CNhs12662_13123-140F9_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG03hr30minBiolRep2_CNhs12662_ctss_fwd Tc:Mcf7ToHrg_03hr30minBr2+ MCF7 breast cancer cell line response to HRG, 03hr30min, biol_rep2_CNhs12662_13123-140F9_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG03hr30minBiolRep1_CNhs12444_ctss_rev Tc:Mcf7ToHrg_03hr30minBr1- MCF7 breast cancer cell line response to HRG, 03hr30min, biol_rep1_CNhs12444_13057-139H6_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG03hr30minBiolRep1_CNhs12444_ctss_fwd Tc:Mcf7ToHrg_03hr30minBr1+ MCF7 breast cancer cell line response to HRG, 03hr30min, biol_rep1_CNhs12444_13057-139H6_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG03hr00minBiolRep3_CNhs12762_ctss_rev Tc:Mcf7ToHrg_03hr00minBr3- MCF7 breast cancer cell line response to HRG, 03hr00min, biol_rep3_CNhs12762_13188-141E2_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG03hr00minBiolRep3_CNhs12762_ctss_fwd Tc:Mcf7ToHrg_03hr00minBr3+ MCF7 breast cancer cell line response to HRG, 03hr00min, biol_rep3_CNhs12762_13188-141E2_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG03hr00minBiolRep2_CNhs12660_ctss_rev Tc:Mcf7ToHrg_03hr00minBr2- MCF7 breast cancer cell line response to HRG, 03hr00min, biol_rep2_CNhs12660_13122-140F8_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG03hr00minBiolRep2_CNhs12660_ctss_fwd Tc:Mcf7ToHrg_03hr00minBr2+ MCF7 breast cancer cell line response to HRG, 03hr00min, biol_rep2_CNhs12660_13122-140F8_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG03hr00minBiolRep1_CNhs12443_ctss_rev Tc:Mcf7ToHrg_03hr00minBr1- MCF7 breast cancer cell line response to HRG, 03hr00min, biol_rep1_CNhs12443_13056-139H5_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG03hr00minBiolRep1_CNhs12443_ctss_fwd Tc:Mcf7ToHrg_03hr00minBr1+ MCF7 breast cancer cell line response to HRG, 03hr00min, biol_rep1_CNhs12443_13056-139H5_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG02hr30minBiolRep3_CNhs12761_ctss_rev Tc:Mcf7ToHrg_02hr30minBr3- MCF7 breast cancer cell line response to HRG, 02hr30min, biol_rep3_CNhs12761_13187-141E1_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG02hr30minBiolRep3_CNhs12761_ctss_fwd Tc:Mcf7ToHrg_02hr30minBr3+ MCF7 breast cancer cell line response to HRG, 02hr30min, biol_rep3_CNhs12761_13187-141E1_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG02hr30minBiolRep2_CNhs12659_ctss_rev Tc:Mcf7ToHrg_02hr30minBr2- MCF7 breast cancer cell line response to HRG, 02hr30min, biol_rep2_CNhs12659_13121-140F7_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG02hr30minBiolRep2_CNhs12659_ctss_fwd Tc:Mcf7ToHrg_02hr30minBr2+ MCF7 breast cancer cell line response to HRG, 02hr30min, biol_rep2_CNhs12659_13121-140F7_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG02hr30minBiolRep1_CNhs12442_ctss_rev Tc:Mcf7ToHrg_02hr30minBr1- MCF7 breast cancer cell line response to HRG, 02hr30min, biol_rep1_CNhs12442_13055-139H4_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG02hr30minBiolRep1_CNhs12442_ctss_fwd Tc:Mcf7ToHrg_02hr30minBr1+ MCF7 breast cancer cell line response to HRG, 02hr30min, biol_rep1_CNhs12442_13055-139H4_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG02hr00minBiolRep3_CNhs12760_ctss_rev Tc:Mcf7ToHrg_02hr00minBr3- MCF7 breast cancer cell line response to HRG, 02hr00min, biol_rep3_CNhs12760_13186-141D9_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG02hr00minBiolRep3_CNhs12760_ctss_fwd Tc:Mcf7ToHrg_02hr00minBr3+ MCF7 breast cancer cell line response to HRG, 02hr00min, biol_rep3_CNhs12760_13186-141D9_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG02hr00minBiolRep2_CNhs12658_ctss_rev Tc:Mcf7ToHrg_02hr00minBr2- MCF7 breast cancer cell line response to HRG, 02hr00min, biol_rep2_CNhs12658_13120-140F6_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG02hr00minBiolRep2_CNhs12658_ctss_fwd Tc:Mcf7ToHrg_02hr00minBr2+ MCF7 breast cancer cell line response to HRG, 02hr00min, biol_rep2_CNhs12658_13120-140F6_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG02hr00minBiolRep1_CNhs12441_ctss_rev Tc:Mcf7ToHrg_02hr00minBr1- MCF7 breast cancer cell line response to HRG, 02hr00min, biol_rep1_CNhs12441_13054-139H3_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG02hr00minBiolRep1_CNhs12441_ctss_fwd Tc:Mcf7ToHrg_02hr00minBr1+ MCF7 breast cancer cell line response to HRG, 02hr00min, biol_rep1_CNhs12441_13054-139H3_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG01hr40minBiolRep3_CNhs12759_ctss_rev Tc:Mcf7ToHrg_01hr40minBr3- MCF7 breast cancer cell line response to HRG, 01hr40min, biol_rep3_CNhs12759_13185-141D8_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG01hr40minBiolRep3_CNhs12759_ctss_fwd Tc:Mcf7ToHrg_01hr40minBr3+ MCF7 breast cancer cell line response to HRG, 01hr40min, biol_rep3_CNhs12759_13185-141D8_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG01hr40minBiolRep2_CNhs12657_ctss_rev Tc:Mcf7ToHrg_01hr40minBr2- MCF7 breast cancer cell line response to HRG, 01hr40min, biol_rep2_CNhs12657_13119-140F5_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG01hr40minBiolRep2_CNhs12657_ctss_fwd Tc:Mcf7ToHrg_01hr40minBr2+ MCF7 breast cancer cell line response to HRG, 01hr40min, biol_rep2_CNhs12657_13119-140F5_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG01hr40minBiolRep1_CNhs12440_ctss_rev Tc:Mcf7ToHrg_01hr40minBr1- MCF7 breast cancer cell line response to HRG, 01hr40min, biol_rep1_CNhs12440_13053-139H2_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG01hr40minBiolRep1_CNhs12440_ctss_fwd Tc:Mcf7ToHrg_01hr40minBr1+ MCF7 breast cancer cell line response to HRG, 01hr40min, biol_rep1_CNhs12440_13053-139H2_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG01hr20minBiolRep3_CNhs12758_ctss_rev Tc:Mcf7ToHrg_01hr20minBr3- MCF7 breast cancer cell line response to HRG, 01hr20min, biol_rep3_CNhs12758_13184-141D7_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG01hr20minBiolRep3_CNhs12758_ctss_fwd Tc:Mcf7ToHrg_01hr20minBr3+ MCF7 breast cancer cell line response to HRG, 01hr20min, biol_rep3_CNhs12758_13184-141D7_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG01hr20minBiolRep2_CNhs12656_ctss_rev Tc:Mcf7ToHrg_01hr20minBr2- MCF7 breast cancer cell line response to HRG, 01hr20min, biol_rep2_CNhs12656_13118-140F4_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG01hr20minBiolRep2_CNhs12656_ctss_fwd Tc:Mcf7ToHrg_01hr20minBr2+ MCF7 breast cancer cell line response to HRG, 01hr20min, biol_rep2_CNhs12656_13118-140F4_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG01hr20minBiolRep1_CNhs12439_ctss_rev Tc:Mcf7ToHrg_01hr20minBr1- MCF7 breast cancer cell line response to HRG, 01hr20min, biol_rep1_CNhs12439_13052-139H1_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG01hr20minBiolRep1_CNhs12439_ctss_fwd Tc:Mcf7ToHrg_01hr20minBr1+ MCF7 breast cancer cell line response to HRG, 01hr20min, biol_rep1_CNhs12439_13052-139H1_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG01hr00minBiolRep3_CNhs12757_ctss_rev Tc:Mcf7ToHrg_01hr00minBr3- MCF7 breast cancer cell line response to HRG, 01hr00min, biol_rep3_CNhs12757_13183-141D6_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG01hr00minBiolRep3_CNhs12757_ctss_fwd Tc:Mcf7ToHrg_01hr00minBr3+ MCF7 breast cancer cell line response to HRG, 01hr00min, biol_rep3_CNhs12757_13183-141D6_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG01hr00minBiolRep2_CNhs12655_ctss_rev Tc:Mcf7ToHrg_01hr00minBr2- MCF7 breast cancer cell line response to HRG, 01hr00min, biol_rep2_CNhs12655_13117-140F3_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG01hr00minBiolRep2_CNhs12655_ctss_fwd Tc:Mcf7ToHrg_01hr00minBr2+ MCF7 breast cancer cell line response to HRG, 01hr00min, biol_rep2_CNhs12655_13117-140F3_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG01hr00minBiolRep1_CNhs12438_ctss_rev Tc:Mcf7ToHrg_01hr00minBr1- MCF7 breast cancer cell line response to HRG, 01hr00min, biol_rep1_CNhs12438_13051-139G9_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG01hr00minBiolRep1_CNhs12438_ctss_fwd Tc:Mcf7ToHrg_01hr00minBr1+ MCF7 breast cancer cell line response to HRG, 01hr00min, biol_rep1_CNhs12438_13051-139G9_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG00hr45minBiolRep3_CNhs12756_ctss_rev Tc:Mcf7ToHrg_00hr45minBr3- MCF7 breast cancer cell line response to HRG, 00hr45min, biol_rep3_CNhs12756_13182-141D5_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG00hr45minBiolRep3_CNhs12756_ctss_fwd Tc:Mcf7ToHrg_00hr45minBr3+ MCF7 breast cancer cell line response to HRG, 00hr45min, biol_rep3_CNhs12756_13182-141D5_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG00hr45minBiolRep2_CNhs12654_ctss_rev Tc:Mcf7ToHrg_00hr45minBr2- MCF7 breast cancer cell line response to HRG, 00hr45min, biol_rep2_CNhs12654_13116-140F2_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG00hr45minBiolRep2_CNhs12654_ctss_fwd Tc:Mcf7ToHrg_00hr45minBr2+ MCF7 breast cancer cell line response to HRG, 00hr45min, biol_rep2_CNhs12654_13116-140F2_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG00hr45minBiolRep1_CNhs12437_ctss_rev Tc:Mcf7ToHrg_00hr45minBr1- MCF7 breast cancer cell line response to HRG, 00hr45min, biol_rep1_CNhs12437_13050-139G8_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG00hr45minBiolRep1_CNhs12437_ctss_fwd Tc:Mcf7ToHrg_00hr45minBr1+ MCF7 breast cancer cell line response to HRG, 00hr45min, biol_rep1_CNhs12437_13050-139G8_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG00hr30minBiolRep3_CNhs12755_ctss_rev Tc:Mcf7ToHrg_00hr30minBr3- MCF7 breast cancer cell line response to HRG, 00hr30min, biol_rep3_CNhs12755_13181-141D4_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG00hr30minBiolRep3_CNhs12755_ctss_fwd Tc:Mcf7ToHrg_00hr30minBr3+ MCF7 breast cancer cell line response to HRG, 00hr30min, biol_rep3_CNhs12755_13181-141D4_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG00hr30minBiolRep2_CNhs12653_ctss_rev Tc:Mcf7ToHrg_00hr30minBr2- MCF7 breast cancer cell line response to HRG, 00hr30min, biol_rep2_CNhs12653_13115-140F1_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG00hr30minBiolRep2_CNhs12653_ctss_fwd Tc:Mcf7ToHrg_00hr30minBr2+ MCF7 breast cancer cell line response to HRG, 00hr30min, biol_rep2_CNhs12653_13115-140F1_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG00hr30minBiolRep1_CNhs12436_ctss_rev Tc:Mcf7ToHrg_00hr30minBr1- MCF7 breast cancer cell line response to HRG, 00hr30min, biol_rep1_CNhs12436_13049-139G7_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG00hr30minBiolRep1_CNhs12436_ctss_fwd Tc:Mcf7ToHrg_00hr30minBr1+ MCF7 breast cancer cell line response to HRG, 00hr30min, biol_rep1_CNhs12436_13049-139G7_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG00hr15minBiolRep3_CNhs12754_ctss_rev Tc:Mcf7ToHrg_00hr15minBr3- MCF7 breast cancer cell line response to HRG, 00hr15min, biol_rep3_CNhs12754_13180-141D3_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG00hr15minBiolRep3_CNhs12754_ctss_fwd Tc:Mcf7ToHrg_00hr15minBr3+ MCF7 breast cancer cell line response to HRG, 00hr15min, biol_rep3_CNhs12754_13180-141D3_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG00hr15minBiolRep2_CNhs12652_ctss_rev Tc:Mcf7ToHrg_00hr15minBr2- MCF7 breast cancer cell line response to HRG, 00hr15min, biol_rep2_CNhs12652_13114-140E9_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG00hr15minBiolRep2_CNhs12652_ctss_fwd Tc:Mcf7ToHrg_00hr15minBr2+ MCF7 breast cancer cell line response to HRG, 00hr15min, biol_rep2_CNhs12652_13114-140E9_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG00hr15minBiolRep1_CNhs12435_ctss_rev Tc:Mcf7ToHrg_00hr15minBr1- MCF7 breast cancer cell line response to HRG, 00hr15min, biol_rep1_CNhs12435_13048-139G6_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG00hr15minBiolRep1_CNhs12435_ctss_fwd Tc:Mcf7ToHrg_00hr15minBr1+ MCF7 breast cancer cell line response to HRG, 00hr15min, biol_rep1_CNhs12435_13048-139G6_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF108hrBiolRep3_CNhs12753_ctss_rev Mcf7ToEgf1_08hrBr3- MCF7 breast cancer cell line response to EGF1, 08hr, biol_rep3_CNhs12753_13178-141D1_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF108hrBiolRep3_CNhs12753_ctss_fwd Mcf7ToEgf1_08hrBr3+ MCF7 breast cancer cell line response to EGF1, 08hr, biol_rep3_CNhs12753_13178-141D1_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF108hrBiolRep2_CNhs12491_ctss_rev Mcf7ToEgf1_08hrBr2- MCF7 breast cancer cell line response to EGF1, 08hr, biol_rep2_CNhs12491_13112-140E7_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF108hrBiolRep2_CNhs12491_ctss_fwd Mcf7ToEgf1_08hrBr2+ MCF7 breast cancer cell line response to EGF1, 08hr, biol_rep2_CNhs12491_13112-140E7_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF107hrBiolRep3_CNhs12752_ctss_rev Mcf7ToEgf1_07hrBr3- MCF7 breast cancer cell line response to EGF1, 07hr, biol_rep3_CNhs12752_13177-141C9_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF107hrBiolRep3_CNhs12752_ctss_fwd Mcf7ToEgf1_07hrBr3+ MCF7 breast cancer cell line response to EGF1, 07hr, biol_rep3_CNhs12752_13177-141C9_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF107hrBiolRep2_CNhs12490_ctss_rev Mcf7ToEgf1_07hrBr2- MCF7 breast cancer cell line response to EGF1, 07hr, biol_rep2_CNhs12490_13111-140E6_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF107hrBiolRep2_CNhs12490_ctss_fwd Mcf7ToEgf1_07hrBr2+ MCF7 breast cancer cell line response to EGF1, 07hr, biol_rep2_CNhs12490_13111-140E6_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF107hrBiolRep1_CNhs12434_ctss_rev Mcf7ToEgf1_07hrBr1- MCF7 breast cancer cell line response to EGF1, 07hr, biol_rep1_CNhs12434_13045-139G3_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF107hrBiolRep1_CNhs12434_ctss_fwd Mcf7ToEgf1_07hrBr1+ MCF7 breast cancer cell line response to EGF1, 07hr, biol_rep1_CNhs12434_13045-139G3_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF106hrBiolRep3_CNhs12751_ctss_rev Mcf7ToEgf1_06hrBr3- MCF7 breast cancer cell line response to EGF1, 06hr, biol_rep3_CNhs12751_13176-141C8_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF106hrBiolRep3_CNhs12751_ctss_fwd Mcf7ToEgf1_06hrBr3+ MCF7 breast cancer cell line response to EGF1, 06hr, biol_rep3_CNhs12751_13176-141C8_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF106hrBiolRep2_CNhs12489_ctss_rev Mcf7ToEgf1_06hrBr2- MCF7 breast cancer cell line response to EGF1, 06hr, biol_rep2_CNhs12489_13110-140E5_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF106hrBiolRep2_CNhs12489_ctss_fwd Mcf7ToEgf1_06hrBr2+ MCF7 breast cancer cell line response to EGF1, 06hr, biol_rep2_CNhs12489_13110-140E5_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF106hrBiolRep1_CNhs12432_ctss_rev Mcf7ToEgf1_06hrBr1- MCF7 breast cancer cell line response to EGF1, 06hr, biol_rep1_CNhs12432_13044-139G2_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF106hrBiolRep1_CNhs12432_ctss_fwd Mcf7ToEgf1_06hrBr1+ MCF7 breast cancer cell line response to EGF1, 06hr, biol_rep1_CNhs12432_13044-139G2_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF105hrBiolRep3_CNhs12750_ctss_rev Mcf7ToEgf1_05hrBr3- MCF7 breast cancer cell line response to EGF1, 05hr, biol_rep3_CNhs12750_13175-141C7_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF105hrBiolRep3_CNhs12750_ctss_fwd Mcf7ToEgf1_05hrBr3+ MCF7 breast cancer cell line response to EGF1, 05hr, biol_rep3_CNhs12750_13175-141C7_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF105hrBiolRep2_CNhs12488_ctss_rev Mcf7ToEgf1_05hrBr2- MCF7 breast cancer cell line response to EGF1, 05hr, biol_rep2_CNhs12488_13109-140E4_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF105hrBiolRep2_CNhs12488_ctss_fwd Mcf7ToEgf1_05hrBr2+ MCF7 breast cancer cell line response to EGF1, 05hr, biol_rep2_CNhs12488_13109-140E4_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF105hrBiolRep1_CNhs12431_ctss_rev Mcf7ToEgf1_05hrBr1- MCF7 breast cancer cell line response to EGF1, 05hr, biol_rep1_CNhs12431_13043-139G1_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF105hrBiolRep1_CNhs12431_ctss_fwd Mcf7ToEgf1_05hrBr1+ MCF7 breast cancer cell line response to EGF1, 05hr, biol_rep1_CNhs12431_13043-139G1_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF104hrBiolRep3_CNhs12749_ctss_rev Mcf7ToEgf1_04hrBr3- MCF7 breast cancer cell line response to EGF1, 04hr, biol_rep3_CNhs12749_13174-141C6_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF104hrBiolRep3_CNhs12749_ctss_fwd Mcf7ToEgf1_04hrBr3+ MCF7 breast cancer cell line response to EGF1, 04hr, biol_rep3_CNhs12749_13174-141C6_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF104hrBiolRep2_CNhs12487_ctss_rev Mcf7ToEgf1_04hrBr2- MCF7 breast cancer cell line response to EGF1, 04hr, biol_rep2_CNhs12487_13108-140E3_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF104hrBiolRep2_CNhs12487_ctss_fwd Mcf7ToEgf1_04hrBr2+ MCF7 breast cancer cell line response to EGF1, 04hr, biol_rep2_CNhs12487_13108-140E3_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF104hrBiolRep1_CNhs12430_ctss_rev Mcf7ToEgf1_04hrBr1- MCF7 breast cancer cell line response to EGF1, 04hr, biol_rep1_CNhs12430_13042-139F9_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF104hrBiolRep1_CNhs12430_ctss_fwd Mcf7ToEgf1_04hrBr1+ MCF7 breast cancer cell line response to EGF1, 04hr, biol_rep1_CNhs12430_13042-139F9_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF103hr30minBiolRep3_CNhs12748_ctss_rev Mcf7ToEgf1_03hr30minBr3- MCF7 breast cancer cell line response to EGF1, 03hr30min, biol_rep3_CNhs12748_13173-141C5_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF103hr30minBiolRep3_CNhs12748_ctss_fwd Mcf7ToEgf1_03hr30minBr3+ MCF7 breast cancer cell line response to EGF1, 03hr30min, biol_rep3_CNhs12748_13173-141C5_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF103hr30minBiolRep2_CNhs12486_ctss_rev Mcf7ToEgf1_03hr30minBr2- MCF7 breast cancer cell line response to EGF1, 03hr30min, biol_rep2_CNhs12486_13107-140E2_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF103hr30minBiolRep2_CNhs12486_ctss_fwd Mcf7ToEgf1_03hr30minBr2+ MCF7 breast cancer cell line response to EGF1, 03hr30min, biol_rep2_CNhs12486_13107-140E2_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF103hr30minBiolRep1_CNhs12429_ctss_rev Mcf7ToEgf1_03hr30minBr1- MCF7 breast cancer cell line response to EGF1, 03hr30min, biol_rep1_CNhs12429_13041-139F8_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF103hr30minBiolRep1_CNhs12429_ctss_fwd Mcf7ToEgf1_03hr30minBr1+ MCF7 breast cancer cell line response to EGF1, 03hr30min, biol_rep1_CNhs12429_13041-139F8_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF103hr00minBiolRep3_CNhs12747_ctss_rev Mcf7ToEgf1_03hr00minBr3- MCF7 breast cancer cell line response to EGF1, 03hr00min, biol_rep3_CNhs12747_13172-141C4_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF103hr00minBiolRep3_CNhs12747_ctss_fwd Mcf7ToEgf1_03hr00minBr3+ MCF7 breast cancer cell line response to EGF1, 03hr00min, biol_rep3_CNhs12747_13172-141C4_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF103hr00minBiolRep2_CNhs12485_ctss_rev Mcf7ToEgf1_03hr00minBr2- MCF7 breast cancer cell line response to EGF1, 03hr00min, biol_rep2_CNhs12485_13106-140E1_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF103hr00minBiolRep2_CNhs12485_ctss_fwd Mcf7ToEgf1_03hr00minBr2+ MCF7 breast cancer cell line response to EGF1, 03hr00min, biol_rep2_CNhs12485_13106-140E1_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF103hr00minBiolRep1_CNhs12428_ctss_rev Mcf7ToEgf1_03hr00minBr1- MCF7 breast cancer cell line response to EGF1, 03hr00min, biol_rep1_CNhs12428_13040-139F7_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF103hr00minBiolRep1_CNhs12428_ctss_fwd Mcf7ToEgf1_03hr00minBr1+ MCF7 breast cancer cell line response to EGF1, 03hr00min, biol_rep1_CNhs12428_13040-139F7_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF102hr30minBiolRep3_CNhs12746_ctss_rev Mcf7ToEgf1_02hr30minBr3- MCF7 breast cancer cell line response to EGF1, 02hr30min, biol_rep3_CNhs12746_13171-141C3_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF102hr30minBiolRep3_CNhs12746_ctss_fwd Mcf7ToEgf1_02hr30minBr3+ MCF7 breast cancer cell line response to EGF1, 02hr30min, biol_rep3_CNhs12746_13171-141C3_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF102hr30minBiolRep2_CNhs12484_ctss_rev Mcf7ToEgf1_02hr30minBr2- MCF7 breast cancer cell line response to EGF1, 02hr30min, biol_rep2_CNhs12484_13105-140D9_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF102hr30minBiolRep2_CNhs12484_ctss_fwd Mcf7ToEgf1_02hr30minBr2+ MCF7 breast cancer cell line response to EGF1, 02hr30min, biol_rep2_CNhs12484_13105-140D9_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF102hr30minBiolRep1_CNhs12427_ctss_rev Mcf7ToEgf1_02hr30minBr1- MCF7 breast cancer cell line response to EGF1, 02hr30min, biol_rep1_CNhs12427_13039-139F6_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF102hr30minBiolRep1_CNhs12427_ctss_fwd Mcf7ToEgf1_02hr30minBr1+ MCF7 breast cancer cell line response to EGF1, 02hr30min, biol_rep1_CNhs12427_13039-139F6_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF102hr00minBiolRep3_CNhs12744_ctss_rev Mcf7ToEgf1_02hr00minBr3- MCF7 breast cancer cell line response to EGF1, 02hr00min, biol_rep3_CNhs12744_13170-141C2_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF102hr00minBiolRep3_CNhs12744_ctss_fwd Mcf7ToEgf1_02hr00minBr3+ MCF7 breast cancer cell line response to EGF1, 02hr00min, biol_rep3_CNhs12744_13170-141C2_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF102hr00minBiolRep2_CNhs12483_ctss_rev Mcf7ToEgf1_02hr00minBr2- MCF7 breast cancer cell line response to EGF1, 02hr00min, biol_rep2_CNhs12483_13104-140D8_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF102hr00minBiolRep2_CNhs12483_ctss_fwd Mcf7ToEgf1_02hr00minBr2+ MCF7 breast cancer cell line response to EGF1, 02hr00min, biol_rep2_CNhs12483_13104-140D8_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF102hr00minBiolRep1_CNhs12426_ctss_rev Mcf7ToEgf1_02hr00minBr1- MCF7 breast cancer cell line response to EGF1, 02hr00min, biol_rep1_CNhs12426_13038-139F5_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF102hr00minBiolRep1_CNhs12426_ctss_fwd Mcf7ToEgf1_02hr00minBr1+ MCF7 breast cancer cell line response to EGF1, 02hr00min, biol_rep1_CNhs12426_13038-139F5_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF101hr40minBiolRep3_CNhs12743_ctss_rev Mcf7ToEgf1_01hr40minBr3- MCF7 breast cancer cell line response to EGF1, 01hr40min, biol_rep3_CNhs12743_13169-141C1_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF101hr40minBiolRep3_CNhs12743_ctss_fwd Mcf7ToEgf1_01hr40minBr3+ MCF7 breast cancer cell line response to EGF1, 01hr40min, biol_rep3_CNhs12743_13169-141C1_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF101hr40minBiolRep2_CNhs12482_ctss_rev Mcf7ToEgf1_01hr40minBr2- MCF7 breast cancer cell line response to EGF1, 01hr40min, biol_rep2_CNhs12482_13103-140D7_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF101hr40minBiolRep2_CNhs12482_ctss_fwd Mcf7ToEgf1_01hr40minBr2+ MCF7 breast cancer cell line response to EGF1, 01hr40min, biol_rep2_CNhs12482_13103-140D7_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF101hr40minBiolRep1_CNhs12425_ctss_rev Mcf7ToEgf1_01hr40minBr1- MCF7 breast cancer cell line response to EGF1, 01hr40min, biol_rep1_CNhs12425_13037-139F4_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF101hr40minBiolRep1_CNhs12425_ctss_fwd Mcf7ToEgf1_01hr40minBr1+ MCF7 breast cancer cell line response to EGF1, 01hr40min, biol_rep1_CNhs12425_13037-139F4_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF101hr20minBiolRep3_CNhs12742_ctss_rev Mcf7ToEgf1_01hr20minBr3- MCF7 breast cancer cell line response to EGF1, 01hr20min, biol_rep3_CNhs12742_13168-141B9_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF101hr20minBiolRep3_CNhs12742_ctss_fwd Mcf7ToEgf1_01hr20minBr3+ MCF7 breast cancer cell line response to EGF1, 01hr20min, biol_rep3_CNhs12742_13168-141B9_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF101hr20minBiolRep2_CNhs12480_ctss_rev Mcf7ToEgf1_01hr20minBr2- MCF7 breast cancer cell line response to EGF1, 01hr20min, biol_rep2_CNhs12480_13102-140D6_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF101hr20minBiolRep2_CNhs12480_ctss_fwd Mcf7ToEgf1_01hr20minBr2+ MCF7 breast cancer cell line response to EGF1, 01hr20min, biol_rep2_CNhs12480_13102-140D6_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF101hr20minBiolRep1_CNhs12424_ctss_rev Mcf7ToEgf1_01hr20minBr1- MCF7 breast cancer cell line response to EGF1, 01hr20min, biol_rep1_CNhs12424_13036-139F3_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF101hr20minBiolRep1_CNhs12424_ctss_fwd Mcf7ToEgf1_01hr20minBr1+ MCF7 breast cancer cell line response to EGF1, 01hr20min, biol_rep1_CNhs12424_13036-139F3_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF101hr00minBiolRep3_CNhs12705_ctss_rev Mcf7ToEgf1_01hr00minBr3- MCF7 breast cancer cell line response to EGF1, 01hr00min, biol_rep3_CNhs12705_13167-141B8_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF101hr00minBiolRep3_CNhs12705_ctss_fwd Mcf7ToEgf1_01hr00minBr3+ MCF7 breast cancer cell line response to EGF1, 01hr00min, biol_rep3_CNhs12705_13167-141B8_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF101hr00minBiolRep2_CNhs12479_ctss_rev Mcf7ToEgf1_01hr00minBr2- MCF7 breast cancer cell line response to EGF1, 01hr00min, biol_rep2_CNhs12479_13101-140D5_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF101hr00minBiolRep2_CNhs12479_ctss_fwd Mcf7ToEgf1_01hr00minBr2+ MCF7 breast cancer cell line response to EGF1, 01hr00min, biol_rep2_CNhs12479_13101-140D5_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF101hr00minBiolRep1_CNhs12423_ctss_rev Mcf7ToEgf1_01hr00minBr1- MCF7 breast cancer cell line response to EGF1, 01hr00min, biol_rep1_CNhs12423_13035-139F2_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF101hr00minBiolRep1_CNhs12423_ctss_fwd Mcf7ToEgf1_01hr00minBr1+ MCF7 breast cancer cell line response to EGF1, 01hr00min, biol_rep1_CNhs12423_13035-139F2_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF100hr45minBiolRep3_CNhs12739_ctss_rev Mcf7ToEgf1_00hr45minBr3- MCF7 breast cancer cell line response to EGF1, 00hr45min, biol_rep3_CNhs12739_13166-141B7_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF100hr45minBiolRep3_CNhs12739_ctss_fwd Mcf7ToEgf1_00hr45minBr3+ MCF7 breast cancer cell line response to EGF1, 00hr45min, biol_rep3_CNhs12739_13166-141B7_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF100hr45minBiolRep2_CNhs12478_ctss_rev Mcf7ToEgf1_00hr45minBr2- MCF7 breast cancer cell line response to EGF1, 00hr45min, biol_rep2_CNhs12478_13100-140D4_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF100hr45minBiolRep2_CNhs12478_ctss_fwd Mcf7ToEgf1_00hr45minBr2+ MCF7 breast cancer cell line response to EGF1, 00hr45min, biol_rep2_CNhs12478_13100-140D4_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF100hr45minBiolRep1_CNhs12422_ctss_rev Mcf7ToEgf1_00hr45minBr1- MCF7 breast cancer cell line response to EGF1, 00hr45min, biol_rep1_CNhs12422_13034-139F1_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF100hr45minBiolRep1_CNhs12422_ctss_fwd Mcf7ToEgf1_00hr45minBr1+ MCF7 breast cancer cell line response to EGF1, 00hr45min, biol_rep1_CNhs12422_13034-139F1_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF100hr30minBiolRep3_CNhs12738_ctss_rev Mcf7ToEgf1_00hr30minBr3- MCF7 breast cancer cell line response to EGF1, 00hr30min, biol_rep3_CNhs12738_13165-141B6_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF100hr30minBiolRep3_CNhs12738_ctss_fwd Mcf7ToEgf1_00hr30minBr3+ MCF7 breast cancer cell line response to EGF1, 00hr30min, biol_rep3_CNhs12738_13165-141B6_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF100hr30minBiolRep2_CNhs12477_ctss_rev Mcf7ToEgf1_00hr30minBr2- MCF7 breast cancer cell line response to EGF1, 00hr30min, biol_rep2_CNhs12477_13099-140D3_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF100hr30minBiolRep2_CNhs12477_ctss_fwd Mcf7ToEgf1_00hr30minBr2+ MCF7 breast cancer cell line response to EGF1, 00hr30min, biol_rep2_CNhs12477_13099-140D3_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF100hr30minBiolRep1_CNhs12421_ctss_rev Mcf7ToEgf1_00hr30minBr1- MCF7 breast cancer cell line response to EGF1, 00hr30min, biol_rep1_CNhs12421_13033-139E9_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF100hr30minBiolRep1_CNhs12421_ctss_fwd Mcf7ToEgf1_00hr30minBr1+ MCF7 breast cancer cell line response to EGF1, 00hr30min, biol_rep1_CNhs12421_13033-139E9_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF100hr15minBiolRep3_CNhs12704_ctss_rev Mcf7ToEgf1_00hr15minBr3- MCF7 breast cancer cell line response to EGF1, 00hr15min, biol_rep3_CNhs12704_13164-141B5_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF100hr15minBiolRep3_CNhs12704_ctss_fwd Mcf7ToEgf1_00hr15minBr3+ MCF7 breast cancer cell line response to EGF1, 00hr15min, biol_rep3_CNhs12704_13164-141B5_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF100hr15minBiolRep2_CNhs12476_ctss_rev Mcf7ToEgf1_00hr15minBr2- MCF7 breast cancer cell line response to EGF1, 00hr15min, biol_rep2_CNhs12476_13098-140D2_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF100hr15minBiolRep2_CNhs12476_ctss_fwd Mcf7ToEgf1_00hr15minBr2+ MCF7 breast cancer cell line response to EGF1, 00hr15min, biol_rep2_CNhs12476_13098-140D2_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF100hr15minBiolRep1_CNhs12420_ctss_rev Mcf7ToEgf1_00hr15minBr1- MCF7 breast cancer cell line response to EGF1, 00hr15min, biol_rep1_CNhs12420_13032-139E8_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF100hr15minBiolRep1_CNhs12420_ctss_fwd Mcf7ToEgf1_00hr15minBr1+ MCF7 breast cancer cell line response to EGF1, 00hr15min, biol_rep1_CNhs12420_13032-139E8_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF100hr00minBiolRep3_CNhs12703_ctss_rev Mcf7ToEgf1_00hr00minBr3- MCF7 breast cancer cell line response to EGF1, 00hr00min, biol_rep3_CNhs12703_13163-141B4_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF100hr00minBiolRep3_CNhs12703_ctss_fwd Mcf7ToEgf1_00hr00minBr3+ MCF7 breast cancer cell line response to EGF1, 00hr00min, biol_rep3_CNhs12703_13163-141B4_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF100hr00minBiolRep2_CNhs12475_ctss_rev Mcf7ToEgf1_00hr00minBr2- MCF7 breast cancer cell line response to EGF1, 00hr00min, biol_rep2_CNhs12475_13097-140D1_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF100hr00minBiolRep2_CNhs12475_ctss_fwd Mcf7ToEgf1_00hr00minBr2+ MCF7 breast cancer cell line response to EGF1, 00hr00min, biol_rep2_CNhs12475_13097-140D1_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF108hrBiolRep1_CNhs12565_ctss_rev Mcf7ToEgf1_08hrBr1- MCF7 breast cancer cell line response to EGF1, 08hr, biol_rep1_CNhs12565_13046-139G4_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF108hrBiolRep1_CNhs12565_ctss_fwd Mcf7ToEgf1_08hrBr1+ MCF7 breast cancer cell line response to EGF1, 08hr, biol_rep1_CNhs12565_13046-139G4_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC08hrBiolRep3MMXXII16_CNhs13291_ctss_rev LymphaticEndothelialCellsToVegfc_08hrBr3- Lymphatic Endothelial cells response to VEGFC, 08hr, biol_rep3 (MM XXII - 16)_CNhs13291_12519-133B8_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC08hrBiolRep3MMXXII16_CNhs13291_ctss_fwd LymphaticEndothelialCellsToVegfc_08hrBr3+ Lymphatic Endothelial cells response to VEGFC, 08hr, biol_rep3 (MM XXII - 16)_CNhs13291_12519-133B8_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC08hrBiolRep2MMXIV16_CNhs13173_ctss_rev LymphaticEndothelialCellsToVegfc_08hrBr2- Lymphatic Endothelial cells response to VEGFC, 08hr, biol_rep2 (MM XIV - 16)_CNhs13173_12397-131G3_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC08hrBiolRep2MMXIV16_CNhs13173_ctss_fwd LymphaticEndothelialCellsToVegfc_08hrBr2+ Lymphatic Endothelial cells response to VEGFC, 08hr, biol_rep2 (MM XIV - 16)_CNhs13173_12397-131G3_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC08hrBiolRep1MMXIX16_CNhs11937_ctss_rev LymphaticEndothelialCellsToVegfc_08hrBr1- Lymphatic Endothelial cells response to VEGFC, 08hr, biol_rep1 (MM XIX - 16)_CNhs11937_12275-130B7_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC08hrBiolRep1MMXIX16_CNhs11937_ctss_fwd LymphaticEndothelialCellsToVegfc_08hrBr1+ Lymphatic Endothelial cells response to VEGFC, 08hr, biol_rep1 (MM XIX - 16)_CNhs11937_12275-130B7_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC07hrBiolRep3MMXXII15_CNhs13290_ctss_rev LymphaticEndothelialCellsToVegfc_07hrBr3- Lymphatic Endothelial cells response to VEGFC, 07hr, biol_rep3 (MM XXII - 15)_CNhs13290_12518-133B7_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC07hrBiolRep3MMXXII15_CNhs13290_ctss_fwd LymphaticEndothelialCellsToVegfc_07hrBr3+ Lymphatic Endothelial cells response to VEGFC, 07hr, biol_rep3 (MM XXII - 15)_CNhs13290_12518-133B7_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC07hrBiolRep2MMXIV15_CNhs13172_ctss_rev LymphaticEndothelialCellsToVegfc_07hrBr2- Lymphatic Endothelial cells response to VEGFC, 07hr, biol_rep2 (MM XIV - 15)_CNhs13172_12396-131G2_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC07hrBiolRep2MMXIV15_CNhs13172_ctss_fwd LymphaticEndothelialCellsToVegfc_07hrBr2+ Lymphatic Endothelial cells response to VEGFC, 07hr, biol_rep2 (MM XIV - 15)_CNhs13172_12396-131G2_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC07hrBiolRep1MMXIX15_CNhs13113_ctss_rev LymphaticEndothelialCellsToVegfc_07hrBr1- Lymphatic Endothelial cells response to VEGFC, 07hr, biol_rep1 (MM XIX - 15)_CNhs13113_12274-130B6_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC07hrBiolRep1MMXIX15_CNhs13113_ctss_fwd LymphaticEndothelialCellsToVegfc_07hrBr1+ Lymphatic Endothelial cells response to VEGFC, 07hr, biol_rep1 (MM XIX - 15)_CNhs13113_12274-130B6_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC06hrBiolRep3MMXXII14_CNhs13289_ctss_rev LymphaticEndothelialCellsToVegfc_06hrBr3- Lymphatic Endothelial cells response to VEGFC, 06hr, biol_rep3 (MM XXII - 14)_CNhs13289_12517-133B6_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC06hrBiolRep3MMXXII14_CNhs13289_ctss_fwd LymphaticEndothelialCellsToVegfc_06hrBr3+ Lymphatic Endothelial cells response to VEGFC, 06hr, biol_rep3 (MM XXII - 14)_CNhs13289_12517-133B6_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC06hrBiolRep2MMXIV14_CNhs13171_ctss_rev LymphaticEndothelialCellsToVegfc_06hrBr2- Lymphatic Endothelial cells response to VEGFC, 06hr, biol_rep2 (MM XIV - 14)_CNhs13171_12395-131G1_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC06hrBiolRep2MMXIV14_CNhs13171_ctss_fwd LymphaticEndothelialCellsToVegfc_06hrBr2+ Lymphatic Endothelial cells response to VEGFC, 06hr, biol_rep2 (MM XIV - 14)_CNhs13171_12395-131G1_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC06hrBiolRep1MMXIX14_CNhs13112_ctss_rev LymphaticEndothelialCellsToVegfc_06hrBr1- Lymphatic Endothelial cells response to VEGFC, 06hr, biol_rep1 (MM XIX - 14)_CNhs13112_12273-130B5_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC06hrBiolRep1MMXIX14_CNhs13112_ctss_fwd LymphaticEndothelialCellsToVegfc_06hrBr1+ Lymphatic Endothelial cells response to VEGFC, 06hr, biol_rep1 (MM XIX - 14)_CNhs13112_12273-130B5_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC05hrBiolRep3MMXXII13_CNhs13288_ctss_rev LymphaticEndothelialCellsToVegfc_05hrBr3- Lymphatic Endothelial cells response to VEGFC, 05hr, biol_rep3 (MM XXII - 13)_CNhs13288_12516-133B5_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC05hrBiolRep3MMXXII13_CNhs13288_ctss_fwd LymphaticEndothelialCellsToVegfc_05hrBr3+ Lymphatic Endothelial cells response to VEGFC, 05hr, biol_rep3 (MM XXII - 13)_CNhs13288_12516-133B5_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC05hrBiolRep2MMXIV13_CNhs13170_ctss_rev LymphaticEndothelialCellsToVegfc_05hrBr2- Lymphatic Endothelial cells response to VEGFC, 05hr, biol_rep2 (MM XIV - 13)_CNhs13170_12394-131F9_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC05hrBiolRep2MMXIV13_CNhs13170_ctss_fwd LymphaticEndothelialCellsToVegfc_05hrBr2+ Lymphatic Endothelial cells response to VEGFC, 05hr, biol_rep2 (MM XIV - 13)_CNhs13170_12394-131F9_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC05hrBiolRep1MMXIX13_CNhs13111_ctss_rev LymphaticEndothelialCellsToVegfc_05hrBr1- Lymphatic Endothelial cells response to VEGFC, 05hr, biol_rep1 (MM XIX - 13)_CNhs13111_12272-130B4_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC05hrBiolRep1MMXIX13_CNhs13111_ctss_fwd LymphaticEndothelialCellsToVegfc_05hrBr1+ Lymphatic Endothelial cells response to VEGFC, 05hr, biol_rep1 (MM XIX - 13)_CNhs13111_12272-130B4_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC04hrBiolRep3MMXXII12_CNhs13287_ctss_rev LymphaticEndothelialCellsToVegfc_04hrBr3- Lymphatic Endothelial cells response to VEGFC, 04hr, biol_rep3 (MM XXII - 12)_CNhs13287_12515-133B4_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC04hrBiolRep3MMXXII12_CNhs13287_ctss_fwd LymphaticEndothelialCellsToVegfc_04hrBr3+ Lymphatic Endothelial cells response to VEGFC, 04hr, biol_rep3 (MM XXII - 12)_CNhs13287_12515-133B4_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC04hrBiolRep2MMXIV12_CNhs13169_ctss_rev LymphaticEndothelialCellsToVegfc_04hrBr2- Lymphatic Endothelial cells response to VEGFC, 04hr, biol_rep2 (MM XIV - 12)_CNhs13169_12393-131F8_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC04hrBiolRep2MMXIV12_CNhs13169_ctss_fwd LymphaticEndothelialCellsToVegfc_04hrBr2+ Lymphatic Endothelial cells response to VEGFC, 04hr, biol_rep2 (MM XIV - 12)_CNhs13169_12393-131F8_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC04hrBiolRep1MMXIX12_CNhs13110_ctss_rev LymphaticEndothelialCellsToVegfc_04hrBr1- Lymphatic Endothelial cells response to VEGFC, 04hr, biol_rep1 (MM XIX - 12)_CNhs13110_12271-130B3_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC04hrBiolRep1MMXIX12_CNhs13110_ctss_fwd LymphaticEndothelialCellsToVegfc_04hrBr1+ Lymphatic Endothelial cells response to VEGFC, 04hr, biol_rep1 (MM XIX - 12)_CNhs13110_12271-130B3_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC03hr30minBiolRep3MMXXII11_CNhs13286_ctss_rev LymphaticEndothelialCellsToVegfc_03hr30minBr3- Lymphatic Endothelial cells response to VEGFC, 03hr30min, biol_rep3 (MM XXII - 11)_CNhs13286_12514-133B3_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC03hr30minBiolRep3MMXXII11_CNhs13286_ctss_fwd LymphaticEndothelialCellsToVegfc_03hr30minBr3+ Lymphatic Endothelial cells response to VEGFC, 03hr30min, biol_rep3 (MM XXII - 11)_CNhs13286_12514-133B3_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC03hr30minBiolRep2MMXIV11_CNhs13168_ctss_rev LymphaticEndothelialCellsToVegfc_03hr30minBr2- Lymphatic Endothelial cells response to VEGFC, 03hr30min, biol_rep2 (MM XIV - 11)_CNhs13168_12392-131F7_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC03hr30minBiolRep2MMXIV11_CNhs13168_ctss_fwd LymphaticEndothelialCellsToVegfc_03hr30minBr2+ Lymphatic Endothelial cells response to VEGFC, 03hr30min, biol_rep2 (MM XIV - 11)_CNhs13168_12392-131F7_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC03hr30minBiolRep1MMXIX11_CNhs13109_ctss_rev LymphaticEndothelialCellsToVegfc_03hr30minBr1- Lymphatic Endothelial cells response to VEGFC, 03hr30min, biol_rep1 (MM XIX - 11)_CNhs13109_12270-130B2_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC03hr30minBiolRep1MMXIX11_CNhs13109_ctss_fwd LymphaticEndothelialCellsToVegfc_03hr30minBr1+ Lymphatic Endothelial cells response to VEGFC, 03hr30min, biol_rep1 (MM XIX - 11)_CNhs13109_12270-130B2_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC03hr00minBiolRep3MMXXII10_CNhs13285_ctss_rev LymphaticEndothelialCellsToVegfc_03hr00minBr3- Lymphatic Endothelial cells response to VEGFC, 03hr00min, biol_rep3 (MM XXII - 10)_CNhs13285_12513-133B2_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC03hr00minBiolRep3MMXXII10_CNhs13285_ctss_fwd LymphaticEndothelialCellsToVegfc_03hr00minBr3+ Lymphatic Endothelial cells response to VEGFC, 03hr00min, biol_rep3 (MM XXII - 10)_CNhs13285_12513-133B2_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC03hr00minBiolRep2MMXIV10_CNhs13166_ctss_rev LymphaticEndothelialCellsToVegfc_03hr00minBr2- Lymphatic Endothelial cells response to VEGFC, 03hr00min, biol_rep2 (MM XIV - 10)_CNhs13166_12391-131F6_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC03hr00minBiolRep2MMXIV10_CNhs13166_ctss_fwd LymphaticEndothelialCellsToVegfc_03hr00minBr2+ Lymphatic Endothelial cells response to VEGFC, 03hr00min, biol_rep2 (MM XIV - 10)_CNhs13166_12391-131F6_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC03hr00minBiolRep1MMXIX10_CNhs13108_ctss_rev LymphaticEndothelialCellsToVegfc_03hr00minBr1- Lymphatic Endothelial cells response to VEGFC, 03hr00min, biol_rep1 (MM XIX - 10)_CNhs13108_12269-130B1_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC03hr00minBiolRep1MMXIX10_CNhs13108_ctss_fwd LymphaticEndothelialCellsToVegfc_03hr00minBr1+ Lymphatic Endothelial cells response to VEGFC, 03hr00min, biol_rep1 (MM XIX - 10)_CNhs13108_12269-130B1_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC02hr30minBiolRep3MMXXII9_CNhs13284_ctss_rev LymphaticEndothelialCellsToVegfc_02hr30minBr3- Lymphatic Endothelial cells response to VEGFC, 02hr30min, biol_rep3 (MM XXII - 9)_CNhs13284_12512-133B1_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC02hr30minBiolRep3MMXXII9_CNhs13284_ctss_fwd LymphaticEndothelialCellsToVegfc_02hr30minBr3+ Lymphatic Endothelial cells response to VEGFC, 02hr30min, biol_rep3 (MM XXII - 9)_CNhs13284_12512-133B1_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC02hr30minBiolRep2MMXIV9_CNhs13165_ctss_rev LymphaticEndothelialCellsToVegfc_02hr30minBr2- Lymphatic Endothelial cells response to VEGFC, 02hr30min, biol_rep2 (MM XIV - 9)_CNhs13165_12390-131F5_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC02hr30minBiolRep2MMXIV9_CNhs13165_ctss_fwd LymphaticEndothelialCellsToVegfc_02hr30minBr2+ Lymphatic Endothelial cells response to VEGFC, 02hr30min, biol_rep2 (MM XIV - 9)_CNhs13165_12390-131F5_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC02hr30minBiolRep1MMXIX9_CNhs13107_ctss_rev LymphaticEndothelialCellsToVegfc_02hr30minBr1- Lymphatic Endothelial cells response to VEGFC, 02hr30min, biol_rep1 (MM XIX - 9)_CNhs13107_12268-130A9_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC02hr30minBiolRep1MMXIX9_CNhs13107_ctss_fwd LymphaticEndothelialCellsToVegfc_02hr30minBr1+ Lymphatic Endothelial cells response to VEGFC, 02hr30min, biol_rep1 (MM XIX - 9)_CNhs13107_12268-130A9_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC02hr00minBiolRep3MMXXII8_CNhs13283_ctss_rev LymphaticEndothelialCellsToVegfc_02hr00minBr3- Lymphatic Endothelial cells response to VEGFC, 02hr00min, biol_rep3 (MM XXII - 8)_CNhs13283_12511-133A9_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC02hr00minBiolRep3MMXXII8_CNhs13283_ctss_fwd LymphaticEndothelialCellsToVegfc_02hr00minBr3+ Lymphatic Endothelial cells response to VEGFC, 02hr00min, biol_rep3 (MM XXII - 8)_CNhs13283_12511-133A9_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC02hr00minBiolRep2MMXIV8_CNhs13164_ctss_rev LymphaticEndothelialCellsToVegfc_02hr00minBr2- Lymphatic Endothelial cells response to VEGFC, 02hr00min, biol_rep2 (MM XIV - 8)_CNhs13164_12389-131F4_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC02hr00minBiolRep2MMXIV8_CNhs13164_ctss_fwd LymphaticEndothelialCellsToVegfc_02hr00minBr2+ Lymphatic Endothelial cells response to VEGFC, 02hr00min, biol_rep2 (MM XIV - 8)_CNhs13164_12389-131F4_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC02hr00minBiolRep1MMXIX8_CNhs13106_ctss_rev LymphaticEndothelialCellsToVegfc_02hr00minBr1- Lymphatic Endothelial cells response to VEGFC, 02hr00min, biol_rep1 (MM XIX - 8)_CNhs13106_12267-130A8_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC02hr00minBiolRep1MMXIX8_CNhs13106_ctss_fwd LymphaticEndothelialCellsToVegfc_02hr00minBr1+ Lymphatic Endothelial cells response to VEGFC, 02hr00min, biol_rep1 (MM XIX - 8)_CNhs13106_12267-130A8_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC01hr40minBiolRep3MMXXII7_CNhs13282_ctss_rev LymphaticEndothelialCellsToVegfc_01hr40minBr3- Lymphatic Endothelial cells response to VEGFC, 01hr40min, biol_rep3 (MM XXII - 7)_CNhs13282_12510-133A8_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC01hr40minBiolRep3MMXXII7_CNhs13282_ctss_fwd LymphaticEndothelialCellsToVegfc_01hr40minBr3+ Lymphatic Endothelial cells response to VEGFC, 01hr40min, biol_rep3 (MM XXII - 7)_CNhs13282_12510-133A8_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC01hr40minBiolRep2MMXIV7_CNhs13163_ctss_rev LymphaticEndothelialCellsToVegfc_01hr40minBr2- Lymphatic Endothelial cells response to VEGFC, 01hr40min, biol_rep2 (MM XIV - 7)_CNhs13163_12388-131F3_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC01hr40minBiolRep2MMXIV7_CNhs13163_ctss_fwd LymphaticEndothelialCellsToVegfc_01hr40minBr2+ Lymphatic Endothelial cells response to VEGFC, 01hr40min, biol_rep2 (MM XIV - 7)_CNhs13163_12388-131F3_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC01hr40minBiolRep1MMXIX7_CNhs13105_ctss_rev LymphaticEndothelialCellsToVegfc_01hr40minBr1- Lymphatic Endothelial cells response to VEGFC, 01hr40min, biol_rep1 (MM XIX - 7)_CNhs13105_12266-130A7_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC01hr40minBiolRep1MMXIX7_CNhs13105_ctss_fwd LymphaticEndothelialCellsToVegfc_01hr40minBr1+ Lymphatic Endothelial cells response to VEGFC, 01hr40min, biol_rep1 (MM XIX - 7)_CNhs13105_12266-130A7_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC01hr20minBiolRep3MMXXII6_CNhs13281_ctss_rev LymphaticEndothelialCellsToVegfc_01hr20minBr3- Lymphatic Endothelial cells response to VEGFC, 01hr20min, biol_rep3 (MM XXII - 6)_CNhs13281_12509-133A7_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC01hr20minBiolRep3MMXXII6_CNhs13281_ctss_fwd LymphaticEndothelialCellsToVegfc_01hr20minBr3+ Lymphatic Endothelial cells response to VEGFC, 01hr20min, biol_rep3 (MM XXII - 6)_CNhs13281_12509-133A7_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC01hr20minBiolRep2MMXIV6_CNhs13162_ctss_rev LymphaticEndothelialCellsToVegfc_01hr20minBr2- Lymphatic Endothelial cells response to VEGFC, 01hr20min, biol_rep2 (MM XIV - 6)_CNhs13162_12387-131F2_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC01hr20minBiolRep2MMXIV6_CNhs13162_ctss_fwd LymphaticEndothelialCellsToVegfc_01hr20minBr2+ Lymphatic Endothelial cells response to VEGFC, 01hr20min, biol_rep2 (MM XIV - 6)_CNhs13162_12387-131F2_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC01hr20minBiolRep1MMXIX6_CNhs13104_ctss_rev LymphaticEndothelialCellsToVegfc_01hr20minBr1- Lymphatic Endothelial cells response to VEGFC, 01hr20min, biol_rep1 (MM XIX - 6)_CNhs13104_12265-130A6_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC01hr20minBiolRep1MMXIX6_CNhs13104_ctss_fwd LymphaticEndothelialCellsToVegfc_01hr20minBr1+ Lymphatic Endothelial cells response to VEGFC, 01hr20min, biol_rep1 (MM XIX - 6)_CNhs13104_12265-130A6_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC01hr00minBiolRep3MMXXII5_CNhs13280_ctss_rev LymphaticEndothelialCellsToVegfc_01hr00minBr3- Lymphatic Endothelial cells response to VEGFC, 01hr00min, biol_rep3 (MM XXII - 5)_CNhs13280_12508-133A6_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC01hr00minBiolRep3MMXXII5_CNhs13280_ctss_fwd LymphaticEndothelialCellsToVegfc_01hr00minBr3+ Lymphatic Endothelial cells response to VEGFC, 01hr00min, biol_rep3 (MM XXII - 5)_CNhs13280_12508-133A6_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC01hr00minBiolRep2MMXIV5_CNhs13161_ctss_rev LymphaticEndothelialCellsToVegfc_01hr00minBr2- Lymphatic Endothelial cells response to VEGFC, 01hr00min, biol_rep2 (MM XIV - 5)_CNhs13161_12386-131F1_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC01hr00minBiolRep2MMXIV5_CNhs13161_ctss_fwd LymphaticEndothelialCellsToVegfc_01hr00minBr2+ Lymphatic Endothelial cells response to VEGFC, 01hr00min, biol_rep2 (MM XIV - 5)_CNhs13161_12386-131F1_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC01hr00minBiolRep1MMXIX5_CNhs13103_ctss_rev LymphaticEndothelialCellsToVegfc_01hr00minBr1- Lymphatic Endothelial cells response to VEGFC, 01hr00min, biol_rep1 (MM XIX - 5)_CNhs13103_12264-130A5_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC01hr00minBiolRep1MMXIX5_CNhs13103_ctss_fwd LymphaticEndothelialCellsToVegfc_01hr00minBr1+ Lymphatic Endothelial cells response to VEGFC, 01hr00min, biol_rep1 (MM XIX - 5)_CNhs13103_12264-130A5_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC00hr45minBiolRep3MMXXII4_CNhs13279_ctss_rev LymphaticEndothelialCellsToVegfc_00hr45minBr3- Lymphatic Endothelial cells response to VEGFC, 00hr45min, biol_rep3 (MM XXII - 4)_CNhs13279_12507-133A5_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC00hr45minBiolRep3MMXXII4_CNhs13279_ctss_fwd LymphaticEndothelialCellsToVegfc_00hr45minBr3+ Lymphatic Endothelial cells response to VEGFC, 00hr45min, biol_rep3 (MM XXII - 4)_CNhs13279_12507-133A5_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC00hr45minBiolRep2MMXIV4_CNhs13160_ctss_rev LymphaticEndothelialCellsToVegfc_00hr45minBr2- Lymphatic Endothelial cells response to VEGFC, 00hr45min, biol_rep2 (MM XIV - 4)_CNhs13160_12385-131E9_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC00hr45minBiolRep2MMXIV4_CNhs13160_ctss_fwd LymphaticEndothelialCellsToVegfc_00hr45minBr2+ Lymphatic Endothelial cells response to VEGFC, 00hr45min, biol_rep2 (MM XIV - 4)_CNhs13160_12385-131E9_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC00hr45minBiolRep1MMXIX4_CNhs13102_ctss_rev LymphaticEndothelialCellsToVegfc_00hr45minBr1- Lymphatic Endothelial cells response to VEGFC, 00hr45min, biol_rep1 (MM XIX - 4)_CNhs13102_12263-130A4_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC00hr45minBiolRep1MMXIX4_CNhs13102_ctss_fwd LymphaticEndothelialCellsToVegfc_00hr45minBr1+ Lymphatic Endothelial cells response to VEGFC, 00hr45min, biol_rep1 (MM XIX - 4)_CNhs13102_12263-130A4_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC00hr30minBiolRep3MMXXII3_CNhs13278_ctss_rev LymphaticEndothelialCellsToVegfc_00hr30minBr3- Lymphatic Endothelial cells response to VEGFC, 00hr30min, biol_rep3 (MM XXII - 3)_CNhs13278_12506-133A4_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC00hr30minBiolRep3MMXXII3_CNhs13278_ctss_fwd LymphaticEndothelialCellsToVegfc_00hr30minBr3+ Lymphatic Endothelial cells response to VEGFC, 00hr30min, biol_rep3 (MM XXII - 3)_CNhs13278_12506-133A4_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC00hr30minBiolRep2MMXIV3_CNhs13159_ctss_rev LymphaticEndothelialCellsToVegfc_00hr30minBr2- Lymphatic Endothelial cells response to VEGFC, 00hr30min, biol_rep2 (MM XIV - 3)_CNhs13159_12384-131E8_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC00hr30minBiolRep2MMXIV3_CNhs13159_ctss_fwd LymphaticEndothelialCellsToVegfc_00hr30minBr2+ Lymphatic Endothelial cells response to VEGFC, 00hr30min, biol_rep2 (MM XIV - 3)_CNhs13159_12384-131E8_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC00hr30minBiolRep1MMXIX3_CNhs13101_ctss_rev LymphaticEndothelialCellsToVegfc_00hr30minBr1- Lymphatic Endothelial cells response to VEGFC, 00hr30min, biol_rep1 (MM XIX - 3)_CNhs13101_12262-130A3_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC00hr30minBiolRep1MMXIX3_CNhs13101_ctss_fwd LymphaticEndothelialCellsToVegfc_00hr30minBr1+ Lymphatic Endothelial cells response to VEGFC, 00hr30min, biol_rep1 (MM XIX - 3)_CNhs13101_12262-130A3_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC00hr15minBiolRep3MMXXII2_CNhs13277_ctss_rev LymphaticEndothelialCellsToVegfc_00hr15minBr3- Lymphatic Endothelial cells response to VEGFC, 00hr15min, biol_rep3 (MM XXII - 2)_CNhs13277_12505-133A3_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC00hr15minBiolRep3MMXXII2_CNhs13277_ctss_fwd LymphaticEndothelialCellsToVegfc_00hr15minBr3+ Lymphatic Endothelial cells response to VEGFC, 00hr15min, biol_rep3 (MM XXII - 2)_CNhs13277_12505-133A3_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC00hr15minBiolRep2MMXIV2_CNhs13158_ctss_rev LymphaticEndothelialCellsToVegfc_00hr15minBr2- Lymphatic Endothelial cells response to VEGFC, 00hr15min, biol_rep2 (MM XIV - 2)_CNhs13158_12383-131E7_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC00hr15minBiolRep2MMXIV2_CNhs13158_ctss_fwd LymphaticEndothelialCellsToVegfc_00hr15minBr2+ Lymphatic Endothelial cells response to VEGFC, 00hr15min, biol_rep2 (MM XIV - 2)_CNhs13158_12383-131E7_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC00hr15minBiolRep1MMXIX2_CNhs13100_ctss_rev LymphaticEndothelialCellsToVegfc_00hr15minBr1- Lymphatic Endothelial cells response to VEGFC, 00hr15min, biol_rep1 (MM XIX - 2)_CNhs13100_12261-130A2_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC00hr15minBiolRep1MMXIX2_CNhs13100_ctss_fwd LymphaticEndothelialCellsToVegfc_00hr15minBr1+ Lymphatic Endothelial cells response to VEGFC, 00hr15min, biol_rep1 (MM XIX - 2)_CNhs13100_12261-130A2_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC00hr00minBiolRep3MMXXII1_CNhs13276_ctss_rev LymphaticEndothelialCellsToVegfc_00hr00minBr3- Lymphatic Endothelial cells response to VEGFC, 00hr00min, biol_rep3 (MM XXII - 1 )_CNhs13276_12504-133A2_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC00hr00minBiolRep3MMXXII1_CNhs13276_ctss_fwd LymphaticEndothelialCellsToVegfc_00hr00minBr3+ Lymphatic Endothelial cells response to VEGFC, 00hr00min, biol_rep3 (MM XXII - 1 )_CNhs13276_12504-133A2_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC00hr00minBiolRep2MMXIV1_CNhs13157_ctss_rev LymphaticEndothelialCellsToVegfc_00hr00minBr2- Lymphatic Endothelial cells response to VEGFC, 00hr00min, biol_rep2 (MM XIV - 1)_CNhs13157_12382-131E6_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC00hr00minBiolRep2MMXIV1_CNhs13157_ctss_fwd LymphaticEndothelialCellsToVegfc_00hr00minBr2+ Lymphatic Endothelial cells response to VEGFC, 00hr00min, biol_rep2 (MM XIV - 1)_CNhs13157_12382-131E6_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC00hr00minBiolRep1MMXIX1_CNhs11936_ctss_rev LymphaticEndothelialCellsToVegfc_00hr00minBr1- Lymphatic Endothelial cells response to VEGFC, 00hr00min, biol_rep1 (MM XIX - 1)_CNhs11936_12260-130A1_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC00hr00minBiolRep1MMXIX1_CNhs11936_ctss_fwd LymphaticEndothelialCellsToVegfc_00hr00minBr1+ Lymphatic Endothelial cells response to VEGFC, 00hr00min, biol_rep1 (MM XIX - 1)_CNhs11936_12260-130A1_forward Regulation 
IPSDifferentiationToNeuronControlDonorC32CRL1502Day18Rep3_CNhs14055_ctss_rev IpsToNeuronControlDnC11-CRL2429Day18R3- iPS differentiation to neuron, control donor C32-CRL1502, day18, rep3_CNhs14055_13444-144F6_reverse Regulation 
IPSDifferentiationToNeuronControlDonorC32CRL1502Day18Rep3_CNhs14055_ctss_fwd IpsToNeuronControlDnC11-CRL2429Day18R3+ iPS differentiation to neuron, control donor C32-CRL1502, day18, rep3_CNhs14055_13444-144F6_forward Regulation 
IPSDifferentiationToNeuronControlDonorC32CRL1502Day18Rep2_CNhs13842_ctss_rev IpsToNeuronControlDnC11-CRL2429Day18R2- iPS differentiation to neuron, control donor C32-CRL1502, day18, rep2_CNhs13842_13440-144F2_reverse Regulation 
IPSDifferentiationToNeuronControlDonorC32CRL1502Day18Rep2_CNhs13842_ctss_fwd IpsToNeuronControlDnC11-CRL2429Day18R2+ iPS differentiation to neuron, control donor C32-CRL1502, day18, rep2_CNhs13842_13440-144F2_forward Regulation 
IPSDifferentiationToNeuronControlDonorC32CRL1502Day18Rep1_CNhs13829_ctss_rev IpsToNeuronControlDnC11-CRL2429Day18R1- iPS differentiation to neuron, control donor C32-CRL1502, day18, rep1_CNhs13829_13436-144E7_reverse Regulation 
IPSDifferentiationToNeuronControlDonorC32CRL1502Day18Rep1_CNhs13829_ctss_fwd IpsToNeuronControlDnC11-CRL2429Day18R1+ iPS differentiation to neuron, control donor C32-CRL1502, day18, rep1_CNhs13829_13436-144E7_forward Regulation 
IPSDifferentiationToNeuronControlDonorC32CRL1502Day12Rep3_CNhs14054_ctss_rev IpsToNeuronControlDnC11-CRL2429Day12R3- iPS differentiation to neuron, control donor C32-CRL1502, day12, rep3_CNhs14054_13443-144F5_reverse Regulation 
IPSDifferentiationToNeuronControlDonorC32CRL1502Day12Rep3_CNhs14054_ctss_fwd IpsToNeuronControlDnC11-CRL2429Day12R3+ iPS differentiation to neuron, control donor C32-CRL1502, day12, rep3_CNhs14054_13443-144F5_forward Regulation 
IPSDifferentiationToNeuronControlDonorC32CRL1502Day12Rep2_CNhs13841_ctss_rev IpsToNeuronControlDnC11-CRL2429Day12R2- iPS differentiation to neuron, control donor C32-CRL1502, day12, rep2_CNhs13841_13439-144F1_reverse Regulation 
IPSDifferentiationToNeuronControlDonorC32CRL1502Day12Rep2_CNhs13841_ctss_fwd IpsToNeuronControlDnC11-CRL2429Day12R2+ iPS differentiation to neuron, control donor C32-CRL1502, day12, rep2_CNhs13841_13439-144F1_forward Regulation 
IPSDifferentiationToNeuronControlDonorC32CRL1502Day12Rep1_CNhs13828_ctss_rev IpsToNeuronControlDnC11-CRL2429Day12R1- iPS differentiation to neuron, control donor C32-CRL1502, day12, rep1_CNhs13828_13435-144E6_reverse Regulation 
IPSDifferentiationToNeuronControlDonorC32CRL1502Day12Rep1_CNhs13828_ctss_fwd IpsToNeuronControlDnC11-CRL2429Day12R1+ iPS differentiation to neuron, control donor C32-CRL1502, day12, rep1_CNhs13828_13435-144E6_forward Regulation 
IPSDifferentiationToNeuronControlDonorC32CRL1502Day06Rep3_CNhs14053_ctss_rev IpsToNeuronControlDnC11-CRL2429Day06R3- iPS differentiation to neuron, control donor C32-CRL1502, day06, rep3_CNhs14053_13442-144F4_reverse Regulation 
IPSDifferentiationToNeuronControlDonorC32CRL1502Day06Rep3_CNhs14053_ctss_fwd IpsToNeuronControlDnC11-CRL2429Day06R3+ iPS differentiation to neuron, control donor C32-CRL1502, day06, rep3_CNhs14053_13442-144F4_forward Regulation 
IPSDifferentiationToNeuronControlDonorC32CRL1502Day06Rep2_CNhs13840_ctss_rev IpsToNeuronControlDnC11-CRL2429Day06R2- iPS differentiation to neuron, control donor C32-CRL1502, day06, rep2_CNhs13840_13438-144E9_reverse Regulation 
IPSDifferentiationToNeuronControlDonorC32CRL1502Day06Rep2_CNhs13840_ctss_fwd IpsToNeuronControlDnC11-CRL2429Day06R2+ iPS differentiation to neuron, control donor C32-CRL1502, day06, rep2_CNhs13840_13438-144E9_forward Regulation 
IPSDifferentiationToNeuronControlDonorC32CRL1502Day06Rep1_CNhs13827_ctss_rev IpsToNeuronControlDnC11-CRL2429Day06R1- iPS differentiation to neuron, control donor C32-CRL1502, day06, rep1_CNhs13827_13434-144E5_reverse Regulation 
IPSDifferentiationToNeuronControlDonorC32CRL1502Day06Rep1_CNhs13827_ctss_fwd IpsToNeuronControlDnC11-CRL2429Day06R1+ iPS differentiation to neuron, control donor C32-CRL1502, day06, rep1_CNhs13827_13434-144E5_forward Regulation 
IPSDifferentiationToNeuronControlDonorC32CRL1502Day00Rep3_CNhs14052_ctss_rev IpsToNeuronControlDnC11-CRL2429Day00R3- iPS differentiation to neuron, control donor C32-CRL1502, day00, rep3_CNhs14052_13441-144F3_reverse Regulation 
IPSDifferentiationToNeuronControlDonorC32CRL1502Day00Rep3_CNhs14052_ctss_fwd IpsToNeuronControlDnC11-CRL2429Day00R3+ iPS differentiation to neuron, control donor C32-CRL1502, day00, rep3_CNhs14052_13441-144F3_forward Regulation 
IPSDifferentiationToNeuronControlDonorC32CRL1502Day00Rep2_CNhs13839_ctss_rev IpsToNeuronControlDnC11-CRL2429Day00R2- iPS differentiation to neuron, control donor C32-CRL1502, day00, rep2_CNhs13839_13437-144E8_reverse Regulation 
IPSDifferentiationToNeuronControlDonorC32CRL1502Day00Rep2_CNhs13839_ctss_fwd IpsToNeuronControlDnC11-CRL2429Day00R2+ iPS differentiation to neuron, control donor C32-CRL1502, day00, rep2_CNhs13839_13437-144E8_forward Regulation 
IPSDifferentiationToNeuronControlDonorC32CRL1502Day00Rep1_CNhs13826_ctss_rev IpsToNeuronControlDnC11-CRL2429Day00R1- iPS differentiation to neuron, control donor C32-CRL1502, day00, rep1_CNhs13826_13433-144E4_reverse Regulation 
IPSDifferentiationToNeuronControlDonorC32CRL1502Day00Rep1_CNhs13826_ctss_fwd IpsToNeuronControlDnC11-CRL2429Day00R1+ iPS differentiation to neuron, control donor C32-CRL1502, day00, rep1_CNhs13826_13433-144E4_forward Regulation 
IPSDifferentiationToNeuronControlDonorC11CRL2429Day18Rep3_CNhs13917_ctss_rev IpsToNeuronControlDnC11-CRL2429Day18R3- iPS differentiation to neuron, control donor C11-CRL2429, day18, rep3_CNhs13917_13432-144E3_reverse Regulation 
IPSDifferentiationToNeuronControlDonorC11CRL2429Day18Rep3_CNhs13917_ctss_fwd IpsToNeuronControlDnC11-CRL2429Day18R3+ iPS differentiation to neuron, control donor C11-CRL2429, day18, rep3_CNhs13917_13432-144E3_forward Regulation 
IPSDifferentiationToNeuronControlDonorC11CRL2429Day18Rep2_CNhs13825_ctss_rev IpsToNeuronControlDnC11-CRL2429Day18R2- iPS differentiation to neuron, control donor C11-CRL2429, day18, rep2_CNhs13825_13428-144D8_reverse Regulation 
IPSDifferentiationToNeuronControlDonorC11CRL2429Day18Rep2_CNhs13825_ctss_fwd IpsToNeuronControlDnC11-CRL2429Day18R2+ iPS differentiation to neuron, control donor C11-CRL2429, day18, rep2_CNhs13825_13428-144D8_forward Regulation 
IPSDifferentiationToNeuronControlDonorC11CRL2429Day18Rep1_CNhs13916_ctss_rev IpsToNeuronControlDnC11-CRL2429Day18R1- iPS differentiation to neuron, control donor C11-CRL2429, day18, rep1_CNhs13916_13424-144D4_reverse Regulation 
IPSDifferentiationToNeuronControlDonorC11CRL2429Day18Rep1_CNhs13916_ctss_fwd IpsToNeuronControlDnC11-CRL2429Day18R1+ iPS differentiation to neuron, control donor C11-CRL2429, day18, rep1_CNhs13916_13424-144D4_forward Regulation 
IPSDifferentiationToNeuronControlDonorC11CRL2429Day12Rep3_CNhs14051_ctss_rev IpsToNeuronControlDnC11-CRL2429Day12R3- iPS differentiation to neuron, control donor C11-CRL2429, day12, rep3_CNhs14051_13431-144E2_reverse Regulation 
IPSDifferentiationToNeuronControlDonorC11CRL2429Day12Rep3_CNhs14051_ctss_fwd IpsToNeuronControlDnC11-CRL2429Day12R3+ iPS differentiation to neuron, control donor C11-CRL2429, day12, rep3_CNhs14051_13431-144E2_forward Regulation 
IPSDifferentiationToNeuronControlDonorC11CRL2429Day12Rep2_CNhs13824_ctss_rev IpsToNeuronControlDnC11-CRL2429Day12R2- iPS differentiation to neuron, control donor C11-CRL2429, day12, rep2_CNhs13824_13427-144D7_reverse Regulation 
IPSDifferentiationToNeuronControlDonorC11CRL2429Day12Rep2_CNhs13824_ctss_fwd IpsToNeuronControlDnC11-CRL2429Day12R2+ iPS differentiation to neuron, control donor C11-CRL2429, day12, rep2_CNhs13824_13427-144D7_forward Regulation 
IPSDifferentiationToNeuronControlDonorC11CRL2429Day12Rep1_CNhs14047_ctss_rev IpsToNeuronControlDnC11-CRL2429Day12R1- iPS differentiation to neuron, control donor C11-CRL2429, day12, rep1_CNhs14047_13423-144D3_reverse Regulation 
IPSDifferentiationToNeuronControlDonorC11CRL2429Day12Rep1_CNhs14047_ctss_fwd IpsToNeuronControlDnC11-CRL2429Day12R1+ iPS differentiation to neuron, control donor C11-CRL2429, day12, rep1_CNhs14047_13423-144D3_forward Regulation 
IPSDifferentiationToNeuronControlDonorC11CRL2429Day06Rep3_CNhs14050_ctss_rev IpsToNeuronControlDnC11-CRL2429Day06R3- iPS differentiation to neuron, control donor C11-CRL2429, day06, rep3_CNhs14050_13430-144E1_reverse Regulation 
IPSDifferentiationToNeuronControlDonorC11CRL2429Day06Rep3_CNhs14050_ctss_fwd IpsToNeuronControlDnC11-CRL2429Day06R3+ iPS differentiation to neuron, control donor C11-CRL2429, day06, rep3_CNhs14050_13430-144E1_forward Regulation 
IPSDifferentiationToNeuronControlDonorC11CRL2429Day06Rep2_CNhs13823_ctss_rev IpsToNeuronControlDnC11-CRL2429Day06R2- iPS differentiation to neuron, control donor C11-CRL2429, day06, rep2_CNhs13823_13426-144D6_reverse Regulation 
IPSDifferentiationToNeuronControlDonorC11CRL2429Day06Rep2_CNhs13823_ctss_fwd IpsToNeuronControlDnC11-CRL2429Day06R2+ iPS differentiation to neuron, control donor C11-CRL2429, day06, rep2_CNhs13823_13426-144D6_forward Regulation 
IPSDifferentiationToNeuronControlDonorC11CRL2429Day06Rep1_CNhs14046_ctss_rev IpsToNeuronControlDnC11-CRL2429Day06R1- iPS differentiation to neuron, control donor C11-CRL2429, day06, rep1_CNhs14046_13422-144D2_reverse Regulation 
IPSDifferentiationToNeuronControlDonorC11CRL2429Day06Rep1_CNhs14046_ctss_fwd IpsToNeuronControlDnC11-CRL2429Day06R1+ iPS differentiation to neuron, control donor C11-CRL2429, day06, rep1_CNhs14046_13422-144D2_forward Regulation 
IPSDifferentiationToNeuronControlDonorC11CRL2429Day00Rep3_CNhs14049_ctss_rev IpsToNeuronControlDnC11-CRL2429Day00R3- iPS differentiation to neuron, control donor C11-CRL2429, day00, rep3_CNhs14049_13429-144D9_reverse Regulation 
IPSDifferentiationToNeuronControlDonorC11CRL2429Day00Rep3_CNhs14049_ctss_fwd IpsToNeuronControlDnC11-CRL2429Day00R3+ iPS differentiation to neuron, control donor C11-CRL2429, day00, rep3_CNhs14049_13429-144D9_forward Regulation 
IPSDifferentiationToNeuronControlDonorC11CRL2429Day00Rep2_CNhs13822_ctss_rev IpsToNeuronControlDnC11-CRL2429Day00R2- iPS differentiation to neuron, control donor C11-CRL2429, day00, rep2_CNhs13822_13425-144D5_reverse Regulation 
IPSDifferentiationToNeuronControlDonorC11CRL2429Day00Rep2_CNhs13822_ctss_fwd IpsToNeuronControlDnC11-CRL2429Day00R2+ iPS differentiation to neuron, control donor C11-CRL2429, day00, rep2_CNhs13822_13425-144D5_forward Regulation 
IPSDifferentiationToNeuronControlDonorC11CRL2429Day00Rep1_CNhs14045_ctss_rev IpsToNeuronControlDnC11-CRL2429Day00R1- iPS differentiation to neuron, control donor C11-CRL2429, day00, rep1_CNhs14045_13421-144D1_reverse Regulation 
IPSDifferentiationToNeuronControlDonorC11CRL2429Day00Rep1_CNhs14045_ctss_fwd IpsToNeuronControlDnC11-CRL2429Day00R1+ iPS differentiation to neuron, control donor C11-CRL2429, day00, rep1_CNhs14045_13421-144D1_forward Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC18CCL54Day18Rep3_CNhs14066_ctss_rev Tc:iPStoNeuronDs_Day18R3- iPS differentiation to neuron, down-syndrome donor C18-CCL54, day18, rep3_CNhs14066_13468-144I3_reverse Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC18CCL54Day18Rep3_CNhs14066_ctss_fwd Tc:iPStoNeuronDs_Day18R3+ iPS differentiation to neuron, down-syndrome donor C18-CCL54, day18, rep3_CNhs14066_13468-144I3_forward Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC18CCL54Day18Rep2_CNhs13922_ctss_rev Tc:iPStoNeuronDs_Day18R2- iPS differentiation to neuron, down-syndrome donor C18-CCL54, day18, rep2_CNhs13922_13464-144H8_reverse Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC18CCL54Day18Rep2_CNhs13922_ctss_fwd Tc:iPStoNeuronDs_Day18R2+ iPS differentiation to neuron, down-syndrome donor C18-CCL54, day18, rep2_CNhs13922_13464-144H8_forward Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC18CCL54Day18Rep1_CNhs13838_ctss_rev Tc:iPStoNeuronDs_Day18R1- iPS differentiation to neuron, down-syndrome donor C18-CCL54, day18, rep1_CNhs13838_13460-144H4_reverse Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC18CCL54Day18Rep1_CNhs13838_ctss_fwd Tc:iPStoNeuronDs_Day18R1+ iPS differentiation to neuron, down-syndrome donor C18-CCL54, day18, rep1_CNhs13838_13460-144H4_forward Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC18CCL54Day12Rep3_CNhs14065_ctss_rev Tc:iPStoNeuronDs_Day12R3- iPS differentiation to neuron, down-syndrome donor C18-CCL54, day12, rep3_CNhs14065_13467-144I2_reverse Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC18CCL54Day12Rep3_CNhs14065_ctss_fwd Tc:iPStoNeuronDs_Day12R3+ iPS differentiation to neuron, down-syndrome donor C18-CCL54, day12, rep3_CNhs14065_13467-144I2_forward Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC18CCL54Day12Rep2_CNhs14062_ctss_rev Tc:iPStoNeuronDs_Day12R2- iPS differentiation to neuron, down-syndrome donor C18-CCL54, day12, rep2_CNhs14062_13463-144H7_reverse Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC18CCL54Day12Rep2_CNhs14062_ctss_fwd Tc:iPStoNeuronDs_Day12R2+ iPS differentiation to neuron, down-syndrome donor C18-CCL54, day12, rep2_CNhs14062_13463-144H7_forward Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC18CCL54Day12Rep1_CNhs13837_ctss_rev Tc:iPStoNeuronDs_Day12R1- iPS differentiation to neuron, down-syndrome donor C18-CCL54, day12, rep1_CNhs13837_13459-144H3_reverse Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC18CCL54Day12Rep1_CNhs13837_ctss_fwd Tc:iPStoNeuronDs_Day12R1+ iPS differentiation to neuron, down-syndrome donor C18-CCL54, day12, rep1_CNhs13837_13459-144H3_forward Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC18CCL54Day06Rep3_CNhs14064_ctss_rev Tc:iPStoNeuronDs_Day06R3- iPS differentiation to neuron, down-syndrome donor C18-CCL54, day06, rep3_CNhs14064_13466-144I1_reverse Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC18CCL54Day06Rep3_CNhs14064_ctss_fwd Tc:iPStoNeuronDs_Day06R3+ iPS differentiation to neuron, down-syndrome donor C18-CCL54, day06, rep3_CNhs14064_13466-144I1_forward Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC18CCL54Day06Rep2_CNhs14061_ctss_rev Tc:iPStoNeuronDs_Day06R2- iPS differentiation to neuron, down-syndrome donor C18-CCL54, day06, rep2_CNhs14061_13462-144H6_reverse Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC18CCL54Day06Rep2_CNhs14061_ctss_fwd Tc:iPStoNeuronDs_Day06R2+ iPS differentiation to neuron, down-syndrome donor C18-CCL54, day06, rep2_CNhs14061_13462-144H6_forward Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC18CCL54Day06Rep1_CNhs13836_ctss_rev Tc:iPStoNeuronDs_Day06R1- iPS differentiation to neuron, down-syndrome donor C18-CCL54, day06, rep1_CNhs13836_13458-144H2_reverse Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC18CCL54Day06Rep1_CNhs13836_ctss_fwd Tc:iPStoNeuronDs_Day06R1+ iPS differentiation to neuron, down-syndrome donor C18-CCL54, day06, rep1_CNhs13836_13458-144H2_forward Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC18CCL54Day00Rep3_CNhs14063_ctss_rev Tc:iPStoNeuronDs_Day00R3- iPS differentiation to neuron, down-syndrome donor C18-CCL54, day00, rep3_CNhs14063_13465-144H9_reverse Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC18CCL54Day00Rep3_CNhs14063_ctss_fwd Tc:iPStoNeuronDs_Day00R3+ iPS differentiation to neuron, down-syndrome donor C18-CCL54, day00, rep3_CNhs14063_13465-144H9_forward Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC18CCL54Day00Rep2_CNhs14060_ctss_rev Tc:iPStoNeuronDs_Day00R2- iPS differentiation to neuron, down-syndrome donor C18-CCL54, day00, rep2_CNhs14060_13461-144H5_reverse Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC18CCL54Day00Rep2_CNhs14060_ctss_fwd Tc:iPStoNeuronDs_Day00R2+ iPS differentiation to neuron, down-syndrome donor C18-CCL54, day00, rep2_CNhs14060_13461-144H5_forward Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC18CCL54Day00Rep1_CNhs13835_ctss_rev Tc:iPStoNeuronDs_Day00R1- iPS differentiation to neuron, down-syndrome donor C18-CCL54, day00, rep1_CNhs13835_13457-144H1_reverse Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC18CCL54Day00Rep1_CNhs13835_ctss_fwd Tc:iPStoNeuronDs_Day00R1+ iPS differentiation to neuron, down-syndrome donor C18-CCL54, day00, rep1_CNhs13835_13457-144H1_forward Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC11CCL54Day18Rep3_CNhs14059_ctss_rev Tc:iPStoNeuronDs_Day18R3- iPS differentiation to neuron, down-syndrome donor C11-CCL54, day18, rep3_CNhs14059_13456-144G9_reverse Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC11CCL54Day18Rep3_CNhs14059_ctss_fwd Tc:iPStoNeuronDs_Day18R3+ iPS differentiation to neuron, down-syndrome donor C11-CCL54, day18, rep3_CNhs14059_13456-144G9_forward Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC11CCL54Day18Rep2_CNhs13846_ctss_rev Tc:iPStoNeuronDs_Day18R2- iPS differentiation to neuron, down-syndrome donor C11-CCL54, day18, rep2_CNhs13846_13452-144G5_reverse Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC11CCL54Day18Rep2_CNhs13846_ctss_fwd Tc:iPStoNeuronDs_Day18R2+ iPS differentiation to neuron, down-syndrome donor C11-CCL54, day18, rep2_CNhs13846_13452-144G5_forward Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC11CCL54Day18Rep1_CNhs13833_ctss_rev Tc:iPStoNeuronDs_Day18R1- iPS differentiation to neuron, down-syndrome donor C11-CCL54, day18, rep1_CNhs13833_13448-144G1_reverse Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC11CCL54Day18Rep1_CNhs13833_ctss_fwd Tc:iPStoNeuronDs_Day18R1+ iPS differentiation to neuron, down-syndrome donor C11-CCL54, day18, rep1_CNhs13833_13448-144G1_forward Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC11CCL54Day12Rep3_CNhs14058_ctss_rev Tc:iPStoNeuronDs_Day12R3- iPS differentiation to neuron, down-syndrome donor C11-CCL54, day12, rep3_CNhs14058_13455-144G8_reverse Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC11CCL54Day12Rep3_CNhs14058_ctss_fwd Tc:iPStoNeuronDs_Day12R3+ iPS differentiation to neuron, down-syndrome donor C11-CCL54, day12, rep3_CNhs14058_13455-144G8_forward Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC11CCL54Day12Rep2_CNhs13845_ctss_rev Tc:iPStoNeuronDs_Day12R2- iPS differentiation to neuron, down-syndrome donor C11-CCL54, day12, rep2_CNhs13845_13451-144G4_reverse Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC11CCL54Day12Rep2_CNhs13845_ctss_fwd Tc:iPStoNeuronDs_Day12R2+ iPS differentiation to neuron, down-syndrome donor C11-CCL54, day12, rep2_CNhs13845_13451-144G4_forward Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC11CCL54Day12Rep1_CNhs13832_ctss_rev Tc:iPStoNeuronDs_Day12R1- iPS differentiation to neuron, down-syndrome donor C11-CCL54, day12, rep1_CNhs13832_13447-144F9_reverse Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC11CCL54Day12Rep1_CNhs13832_ctss_fwd Tc:iPStoNeuronDs_Day12R1+ iPS differentiation to neuron, down-syndrome donor C11-CCL54, day12, rep1_CNhs13832_13447-144F9_forward Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC11CCL54Day06Rep3_CNhs14057_ctss_rev Tc:iPStoNeuronDs_Day06R3- iPS differentiation to neuron, down-syndrome donor C11-CCL54, day06, rep3_CNhs14057_13454-144G7_reverse Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC11CCL54Day06Rep3_CNhs14057_ctss_fwd Tc:iPStoNeuronDs_Day06R3+ iPS differentiation to neuron, down-syndrome donor C11-CCL54, day06, rep3_CNhs14057_13454-144G7_forward Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC11CCL54Day06Rep2_CNhs13844_ctss_rev Tc:iPStoNeuronDs_Day06R2- iPS differentiation to neuron, down-syndrome donor C11-CCL54, day06, rep2_CNhs13844_13450-144G3_reverse Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC11CCL54Day06Rep2_CNhs13844_ctss_fwd Tc:iPStoNeuronDs_Day06R2+ iPS differentiation to neuron, down-syndrome donor C11-CCL54, day06, rep2_CNhs13844_13450-144G3_forward Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC11CCL54Day06Rep1_CNhs13831_ctss_rev Tc:iPStoNeuronDs_Day06R1- iPS differentiation to neuron, down-syndrome donor C11-CCL54, day06, rep1_CNhs13831_13446-144F8_reverse Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC11CCL54Day06Rep1_CNhs13831_ctss_fwd Tc:iPStoNeuronDs_Day06R1+ iPS differentiation to neuron, down-syndrome donor C11-CCL54, day06, rep1_CNhs13831_13446-144F8_forward Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC11CCL54Day00Rep3_CNhs14056_ctss_rev Tc:iPStoNeuronDs_Day00R3- iPS differentiation to neuron, down-syndrome donor C11-CCL54, day00, rep3_CNhs14056_13453-144G6_reverse Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC11CCL54Day00Rep3_CNhs14056_ctss_fwd Tc:iPStoNeuronDs_Day00R3+ iPS differentiation to neuron, down-syndrome donor C11-CCL54, day00, rep3_CNhs14056_13453-144G6_forward Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC11CCL54Day00Rep2_CNhs13843_ctss_rev Tc:iPStoNeuronDs_Day00R2- iPS differentiation to neuron, down-syndrome donor C11-CCL54, day00, rep2_CNhs13843_13449-144G2_reverse Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC11CCL54Day00Rep2_CNhs13843_ctss_fwd Tc:iPStoNeuronDs_Day00R2+ iPS differentiation to neuron, down-syndrome donor C11-CCL54, day00, rep2_CNhs13843_13449-144G2_forward Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC11CCL54Day00Rep1_CNhs13830_ctss_rev Tc:iPStoNeuronDs_Day00R1- iPS differentiation to neuron, down-syndrome donor C11-CCL54, day00, rep1_CNhs13830_13445-144F7_reverse Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC11CCL54Day00Rep1_CNhs13830_ctss_fwd Tc:iPStoNeuronDs_Day00R1+ iPS differentiation to neuron, down-syndrome donor C11-CCL54, day00, rep1_CNhs13830_13445-144F7_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha60hr00minBiolRep3_CNhs14543_ctss_rev Tc:ARPE-19Emt_60hr00minBr3- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 60hr00min, biol_rep3_CNhs14543_13687-147F6_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha60hr00minBiolRep3_CNhs14543_ctss_fwd Tc:ARPE-19Emt_60hr00minBr3+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 60hr00min, biol_rep3_CNhs14543_13687-147F6_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha60hr00minBiolRep2_CNhs14542_ctss_rev Tc:ARPE-19Emt_60hr00minBr2- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 60hr00min, biol_rep2_CNhs14542_13686-147F5_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha60hr00minBiolRep2_CNhs14542_ctss_fwd Tc:ARPE-19Emt_60hr00minBr2+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 60hr00min, biol_rep2_CNhs14542_13686-147F5_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha60hr00minBiolRep1_CNhs14541_ctss_rev Tc:ARPE-19Emt_60hr00minBr1- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 60hr00min, biol_rep1_CNhs14541_13685-147F4_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha60hr00minBiolRep1_CNhs14541_ctss_fwd Tc:ARPE-19Emt_60hr00minBr1+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 60hr00min, biol_rep1_CNhs14541_13685-147F4_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha42hr00minBiolRep3_CNhs14540_ctss_rev Tc:ARPE-19Emt_42hr00minBr3- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 42hr00min, biol_rep3_CNhs14540_13684-147F3_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha42hr00minBiolRep3_CNhs14540_ctss_fwd Tc:ARPE-19Emt_42hr00minBr3+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 42hr00min, biol_rep3_CNhs14540_13684-147F3_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha42hr00minBiolRep2_CNhs14539_ctss_rev Tc:ARPE-19Emt_42hr00minBr2- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 42hr00min, biol_rep2_CNhs14539_13683-147F2_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha42hr00minBiolRep2_CNhs14539_ctss_fwd Tc:ARPE-19Emt_42hr00minBr2+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 42hr00min, biol_rep2_CNhs14539_13683-147F2_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha42hr00minBiolRep1_CNhs14538_ctss_rev Tc:ARPE-19Emt_42hr00minBr1- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 42hr00min, biol_rep1_CNhs14538_13682-147F1_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha42hr00minBiolRep1_CNhs14538_ctss_fwd Tc:ARPE-19Emt_42hr00minBr1+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 42hr00min, biol_rep1_CNhs14538_13682-147F1_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha24hr00minBiolRep3_CNhs14537_ctss_rev Tc:ARPE-19Emt_24hr00minBr3- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 24hr00min, biol_rep3_CNhs14537_13681-147E9_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha24hr00minBiolRep3_CNhs14537_ctss_fwd Tc:ARPE-19Emt_24hr00minBr3+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 24hr00min, biol_rep3_CNhs14537_13681-147E9_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha24hr00minBiolRep1_CNhs14535_ctss_rev Tc:ARPE-19Emt_24hr00minBr1- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 24hr00min, biol_rep1_CNhs14535_13679-147E7_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha24hr00minBiolRep1_CNhs14535_ctss_fwd Tc:ARPE-19Emt_24hr00minBr1+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 24hr00min, biol_rep1_CNhs14535_13679-147E7_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha16hr00minBiolRep3_CNhs14534_ctss_rev Tc:ARPE-19Emt_16hr00minBr3- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 16hr00min, biol_rep3_CNhs14534_13678-147E6_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha16hr00minBiolRep3_CNhs14534_ctss_fwd Tc:ARPE-19Emt_16hr00minBr3+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 16hr00min, biol_rep3_CNhs14534_13678-147E6_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha16hr00minBiolRep2_CNhs14533_ctss_rev Tc:ARPE-19Emt_16hr00minBr2- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 16hr00min, biol_rep2_CNhs14533_13677-147E5_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha16hr00minBiolRep2_CNhs14533_ctss_fwd Tc:ARPE-19Emt_16hr00minBr2+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 16hr00min, biol_rep2_CNhs14533_13677-147E5_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha16hr00minBiolRep1_CNhs14532_ctss_rev Tc:ARPE-19Emt_16hr00minBr1- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 16hr00min, biol_rep1_CNhs14532_13676-147E4_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha16hr00minBiolRep1_CNhs14532_ctss_fwd Tc:ARPE-19Emt_16hr00minBr1+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 16hr00min, biol_rep1_CNhs14532_13676-147E4_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha12hr00minBiolRep3_CNhs14531_ctss_rev Tc:ARPE-19Emt_12hr00minBr3- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 12hr00min, biol_rep3_CNhs14531_13675-147E3_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha12hr00minBiolRep3_CNhs14531_ctss_fwd Tc:ARPE-19Emt_12hr00minBr3+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 12hr00min, biol_rep3_CNhs14531_13675-147E3_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha12hr00minBiolRep2_CNhs14530_ctss_rev Tc:ARPE-19Emt_12hr00minBr2- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 12hr00min, biol_rep2_CNhs14530_13674-147E2_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha12hr00minBiolRep2_CNhs14530_ctss_fwd Tc:ARPE-19Emt_12hr00minBr2+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 12hr00min, biol_rep2_CNhs14530_13674-147E2_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha08hr00minBiolRep3_CNhs14528_ctss_rev Tc:ARPE-19Emt_08hr00minBr3- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 08hr00min, biol_rep3_CNhs14528_13672-147D9_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha08hr00minBiolRep3_CNhs14528_ctss_fwd Tc:ARPE-19Emt_08hr00minBr3+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 08hr00min, biol_rep3_CNhs14528_13672-147D9_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha08hr00minBiolRep2_CNhs14527_ctss_rev Tc:ARPE-19Emt_08hr00minBr2- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 08hr00min, biol_rep2_CNhs14527_13671-147D8_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha08hr00minBiolRep2_CNhs14527_ctss_fwd Tc:ARPE-19Emt_08hr00minBr2+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 08hr00min, biol_rep2_CNhs14527_13671-147D8_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha08hr00minBiolRep1_CNhs14526_ctss_rev Tc:ARPE-19Emt_08hr00minBr1- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 08hr00min, biol_rep1_CNhs14526_13670-147D7_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha08hr00minBiolRep1_CNhs14526_ctss_fwd Tc:ARPE-19Emt_08hr00minBr1+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 08hr00min, biol_rep1_CNhs14526_13670-147D7_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha07hr00minBiolRep3_CNhs14525_ctss_rev Tc:ARPE-19Emt_07hr00minBr3- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 07hr00min, biol_rep3_CNhs14525_13669-147D6_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha07hr00minBiolRep3_CNhs14525_ctss_fwd Tc:ARPE-19Emt_07hr00minBr3+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 07hr00min, biol_rep3_CNhs14525_13669-147D6_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha07hr00minBiolRep2_CNhs14524_ctss_rev Tc:ARPE-19Emt_07hr00minBr2- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 07hr00min, biol_rep2_CNhs14524_13668-147D5_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha07hr00minBiolRep2_CNhs14524_ctss_fwd Tc:ARPE-19Emt_07hr00minBr2+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 07hr00min, biol_rep2_CNhs14524_13668-147D5_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha07hr00minBiolRep1_CNhs14523_ctss_rev Tc:ARPE-19Emt_07hr00minBr1- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 07hr00min, biol_rep1_CNhs14523_13667-147D4_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha07hr00minBiolRep1_CNhs14523_ctss_fwd Tc:ARPE-19Emt_07hr00minBr1+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 07hr00min, biol_rep1_CNhs14523_13667-147D4_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha06hr00minBiolRep3_CNhs14522_ctss_rev Tc:ARPE-19Emt_06hr00minBr3- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 06hr00min, biol_rep3_CNhs14522_13666-147D3_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha06hr00minBiolRep3_CNhs14522_ctss_fwd Tc:ARPE-19Emt_06hr00minBr3+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 06hr00min, biol_rep3_CNhs14522_13666-147D3_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha06hr00minBiolRep1_CNhs14519_ctss_rev Tc:ARPE-19Emt_06hr00minBr1- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 06hr00min, biol_rep1_CNhs14519_13664-147D1_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha06hr00minBiolRep1_CNhs14519_ctss_fwd Tc:ARPE-19Emt_06hr00minBr1+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 06hr00min, biol_rep1_CNhs14519_13664-147D1_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha05hr00minBiolRep3_CNhs14518_ctss_rev Tc:ARPE-19Emt_05hr00minBr3- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 05hr00min, biol_rep3_CNhs14518_13663-147C9_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha05hr00minBiolRep3_CNhs14518_ctss_fwd Tc:ARPE-19Emt_05hr00minBr3+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 05hr00min, biol_rep3_CNhs14518_13663-147C9_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha05hr00minBiolRep2_CNhs14501_ctss_rev Tc:ARPE-19Emt_05hr00minBr2- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 05hr00min, biol_rep2_CNhs14501_13662-147C8_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha05hr00minBiolRep2_CNhs14501_ctss_fwd Tc:ARPE-19Emt_05hr00minBr2+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 05hr00min, biol_rep2_CNhs14501_13662-147C8_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha05hr00minBiolRep1_CNhs14500_ctss_rev Tc:ARPE-19Emt_05hr00minBr1- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 05hr00min, biol_rep1_CNhs14500_13661-147C7_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha05hr00minBiolRep1_CNhs14500_ctss_fwd Tc:ARPE-19Emt_05hr00minBr1+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 05hr00min, biol_rep1_CNhs14500_13661-147C7_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha04hr00minBiolRep3_CNhs14499_ctss_rev Tc:ARPE-19Emt_04hr00minBr3- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 04hr00min, biol_rep3_CNhs14499_13660-147C6_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha04hr00minBiolRep3_CNhs14499_ctss_fwd Tc:ARPE-19Emt_04hr00minBr3+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 04hr00min, biol_rep3_CNhs14499_13660-147C6_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha04hr00minBiolRep2_CNhs14498_ctss_rev Tc:ARPE-19Emt_04hr00minBr2- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 04hr00min, biol_rep2_CNhs14498_13659-147C5_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha04hr00minBiolRep2_CNhs14498_ctss_fwd Tc:ARPE-19Emt_04hr00minBr2+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 04hr00min, biol_rep2_CNhs14498_13659-147C5_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha04hr00minBiolRep1_CNhs14497_ctss_rev Tc:ARPE-19Emt_04hr00minBr1- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 04hr00min, biol_rep1_CNhs14497_13658-147C4_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha04hr00minBiolRep1_CNhs14497_ctss_fwd Tc:ARPE-19Emt_04hr00minBr1+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 04hr00min, biol_rep1_CNhs14497_13658-147C4_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha03hr30minBiolRep3_CNhs14496_ctss_rev Tc:ARPE-19Emt_03hr30minBr3- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 03hr30min, biol_rep3_CNhs14496_13657-147C3_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha03hr30minBiolRep3_CNhs14496_ctss_fwd Tc:ARPE-19Emt_03hr30minBr3+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 03hr30min, biol_rep3_CNhs14496_13657-147C3_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha03hr30minBiolRep2_CNhs14495_ctss_rev Tc:ARPE-19Emt_03hr30minBr2- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 03hr30min, biol_rep2_CNhs14495_13656-147C2_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha03hr30minBiolRep2_CNhs14495_ctss_fwd Tc:ARPE-19Emt_03hr30minBr2+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 03hr30min, biol_rep2_CNhs14495_13656-147C2_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha03hr30minBiolRep1_CNhs14494_ctss_rev Tc:ARPE-19Emt_03hr30minBr1- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 03hr30min, biol_rep1_CNhs14494_13655-147C1_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha03hr30minBiolRep1_CNhs14494_ctss_fwd Tc:ARPE-19Emt_03hr30minBr1+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 03hr30min, biol_rep1_CNhs14494_13655-147C1_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha03hr00minBiolRep3_CNhs14493_ctss_rev Tc:ARPE-19Emt_03hr00minBr3- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 03hr00min, biol_rep3_CNhs14493_13654-147B9_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha03hr00minBiolRep3_CNhs14493_ctss_fwd Tc:ARPE-19Emt_03hr00minBr3+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 03hr00min, biol_rep3_CNhs14493_13654-147B9_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha03hr00minBiolRep2_CNhs14492_ctss_rev Tc:ARPE-19Emt_03hr00minBr2- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 03hr00min, biol_rep2_CNhs14492_13653-147B8_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha03hr00minBiolRep2_CNhs14492_ctss_fwd Tc:ARPE-19Emt_03hr00minBr2+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 03hr00min, biol_rep2_CNhs14492_13653-147B8_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha03hr00minBiolRep1_CNhs14491_ctss_rev Tc:ARPE-19Emt_03hr00minBr1- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 03hr00min, biol_rep1_CNhs14491_13652-147B7_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha03hr00minBiolRep1_CNhs14491_ctss_fwd Tc:ARPE-19Emt_03hr00minBr1+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 03hr00min, biol_rep1_CNhs14491_13652-147B7_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha02hr30minBiolRep3_CNhs14490_ctss_rev Tc:ARPE-19Emt_02hr30minBr3- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 02hr30min, biol_rep3_CNhs14490_13651-147B6_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha02hr30minBiolRep3_CNhs14490_ctss_fwd Tc:ARPE-19Emt_02hr30minBr3+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 02hr30min, biol_rep3_CNhs14490_13651-147B6_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha02hr30minBiolRep2_CNhs14489_ctss_rev Tc:ARPE-19Emt_02hr30minBr2- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 02hr30min, biol_rep2_CNhs14489_13650-147B5_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha02hr30minBiolRep2_CNhs14489_ctss_fwd Tc:ARPE-19Emt_02hr30minBr2+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 02hr30min, biol_rep2_CNhs14489_13650-147B5_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha02hr30minBiolRep1_CNhs14488_ctss_rev Tc:ARPE-19Emt_02hr30minBr1- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 02hr30min, biol_rep1_CNhs14488_13649-147B4_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha02hr30minBiolRep1_CNhs14488_ctss_fwd Tc:ARPE-19Emt_02hr30minBr1+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 02hr30min, biol_rep1_CNhs14488_13649-147B4_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha02hr00minBiolRep3_CNhs14487_ctss_rev Tc:ARPE-19Emt_02hr00minBr3- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 02hr00min, biol_rep3_CNhs14487_13648-147B3_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha02hr00minBiolRep3_CNhs14487_ctss_fwd Tc:ARPE-19Emt_02hr00minBr3+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 02hr00min, biol_rep3_CNhs14487_13648-147B3_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha02hr00minBiolRep2_CNhs14486_ctss_rev Tc:ARPE-19Emt_02hr00minBr2- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 02hr00min, biol_rep2_CNhs14486_13647-147B2_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha02hr00minBiolRep2_CNhs14486_ctss_fwd Tc:ARPE-19Emt_02hr00minBr2+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 02hr00min, biol_rep2_CNhs14486_13647-147B2_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha02hr00minBiolRep1_CNhs14485_ctss_rev Tc:ARPE-19Emt_02hr00minBr1- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 02hr00min, biol_rep1_CNhs14485_13646-147B1_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha02hr00minBiolRep1_CNhs14485_ctss_fwd Tc:ARPE-19Emt_02hr00minBr1+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 02hr00min, biol_rep1_CNhs14485_13646-147B1_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha01hr40minBiolRep3_CNhs14484_ctss_rev Tc:ARPE-19Emt_01hr40minBr3- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 01hr40min, biol_rep3_CNhs14484_13645-147A9_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha01hr40minBiolRep3_CNhs14484_ctss_fwd Tc:ARPE-19Emt_01hr40minBr3+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 01hr40min, biol_rep3_CNhs14484_13645-147A9_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha01hr40minBiolRep2_CNhs14483_ctss_rev Tc:ARPE-19Emt_01hr40minBr2- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 01hr40min, biol_rep2_CNhs14483_13644-147A8_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha01hr40minBiolRep2_CNhs14483_ctss_fwd Tc:ARPE-19Emt_01hr40minBr2+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 01hr40min, biol_rep2_CNhs14483_13644-147A8_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha01hr40minBiolRep1_CNhs14482_ctss_rev Tc:ARPE-19Emt_01hr40minBr1- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 01hr40min, biol_rep1_CNhs14482_13643-147A7_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha01hr40minBiolRep1_CNhs14482_ctss_fwd Tc:ARPE-19Emt_01hr40minBr1+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 01hr40min, biol_rep1_CNhs14482_13643-147A7_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha01hr20minBiolRep3_CNhs14480_ctss_rev Tc:ARPE-19Emt_01hr20minBr3- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 01hr20min, biol_rep3_CNhs14480_13642-147A6_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha01hr20minBiolRep3_CNhs14480_ctss_fwd Tc:ARPE-19Emt_01hr20minBr3+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 01hr20min, biol_rep3_CNhs14480_13642-147A6_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha01hr20minBiolRep2_CNhs14479_ctss_rev Tc:ARPE-19Emt_01hr20minBr2- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 01hr20min, biol_rep2_CNhs14479_13641-147A5_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha01hr20minBiolRep2_CNhs14479_ctss_fwd Tc:ARPE-19Emt_01hr20minBr2+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 01hr20min, biol_rep2_CNhs14479_13641-147A5_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha01hr20minBiolRep1_CNhs14478_ctss_rev Tc:ARPE-19Emt_01hr20minBr1- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 01hr20min, biol_rep1_CNhs14478_13640-147A4_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha01hr20minBiolRep1_CNhs14478_ctss_fwd Tc:ARPE-19Emt_01hr20minBr1+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 01hr20min, biol_rep1_CNhs14478_13640-147A4_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha01hr00minBiolRep3_CNhs14477_ctss_rev Tc:ARPE-19Emt_01hr00minBr3- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 01hr00min, biol_rep3_CNhs14477_13639-147A3_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha01hr00minBiolRep3_CNhs14477_ctss_fwd Tc:ARPE-19Emt_01hr00minBr3+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 01hr00min, biol_rep3_CNhs14477_13639-147A3_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha01hr00minBiolRep2_CNhs14476_ctss_rev Tc:ARPE-19Emt_01hr00minBr2- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 01hr00min, biol_rep2_CNhs14476_13638-147A2_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha01hr00minBiolRep2_CNhs14476_ctss_fwd Tc:ARPE-19Emt_01hr00minBr2+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 01hr00min, biol_rep2_CNhs14476_13638-147A2_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha01hr00minBiolRep1_CNhs14475_ctss_rev Tc:ARPE-19Emt_01hr00minBr1- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 01hr00min, biol_rep1_CNhs14475_13637-147A1_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha01hr00minBiolRep1_CNhs14475_ctss_fwd Tc:ARPE-19Emt_01hr00minBr1+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 01hr00min, biol_rep1_CNhs14475_13637-147A1_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha00hr45minBiolRep3_CNhs14474_ctss_rev Tc:ARPE-19Emt_00hr45minBr3- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 00hr45min, biol_rep3_CNhs14474_13636-146I9_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha00hr45minBiolRep3_CNhs14474_ctss_fwd Tc:ARPE-19Emt_00hr45minBr3+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 00hr45min, biol_rep3_CNhs14474_13636-146I9_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha00hr45minBiolRep2_CNhs14473_ctss_rev Tc:ARPE-19Emt_00hr45minBr2- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 00hr45min, biol_rep2_CNhs14473_13635-146I8_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha00hr45minBiolRep2_CNhs14473_ctss_fwd Tc:ARPE-19Emt_00hr45minBr2+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 00hr45min, biol_rep2_CNhs14473_13635-146I8_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha00hr45minBiolRep1_CNhs14472_ctss_rev Tc:ARPE-19Emt_00hr45minBr1- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 00hr45min, biol_rep1_CNhs14472_13634-146I7_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha00hr45minBiolRep1_CNhs14472_ctss_fwd Tc:ARPE-19Emt_00hr45minBr1+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 00hr45min, biol_rep1_CNhs14472_13634-146I7_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha00hr30minBiolRep3_CNhs14471_ctss_rev Tc:ARPE-19Emt_00hr30minBr3- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 00hr30min, biol_rep3_CNhs14471_13633-146I6_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha00hr30minBiolRep3_CNhs14471_ctss_fwd Tc:ARPE-19Emt_00hr30minBr3+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 00hr30min, biol_rep3_CNhs14471_13633-146I6_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha00hr30minBiolRep2_CNhs14470_ctss_rev Tc:ARPE-19Emt_00hr30minBr2- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 00hr30min, biol_rep2_CNhs14470_13632-146I5_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha00hr30minBiolRep2_CNhs14470_ctss_fwd Tc:ARPE-19Emt_00hr30minBr2+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 00hr30min, biol_rep2_CNhs14470_13632-146I5_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha00hr30minBiolRep1_CNhs14469_ctss_rev Tc:ARPE-19Emt_00hr30minBr1- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 00hr30min, biol_rep1_CNhs14469_13631-146I4_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha00hr30minBiolRep1_CNhs14469_ctss_fwd Tc:ARPE-19Emt_00hr30minBr1+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 00hr30min, biol_rep1_CNhs14469_13631-146I4_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha00hr15minBiolRep3_CNhs14468_ctss_rev Tc:ARPE-19Emt_00hr15minBr3- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 00hr15min, biol_rep3_CNhs14468_13630-146I3_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha00hr15minBiolRep3_CNhs14468_ctss_fwd Tc:ARPE-19Emt_00hr15minBr3+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 00hr15min, biol_rep3_CNhs14468_13630-146I3_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha00hr15minBiolRep2_CNhs14467_ctss_rev Tc:ARPE-19Emt_00hr15minBr2- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 00hr15min, biol_rep2_CNhs14467_13629-146I2_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha00hr15minBiolRep2_CNhs14467_ctss_fwd Tc:ARPE-19Emt_00hr15minBr2+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 00hr15min, biol_rep2_CNhs14467_13629-146I2_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha00hr15minBiolRep1_CNhs14466_ctss_rev Tc:ARPE-19Emt_00hr15minBr1- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 00hr15min, biol_rep1_CNhs14466_13628-146I1_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha00hr15minBiolRep1_CNhs14466_ctss_fwd Tc:ARPE-19Emt_00hr15minBr1+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 00hr15min, biol_rep1_CNhs14466_13628-146I1_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha00hr00minBiolRep3_CNhs14465_ctss_rev Tc:ARPE-19Emt_00hr00minBr3- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 00hr00min, biol_rep3_CNhs14465_13627-146H9_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha00hr00minBiolRep3_CNhs14465_ctss_fwd Tc:ARPE-19Emt_00hr00minBr3+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 00hr00min, biol_rep3_CNhs14465_13627-146H9_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha00hr00minBiolRep2_CNhs14464_ctss_rev Tc:ARPE-19Emt_00hr00minBr2- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 00hr00min, biol_rep2_CNhs14464_13626-146H8_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha00hr00minBiolRep2_CNhs14464_ctss_fwd Tc:ARPE-19Emt_00hr00minBr2+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 00hr00min, biol_rep2_CNhs14464_13626-146H8_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha00hr00minBiolRep1_CNhs14463_ctss_rev Tc:ARPE-19Emt_00hr00minBr1- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 00hr00min, biol_rep1_CNhs14463_13625-146H7_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha00hr00minBiolRep1_CNhs14463_ctss_fwd Tc:ARPE-19Emt_00hr00minBr1+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 00hr00min, biol_rep1_CNhs14463_13625-146H7_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay41BiolRep3H9EB3D41_CNhs12950_ctss_rev H9MelanocyticInduction_Day41Br3- H9 Embryoid body cells, melanocytic induction, day41, biol_rep3 (H9EB-3 d41)_CNhs12950_12836-137B1_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay41BiolRep3H9EB3D41_CNhs12950_ctss_fwd H9MelanocyticInduction_Day41Br3+ H9 Embryoid body cells, melanocytic induction, day41, biol_rep3 (H9EB-3 d41)_CNhs12950_12836-137B1_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay41BiolRep2H9EB2D41_CNhs12907_ctss_rev H9MelanocyticInduction_Day41Br2- H9 Embryoid body cells, melanocytic induction, day41, biol_rep2 (H9EB-2 d41)_CNhs12907_12738-135I2_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay41BiolRep2H9EB2D41_CNhs12907_ctss_fwd H9MelanocyticInduction_Day41Br2+ H9 Embryoid body cells, melanocytic induction, day41, biol_rep2 (H9EB-2 d41)_CNhs12907_12738-135I2_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay41BiolRep1H9EB1D41_CNhs12905_ctss_rev H9MelanocyticInduction_Day41Br1- H9 Embryoid body cells, melanocytic induction, day41, biol_rep1 (H9EB-1 d41)_CNhs12905_12640-134G3_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay41BiolRep1H9EB1D41_CNhs12905_ctss_fwd H9MelanocyticInduction_Day41Br1+ H9 Embryoid body cells, melanocytic induction, day41, biol_rep1 (H9EB-1 d41)_CNhs12905_12640-134G3_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay34BiolRep3H9EB3D34_CNhs12919_ctss_rev H9MelanocyticInduction_Day34Br3- H9 Embryoid body cells, melanocytic induction, day34, biol_rep3 (H9EB-3 d34)_CNhs12919_12835-137A9_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay34BiolRep3H9EB3D34_CNhs12919_ctss_fwd H9MelanocyticInduction_Day34Br3+ H9 Embryoid body cells, melanocytic induction, day34, biol_rep3 (H9EB-3 d34)_CNhs12919_12835-137A9_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay34BiolRep2H9EB2D34_CNhs12906_ctss_rev H9MelanocyticInduction_Day34Br2- H9 Embryoid body cells, melanocytic induction, day34, biol_rep2 (H9EB-2 d34)_CNhs12906_12737-135I1_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay34BiolRep2H9EB2D34_CNhs12906_ctss_fwd H9MelanocyticInduction_Day34Br2+ H9 Embryoid body cells, melanocytic induction, day34, biol_rep2 (H9EB-2 d34)_CNhs12906_12737-135I1_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay34BiolRep1H9EB1D34_CNhs12904_ctss_rev H9MelanocyticInduction_Day34Br1- H9 Embryoid body cells, melanocytic induction, day34, biol_rep1 (H9EB-1 d34)_CNhs12904_12639-134G2_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay34BiolRep1H9EB1D34_CNhs12904_ctss_fwd H9MelanocyticInduction_Day34Br1+ H9 Embryoid body cells, melanocytic induction, day34, biol_rep1 (H9EB-1 d34)_CNhs12904_12639-134G2_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay30BiolRep3H9EB3D30_CNhs12918_ctss_rev H9MelanocyticInduction_Day30Br3- H9 Embryoid body cells, melanocytic induction, day30, biol_rep3 (H9EB-3 d30)_CNhs12918_12834-137A8_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay30BiolRep3H9EB3D30_CNhs12918_ctss_fwd H9MelanocyticInduction_Day30Br3+ H9 Embryoid body cells, melanocytic induction, day30, biol_rep3 (H9EB-3 d30)_CNhs12918_12834-137A8_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay30BiolRep2H9EB2D30_CNhs12836_ctss_rev H9MelanocyticInduction_Day30Br2- H9 Embryoid body cells, melanocytic induction, day30, biol_rep2 (H9EB-2 d30)_CNhs12836_12736-135H9_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay30BiolRep2H9EB2D30_CNhs12836_ctss_fwd H9MelanocyticInduction_Day30Br2+ H9 Embryoid body cells, melanocytic induction, day30, biol_rep2 (H9EB-2 d30)_CNhs12836_12736-135H9_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay30BiolRep1H9EB1D30_CNhs12903_ctss_rev H9MelanocyticInduction_Day30Br1- H9 Embryoid body cells, melanocytic induction, day30, biol_rep1 (H9EB-1 d30)_CNhs12903_12638-134G1_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay30BiolRep1H9EB1D30_CNhs12903_ctss_fwd H9MelanocyticInduction_Day30Br1+ H9 Embryoid body cells, melanocytic induction, day30, biol_rep1 (H9EB-1 d30)_CNhs12903_12638-134G1_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay27BiolRep3H9EB3D27_CNhs12917_ctss_rev H9MelanocyticInduction_Day27Br3- H9 Embryoid body cells, melanocytic induction, day27, biol_rep3 (H9EB-3 d27)_CNhs12917_12833-137A7_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay27BiolRep3H9EB3D27_CNhs12917_ctss_fwd H9MelanocyticInduction_Day27Br3+ H9 Embryoid body cells, melanocytic induction, day27, biol_rep3 (H9EB-3 d27)_CNhs12917_12833-137A7_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay27BiolRep2H9EB2D27_CNhs12835_ctss_rev H9MelanocyticInduction_Day27Br2- H9 Embryoid body cells, melanocytic induction, day27, biol_rep2 (H9EB-2 d27)_CNhs12835_12735-135H8_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay27BiolRep2H9EB2D27_CNhs12835_ctss_fwd H9MelanocyticInduction_Day27Br2+ H9 Embryoid body cells, melanocytic induction, day27, biol_rep2 (H9EB-2 d27)_CNhs12835_12735-135H8_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay27BiolRep1H9EB1D27_CNhs12902_ctss_rev H9MelanocyticInduction_Day27Br1- H9 Embryoid body cells, melanocytic induction, day27, biol_rep1 (H9EB-1 d27)_CNhs12902_12637-134F9_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay27BiolRep1H9EB1D27_CNhs12902_ctss_fwd H9MelanocyticInduction_Day27Br1+ H9 Embryoid body cells, melanocytic induction, day27, biol_rep1 (H9EB-1 d27)_CNhs12902_12637-134F9_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay24BiolRep3H9EB3D24_CNhs12916_ctss_rev H9MelanocyticInduction_Day24Br3- H9 Embryoid body cells, melanocytic induction, day24, biol_rep3 (H9EB-3 d24)_CNhs12916_12832-137A6_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay24BiolRep3H9EB3D24_CNhs12916_ctss_fwd H9MelanocyticInduction_Day24Br3+ H9 Embryoid body cells, melanocytic induction, day24, biol_rep3 (H9EB-3 d24)_CNhs12916_12832-137A6_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay24BiolRep2H9EB2D24_CNhs12834_ctss_rev H9MelanocyticInduction_Day24Br2- H9 Embryoid body cells, melanocytic induction, day24, biol_rep2 (H9EB-2 d24)_CNhs12834_12734-135H7_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay24BiolRep2H9EB2D24_CNhs12834_ctss_fwd H9MelanocyticInduction_Day24Br2+ H9 Embryoid body cells, melanocytic induction, day24, biol_rep2 (H9EB-2 d24)_CNhs12834_12734-135H7_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay24BiolRep1H9EB1D24_CNhs12901_ctss_rev H9MelanocyticInduction_Day24Br1- H9 Embryoid body cells, melanocytic induction, day24, biol_rep1 (H9EB-1 d24)_CNhs12901_12636-134F8_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay24BiolRep1H9EB1D24_CNhs12901_ctss_fwd H9MelanocyticInduction_Day24Br1+ H9 Embryoid body cells, melanocytic induction, day24, biol_rep1 (H9EB-1 d24)_CNhs12901_12636-134F8_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay21BiolRep3H9EB3D21_CNhs12915_ctss_rev H9MelanocyticInduction_Day21Br3- H9 Embryoid body cells, melanocytic induction, day21, biol_rep3 (H9EB-3 d21)_CNhs12915_12831-137A5_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay21BiolRep3H9EB3D21_CNhs12915_ctss_fwd H9MelanocyticInduction_Day21Br3+ H9 Embryoid body cells, melanocytic induction, day21, biol_rep3 (H9EB-3 d21)_CNhs12915_12831-137A5_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay21BiolRep2H9EB2D21_CNhs12833_ctss_rev H9MelanocyticInduction_Day21Br2- H9 Embryoid body cells, melanocytic induction, day21, biol_rep2 (H9EB-2 d21)_CNhs12833_12733-135H6_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay21BiolRep2H9EB2D21_CNhs12833_ctss_fwd H9MelanocyticInduction_Day21Br2+ H9 Embryoid body cells, melanocytic induction, day21, biol_rep2 (H9EB-2 d21)_CNhs12833_12733-135H6_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay21BiolRep1H9EB1D21_CNhs12900_ctss_rev H9MelanocyticInduction_Day21Br1- H9 Embryoid body cells, melanocytic induction, day21, biol_rep1 (H9EB-1 d21)_CNhs12900_12635-134F7_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay21BiolRep1H9EB1D21_CNhs12900_ctss_fwd H9MelanocyticInduction_Day21Br1+ H9 Embryoid body cells, melanocytic induction, day21, biol_rep1 (H9EB-1 d21)_CNhs12900_12635-134F7_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay18BiolRep3H9EB3D18_CNhs12914_ctss_rev H9MelanocyticInduction_Day18Br3- H9 Embryoid body cells, melanocytic induction, day18, biol_rep3 (H9EB-3 d18)_CNhs12914_12830-137A4_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay18BiolRep3H9EB3D18_CNhs12914_ctss_fwd H9MelanocyticInduction_Day18Br3+ H9 Embryoid body cells, melanocytic induction, day18, biol_rep3 (H9EB-3 d18)_CNhs12914_12830-137A4_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay18BiolRep2H9EB2D18_CNhs12832_ctss_rev H9MelanocyticInduction_Day18Br2- H9 Embryoid body cells, melanocytic induction, day18, biol_rep2 (H9EB-2 d18)_CNhs12832_12732-135H5_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay18BiolRep2H9EB2D18_CNhs12832_ctss_fwd H9MelanocyticInduction_Day18Br2+ H9 Embryoid body cells, melanocytic induction, day18, biol_rep2 (H9EB-2 d18)_CNhs12832_12732-135H5_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay18BiolRep1H9EB1D18_CNhs12899_ctss_rev H9MelanocyticInduction_Day18Br1- H9 Embryoid body cells, melanocytic induction, day18, biol_rep1 (H9EB-1 d18)_CNhs12899_12634-134F6_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay18BiolRep1H9EB1D18_CNhs12899_ctss_fwd H9MelanocyticInduction_Day18Br1+ H9 Embryoid body cells, melanocytic induction, day18, biol_rep1 (H9EB-1 d18)_CNhs12899_12634-134F6_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay15BiolRep3H9EB3D15_CNhs12912_ctss_rev H9MelanocyticInduction_Day15Br3- H9 Embryoid body cells, melanocytic induction, day15, biol_rep3 (H9EB-3 d15)_CNhs12912_12829-137A3_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay15BiolRep3H9EB3D15_CNhs12912_ctss_fwd H9MelanocyticInduction_Day15Br3+ H9 Embryoid body cells, melanocytic induction, day15, biol_rep3 (H9EB-3 d15)_CNhs12912_12829-137A3_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay15BiolRep2H9EB2D15_CNhs12831_ctss_rev H9MelanocyticInduction_Day15Br2- H9 Embryoid body cells, melanocytic induction, day15, biol_rep2 (H9EB-2 d15)_CNhs12831_12731-135H4_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay15BiolRep2H9EB2D15_CNhs12831_ctss_fwd H9MelanocyticInduction_Day15Br2+ H9 Embryoid body cells, melanocytic induction, day15, biol_rep2 (H9EB-2 d15)_CNhs12831_12731-135H4_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay15BiolRep1H9EB1D15_CNhs12898_ctss_rev H9MelanocyticInduction_Day15Br1- H9 Embryoid body cells, melanocytic induction, day15, biol_rep1 (H9EB-1 d15)_CNhs12898_12633-134F5_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay15BiolRep1H9EB1D15_CNhs12898_ctss_fwd H9MelanocyticInduction_Day15Br1+ H9 Embryoid body cells, melanocytic induction, day15, biol_rep1 (H9EB-1 d15)_CNhs12898_12633-134F5_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay12BiolRep3H9EB3D12_CNhs12949_ctss_rev H9MelanocyticInduction_Day12Br3- H9 Embryoid body cells, melanocytic induction, day12, biol_rep3 (H9EB-3 d12)_CNhs12949_12828-137A2_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay12BiolRep3H9EB3D12_CNhs12995_ctss_rev H9MelanocyticInduction_Day12Br3- H9 Embryoid body cells, melanocytic induction, day12, biol_rep3 (H9EB-3 d12)_CNhs12995_12828-137A2_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay12BiolRep3H9EB3D12_CNhs12949_ctss_fwd H9MelanocyticInduction_Day12Br3+ H9 Embryoid body cells, melanocytic induction, day12, biol_rep3 (H9EB-3 d12)_CNhs12949_12828-137A2_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay12BiolRep3H9EB3D12_CNhs12995_ctss_fwd H9MelanocyticInduction_Day12Br3+ H9 Embryoid body cells, melanocytic induction, day12, biol_rep3 (H9EB-3 d12)_CNhs12995_12828-137A2_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay12BiolRep2H9EB2D12_CNhs12830_ctss_rev H9MelanocyticInduction_Day12Br2- H9 Embryoid body cells, melanocytic induction, day12, biol_rep2 (H9EB-2 d12)_CNhs12830_12730-135H3_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay12BiolRep2H9EB2D12_CNhs12830_ctss_fwd H9MelanocyticInduction_Day12Br2+ H9 Embryoid body cells, melanocytic induction, day12, biol_rep2 (H9EB-2 d12)_CNhs12830_12730-135H3_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay12BiolRep1H9EB1D12_CNhs12994_ctss_rev H9MelanocyticInduction_Day12Br1- H9 Embryoid body cells, melanocytic induction, day12, biol_rep1 (H9EB-1 d12)_CNhs12994_12632-134F4_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay12BiolRep1H9EB1D12_CNhs12948_ctss_rev H9MelanocyticInduction_Day12Br1- H9 Embryoid body cells, melanocytic induction, day12, biol_rep1 (H9EB-1 d12)_CNhs12948_12632-134F4_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay12BiolRep1H9EB1D12_CNhs12994_ctss_fwd H9MelanocyticInduction_Day12Br1+ H9 Embryoid body cells, melanocytic induction, day12, biol_rep1 (H9EB-1 d12)_CNhs12994_12632-134F4_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay12BiolRep1H9EB1D12_CNhs12948_ctss_fwd H9MelanocyticInduction_Day12Br1+ H9 Embryoid body cells, melanocytic induction, day12, biol_rep1 (H9EB-1 d12)_CNhs12948_12632-134F4_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay09BiolRep3H9EB3D9_CNhs12951_ctss_rev H9MelanocyticInduction_Day09Br3- H9 Embryoid body cells, melanocytic induction, day09, biol_rep3 (H9EB-3 d9)_CNhs12951_12827-137A1_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay09BiolRep3H9EB3D9_CNhs12951_ctss_fwd H9MelanocyticInduction_Day09Br3+ H9 Embryoid body cells, melanocytic induction, day09, biol_rep3 (H9EB-3 d9)_CNhs12951_12827-137A1_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay09BiolRep2H9EB2D9_CNhs12829_ctss_rev H9MelanocyticInduction_Day09Br2- H9 Embryoid body cells, melanocytic induction, day09, biol_rep2 (H9EB-2 d9)_CNhs12829_12729-135H2_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay09BiolRep2H9EB2D9_CNhs12829_ctss_fwd H9MelanocyticInduction_Day09Br2+ H9 Embryoid body cells, melanocytic induction, day09, biol_rep2 (H9EB-2 d9)_CNhs12829_12729-135H2_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay09BiolRep1H9EB1D9_CNhs12897_ctss_rev H9MelanocyticInduction_Day09Br1- H9 Embryoid body cells, melanocytic induction, day09, biol_rep1 (H9EB-1 d9)_CNhs12897_12631-134F3_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay09BiolRep1H9EB1D9_CNhs12897_ctss_fwd H9MelanocyticInduction_Day09Br1+ H9 Embryoid body cells, melanocytic induction, day09, biol_rep1 (H9EB-1 d9)_CNhs12897_12631-134F3_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay06BiolRep3H9EB3D6_CNhs12911_ctss_rev H9MelanocyticInduction_Day06Br3- H9 Embryoid body cells, melanocytic induction, day06, biol_rep3 (H9EB-3 d6)_CNhs12911_12826-136I9_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay06BiolRep3H9EB3D6_CNhs12911_ctss_fwd H9MelanocyticInduction_Day06Br3+ H9 Embryoid body cells, melanocytic induction, day06, biol_rep3 (H9EB-3 d6)_CNhs12911_12826-136I9_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay06BiolRep2H9EB2D6_CNhs12828_ctss_rev H9MelanocyticInduction_Day06Br2- H9 Embryoid body cells, melanocytic induction, day06, biol_rep2 (H9EB-2 d6)_CNhs12828_12728-135H1_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay06BiolRep2H9EB2D6_CNhs12828_ctss_fwd H9MelanocyticInduction_Day06Br2+ H9 Embryoid body cells, melanocytic induction, day06, biol_rep2 (H9EB-2 d6)_CNhs12828_12728-135H1_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay06BiolRep1H9EB1D6_CNhs12896_ctss_rev H9MelanocyticInduction_Day06Br1- H9 Embryoid body cells, melanocytic induction, day06, biol_rep1 (H9EB-1 d6)_CNhs12896_12630-134F2_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay06BiolRep1H9EB1D6_CNhs12896_ctss_fwd H9MelanocyticInduction_Day06Br1+ H9 Embryoid body cells, melanocytic induction, day06, biol_rep1 (H9EB-1 d6)_CNhs12896_12630-134F2_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay03BiolRep3H9EB3D3_CNhs12910_ctss_rev H9MelanocyticInduction_Day03Br3- H9 Embryoid body cells, melanocytic induction, day03, biol_rep3 (H9EB-3 d3)_CNhs12910_12825-136I8_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay03BiolRep3H9EB3D3_CNhs12910_ctss_fwd H9MelanocyticInduction_Day03Br3+ H9 Embryoid body cells, melanocytic induction, day03, biol_rep3 (H9EB-3 d3)_CNhs12910_12825-136I8_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay03BiolRep2H9EB2D3_CNhs12827_ctss_rev H9MelanocyticInduction_Day03Br2- H9 Embryoid body cells, melanocytic induction, day03, biol_rep2 (H9EB-2 d3)_CNhs12827_12727-135G9_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay03BiolRep2H9EB2D3_CNhs12827_ctss_fwd H9MelanocyticInduction_Day03Br2+ H9 Embryoid body cells, melanocytic induction, day03, biol_rep2 (H9EB-2 d3)_CNhs12827_12727-135G9_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay03BiolRep1H9EB1D3_CNhs12895_ctss_rev H9MelanocyticInduction_Day03Br1- H9 Embryoid body cells, melanocytic induction, day03, biol_rep1 (H9EB-1 d3)_CNhs12895_12629-134F1_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay03BiolRep1H9EB1D3_CNhs12895_ctss_fwd H9MelanocyticInduction_Day03Br1+ H9 Embryoid body cells, melanocytic induction, day03, biol_rep1 (H9EB-1 d3)_CNhs12895_12629-134F1_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay01BiolRep3H9EB3D1_CNhs12909_ctss_rev H9MelanocyticInduction_Day01Br3- H9 Embryoid body cells, melanocytic induction, day01, biol_rep3 (H9EB-3 d1)_CNhs12909_12824-136I7_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay01BiolRep3H9EB3D1_CNhs12909_ctss_fwd H9MelanocyticInduction_Day01Br3+ H9 Embryoid body cells, melanocytic induction, day01, biol_rep3 (H9EB-3 d1)_CNhs12909_12824-136I7_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay01BiolRep2H9EB2D1_CNhs12826_ctss_rev H9MelanocyticInduction_Day01Br2- H9 Embryoid body cells, melanocytic induction, day01, biol_rep2 (H9EB-2 d1)_CNhs12826_12726-135G8_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay01BiolRep2H9EB2D1_CNhs12826_ctss_fwd H9MelanocyticInduction_Day01Br2+ H9 Embryoid body cells, melanocytic induction, day01, biol_rep2 (H9EB-2 d1)_CNhs12826_12726-135G8_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay01BiolRep1H9EB1D1_CNhs12823_ctss_rev H9MelanocyticInduction_Day01Br1- H9 Embryoid body cells, melanocytic induction, day01, biol_rep1 (H9EB-1 d1)_CNhs12823_12628-134E9_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay01BiolRep1H9EB1D1_CNhs12823_ctss_fwd H9MelanocyticInduction_Day01Br1+ H9 Embryoid body cells, melanocytic induction, day01, biol_rep1 (H9EB-1 d1)_CNhs12823_12628-134E9_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay00BiolRep3H9EB3D0_CNhs12908_ctss_rev H9MelanocyticInduction_Day00Br3- H9 Embryoid body cells, melanocytic induction, day00, biol_rep3 (H9EB-3 d0)_CNhs12908_12823-136I6_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay00BiolRep3H9EB3D0_CNhs12908_ctss_fwd H9MelanocyticInduction_Day00Br3+ H9 Embryoid body cells, melanocytic induction, day00, biol_rep3 (H9EB-3 d0)_CNhs12908_12823-136I6_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay00BiolRep2H9EB2D0_CNhs12825_ctss_rev H9MelanocyticInduction_Day00Br2- H9 Embryoid body cells, melanocytic induction, day00, biol_rep2 (H9EB-2 d0)_CNhs12825_12725-135G7_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay00BiolRep2H9EB2D0_CNhs12825_ctss_fwd H9MelanocyticInduction_Day00Br2+ H9 Embryoid body cells, melanocytic induction, day00, biol_rep2 (H9EB-2 d0)_CNhs12825_12725-135G7_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay00BiolRep1H9EB1D0_CNhs12822_ctss_rev H9MelanocyticInduction_Day00Br1- H9 Embryoid body cells, melanocytic induction, day00, biol_rep1 (H9EB-1 d0)_CNhs12822_12627-134E8_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay00BiolRep1H9EB1D0_CNhs12822_ctss_fwd H9MelanocyticInduction_Day00Br1+ H9 Embryoid body cells, melanocytic induction, day00, biol_rep1 (H9EB-1 d0)_CNhs12822_12627-134E8_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay12BiolRep3_CNhs13736_ctss_rev Hes3-gfpCardiomyocyticInduction_Day12Br3- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day12, biol_rep3_CNhs13736_13363-143F6_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay12BiolRep3_CNhs13736_ctss_fwd Hes3-gfpCardiomyocyticInduction_Day12Br3+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day12, biol_rep3_CNhs13736_13363-143F6_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay12BiolRep2_CNhs13724_ctss_rev Hes3-gfpCardiomyocyticInduction_Day12Br2- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day12, biol_rep2_CNhs13724_13351-143E3_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay12BiolRep2_CNhs13724_ctss_fwd Hes3-gfpCardiomyocyticInduction_Day12Br2+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day12, biol_rep2_CNhs13724_13351-143E3_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay12BiolRep1_CNhs13711_ctss_rev Hes3-gfpCardiomyocyticInduction_Day12Br1- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day12, biol_rep1_CNhs13711_13339-143C9_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay12BiolRep1_CNhs13711_ctss_fwd Hes3-gfpCardiomyocyticInduction_Day12Br1+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day12, biol_rep1_CNhs13711_13339-143C9_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay11BiolRep3_CNhs13735_ctss_rev Hes3-gfpCardiomyocyticInduction_Day11Br3- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day11, biol_rep3_CNhs13735_13362-143F5_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay11BiolRep3_CNhs13735_ctss_fwd Hes3-gfpCardiomyocyticInduction_Day11Br3+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day11, biol_rep3_CNhs13735_13362-143F5_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay11BiolRep2_CNhs13723_ctss_rev Hes3-gfpCardiomyocyticInduction_Day11Br2- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day11, biol_rep2_CNhs13723_13350-143E2_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay11BiolRep2_CNhs13723_ctss_fwd Hes3-gfpCardiomyocyticInduction_Day11Br2+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day11, biol_rep2_CNhs13723_13350-143E2_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay11BiolRep1_CNhs13710_ctss_rev Hes3-gfpCardiomyocyticInduction_Day11Br1- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day11, biol_rep1_CNhs13710_13338-143C8_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay11BiolRep1_CNhs13710_ctss_fwd Hes3-gfpCardiomyocyticInduction_Day11Br1+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day11, biol_rep1_CNhs13710_13338-143C8_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay10BiolRep3_CNhs13734_ctss_rev Hes3-gfpCardiomyocyticInduction_Day10Br3- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day10, biol_rep3_CNhs13734_13361-143F4_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay10BiolRep3_CNhs13734_ctss_fwd Hes3-gfpCardiomyocyticInduction_Day10Br3+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day10, biol_rep3_CNhs13734_13361-143F4_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay10BiolRep2_CNhs13722_ctss_rev Hes3-gfpCardiomyocyticInduction_Day10Br2- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day10, biol_rep2_CNhs13722_13349-143E1_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay10BiolRep2_CNhs13722_ctss_fwd Hes3-gfpCardiomyocyticInduction_Day10Br2+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day10, biol_rep2_CNhs13722_13349-143E1_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay10BiolRep1_CNhs13662_ctss_rev Hes3-gfpCardiomyocyticInduction_Day10Br1- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day10, biol_rep1_CNhs13662_13337-143C7_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay10BiolRep1_CNhs13662_ctss_fwd Hes3-gfpCardiomyocyticInduction_Day10Br1+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day10, biol_rep1_CNhs13662_13337-143C7_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay09BiolRep3_CNhs13733_ctss_rev Hes3-gfpCardiomyocyticInduction_Day09Br3- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day09, biol_rep3_CNhs13733_13360-143F3_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay09BiolRep3_CNhs13733_ctss_fwd Hes3-gfpCardiomyocyticInduction_Day09Br3+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day09, biol_rep3_CNhs13733_13360-143F3_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay09BiolRep2_CNhs13721_ctss_rev Hes3-gfpCardiomyocyticInduction_Day09Br2- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day09, biol_rep2_CNhs13721_13348-143D9_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay09BiolRep2_CNhs13721_ctss_fwd Hes3-gfpCardiomyocyticInduction_Day09Br2+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day09, biol_rep2_CNhs13721_13348-143D9_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay09BiolRep1_CNhs13661_ctss_rev Hes3-gfpCardiomyocyticInduction_Day09Br1- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day09, biol_rep1_CNhs13661_13336-143C6_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay09BiolRep1_CNhs13661_ctss_fwd Hes3-gfpCardiomyocyticInduction_Day09Br1+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day09, biol_rep1_CNhs13661_13336-143C6_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay08BiolRep3_CNhs13732_ctss_rev Hes3-gfpCardiomyocyticInduction_Day08Br3- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day08, biol_rep3_CNhs13732_13359-143F2_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay08BiolRep3_CNhs13732_ctss_fwd Hes3-gfpCardiomyocyticInduction_Day08Br3+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day08, biol_rep3_CNhs13732_13359-143F2_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay08BiolRep2_CNhs13720_ctss_rev Hes3-gfpCardiomyocyticInduction_Day08Br2- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day08, biol_rep2_CNhs13720_13347-143D8_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay08BiolRep2_CNhs13720_ctss_fwd Hes3-gfpCardiomyocyticInduction_Day08Br2+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day08, biol_rep2_CNhs13720_13347-143D8_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay08BiolRep1_CNhs13660_ctss_rev Hes3-gfpCardiomyocyticInduction_Day08Br1- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day08, biol_rep1_CNhs13660_13335-143C5_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay08BiolRep1_CNhs13660_ctss_fwd Hes3-gfpCardiomyocyticInduction_Day08Br1+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day08, biol_rep1_CNhs13660_13335-143C5_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay07BiolRep3_CNhs13731_ctss_rev Hes3-gfpCardiomyocyticInduction_Day07Br3- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day07, biol_rep3_CNhs13731_13358-143F1_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay07BiolRep3_CNhs13731_ctss_fwd Hes3-gfpCardiomyocyticInduction_Day07Br3+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day07, biol_rep3_CNhs13731_13358-143F1_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay07BiolRep2_CNhs13719_ctss_rev Hes3-gfpCardiomyocyticInduction_Day07Br2- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day07, biol_rep2_CNhs13719_13346-143D7_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay07BiolRep2_CNhs13719_ctss_fwd Hes3-gfpCardiomyocyticInduction_Day07Br2+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day07, biol_rep2_CNhs13719_13346-143D7_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay06BiolRep3_CNhs13730_ctss_rev Hes3-gfpCardiomyocyticInduction_Day06Br3- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day06, biol_rep3_CNhs13730_13357-143E9_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay06BiolRep3_CNhs13730_ctss_fwd Hes3-gfpCardiomyocyticInduction_Day06Br3+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day06, biol_rep3_CNhs13730_13357-143E9_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay06BiolRep2_CNhs13718_ctss_rev Hes3-gfpCardiomyocyticInduction_Day06Br2- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day06, biol_rep2_CNhs13718_13345-143D6_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay06BiolRep2_CNhs13718_ctss_fwd Hes3-gfpCardiomyocyticInduction_Day06Br2+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day06, biol_rep2_CNhs13718_13345-143D6_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay06BiolRep1_CNhs13658_ctss_rev Hes3-gfpCardiomyocyticInduction_Day06Br1- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day06, biol_rep1_CNhs13658_13333-143C3_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay06BiolRep1_CNhs13658_ctss_fwd Hes3-gfpCardiomyocyticInduction_Day06Br1+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day06, biol_rep1_CNhs13658_13333-143C3_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay05BiolRep3_CNhs13729_ctss_rev Hes3-gfpCardiomyocyticInduction_Day05Br3- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day05, biol_rep3_CNhs13729_13356-143E8_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay05BiolRep3_CNhs13729_ctss_fwd Hes3-gfpCardiomyocyticInduction_Day05Br3+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day05, biol_rep3_CNhs13729_13356-143E8_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay05BiolRep2_CNhs13717_ctss_rev Hes3-gfpCardiomyocyticInduction_Day05Br2- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day05, biol_rep2_CNhs13717_13344-143D5_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay05BiolRep2_CNhs13717_ctss_fwd Hes3-gfpCardiomyocyticInduction_Day05Br2+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day05, biol_rep2_CNhs13717_13344-143D5_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay05BiolRep1_CNhs13657_ctss_rev Hes3-gfpCardiomyocyticInduction_Day05Br1- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day05, biol_rep1_CNhs13657_13332-143C2_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay05BiolRep1_CNhs13657_ctss_fwd Hes3-gfpCardiomyocyticInduction_Day05Br1+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day05, biol_rep1_CNhs13657_13332-143C2_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay04BiolRep3_CNhs13728_ctss_rev Hes3-gfpCardiomyocyticInduction_Day04Br3- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day04, biol_rep3_CNhs13728_13355-143E7_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay04BiolRep3_CNhs13728_ctss_fwd Hes3-gfpCardiomyocyticInduction_Day04Br3+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day04, biol_rep3_CNhs13728_13355-143E7_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay04BiolRep2_CNhs13716_ctss_rev Hes3-gfpCardiomyocyticInduction_Day04Br2- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day04, biol_rep2_CNhs13716_13343-143D4_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay04BiolRep2_CNhs13716_ctss_fwd Hes3-gfpCardiomyocyticInduction_Day04Br2+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day04, biol_rep2_CNhs13716_13343-143D4_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay04BiolRep1_CNhs13656_ctss_rev Hes3-gfpCardiomyocyticInduction_Day04Br1- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day04, biol_rep1_CNhs13656_13331-143C1_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay04BiolRep1_CNhs13656_ctss_fwd Hes3-gfpCardiomyocyticInduction_Day04Br1+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day04, biol_rep1_CNhs13656_13331-143C1_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay03BiolRep3_CNhs13727_ctss_rev Hes3-gfpCardiomyocyticInduction_Day03Br3- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day03, biol_rep3_CNhs13727_13354-143E6_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay03BiolRep3_CNhs13727_ctss_fwd Hes3-gfpCardiomyocyticInduction_Day03Br3+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day03, biol_rep3_CNhs13727_13354-143E6_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay03BiolRep2_CNhs13715_ctss_rev Hes3-gfpCardiomyocyticInduction_Day03Br2- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day03, biol_rep2_CNhs13715_13342-143D3_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay03BiolRep2_CNhs13715_ctss_fwd Hes3-gfpCardiomyocyticInduction_Day03Br2+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day03, biol_rep2_CNhs13715_13342-143D3_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay03BiolRep1_CNhs13655_ctss_rev Hes3-gfpCardiomyocyticInduction_Day03Br1- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day03, biol_rep1_CNhs13655_13330-143B9_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay03BiolRep1_CNhs13655_ctss_fwd Hes3-gfpCardiomyocyticInduction_Day03Br1+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day03, biol_rep1_CNhs13655_13330-143B9_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay02BiolRep3_CNhs13726_ctss_rev Hes3-gfpCardiomyocyticInduction_Day02Br3- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day02, biol_rep3_CNhs13726_13353-143E5_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay02BiolRep3_CNhs13726_ctss_fwd Hes3-gfpCardiomyocyticInduction_Day02Br3+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day02, biol_rep3_CNhs13726_13353-143E5_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay02BiolRep2_CNhs13714_ctss_rev Hes3-gfpCardiomyocyticInduction_Day02Br2- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day02, biol_rep2_CNhs13714_13341-143D2_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay02BiolRep2_CNhs13714_ctss_fwd Hes3-gfpCardiomyocyticInduction_Day02Br2+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day02, biol_rep2_CNhs13714_13341-143D2_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay02BiolRep1_CNhs13654_ctss_rev Hes3-gfpCardiomyocyticInduction_Day02Br1- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day02, biol_rep1_CNhs13654_13329-143B8_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay02BiolRep1_CNhs13654_ctss_fwd Hes3-gfpCardiomyocyticInduction_Day02Br1+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day02, biol_rep1_CNhs13654_13329-143B8_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay01BiolRep3_CNhs13725_ctss_rev Hes3-gfpCardiomyocyticInduction_Day01Br3- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day01, biol_rep3_CNhs13725_13352-143E4_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay01BiolRep3_CNhs13725_ctss_fwd Hes3-gfpCardiomyocyticInduction_Day01Br3+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day01, biol_rep3_CNhs13725_13352-143E4_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay01BiolRep2_CNhs13712_ctss_rev Hes3-gfpCardiomyocyticInduction_Day01Br2- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day01, biol_rep2_CNhs13712_13340-143D1_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay01BiolRep2_CNhs13712_ctss_fwd Hes3-gfpCardiomyocyticInduction_Day01Br2+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day01, biol_rep2_CNhs13712_13340-143D1_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay01BiolRep1_CNhs13653_ctss_rev Hes3-gfpCardiomyocyticInduction_Day01Br1- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day01, biol_rep1_CNhs13653_13328-143B7_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay01BiolRep1_CNhs13653_ctss_fwd Hes3-gfpCardiomyocyticInduction_Day01Br1+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day01, biol_rep1_CNhs13653_13328-143B7_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay00BiolRep3UH3_CNhs13738_ctss_rev Hes3-gfpCardiomyocyticInduction_Day00Br3- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day00, biol_rep3 (UH-3)_CNhs13738_13366-143F9_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay00BiolRep3UH3_CNhs13738_ctss_fwd Hes3-gfpCardiomyocyticInduction_Day00Br3+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day00, biol_rep3 (UH-3)_CNhs13738_13366-143F9_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay00BiolRep2UH2_CNhs13695_ctss_rev Hes3-gfpCardiomyocyticInduction_Day00Br2- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day00, biol_rep2 (UH-2)_CNhs13695_13365-143F8_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay00BiolRep2UH2_CNhs13695_ctss_fwd Hes3-gfpCardiomyocyticInduction_Day00Br2+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day00, biol_rep2 (UH-2)_CNhs13695_13365-143F8_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay00BiolRep1UH1_CNhs13694_ctss_rev Hes3-gfpCardiomyocyticInduction_Day00Br1- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day00, biol_rep1 (UH-1)_CNhs13694_13364-143F7_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay00BiolRep1UH1_CNhs13694_ctss_fwd Hes3-gfpCardiomyocyticInduction_Day00Br1+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day00, biol_rep1 (UH-1)_CNhs13694_13364-143F7_forward Regulation 
AorticSmoothMuscleCellResponseToIL1b06hrBiolRep3LK60_CNhs13586_ctss_rev AorticSmsToIL1b_06hrBr3- Aortic smooth muscle cell response to IL1b, 06hr, biol_rep3 (LK60)_CNhs13586_12857-137D4_reverse Regulation 
AorticSmoothMuscleCellResponseToIL1b06hrBiolRep3LK60_CNhs13586_ctss_fwd AorticSmsToIL1b_06hrBr3+ Aortic smooth muscle cell response to IL1b, 06hr, biol_rep3 (LK60)_CNhs13586_12857-137D4_forward Regulation 
AorticSmoothMuscleCellResponseToIL1b06hrBiolRep2LK59_CNhs13378_ctss_rev AorticSmsToIL1b_06hrBr2- Aortic smooth muscle cell response to IL1b, 06hr, biol_rep2 (LK59)_CNhs13378_12759-136B5_reverse Regulation 
AorticSmoothMuscleCellResponseToIL1b06hrBiolRep2LK59_CNhs13378_ctss_fwd AorticSmsToIL1b_06hrBr2+ Aortic smooth muscle cell response to IL1b, 06hr, biol_rep2 (LK59)_CNhs13378_12759-136B5_forward Regulation 
AorticSmoothMuscleCellResponseToIL1b06hrBiolRep1LK58_CNhs13357_ctss_rev AorticSmsToIL1b_06hrBr1- Aortic smooth muscle cell response to IL1b, 06hr, biol_rep1 (LK58)_CNhs13357_12661-134I6_reverse Regulation 
AorticSmoothMuscleCellResponseToIL1b06hrBiolRep1LK58_CNhs13357_ctss_fwd AorticSmsToIL1b_06hrBr1+ Aortic smooth muscle cell response to IL1b, 06hr, biol_rep1 (LK58)_CNhs13357_12661-134I6_forward Regulation 
AorticSmoothMuscleCellResponseToIL1b05hrBiolRep2LK56_CNhs13377_ctss_rev AorticSmsToIL1b_05hrBr2- Aortic smooth muscle cell response to IL1b, 05hr, biol_rep2 (LK56)_CNhs13377_12758-136B4_reverse Regulation 
AorticSmoothMuscleCellResponseToIL1b05hrBiolRep2LK56_CNhs13377_ctss_fwd AorticSmsToIL1b_05hrBr2+ Aortic smooth muscle cell response to IL1b, 05hr, biol_rep2 (LK56)_CNhs13377_12758-136B4_forward Regulation 
AorticSmoothMuscleCellResponseToIL1b05hrBiolRep1LK55_CNhs13356_ctss_rev AorticSmsToIL1b_05hrBr1- Aortic smooth muscle cell response to IL1b, 05hr, biol_rep1 (LK55)_CNhs13356_12660-134I5_reverse Regulation 
AorticSmoothMuscleCellResponseToIL1b05hrBiolRep1LK55_CNhs13356_ctss_fwd AorticSmsToIL1b_05hrBr1+ Aortic smooth muscle cell response to IL1b, 05hr, biol_rep1 (LK55)_CNhs13356_12660-134I5_forward Regulation 
AorticSmoothMuscleCellResponseToIL1b04hrBiolRep3LK54_CNhs13584_ctss_rev AorticSmsToIL1b_04hrBr3- Aortic smooth muscle cell response to IL1b, 04hr, biol_rep3 (LK54)_CNhs13584_12855-137D2_reverse Regulation 
AorticSmoothMuscleCellResponseToIL1b04hrBiolRep3LK54_CNhs13584_ctss_fwd AorticSmsToIL1b_04hrBr3+ Aortic smooth muscle cell response to IL1b, 04hr, biol_rep3 (LK54)_CNhs13584_12855-137D2_forward Regulation 
AorticSmoothMuscleCellResponseToIL1b04hrBiolRep2LK53_CNhs13376_ctss_rev AorticSmsToIL1b_04hrBr2- Aortic smooth muscle cell response to IL1b, 04hr, biol_rep2 (LK53)_CNhs13376_12757-136B3_reverse Regulation 
AorticSmoothMuscleCellResponseToIL1b04hrBiolRep2LK53_CNhs13376_ctss_fwd AorticSmsToIL1b_04hrBr2+ Aortic smooth muscle cell response to IL1b, 04hr, biol_rep2 (LK53)_CNhs13376_12757-136B3_forward Regulation 
AorticSmoothMuscleCellResponseToIL1b04hrBiolRep1LK52_CNhs13682_ctss_rev AorticSmsToIL1b_04hrBr1- Aortic smooth muscle cell response to IL1b, 04hr, biol_rep1 (LK52)_CNhs13682_12659-134I4_reverse Regulation 
AorticSmoothMuscleCellResponseToIL1b04hrBiolRep1LK52_CNhs13682_ctss_fwd AorticSmsToIL1b_04hrBr1+ Aortic smooth muscle cell response to IL1b, 04hr, biol_rep1 (LK52)_CNhs13682_12659-134I4_forward Regulation 
AorticSmoothMuscleCellResponseToIL1b03hrBiolRep2LK50_CNhs13375_ctss_rev AorticSmsToIL1b_03hrBr2- Aortic smooth muscle cell response to IL1b, 03hr, biol_rep2 (LK50)_CNhs13375_12756-136B2_reverse Regulation 
AorticSmoothMuscleCellResponseToIL1b03hrBiolRep2LK50_CNhs13375_ctss_fwd AorticSmsToIL1b_03hrBr2+ Aortic smooth muscle cell response to IL1b, 03hr, biol_rep2 (LK50)_CNhs13375_12756-136B2_forward Regulation 
AorticSmoothMuscleCellResponseToIL1b03hrBiolRep1LK49_CNhs13355_ctss_rev AorticSmsToIL1b_03hrBr1- Aortic smooth muscle cell response to IL1b, 03hr, biol_rep1 (LK49)_CNhs13355_12658-134I3_reverse Regulation 
AorticSmoothMuscleCellResponseToIL1b03hrBiolRep1LK49_CNhs13355_ctss_fwd AorticSmsToIL1b_03hrBr1+ Aortic smooth muscle cell response to IL1b, 03hr, biol_rep1 (LK49)_CNhs13355_12658-134I3_forward Regulation 
AorticSmoothMuscleCellResponseToIL1b02hrBiolRep3LK48_CNhs13582_ctss_rev AorticSmsToIL1b_02hrBr3- Aortic smooth muscle cell response to IL1b, 02hr, biol_rep3 (LK48)_CNhs13582_12853-137C9_reverse Regulation 
AorticSmoothMuscleCellResponseToIL1b02hrBiolRep3LK48_CNhs13582_ctss_fwd AorticSmsToIL1b_02hrBr3+ Aortic smooth muscle cell response to IL1b, 02hr, biol_rep3 (LK48)_CNhs13582_12853-137C9_forward Regulation 
AorticSmoothMuscleCellResponseToIL1b02hrBiolRep2LK47_CNhs13374_ctss_rev AorticSmsToIL1b_02hrBr2- Aortic smooth muscle cell response to IL1b, 02hr, biol_rep2 (LK47)_CNhs13374_12755-136B1_reverse Regulation 
AorticSmoothMuscleCellResponseToIL1b02hrBiolRep2LK47_CNhs13374_ctss_fwd AorticSmsToIL1b_02hrBr2+ Aortic smooth muscle cell response to IL1b, 02hr, biol_rep2 (LK47)_CNhs13374_12755-136B1_forward Regulation 
AorticSmoothMuscleCellResponseToIL1b01hrBiolRep2LK44_CNhs13373_ctss_rev AorticSmsToIL1b_01hrBr2- Aortic smooth muscle cell response to IL1b, 01hr, biol_rep2 (LK44)_CNhs13373_12754-136A9_reverse Regulation 
AorticSmoothMuscleCellResponseToIL1b01hrBiolRep2LK44_CNhs13373_ctss_fwd AorticSmsToIL1b_01hrBr2+ Aortic smooth muscle cell response to IL1b, 01hr, biol_rep2 (LK44)_CNhs13373_12754-136A9_forward Regulation 
AorticSmoothMuscleCellResponseToIL1b01hrBiolRep1LK43_CNhs13353_ctss_rev AorticSmsToIL1b_01hrBr1- Aortic smooth muscle cell response to IL1b, 01hr, biol_rep1 (LK43)_CNhs13353_12656-134I1_reverse Regulation 
AorticSmoothMuscleCellResponseToIL1b01hrBiolRep1LK43_CNhs13353_ctss_fwd AorticSmsToIL1b_01hrBr1+ Aortic smooth muscle cell response to IL1b, 01hr, biol_rep1 (LK43)_CNhs13353_12656-134I1_forward Regulation 
AorticSmoothMuscleCellResponseToIL1b00hr45minBiolRep3LK42_CNhs13580_ctss_rev AorticSmsToIL1b_00hr45minBr3- Aortic smooth muscle cell response to IL1b, 00hr45min, biol_rep3 (LK42)_CNhs13580_12851-137C7_reverse Regulation 
AorticSmoothMuscleCellResponseToIL1b00hr45minBiolRep3LK42_CNhs13580_ctss_fwd AorticSmsToIL1b_00hr45minBr3+ Aortic smooth muscle cell response to IL1b, 00hr45min, biol_rep3 (LK42)_CNhs13580_12851-137C7_forward Regulation 
AorticSmoothMuscleCellResponseToIL1b00hr45minBiolRep2LK41_CNhs13372_ctss_rev AorticSmsToIL1b_00hr45minBr2- Aortic smooth muscle cell response to IL1b, 00hr45min, biol_rep2 (LK41)_CNhs13372_12753-136A8_reverse Regulation 
AorticSmoothMuscleCellResponseToIL1b00hr45minBiolRep2LK41_CNhs13372_ctss_fwd AorticSmsToIL1b_00hr45minBr2+ Aortic smooth muscle cell response to IL1b, 00hr45min, biol_rep2 (LK41)_CNhs13372_12753-136A8_forward Regulation 
AorticSmoothMuscleCellResponseToIL1b00hr45minBiolRep1LK40_CNhs13352_ctss_rev AorticSmsToIL1b_00hr45minBr1- Aortic smooth muscle cell response to IL1b, 00hr45min, biol_rep1 (LK40)_CNhs13352_12655-134H9_reverse Regulation 
AorticSmoothMuscleCellResponseToIL1b00hr45minBiolRep1LK40_CNhs13352_ctss_fwd AorticSmsToIL1b_00hr45minBr1+ Aortic smooth muscle cell response to IL1b, 00hr45min, biol_rep1 (LK40)_CNhs13352_12655-134H9_forward Regulation 
AorticSmoothMuscleCellResponseToIL1b00hr30minBiolRep3LK39_CNhs13579_ctss_rev AorticSmsToIL1b_00hr30minBr3- Aortic smooth muscle cell response to IL1b, 00hr30min, biol_rep3 (LK39)_CNhs13579_12850-137C6_reverse Regulation 
AorticSmoothMuscleCellResponseToIL1b00hr30minBiolRep3LK39_CNhs13579_ctss_fwd AorticSmsToIL1b_00hr30minBr3+ Aortic smooth muscle cell response to IL1b, 00hr30min, biol_rep3 (LK39)_CNhs13579_12850-137C6_forward Regulation 
AorticSmoothMuscleCellResponseToIL1b00hr30minBiolRep2LK38_CNhs13371_ctss_rev AorticSmsToIL1b_00hr30minBr2- Aortic smooth muscle cell response to IL1b, 00hr30min, biol_rep2 (LK38)_CNhs13371_12752-136A7_reverse Regulation 
AorticSmoothMuscleCellResponseToIL1b00hr30minBiolRep2LK38_CNhs13371_ctss_fwd AorticSmsToIL1b_00hr30minBr2+ Aortic smooth muscle cell response to IL1b, 00hr30min, biol_rep2 (LK38)_CNhs13371_12752-136A7_forward Regulation 
AorticSmoothMuscleCellResponseToIL1b00hr30minBiolRep1LK37_CNhs13351_ctss_rev AorticSmsToIL1b_00hr30minBr1- Aortic smooth muscle cell response to IL1b, 00hr30min, biol_rep1 (LK37)_CNhs13351_12654-134H8_reverse Regulation 
AorticSmoothMuscleCellResponseToIL1b00hr30minBiolRep1LK37_CNhs13351_ctss_fwd AorticSmsToIL1b_00hr30minBr1+ Aortic smooth muscle cell response to IL1b, 00hr30min, biol_rep1 (LK37)_CNhs13351_12654-134H8_forward Regulation 
AorticSmoothMuscleCellResponseToIL1b00hr15minBiolRep3LK36_CNhs13578_ctss_rev AorticSmsToIL1b_00hr15minBr3- Aortic smooth muscle cell response to IL1b, 00hr15min, biol_rep3 (LK36)_CNhs13578_12849-137C5_reverse Regulation 
AorticSmoothMuscleCellResponseToIL1b00hr15minBiolRep3LK36_CNhs13578_ctss_fwd AorticSmsToIL1b_00hr15minBr3+ Aortic smooth muscle cell response to IL1b, 00hr15min, biol_rep3 (LK36)_CNhs13578_12849-137C5_forward Regulation 
AorticSmoothMuscleCellResponseToIL1b00hr15minBiolRep2LK35_CNhs13370_ctss_rev AorticSmsToIL1b_00hr15minBr2- Aortic smooth muscle cell response to IL1b, 00hr15min, biol_rep2 (LK35)_CNhs13370_12751-136A6_reverse Regulation 
AorticSmoothMuscleCellResponseToIL1b00hr15minBiolRep2LK35_CNhs13370_ctss_fwd AorticSmsToIL1b_00hr15minBr2+ Aortic smooth muscle cell response to IL1b, 00hr15min, biol_rep2 (LK35)_CNhs13370_12751-136A6_forward Regulation 
AorticSmoothMuscleCellResponseToIL1b00hr15minBiolRep1LK34_CNhs13350_ctss_rev AorticSmsToIL1b_00hr15minBr1- Aortic smooth muscle cell response to IL1b, 00hr15min, biol_rep1 (LK34)_CNhs13350_12653-134H7_reverse Regulation 
AorticSmoothMuscleCellResponseToIL1b00hr15minBiolRep1LK34_CNhs13350_ctss_fwd AorticSmsToIL1b_00hr15minBr1+ Aortic smooth muscle cell response to IL1b, 00hr15min, biol_rep1 (LK34)_CNhs13350_12653-134H7_forward Regulation 
AorticSmoothMuscleCellResponseToIL1b00hr00minBiolRep3LK33_CNhs13577_ctss_rev AorticSmsToIL1b_00hr00minBr3- Aortic smooth muscle cell response to IL1b, 00hr00min, biol_rep3 (LK33)_CNhs13577_12848-137C4_reverse Regulation 
AorticSmoothMuscleCellResponseToIL1b00hr00minBiolRep3LK33_CNhs13577_ctss_fwd AorticSmsToIL1b_00hr00minBr3+ Aortic smooth muscle cell response to IL1b, 00hr00min, biol_rep3 (LK33)_CNhs13577_12848-137C4_forward Regulation 
AorticSmoothMuscleCellResponseToIL1b00hr00minBiolRep2LK32_CNhs13369_ctss_rev AorticSmsToIL1b_00hr00minBr2- Aortic smooth muscle cell response to IL1b, 00hr00min, biol_rep2 (LK32)_CNhs13369_12750-136A5_reverse Regulation 
AorticSmoothMuscleCellResponseToIL1b00hr00minBiolRep2LK32_CNhs13369_ctss_fwd AorticSmsToIL1b_00hr00minBr2+ Aortic smooth muscle cell response to IL1b, 00hr00min, biol_rep2 (LK32)_CNhs13369_12750-136A5_forward Regulation 
AorticSmoothMuscleCellResponseToIL1b00hr00minBiolRep1LK31_CNhs13349_ctss_rev AorticSmsToIL1b_00hr00minBr1- Aortic smooth muscle cell response to IL1b, 00hr00min, biol_rep1 (LK31)_CNhs13349_12652-134H6_reverse Regulation 
AorticSmoothMuscleCellResponseToIL1b00hr00minBiolRep1LK31_CNhs13349_ctss_fwd AorticSmsToIL1b_00hr00minBr1+ Aortic smooth muscle cell response to IL1b, 00hr00min, biol_rep1 (LK31)_CNhs13349_12652-134H6_forward Regulation 
AorticSmoothMuscleCellResponseToFGF206hrBiolRep3LK30_CNhs13576_ctss_rev AorticSmsToFgf2_06hrBr3- Aortic smooth muscle cell response to FGF2, 06hr, biol_rep3 (LK30)_CNhs13576_12847-137C3_reverse Regulation 
AorticSmoothMuscleCellResponseToFGF206hrBiolRep3LK30_CNhs13576_ctss_fwd AorticSmsToFgf2_06hrBr3+ Aortic smooth muscle cell response to FGF2, 06hr, biol_rep3 (LK30)_CNhs13576_12847-137C3_forward Regulation 
AorticSmoothMuscleCellResponseToFGF206hrBiolRep2LK29_CNhs13368_ctss_rev AorticSmsToFgf2_06hrBr2- Aortic smooth muscle cell response to FGF2, 06hr, biol_rep2 (LK29)_CNhs13368_12749-136A4_reverse Regulation 
AorticSmoothMuscleCellResponseToFGF206hrBiolRep2LK29_CNhs13368_ctss_fwd AorticSmsToFgf2_06hrBr2+ Aortic smooth muscle cell response to FGF2, 06hr, biol_rep2 (LK29)_CNhs13368_12749-136A4_forward Regulation 
AorticSmoothMuscleCellResponseToFGF206hrBiolRep1LK28_CNhs13348_ctss_rev AorticSmsToFgf2_06hrBr1- Aortic smooth muscle cell response to FGF2, 06hr, biol_rep1 (LK28)_CNhs13348_12651-134H5_reverse Regulation 
AorticSmoothMuscleCellResponseToFGF206hrBiolRep1LK28_CNhs13348_ctss_fwd AorticSmsToFgf2_06hrBr1+ Aortic smooth muscle cell response to FGF2, 06hr, biol_rep1 (LK28)_CNhs13348_12651-134H5_forward Regulation 
AorticSmoothMuscleCellResponseToFGF205hrBiolRep3LK27_CNhs13575_ctss_rev AorticSmsToFgf2_05hrBr3- Aortic smooth muscle cell response to FGF2, 05hr, biol_rep3 (LK27)_CNhs13575_12846-137C2_reverse Regulation 
AorticSmoothMuscleCellResponseToFGF205hrBiolRep3LK27_CNhs13575_ctss_fwd AorticSmsToFgf2_05hrBr3+ Aortic smooth muscle cell response to FGF2, 05hr, biol_rep3 (LK27)_CNhs13575_12846-137C2_forward Regulation 
AorticSmoothMuscleCellResponseToFGF205hrBiolRep2LK26_CNhs13367_ctss_rev AorticSmsToFgf2_05hrBr2- Aortic smooth muscle cell response to FGF2, 05hr, biol_rep2 (LK26)_CNhs13367_12748-136A3_reverse Regulation 
AorticSmoothMuscleCellResponseToFGF205hrBiolRep2LK26_CNhs13367_ctss_fwd AorticSmsToFgf2_05hrBr2+ Aortic smooth muscle cell response to FGF2, 05hr, biol_rep2 (LK26)_CNhs13367_12748-136A3_forward Regulation 
AorticSmoothMuscleCellResponseToFGF205hrBiolRep1LK25_CNhs13347_ctss_rev AorticSmsToFgf2_05hrBr1- Aortic smooth muscle cell response to FGF2, 05hr, biol_rep1 (LK25)_CNhs13347_12650-134H4_reverse Regulation 
AorticSmoothMuscleCellResponseToFGF205hrBiolRep1LK25_CNhs13347_ctss_fwd AorticSmsToFgf2_05hrBr1+ Aortic smooth muscle cell response to FGF2, 05hr, biol_rep1 (LK25)_CNhs13347_12650-134H4_forward Regulation 
AorticSmoothMuscleCellResponseToFGF203hrBiolRep3LK21_CNhs13573_ctss_rev AorticSmsToFgf2_03hrBr3- Aortic smooth muscle cell response to FGF2, 03hr, biol_rep3 (LK21)_CNhs13573_12844-137B9_reverse Regulation 
AorticSmoothMuscleCellResponseToFGF203hrBiolRep3LK21_CNhs13573_ctss_fwd AorticSmsToFgf2_03hrBr3+ Aortic smooth muscle cell response to FGF2, 03hr, biol_rep3 (LK21)_CNhs13573_12844-137B9_forward Regulation 
AorticSmoothMuscleCellResponseToFGF203hrBiolRep2LK20_CNhs13364_ctss_rev AorticSmsToFgf2_03hrBr2- Aortic smooth muscle cell response to FGF2, 03hr, biol_rep2 (LK20)_CNhs13364_12746-136A1_reverse Regulation 
AorticSmoothMuscleCellResponseToFGF203hrBiolRep2LK20_CNhs13364_ctss_fwd AorticSmsToFgf2_03hrBr2+ Aortic smooth muscle cell response to FGF2, 03hr, biol_rep2 (LK20)_CNhs13364_12746-136A1_forward Regulation 
AorticSmoothMuscleCellResponseToFGF203hrBiolRep1LK19_CNhs13345_ctss_rev AorticSmsToFgf2_03hrBr1- Aortic smooth muscle cell response to FGF2, 03hr, biol_rep1 (LK19)_CNhs13345_12648-134H2_reverse Regulation 
AorticSmoothMuscleCellResponseToFGF203hrBiolRep1LK19_CNhs13345_ctss_fwd AorticSmsToFgf2_03hrBr1+ Aortic smooth muscle cell response to FGF2, 03hr, biol_rep1 (LK19)_CNhs13345_12648-134H2_forward Regulation 
AorticSmoothMuscleCellResponseToFGF202hrBiolRep3LK18_CNhs13572_ctss_rev AorticSmsToFgf2_02hrBr3- Aortic smooth muscle cell response to FGF2, 02hr, biol_rep3 (LK18)_CNhs13572_12843-137B8_reverse Regulation 
AorticSmoothMuscleCellResponseToFGF202hrBiolRep3LK18_CNhs13572_ctss_fwd AorticSmsToFgf2_02hrBr3+ Aortic smooth muscle cell response to FGF2, 02hr, biol_rep3 (LK18)_CNhs13572_12843-137B8_forward Regulation 
AorticSmoothMuscleCellResponseToFGF202hrBiolRep2LK17_CNhs13363_ctss_rev AorticSmsToFgf2_02hrBr2- Aortic smooth muscle cell response to FGF2, 02hr, biol_rep2 (LK17)_CNhs13363_12745-135I9_reverse Regulation 
AorticSmoothMuscleCellResponseToFGF202hrBiolRep2LK17_CNhs13363_ctss_fwd AorticSmsToFgf2_02hrBr2+ Aortic smooth muscle cell response to FGF2, 02hr, biol_rep2 (LK17)_CNhs13363_12745-135I9_forward Regulation 
AorticSmoothMuscleCellResponseToFGF202hrBiolRep1LK16_CNhs13344_ctss_rev AorticSmsToFgf2_02hrBr1- Aortic smooth muscle cell response to FGF2, 02hr, biol_rep1 (LK16)_CNhs13344_12647-134H1_reverse Regulation 
AorticSmoothMuscleCellResponseToFGF202hrBiolRep1LK16_CNhs13344_ctss_fwd AorticSmsToFgf2_02hrBr1+ Aortic smooth muscle cell response to FGF2, 02hr, biol_rep1 (LK16)_CNhs13344_12647-134H1_forward Regulation 
AorticSmoothMuscleCellResponseToFGF201hrBiolRep3LK15_CNhs13683_ctss_rev AorticSmsToFgf2_01hrBr3- Aortic smooth muscle cell response to FGF2, 01hr, biol_rep3 (LK15)_CNhs13683_12842-137B7_reverse Regulation 
AorticSmoothMuscleCellResponseToFGF201hrBiolRep3LK15_CNhs13683_ctss_fwd AorticSmsToFgf2_01hrBr3+ Aortic smooth muscle cell response to FGF2, 01hr, biol_rep3 (LK15)_CNhs13683_12842-137B7_forward Regulation 
AorticSmoothMuscleCellResponseToFGF201hrBiolRep1LK13_CNhs12741_ctss_rev AorticSmsToFgf2_01hrBr1- Aortic smooth muscle cell response to FGF2, 01hr, biol_rep1 (LK13)_CNhs12741_12646-134G9_reverse Regulation 
AorticSmoothMuscleCellResponseToFGF201hrBiolRep1LK13_CNhs12741_ctss_fwd AorticSmsToFgf2_01hrBr1+ Aortic smooth muscle cell response to FGF2, 01hr, biol_rep1 (LK13)_CNhs12741_12646-134G9_forward Regulation 
AorticSmoothMuscleCellResponseToFGF200hr45minBiolRep3LK12_CNhs13571_ctss_rev AorticSmsToFgf2_00hr45minBr3- Aortic smooth muscle cell response to FGF2, 00hr45min, biol_rep3 (LK12)_CNhs13571_12841-137B6_reverse Regulation 
AorticSmoothMuscleCellResponseToFGF200hr45minBiolRep3LK12_CNhs13571_ctss_fwd AorticSmsToFgf2_00hr45minBr3+ Aortic smooth muscle cell response to FGF2, 00hr45min, biol_rep3 (LK12)_CNhs13571_12841-137B6_forward Regulation 
AorticSmoothMuscleCellResponseToFGF200hr45minBiolRep2LK11_CNhs13361_ctss_rev AorticSmsToFgf2_00hr45minBr2- Aortic smooth muscle cell response to FGF2, 00hr45min, biol_rep2 (LK11)_CNhs13361_12743-135I7_reverse Regulation 
AorticSmoothMuscleCellResponseToFGF200hr45minBiolRep2LK11_CNhs13361_ctss_fwd AorticSmsToFgf2_00hr45minBr2+ Aortic smooth muscle cell response to FGF2, 00hr45min, biol_rep2 (LK11)_CNhs13361_12743-135I7_forward Regulation 
AorticSmoothMuscleCellResponseToFGF200hr45minBiolRep1LK10_CNhs13343_ctss_rev AorticSmsToFgf2_00hr45minBr1- Aortic smooth muscle cell response to FGF2, 00hr45min, biol_rep1 (LK10)_CNhs13343_12645-134G8_reverse Regulation 
AorticSmoothMuscleCellResponseToFGF200hr45minBiolRep1LK10_CNhs13343_ctss_fwd AorticSmsToFgf2_00hr45minBr1+ Aortic smooth muscle cell response to FGF2, 00hr45min, biol_rep1 (LK10)_CNhs13343_12645-134G8_forward Regulation 
AorticSmoothMuscleCellResponseToFGF200hr30minBiolRep3LK9_CNhs13569_ctss_rev AorticSmsToFgf2_00hr30minBr3- Aortic smooth muscle cell response to FGF2, 00hr30min, biol_rep3 (LK9)_CNhs13569_12840-137B5_reverse Regulation 
AorticSmoothMuscleCellResponseToFGF200hr30minBiolRep3LK9_CNhs13569_ctss_fwd AorticSmsToFgf2_00hr30minBr3+ Aortic smooth muscle cell response to FGF2, 00hr30min, biol_rep3 (LK9)_CNhs13569_12840-137B5_forward Regulation 
AorticSmoothMuscleCellResponseToFGF200hr30minBiolRep2LK8_CNhs13360_ctss_rev AorticSmsToFgf2_00hr30minBr2- Aortic smooth muscle cell response to FGF2, 00hr30min, biol_rep2 (LK8)_CNhs13360_12742-135I6_reverse Regulation 
AorticSmoothMuscleCellResponseToFGF200hr30minBiolRep2LK8_CNhs13360_ctss_fwd AorticSmsToFgf2_00hr30minBr2+ Aortic smooth muscle cell response to FGF2, 00hr30min, biol_rep2 (LK8)_CNhs13360_12742-135I6_forward Regulation 
AorticSmoothMuscleCellResponseToFGF200hr30minBiolRep1LK7_CNhs13341_ctss_rev AorticSmsToFgf2_00hr30minBr1- Aortic smooth muscle cell response to FGF2, 00hr30min, biol_rep1 (LK7)_CNhs13341_12644-134G7_reverse Regulation 
AorticSmoothMuscleCellResponseToFGF200hr30minBiolRep1LK7_CNhs13341_ctss_fwd AorticSmsToFgf2_00hr30minBr1+ Aortic smooth muscle cell response to FGF2, 00hr30min, biol_rep1 (LK7)_CNhs13341_12644-134G7_forward Regulation 
AorticSmoothMuscleCellResponseToFGF200hr15minBiolRep3LK6_CNhs13568_ctss_rev AorticSmsToFgf2_00hr15minBr3- Aortic smooth muscle cell response to FGF2, 00hr15min, biol_rep3 (LK6)_CNhs13568_12839-137B4_reverse Regulation 
AorticSmoothMuscleCellResponseToFGF200hr15minBiolRep3LK6_CNhs13568_ctss_fwd AorticSmsToFgf2_00hr15minBr3+ Aortic smooth muscle cell response to FGF2, 00hr15min, biol_rep3 (LK6)_CNhs13568_12839-137B4_forward Regulation 
AorticSmoothMuscleCellResponseToFGF200hr15minBiolRep2LK5_CNhs13359_ctss_rev AorticSmsToFgf2_00hr15minBr2- Aortic smooth muscle cell response to FGF2, 00hr15min, biol_rep2 (LK5)_CNhs13359_12741-135I5_reverse Regulation 
AorticSmoothMuscleCellResponseToFGF200hr15minBiolRep2LK5_CNhs13359_ctss_fwd AorticSmsToFgf2_00hr15minBr2+ Aortic smooth muscle cell response to FGF2, 00hr15min, biol_rep2 (LK5)_CNhs13359_12741-135I5_forward Regulation 
AorticSmoothMuscleCellResponseToFGF200hr15minBiolRep1LK4_CNhs13340_ctss_rev AorticSmsToFgf2_00hr15minBr1- Aortic smooth muscle cell response to FGF2, 00hr15min, biol_rep1 (LK4)_CNhs13340_12643-134G6_reverse Regulation 
AorticSmoothMuscleCellResponseToFGF200hr15minBiolRep1LK4_CNhs13340_ctss_fwd AorticSmsToFgf2_00hr15minBr1+ Aortic smooth muscle cell response to FGF2, 00hr15min, biol_rep1 (LK4)_CNhs13340_12643-134G6_forward Regulation 
AorticSmoothMuscleCellResponseToFGF200hr00minBiolRep2LK2_CNhs13358_ctss_rev AorticSmsToFgf2_00hr00minBr2- Aortic smooth muscle cell response to FGF2, 00hr00min, biol_rep2 (LK2)_CNhs13358_12740-135I4_reverse Regulation 
AorticSmoothMuscleCellResponseToFGF200hr00minBiolRep2LK2_CNhs13358_ctss_fwd AorticSmsToFgf2_00hr00minBr2+ Aortic smooth muscle cell response to FGF2, 00hr00min, biol_rep2 (LK2)_CNhs13358_12740-135I4_forward Regulation 
AorticSmoothMuscleCellResponseToFGF200hr00minBiolRep1LK1_CNhs13339_ctss_rev AorticSmsToFgf2_00hr00minBr1- Aortic smooth muscle cell response to FGF2, 00hr00min, biol_rep1 (LK1)_CNhs13339_12642-134G5_reverse Regulation 
AorticSmoothMuscleCellResponseToFGF200hr00minBiolRep1LK1_CNhs13339_ctss_fwd AorticSmsToFgf2_00hr00minBr1+ Aortic smooth muscle cell response to FGF2, 00hr00min, biol_rep1 (LK1)_CNhs13339_12642-134G5_forward Regulation 
cpgIslandExtUnmasked Unmasked CpG CpG Islands on All Sequence (Islands < 300 Bases are Light Green) Regulation Description CpG islands are associated with genes, particularly housekeeping genes, in vertebrates. CpG islands are typically common near transcription start sites and may be associated with promoter regions. Normally a C (cytosine) base followed immediately by a G (guanine) base (a CpG) is rare in vertebrate DNA because the Cs in such an arrangement tend to be methylated. This methylation helps distinguish the newly synthesized DNA strand from the parent strand, which aids in the final stages of DNA proofreading after duplication. However, over evolutionary time, methylated Cs tend to turn into Ts because of spontaneous deamination. The result is that CpGs are relatively rare unless there is selective pressure to keep them or a region is not methylated for some other reason, perhaps having to do with the regulation of gene expression. CpG islands are regions where CpGs are present at significantly higher levels than is typical for the genome as a whole. The unmasked version of the track displays potential CpG islands that exist in repeat regions and would otherwise not be visible in the repeat masked version. By default, only the masked version of the track is displayed. To view the unmasked version, change the visibility settings in the track controls at the top of this page. Methods CpG islands were predicted by searching the sequence one base at a time, scoring each dinucleotide (+17 for CG and -1 for others) and identifying maximally scoring segments. Each segment was then evaluated for the following criteria: GC content of 50% or greater length greater than 200 bp ratio greater than 0.6 of observed number of CG dinucleotides to the expected number on the basis of the number of Gs and Cs in the segment The entire genome sequence, masking areas included, was used for the construction of the track Unmasked CpG. The track CpG Islands is constructed on the sequence after all masked sequence is removed. The CpG count is the number of CG dinucleotides in the island. The Percentage CpG is the ratio of CpG nucleotide bases (twice the CpG count) to the length. The ratio of observed to expected CpG is calculated according to the formula (cited in Gardiner-Garden et al. (1987)): Obs/Exp CpG = Number of CpG * N / (Number of C * Number of G) where N = length of sequence. The calculation of the track data is performed by the following command sequence: twoBitToFa assembly.2bit stdout | maskOutFa stdin hard stdout \ | cpg_lh /dev/stdin 2&gt; cpg_lh.err \ | awk '{&dollar;2 = &dollar;2 - 1; width = &dollar;3 - &dollar;2; printf("%s\t%d\t%s\t%s %s\t%s\t%s\t%0.0f\t%0.1f\t%s\t%s\n", &dollar;1, &dollar;2, &dollar;3, &dollar;5, &dollar;6, width, &dollar;6, width*&dollar;7*0.01, 100.0*2*&dollar;6/width, &dollar;7, &dollar;9);}' \ | sort -k1,1 -k2,2n &gt; cpgIsland.bed The unmasked track data is constructed from twoBitToFa -noMask output for the twoBitToFa command. Data access CpG islands and its associated tables can be explored interactively using the REST API, the Table Browser or the Data Integrator. All the tables can also be queried directly from our public MySQL servers, with more information available on our help page as well as on our blog. The source for the cpg_lh program can be obtained from src/utils/cpgIslandExt/. The cpg_lh program binary can be obtained from: http://hgdownload.soe.ucsc.edu/admin/exe/linux.x86_64/cpg_lh (choose "save file") Credits This track was generated using a modification of a program developed by G. Micklem and L. Hillier (unpublished). References Gardiner-Garden M, Frommer M. CpG islands in vertebrate genomes. J Mol Biol. 1987 Jul 20;196(2):261-82. PMID: 3656447 
cons241way Zoonomia 241 Placent Zoonomia Alignment - 241 Placental Mammal Genomes aligned by the Zoonomia Project with Cactus Comparative Genomics Downloads for data in this track are available: Cactus alignments (MAF format), and phylogenetic trees, and PhyloP conservation (WIG and bigWig format) Description Warning: Unlike other alignment tracks on the genome browser, this one does not show insertions in the query genomes. Also, all other alignment tracks show one query genome sequence for each target genome sequence, but in this track, each target genome sequence can be aligned to multiple query genome sequences. Only the first sequence is shown on the genome browser itself, the others are shown on the details page, when one clicks on the alignment. If you are interested in this track and want these shortcomings to be fixed, please contact us. This track shows multiple alignments of 241 vertebrate species and measurements of evolutionary conservation from the Zoonomia Project. The multiple alignments were generated using the Cactus comparative genomics alignment system. Cactus produces reference-free, whole-genome multiple alignments. The base-wise conservation scores are computed using phyloP from the PHAST package, for all species. This version was prepared by Michael Dong (Uppsala U) with an improved neutral model incorporating better versions of ancestral repeats. For genome assemblies not available in the genome browser, there are alternative assembly hub genome browsers. Missing sequence in any assembly is highlighted in the track display by regions of yellow when zoomed out and by Ns when displayed at base level (see Gap Annotation, below). count commonname CLADE group scientificname sequencingsource NCBIassembly speciesstatus 1 Cape golden mole AFROSORICIDA Chrysochloridae Chrysochloris asiatica 1. Zoonomia GCA_004027935.1 LC 2 Small madagascar hedgehog AFROSORICIDA Tenrecidae Echinops telfairi 2. Existing assembly GCF_000313985.1 LC 3 Talazac's shrew tenrec AFROSORICIDA Tenrecidae Microgale talazaci 1. Zoonomia GCA_004026705.1 LC 4 Cheetah CARNIVORA Felidae Acinonyx jubatus 2. Existing assembly GCF_001443585.1 CR 5 Giant panda CARNIVORA Ursidae Ailuropoda melanoleuca 2. Existing assembly GCA_002007445.1 VU 6 Lesser panda CARNIVORA Ailuridae Ailurus fulgens 2. Existing assembly GCA_002007465.1 EN 7 Domestic dog CARNIVORA Canidae Canis lupus familiaris 2. Existing assembly GCF_000002285.3 LC 8 Domestic dog (village dog) CARNIVORA Canidae Canis lupus familiaris 1. Zoonomia GCA_004027395.1 LC 9 Fossa CARNIVORA Eupleridae Cryptoprocta ferox 1. Zoonomia GCA_004023885.1 VU 10 Sea otter CARNIVORA Mustelidae Enhydra lutris 2. Existing assembly GCF_002288905.1 EN 11 Domestic cat CARNIVORA Felidae Felis catus 2. Existing assembly GCF_000181335.2 LC 12 Black-footed cat CARNIVORA Felidae Felis nigripes 1. Zoonomia GCA_004023925.1 VU 13 Dwarf mongoose CARNIVORA Herpestidae Helogale parvula 1. Zoonomia GCA_004023845.1 LC 14 Striped hyena CARNIVORA Hyaenidae Hyaena hyaena 1. Zoonomia GCA_004023945.1 NT 15 Weddell seal CARNIVORA Phocidae Leptonychotes weddellii 2. Existing assembly GCF_000349705.1 LC 16 African hunting dog CARNIVORA Canidae Lycaon pictus 2. Existing assembly GCA_001887905.1 EN 17 Honey badger CARNIVORA Mustelidae Mellivora capensis 1. Zoonomia GCA_004024625.1 LC 18 Northern elephant seal CARNIVORA Phocidae Mirounga angustirostris 1. Zoonomia GCA_004023865.1 LC 19 South African banded mongoose CARNIVORA Herpestidae Mungos mungo 1. Zoonomia GCA_004023785.1 LC 20 Domestic ferret CARNIVORA Mustelidae Mustela putorius 2. Existing assembly GCF_000239315.1 LC 21 Hawaiian monk seal CARNIVORA Phocidae Neomonachus schauinslandi 2. Existing assembly GCA_002201575.1 EN 22 Pacific walrus CARNIVORA Odobenidae Odobenus rosmarus 2. Existing assembly GCF_000321225.1 DD 23 Jaguar CARNIVORA Felidae Panthera onca 1. Zoonomia GCA_004023805.1 NT 24 Leopard CARNIVORA Felidae Panthera pardus 2. Existing assembly GCA_001857705.1 VU 25 Amur tiger CARNIVORA Felidae Panthera tigris 2. Existing assembly GCF_000464555.1 EN 26 Asian palm civet CARNIVORA Viverridae Paradoxurus hermaphroditus 1. Zoonomia GCA_004024585.1 LC 27 Giant otter CARNIVORA Mustelidae Pteronura brasiliensis 1. Zoonomia GCA_004024605.1 EN 28 Puma CARNIVORA Felidae Puma concolor 2. Existing assembly GCF_003327715.1 LC 29 Western spotted skunk CARNIVORA Mephitidae Spilogale gracilis 1. Zoonomia GCA_004023965.1 LC 30 Meerkat CARNIVORA Herpestidae Suricata suricatta 1. Zoonomia GCA_004023905.1 LC 31 Polar bear CARNIVORA Ursidae Ursus maritimus 2. Existing assembly GCF_000687225.1 VU 32 Arctic fox CARNIVORA Canidae Vulpes lagopus 1. Zoonomia GCA_004023825.1 LC 33 California sea lion CARNIVORA Otariidae Zalophus californianus 1. Zoonomia GCA_004024565.1 LC 34 Aoudad CETARTIODACTYLA Bovidae Ammotragus lervia 2. Existing assembly GCA_002201775.1 VU 35 Pronghorn CETARTIODACTYLA Antilocapridae Antilocapra americana 1. Zoonomia GCA_004027515.1 LC 36 Minke whale CETARTIODACTYLA Balaenopteridae Balaenoptera acutorostrata 2. Existing assembly GCF_000493695.1 LC 37 Antarctic minke whale CETARTIODACTYLA Balaenopteridae Balaenoptera bonaerensis 2. Existing assembly GCA_000978805.1 DD 38 Hirola CETARTIODACTYLA Bovidae Beatragus hunteri 1. Zoonomia GCA_004027495.1 CR 39 American bison CETARTIODACTYLA Bovidae Bison bison 2. Existing assembly GCF_000754665.1 NT 40 Zebu cattle CETARTIODACTYLA Bovidae Bos indicus 2. Existing assembly GCA_000247795.2 LC 41 Wild yak CETARTIODACTYLA Bovidae Bos mutus 2. Existing assembly GCF_000298355.1 VU 42 Cattle CETARTIODACTYLA Bovidae Bos taurus 2. Existing assembly GCF_000003205.7 LC 43 Water buffalo CETARTIODACTYLA Bovidae Bubalus bubalis 2. Existing assembly GCF_000471725.1 LC 44 Bactrian camel CETARTIODACTYLA Camelidae Camelus bactrianus 2. Existing assembly GCF_000767855.1 LC 45 Arabian camel CETARTIODACTYLA Camelidae Camelus dromedarius 2. Existing assembly GCF_000767585.1 LC 46 Wild bactrian camel CETARTIODACTYLA Camelidae Camelus ferus 2. Existing assembly GCF_000311805.1 CR 47 Wild goat CETARTIODACTYLA Bovidae Capra aegagrus 2. Existing assembly GCA_000978405.1 VU 48 Goat CETARTIODACTYLA Bovidae Capra hircus 2. Existing assembly GCF_001704415.1 LC 49 Chacoan peccary CETARTIODACTYLA Tayassuidae Catagonus wagneri 1. Zoonomia GCA_004024745.1 EN 50 Beluga whale CETARTIODACTYLA Monodontidae Delphinapterus leucas 2. Existing assembly GCF_002288925.1 LC 51 Pere david's deer CETARTIODACTYLA Cervidae Elaphurus davidianus 2. Existing assembly GCA_002443075.1 CR 52 Grey whale CETARTIODACTYLA Eschrichtiidae Eschrichtius robustus 1. Zoonomia GCA_004363415.1 LC 53 North Pacific right whale CETARTIODACTYLA Balaenidae Eubalaena japonica 1. Zoonomia GCA_004363455.1 EN 54 Giraffe CETARTIODACTYLA Giraffidae Giraffa tippelskirchi 2. Existing assembly GCA_001651235.1 VU 55 Nilgiri tahr CETARTIODACTYLA Bovidae Hemitragus hylocrius 1. Zoonomia GCA_004026825.1 EN 56 Hippopotamus CETARTIODACTYLA Hippopotamidae Hippopotamus amphibius 1. Zoonomia GCA_004027065.1 VU 57 Amazon river dolphin CETARTIODACTYLA Iniidae Inia geoffrensis 1. Zoonomia GCA_004363515.1 DD 58 Pygmy sperm whale CETARTIODACTYLA Physeteridae Kogia breviceps 1. Zoonomia GCA_004363705.1 DD 59 Yangtze river dolphin CETARTIODACTYLA Iniidae Lipotes vexillifer 2. Existing assembly GCF_000442215.1 CR 60 Sowerby's beaked whale CETARTIODACTYLA Ziphiidae Mesoplodon bidens 1. Zoonomia GCA_004027085.1 DD 61 Narwhal CETARTIODACTYLA Monodontidae Monodon monoceros 1. Zoonomia GCA_004026685.1 LC 62 Siberian musk deer CETARTIODACTYLA Moschidae Moschus moschiferus 1. Zoonomia GCA_004024705.1 VU 63 Yangtze finless porpoise CETARTIODACTYLA Phocoenidae Neophocaena asiaeorientalis 2. Existing assembly GCA_003031525.1 EN 64 White-tailed deer CETARTIODACTYLA Cervidae Odocoileus virginianus 2. Existing assembly GCA_002102435.1 LC 65 Okapi CETARTIODACTYLA Giraffidae Okapia johnstoni 2. Existing assembly GCA_001660835.1 EN 66 Killer whale CETARTIODACTYLA Delphinidae Orcinus orca 2. Existing assembly GCF_000331955.2 DD 67 Sheep CETARTIODACTYLA Bovidae Ovis aries 2. Existing assembly GCF_000298735.2 LC 68 Peninsular bighorn sheep CETARTIODACTYLA Bovidae Ovis canadensis cremnobates 1. Zoonomia GCA_004026945.1 EN 69 Chiru CETARTIODACTYLA Bovidae Pantholops hodgsonii 2. Existing assembly GCF_000400835.1 NT 70 Harbor porpoise CETARTIODACTYLA Phocoenidae Phocoena phocoena 1. Zoonomia GCA_004363495.1 LC 71 Indus river dolphin CETARTIODACTYLA Platanistidae Platanista gangetica minor 1. Zoonomia GCA_004363435.1 EN 72 Siberian reindeer CETARTIODACTYLA Cervidae Rangifer tarandus 1. Zoonomia GCA_004026565.1 VU 73 Russian saiga CETARTIODACTYLA Bovidae Saiga tatarica tatarica 1. Zoonomia GCA_004024985.1 CR 74 Pig CETARTIODACTYLA Suidae Sus scrofa 2. Existing assembly GCF_000003025.5 LC 75 Java lesser chevrotain CETARTIODACTYLA Tragulidae Tragulus javanicus 1. Zoonomia GCA_004024965.1 DD 76 Bottlenose dolphin CETARTIODACTYLA Delphinidae Tursiops truncatus 2. Existing assembly GCA_001922835.1 LC 77 Alpaca CETARTIODACTYLA Camelidae Vicugna pacos 2. Existing assembly GCA_000767525.1 LC 78 Cuvier's beaked whale CETARTIODACTYLA Ziphiidae Ziphius cavirostris 1. Zoonomia GCA_004364475.1 LC 79 Tailed tailless bat CHIROPTERA Phyllostomidae Anoura caudifer 1. Zoonomia GCA_004027475.1 LC 80 Jamacian fruit-eating bat CHIROPTERA Phyllostomidae Artibeus jamaicensis 1. Zoonomia GCA_004027435.1 LC 81 Seba's short-tailed bat CHIROPTERA Phyllostomidae Carollia perspicillata 1. Zoonomia GCA_004027735.1 LC 82 Bumblebee bat CHIROPTERA Craseonycteridae Craseonycteris thonglongyai 1. Zoonomia GCA_004027555.1 VU 83 Common vampire bat CHIROPTERA Phyllostomidae Desmodus rotundus 2. Existing assembly GCA_002940915.2 LC 84 Straw-colored fruit bat CHIROPTERA Pteropodidae Eidolon helvum 2. Existing assembly GCA_000465285.1 NT 85 Big brown bat CHIROPTERA Vespertilionidae Eptesicus fuscus 2. Existing assembly GCF_000308155.1 LC 86 Great roundleaf bat CHIROPTERA Hipposideridae Hipposideros armiger 2. Existing assembly GCA_001890085.1 LC 87 Cantor's leaf-nosed bat CHIROPTERA Hipposideridae Hipposideros galeritus 1. Zoonomia GCA_004027415.1 LC 88 Eastern red bat CHIROPTERA Vespertilionidae Lasiurus borealis 1. Zoonomia GCA_004026805.1 LC 89 Long-tongued fruit bat CHIROPTERA Pteropodidae Macroglossus sobrinus 1. Zoonomia GCA_004027375.1 LC 90 Greater false vampire bat CHIROPTERA Megadermatidae Megaderma lyra 1. Zoonomia GCA_004026885.1 LC 91 Hairy big-eared bat CHIROPTERA Phyllostomidae Micronycteris hirsuta 1. Zoonomia GCA_004026765.1 LC 92 Natal long-fingered bat CHIROPTERA Vespertilionidae Miniopterus natalensis 2. Existing assembly GCF_001595765.1 LC 93 Common bent-wing bat CHIROPTERA Vespertilionidae Miniopterus schreibersii 1. Zoonomia GCA_004026525.1 NT 94 Ghost-faced bat CHIROPTERA Mormoopidae Mormoops blainvillei 1. Zoonomia GCA_004026545.1 LC 95 Ashy-gray tube-nosed bat CHIROPTERA Vespertilionidae Murina feae 1. Zoonomia GCA_004026665.1 LC 96 Brandt's bat CHIROPTERA Vespertilionidae Myotis brandtii 2. Existing assembly GCF_000412655.1 LC 97 David's myotis bat CHIROPTERA Vespertilionidae Myotis davidii 2. Existing assembly GCF_000327345.1 LC 98 Little brown bat CHIROPTERA Vespertilionidae Myotis lucifugus 2. Existing assembly GCF_000147115.1 LC 99 Greater mouse-eared bat CHIROPTERA Vespertilionidae Myotis myotis 1. Zoonomia GCA_004026985.1 LC 100 Greater bulldog bat CHIROPTERA Noctilionidae Noctilio leporinus 1. Zoonomia GCA_004026585.1 LC 101 Common pipistrelle CHIROPTERA Vespertilionidae Pipistrellus pipistrellus 1. Zoonomia GCA_004026625.1 LC 102 Parnell's mustached bat CHIROPTERA Mormoopidae Pteronotus parnellii 2. Existing assembly GCA_000465405.1 LC 103 Black flying fox CHIROPTERA Pteropodidae Pteropus alecto 2. Existing assembly GCF_000325575.1 LC 104 Large flying fox CHIROPTERA Pteropodidae Pteropus vampyrus 2. Existing assembly GCF_000151845.1 NT 105 Chinese rufous horseshoe bat CHIROPTERA Rhinolophidae Rhinolophus sinicus 2. Existing assembly GCA_001888835.1 LC 106 Egyptian fruit bat CHIROPTERA Pteropodidae Rousettus aegyptiacus 1. Zoonomia GCA_004024865.1 LC 107 Mexican free-tailed bat CHIROPTERA Molossidae Tadarida brasiliensis 1. Zoonomia GCA_004025005.1 LC 108 Stripe-headed round-eared bat CHIROPTERA Phyllostomidae Tonatia saurophila 1. Zoonomia GCA_004024845.1 LC 109 Screaming hairy armadillo CINGULATA Dasypodidae Chaetophractus vellerosus 1. Zoonomia GCA_004027955.1 LC 110 Nine-banded armadillo CINGULATA Dasypodidae Dasypus novemcinctus 2. Existing assembly GCF_000208655.1 LC 111 Southern three-banded armadillo CINGULATA Dasypodidae Tolypeutes matacus 1. Zoonomia GCA_004025125.1 NT 112 Sunda flying lemur DERMOPTERA Cynocephalidae Galeopterus variegatus 1. Zoonomia GCA_004027255.1 LC 113 Star-nosed mole EULIPOTYPHLA Talpidae Condylura cristata 2. Existing assembly GCF_000260355.1 LC 114 Indochinese shrew EULIPOTYPHLA Soricidae Crocidura indochinensis 1. Zoonomia GCA_004027635.1 LC 115 Western european hedgehog EULIPOTYPHLA Erinaceidae Erinaceus europaeus 2. Existing assembly GCF_000296755.1 LC 116 Eastern mole EULIPOTYPHLA Talpidae Scalopus aquaticus 1. Zoonomia GCA_004024925.1 LC 117 Hispaniolan solenodon EULIPOTYPHLA Solenodontidae Solenodon paradoxus 1. Zoonomia GCA_004363575.1 EN 118 European shrew EULIPOTYPHLA Soricidae Sorex araneus 2. Existing assembly GCF_000181275.1 LC 119 Gracile shrew-like mole EULIPOTYPHLA Talpidae Uropsilus gracilis 1. Zoonomia GCA_004024945.1 LC 120 African yellow-spotted rock hyrax HYRACOIDEA Procaviidae Heterohyrax brucei 1. Zoonomia GCA_004026845.1 LC 121 South African rock hyrax HYRACOIDEA Procaviidae Procavia capensis 1. Zoonomia GCA_004026925.1 LC 122 Snowshoe hare LAGOMORPHA Leporidae Lepus americanus 1. Zoonomia GCA_004026855.1 LC 123 American pika LAGOMORPHA Ochotonidae Ochotona princeps 2. Existing assembly GCF_000292845.1 LC 124 Rabbit LAGOMORPHA Leporidae Oryctolagus cuniculus 2. Existing assembly GCF_000003625.3 NT 125 Cape elephant shrew MACROSCELIDEA Macroscelididae Elephantulus edwardii 1. Zoonomia GCA_004027355.1 LC 126 Southern white rhinoceros PERISSODACTYLA Rhinocerotidae Ceratotherium simum 2. Existing assembly GCF_000283155.1 NT 127 Northern white rhino PERISSODACTYLA Rhinocerotidae Ceratotherium simum cottoni 1. Zoonomia GCA_004027795.1 CR 128 Sumatran rhinoceros PERISSODACTYLA Rhinocerotidae Dicerorhinus sumatrensis 2. Existing assembly GCA_002844835.1 CR 129 Black rhinocerous PERISSODACTYLA Rhinocerotidae Diceros bicornis 1. Zoonomia GCA_004027315.1 CR 130 Ass PERISSODACTYLA Equidae Equus asinus 2. Existing assembly GCF_001305755.1 LC 131 Horse PERISSODACTYLA Equidae Equus caballus 2. Existing assembly GCF_000002305.2 LC 132 Przewalski's horse PERISSODACTYLA Equidae Equus przewalskii 2. Existing assembly GCF_000696695.1 EN 133 Malayan tapir PERISSODACTYLA Tapiridae Tapirus indicus 1. Zoonomia GCA_004024905.1 EN 134 South American tapir PERISSODACTYLA Tapiridae Tapirus terrestris 1. Zoonomia GCA_004025025.1 VU 135 Malayan pangolin PHOLIDOTA Manidae Manis javanica 2. Existing assembly GCF_001685135.1 CR 136 Chinese pangolin PHOLIDOTA Manidae Manis pentadactyla 2. Existing assembly GCA_000738955.1 CR 137 Linnaeus's two toed sloth PILOSA Megalonychidae Choloepus didactylus 1. Zoonomia GCA_004027855.1 LC 138 Hoffmann's two-fingered sloth PILOSA Megalonychidae Choloepus hoffmanni 2. Existing assembly GCA_000164785.2 LC 139 Giant anteater PILOSA Myrmecophagidae Myrmecophaga tridactyla 1. Zoonomia GCA_004026745.1 VU 140 Southern tamandua PILOSA Myrmecophagidae Tamandua tetradactyla 1. Zoonomia GCA_004025105.1 LC 141 Mexican howler monkey PRIMATES Atelidae Alouatta palliata mexicana 1. Zoonomia GCA_004027835.1 CR 142 Ma's night monkey PRIMATES Aotidae Aotus nancymaae 2. Existing assembly GCA_000952055.2 VU 143 Geoffroy's spider monkey PRIMATES Atelidae Ateles geoffroyi 1. Zoonomia GCA_004024785.1 EN 144 White-eared titi PRIMATES Pitheciidae Callicebus donacophilus 1. Zoonomia GCA_004027715.1 LC 145 White-tufted-ear marmoset PRIMATES Cebidae Callithrix jacchus 2. Existing assembly GCA_002754865.1 LC 146 White-fronted capuchin PRIMATES Cebidae Cebus albifrons 1. Zoonomia GCA_004027755.1 LC 147 White-faced sapajou PRIMATES Cebidae Cebus capucinus 2. Existing assembly GCF_001604975.1 LC 148 Sooty mangabey PRIMATES Cercopithecidae Cercocebus atys 2. Existing assembly GCF_000955945.1 NT 149 De brazza's monkey PRIMATES Cercopithecidae Cercopithecus neglectus 1. Zoonomia GCA_004027615.1 LC 150 Fat-tailed dwarf lemur PRIMATES Cheirogaleidae Cheirogaleus medius 1. Zoonomia GCA_004024725.1 LC 151 Green monkey PRIMATES Cercopithecidae Chlorocebus sabaeus 2. Existing assembly GCF_000409795.2 LC 152 Angolan colobus PRIMATES Cercopithecidae Colobus angolensis 2. Existing assembly GCF_000951035.1 VU 153 Aye-aye PRIMATES Daubentoniidae Daubentonia madagascariensis 1. Zoonomia GCA_004027145.1 EN 154 Patas monkey PRIMATES Cercopithecidae Erythrocebus patas 1. Zoonomia GCA_004027335.1 LC 155 Sclater's lemur PRIMATES Lemuridae Eulemur flavifrons 2. Existing assembly GCA_001262665.1 CR 156 Common brown lemur PRIMATES Lemuridae Eulemur fulvus 1. Zoonomia GCA_004027275.1 NT 157 Western lowland gorilla PRIMATES Hominidae Gorilla gorilla 2. Existing assembly GCA_900006655.3 CR 158 Human PRIMATES Hominidae Homo sapiens 2. Existing assembly GCA_000001405.27 LC 159 Indri PRIMATES Indridae Indri indri 1. Zoonomia GCA_004363605.1 CR 160 Ring tailed lemur PRIMATES Lemuridae Lemur catta 1. Zoonomia GCA_004024665.1 EN 161 Crab-eating macaque PRIMATES Cercopithecidae Macaca fascicularis 2. Existing assembly GCF_000364345.1 DD 162 Rhesus monkey PRIMATES Cercopithecidae Macaca mulatta 2. Existing assembly GCF_000772875.2 LC 163 Pig-tailed macaque PRIMATES Cercopithecidae Macaca nemestrina 2. Existing assembly GCF_000956065.1 VU 164 Drill PRIMATES Cercopithecidae Mandrillus leucophaeus 2. Existing assembly GCF_000951045.1 EN 165 Gray mouse lemur PRIMATES Cheirogaleidae Microcebus murinus 2. Existing assembly GCA_000165445.3 LC 166 Coquerel's giant mouse lemur PRIMATES Cheirogaleidae Mirza coquereli 1. Zoonomia GCA_004024645.1 EN 167 Proboscis monkey PRIMATES Cercopithecidae Nasalis larvatus 1. Zoonomia GCA_004027105.1 EN 168 Northern white-cheeked gibbon PRIMATES Hylobatidae Nomascus leucogenys 2. Existing assembly GCF_000146795.2 CR 169 Sunda slow loris PRIMATES Lorisidae Nycticebus coucang 1. Zoonomia GCA_004027815.1 VU 170 Small-eared galago PRIMATES Galagidae Otolemur garnettii 2. Existing assembly GCF_000181295.1 LC 171 Pygmy chimpanzee PRIMATES Hominidae Pan paniscus 2. Existing assembly GCF_000258655.2 EN 172 Chimpanzee PRIMATES Hominidae Pan troglodytes 2. Existing assembly GCA_002880755.3 EN 173 Olive baboon PRIMATES Cercopithecidae Papio anubis 2. Existing assembly GCA_000264685.2 LC 174 Ugandan red colobus PRIMATES Cercopithecidae Piliocolobus tephrosceles 2. Existing assembly GCA_002776525.1 EN 175 White-faced saki PRIMATES Pitheciidae Pithecia pithecia 1. Zoonomia GCA_004026645.1 LC 176 Sumatran orangutan PRIMATES Hominidae Pongo abelii 2. Existing assembly GCA_002880775.3 CR 177 Coquerel's sifaka PRIMATES Indridae Propithecus coquereli 2. Existing assembly GCF_000956105.1 EN 178 Red-shanked douc PRIMATES Cercopithecidae Pygathrix nemaeus 1. Zoonomia GCA_004024825.1 EN 179 Black snub-nosed monkey PRIMATES Cercopithecidae Rhinopithecus bieti 2. Existing assembly GCF_001698545.1 EN 180 Golden snub-nosed monkey PRIMATES Cercopithecidae Rhinopithecus roxellana 2. Existing assembly GCF_000769185.1 EN 181 Emperor tamarin PRIMATES Cebidae Saguinus imperator 1. Zoonomia GCA_004024885.1 LC 182 Bolivian squirrel monkey PRIMATES Cebidae Saimiri boliviensis 2. Existing assembly GCF_000235385.1 LC 183 Northern Plains gray langur PRIMATES Cercopithecidae Semnopithecus entellus 1. Zoonomia GCA_004025065.1 LC 184 African savanna elephant PROBOSCIDEA Elephantidae Loxodonta Africana 2. Existing assembly GCF_000001905.1 VU 185 Cairo spiny mouse RODENTIA Muridae Acomys cahirinus 1. Zoonomia GCA_004027535.1 LC 186 Gobi jerboa RODENTIA Dipodidae Allactaga bullata 1. Zoonomia GCA_004027895.1 LC 187 Mountain beaver RODENTIA Aplodontiidae Aplodontia rufa 1. Zoonomia GCA_004027875.1 LC 188 Desmarest's hutia RODENTIA Capromyidae Capromys pilorides 1. Zoonomia GCA_004027915.1 LC 189 North American beaver RODENTIA Castoridae Castor canadensis 1. Zoonomia GCA_004027675.1 LC 190 Brazilian guinea pig RODENTIA Caviidae Cavia aperea 2. Existing assembly GCA_000688575.1 LC 191 Domestic guinea pig RODENTIA Caviidae Cavia porcellus 2. Existing assembly GCF_000151735.1 LC 192 Montane guinea pig RODENTIA Caviidae Cavia tschudii 1. Zoonomia GCA_004027695.1 LC 193 Long-tailed chinchilla RODENTIA Chinchillidae Chinchilla lanigera 2. Existing assembly GCF_000276665.1 EN 194 Gambian pouched rat RODENTIA Nesomyidae Cricetomys gambianus 1. Zoonomia GCA_004027575.1 LC 195 Chinese hamster RODENTIA Nesomyidae Cricetulus griseus 2. Existing assembly GCA_900186095.1 LC 196 Common gundi RODENTIA Ctenodactylidae Ctenodactylus gundi 1. Zoonomia GCA_004027205.1 LC 197 Social tuco-tuco RODENTIA Ctenomyidae Ctenomys sociabilis 1. Zoonomia GCA_004027165.1 CR 198 Lowland paca RODENTIA Cuniculidae Cuniculus paca 1. Zoonomia GCA_004365215.1 LC 199 Central American agouti RODENTIA Dasyproctidae Dasyprocta punctata 1. Zoonomia GCA_004363535.1 LC 200 Pacarana RODENTIA Dinomyidae Dinomys branickii 1. Zoonomia GCA_004027595.1 LC 201 Ord's kangaroo rat RODENTIA Heteromyidae Dipodomys ordii 2. Existing assembly GCF_000151885.1 LC 202 Stephen's kangaroo rat RODENTIA Heteromyidae Dipodomys stephensi 1. Zoonomia GCA_004024685.1 VU 203 Patagonian mara RODENTIA Caviidae Dolichotis patagonum 1. Zoonomia GCA_004027295.1 NT 204 Transcaucasian mole vole RODENTIA Cricetidae Ellobius lutescens 2. Existing assembly GCA_001685075.1 LC 205 Northern mole vole RODENTIA Cricetidae Ellobius talpinus 2. Existing assembly GCA_001685095.1 LC 206 Damara mole-rat RODENTIA Bathyergidae Fukomys damarensis 2. Existing assembly GCF_000743615.1 LC 207 Edible dormouse RODENTIA Gliridae Glis glis 1. Zoonomia GCA_004027185.1 LC 208 Woodland doormouse RODENTIA Gliridae Graphiurus murinus 1. Zoonomia GCA_004027655.1 LC 209 Naked mole-rat RODENTIA Bathyergidae Heterocephalus glaber 2. Existing assembly GCF_000247695.1 LC 210 Capybara RODENTIA Caviidae Hydrochoerus hydrochaeris 1. Zoonomia GCA_004027455.1 LC 211 Northern crested porcupine RODENTIA Hystricidae Hystrix cristata 1. Zoonomia GCA_004026905.1 LC 212 Thirteen-lined ground squirrel RODENTIA Sciuridae Ictidomys tridecemlineatus 2. Existing assembly GCF_000236235.1 LC 213 Lesser egyptian jerboa RODENTIA Dipodidae Jaculus jaculus 2. Existing assembly GCF_000280705.1 LC 214 Alpine marmot RODENTIA Sciuridae Marmota marmota 2. Existing assembly GCF_001458135.1 LC 215 Mongolian jird RODENTIA Muridae Meriones unguiculatus 1. Zoonomia GCA_004026785.1 LC 216 Golden hamster RODENTIA Cricetidae Mesocricetus auratus 2. Existing assembly GCF_000349665.1 VU 217 Prairie vole RODENTIA Cricetidae Microtus ochrogaster 2. Existing assembly GCF_000317375.1 LC 218 Ryukyu mouse RODENTIA Muridae Mus caroli 2. Existing assembly GCA_900094665.2 LC 219 House mouse RODENTIA Muridae Mus musculus 2. Existing assembly GCF_000001635.26 LC 220 Shrew mouse RODENTIA Muridae Mus pahari 2. Existing assembly GCA_900095145.2 LC 221 Western wild mouse RODENTIA Muridae Mus spretus 2. Existing assembly GCA_001624865.1 LC 222 Hazel dormouse RODENTIA Gliridae Muscardinus avellanarius 1. Zoonomia GCA_004027005.1 LC 223 Coypu RODENTIA Myocastoridae Myocastor coypus 1. Zoonomia GCA_004027025.1 LC 224 Upper galilee mountains blind mole rat RODENTIA Spalacidae Nannospalax galili 2. Existing assembly GCF_000622305.1 DD 225 Degu RODENTIA Octodontidae Octodon degus 2. Existing assembly GCF_000260255.1 LC 226 Muskrat RODENTIA Cricetidae Ondatra zibethicus 1. Zoonomia GCA_004026605.1 LC 227 Scorpion mouse RODENTIA Cricetidae Onychomys torridus 1. Zoonomia GCA_004026725.1 LC 228 Pacific pocket mouse RODENTIA Heteromyidae Perognathus longimembris pacificus 1. Zoonomia GCA_004363475.1 LC 229 Prairie deer mouse RODENTIA Cricetidae Peromyscus maniculatus 2. Existing assembly GCF_000500345.1 LC 230 Dassie rat RODENTIA Petromuridae Petromus typicus 1. Zoonomia GCA_004026965.1 LC 231 Fat sand rat RODENTIA Muridae Psammomys obesus 2. Existing assembly GCA_002215935.1 LC 232 Norway rat RODENTIA Muridae Rattus norvegicus 2. Existing assembly GCF_000001895.5 LC 233 Hispid cotton rat RODENTIA Cricetidae Sigmodon hispidus 1. Zoonomia GCA_004025045.1 LC 234 Daurian ground squirrel RODENTIA Sciuridae Spermophilus dauricus 2. Existing assembly GCA_002406435.1 LC 235 Greater cane rat RODENTIA Thryonomyidae Thryonomys swinderianus 1. Zoonomia GCA_004025085.1 LC 236 Cape ground squirrel RODENTIA Sciuridae Xerus inauris 1. Zoonomia GCA_004024805.1 LC 237 Meadow jumping mouse RODENTIA Dipodidae Zapus hudsonius 1. Zoonomia GCA_004024765.1 LC 238 Northern tree shrew SCANDENTIA Tupaiidae Tupaia belangeri chinensis 2. Existing assembly GCF_000334495.1 LC 239 Large treeshrew SCANDENTIA Tupaiidae Tupaia tana 1. Zoonomia GCA_004365275.1 LC 240 Florida manatee SIRENIA Trichechidae Trichechus manatus 2. Existing assembly GCF_000243295.1 EN 241 Aardvark TUBULIDENTATA Orycteropodidae Orycteropus afer 1. Zoonomia GCA_004365145.1 LC Table 1. Genome assemblies included in the 241-way Conservation track. Species status:LC = Least Concern; NT = Near threatened; VU = Vulnerable; EN = Endangered; CR = Critically endangered Display Conventions and Configuration In full and pack display modes, conservation scores are displayed as a wiggle track (histogram) in which the height reflects the size of the score. The conservation wiggles can be configured in a variety of ways to highlight different aspects of the displayed information. Click the Graph configuration help link for an explanation of the configuration options. Pairwise alignments of each species to the human genome are displayed below the conservation histogram as a grayscale density plot (in pack mode) or as a wiggle (in full mode) that indicates alignment quality. In dense display mode, conservation is shown in grayscale using darker values to indicate higher levels of overall conservation as scored by phastCons. Checkboxes on the track configuration page allow selection of the species to include in the pairwise display. The names of selected species are colored according to their clade, alternating between blue and green. Note that excluding species from the pairwise display does not alter the the conservation score display. To view detailed information about the alignments at a specific position, zoom the display in to 30,000 or fewer bases, then click on the alignment. Gap Annotation The Display chains between alignments configuration option enables display of gaps between alignment blocks in the pairwise alignments in a manner similar to the Chain track display. The following conventions are used: Single line: No bases in the aligned species. Possibly due to a lineage-specific insertion between the aligned blocks in the human genome or a lineage-specific deletion between the aligned blocks in the aligning species. Double line: Aligning species has one or more unalignable bases in the gap region. Possibly due to excessive evolutionary distance between species or independent indels in the region between the aligned blocks in both species. Pale yellow coloring: Aligning species has Ns in the gap region. Reflects uncertainty in the relationship between the DNA of both species, due to lack of sequence in relevant portions of the aligning species. Genomic Breaks Discontinuities in the genomic context (chromosome, scaffold or region) of the aligned DNA in the aligning species are shown as follows: Vertical blue bar: Represents a discontinuity that persists indefinitely on either side, e.g. a large region of DNA on either side of the bar comes from a different chromosome in the aligned species due to a large scale rearrangement. Green square brackets: Enclose shorter alignments consisting of DNA from one genomic context in the aligned species nested inside a larger chain of alignments from a different genomic context. The alignment within the brackets may represent a short misalignment, a lineage-specific insertion of a transposon in the human genome that aligns to a paralogous copy somewhere else in the aligned species, or other similar occurrence. Base Level When zoomed-in to the base-level display, the track shows the base composition of each alignment. The numbers and symbols on the Gaps line indicate the lengths of gaps in the human sequence at those alignment positions relative to the longest non-human sequence. If there is sufficient space in the display, the size of the gap is shown. If the space is insufficient and the gap size is a multiple of 3, a &quot;*&quot; is displayed; other gap sizes are indicated by &quot;+&quot;. Codon translation is available in base-level display mode if the displayed region is identified as a coding segment. To display this annotation, select the species for translation from the pull-down menu in the Codon Translation configuration section at the top of the page. Then, select one of the following modes: No codon translation: The gene annotation is not used; the bases are displayed without translation. Use default species reading frames for translation: The annotations from the genome displayed in the Default species to establish reading frame pull-down menu are used to translate all the aligned species present in the alignment. Use reading frames for species if available, otherwise no translation: Codon translation is performed only for those species where the region is annotated as protein coding. Use reading frames for species if available, otherwise use default species: Codon translation is done on those species that are annotated as being protein coding over the aligned region using species-specific annotation; the remaining species are translated using the default species annotation. Codon translation uses the following gene tracks as the basis for translation: Gene TrackSpecies UCSC GenesHuman Ensembl Genes v104Brazilian guinea pig, gibbon RefSeq GenesAngolan colobus, Balaenoptera acutorostrata, Bison bison, Black flying-fox, Brandt's myotis (bat), Bushbaby, Camelus bactrianus, Camelus ferus, Canis lupus familiaris, Cape elephant shrew, Capra hircus, Cavia porcellus, Ceratotherium simum, Cercocebus atys, Chinchilla, Chinese tree shrew, Chlorocebus sabaeus, Condylura cristata, Damara mole rat, Dasypus novemcinctus, David's myotis (bat), Delphinapterus leucas, Echinops telfairi, Enhydra lutris, Eptesicus fuscus, Equus asinus, Equus przewalskii, Erinaceus europaeus, Felis catus, Heterocephalus glaber, Jaculus jaculus, Kangaroo rat, Killer whale, Leptonychotes weddellii, Lipotes vexillifer, Little brown bat, Loxodonta africana, Macaca fascicularis, Macaca nemestrina, Mandrillus leucophaeus, Manis javanica, Marmota marmota, Mesocricetus auratus, Miniopterus natalensis, Mus musculus, Nannospalax galili, Ochotona princeps, Octodon degus, Oryctolagus cuniculus, Pacific walrus, Pan paniscus, Panthera tigris, Peromyscus maniculatus, Prairie vole, Propithecus coquereli, Pteropus vampyrus, Puma concolor, Rattus norvegicus, Rhinopithecus bieti, Shrew, Squirrel monkey, Squirrel, Sus scrofa, Trichechus manatus, Ursus maritimus, White-faced sapajou, Wild yak no annotationAcinonyx jubatus, Acomys cahirinus, Ailuropoda melanoleuca, Ailurus fulgens, Allactaga bullata, Alouatta palliata, Ammotragus lervia, Anoura caudifer, Antilocapra americana, Aotus nancymaae, Aplodontia rufa, Artibeus jamaicensis, Ateles geoffroyi, Balaenoptera bonaerensis, Beatragus hunteri, Bos indicus, Bos taurus, Bubalus bubalis, Callicebus donacophilus, Callithrix jacchus, Camelus dromedarius, Canis lupus, Capra aegagrus, Capromys pilorides, Carollia perspicillata, Castor canadensis, Catagonus wagneri, Cavia tschudii, Cebus albifrons, Ceratotherium simum cottoni, Cercopithecus neglectus, Chaetophractus vellerosus, Cheirogaleus medius, Choloepus didactylus, Choloepus hoffmanni, Chrysochloris asiatica, Craseonycteris thonglongyai, Cricetomys gambianus, Cricetulus griseus, Crocidura indochinensis, Cryptoprocta ferox, Ctenodactylus gundi, Ctenomys sociabilis, Cuniculus paca, Dasyprocta punctata, Daubentonia madagascariensis, Desmodus rotundus, Dicerorhinus sumatrensis, Diceros bicornis, Dinomys branickii, Dipodomys stephensi, Dolichotis patagonum, Elaphurus davidianus, Ellobius lutescens, Ellobius talpinus, Equus caballus, Erythrocebus patas, Eschrichtius robustus, Eubalaena japonica, Eulemur flavifrons, Eulemur fulvus, Felis nigripes, Galeopterus variegatus, Giraffa tippelskirchi, Glis glis, Gorilla gorilla, Graphiurus murinus, Helogale parvula, Hemitragus hylocrius, Heterohyrax brucei, Hippopotamus amphibius, Hipposideros armiger, Hipposideros galeritus, Hyaena hyaena, Hydrochoerus hydrochaeris, Hystrix cristata, Indri indri, Inia geoffrensis, Kogia breviceps, Lasiurus borealis, Lemur catta, Lepus americanus, Lycaon pictus, Macaca mulatta, Macroglossus sobrinus, Manis pentadactyla, Megaderma lyra, Mellivora capensis, Meriones unguiculatus, Mesoplodon bidens, Microcebus murinus, Microgale talazaci, Micronycteris hirsuta, Miniopterus schreibersii, Mirounga angustirostris, Mirza coquereli, Monodon monoceros, Mormoops blainvillei, Moschus moschiferus, Mungos mungo, Murina feae, Mus caroli, Mus pahari, Mus spretus, Muscardinus avellanarius, Mustela putorius, Myocastor coypus, Myotis myotis, Myrmecophaga tridactyla, Nasalis larvatus, Neomonachus schauinslandi, Neophocaena asiaeorientalis, Noctilio leporinus, Nycticebus coucang, Odocoileus virginianus, Okapia johnstoni, Ondatra zibethicus, Onychomys torridus, Orycteropus afer, Ovis aries, Ovis canadensis, Pan troglodytes, Panthera onca, Panthera pardus, Pantholops hodgsonii, Papio anubis, Paradoxurus hermaphroditus Table 2. Gene tracks used for codon translation. Methods The Zoonomia alignment was composed of two sets of mammalian genomes: newly assembled DISCOVAR assemblies and GenBank assemblies. The DISCOVAR genomes were masked with RepeatMasker (commit 2d947604), using Repbase version 20170127 as the repeat library and CrossMatch as the alignment engine. The pipeline used is available at repeatMaskerPipeline (commit a6ad966). The guide-tree topology was taken from the TimeTree database (using release current in October 2018), and the branch lengths were estimated using the least-squares-fit mode of PHYLIP, version 3.695. The distance matrix used was largely based on distances from the 4d site trees from the UCSC browser. To add those species not present in the UCSC tree, approximate distances estimated by Mash (commit 541971b) to the closest UCSC species were added to the distance between the two closest UCSC species. We used the HAL package (commit 68db41d) produce the HAL file. Phylogenetic Tree Model The phyloP are phylogenetic methods that rely on a tree model containing the tree topology, branch lengths representing evolutionary distance at neutrally evolving sites, the background distribution of nucleotides, and a substitution rate matrix. The all-species tree model for this track was generated using the phyloFit program from the PHAST package (REV model, EM algorithm, medium precision) using multiple alignments of 4-fold degenerate sites extracted from the 241-way alignment (msa_view). The 4d sites were derived from the RefSeq (Reviewed+Coding) gene set, filtered to select single-coverage long transcripts. This same tree model was used in the phyloP calculations; however, the background frequencies were modified to maintain reversibility. The resulting tree model: all species. PhyloP Conservation The phyloP program supports several different methods for computing p-values of conservation or acceleration, for individual nucleotides or larger elements ( http://compgen.cshl.edu/phast/). Here it was used to produce separate scores at each base (--wig-scores option), considering all branches of the phylogeny rather than a particular subtree or lineage (i.e., the --subtree option was not used). The scores were computed by performing a likelihood ratio test at each alignment column (--method LRT), and scores for both conservation and acceleration were produced (--mode CONACC). References Zoonomia: Zoonomia Consortium.. A comparative genomics multitool for scientific discovery and conservation. Nature. 2020 Nov;587(7833):240-245. PMID: 33177664; PMC: PMC7759459; DOI: 10.1038/s41586-020-2876-6 Cactus: Armstrong J, Hickey G, Diekhans M, Fiddes IT, Novak AM, Deran A, Fang Q, Xie D, Feng S, Stiller J et al. Progressive Cactus is a multiple-genome aligner for the thousand-genome era. Nature. 2020 Nov;587(7833):246-251. PMID: 33177663; PMC: PMC7673649; DOI: 10.1038/s41586-020-2871-y Paten B, Earl D, Nguyen N, Diekhans M, Zerbino D, Haussler D. Cactus: Algorithms for genome multiple sequence alignment. Genome Res. 2011 Sep;21(9):1512-28. PMID: 21665927; PMC: PMC3166836; DOI: 10.1101/gr.123356.111 Harris RS. Improved pairwise alignment of genomic DNA. Ph.D. Thesis. Pennsylvania State University, USA. 2007. PhyloP: Cooper GM, Stone EA, Asimenos G, NISC Comparative Sequencing Program., Green ED, Batzoglou S, Sidow A. Distribution and intensity of constraint in mammalian genomic sequence. Genome Res. 2005 Jul;15(7):901-13. PMID: 15965027; PMC: PMC1172034; DOI: 10.1101/gr.3577405 Pollard KS, Hubisz MJ, Rosenbloom KR, Siepel A. Detection of nonneutral substitution rates on mammalian phylogenies. Genome Res. 2010 Jan;20(1):110-21. PMID: 19858363; PMC: PMC2798823 Siepel A, Haussler D. Phylogenetic Hidden Markov Models. In: Nielsen R, editor. Statistical Methods in Molecular Evolution. New York: Springer; 2005. pp. 325-351. DOI: 10.1007/0-387-27733-1_12 Siepel A, Pollard KS, and Haussler D. New methods for detecting lineage-specific selection. In Proceedings of the 10th International Conference on Research in Computational Molecular Biology (RECOMB 2006), pp. 190-205. DOI: 10.1007/11732990_17 
cons241wayViewalign Cactus Alignments Zoonomia Alignment - 241 Placental Mammal Genomes aligned by the Zoonomia Project with Cactus Comparative Genomics 
cactus241wayBM Cactus Align Cactus Alignments of Zoonomia 241 Placental Mammals Comparative Genomics 
cons241wayViewphyloP Basewise Conservation (phyloP) Zoonomia Alignment - 241 Placental Mammal Genomes aligned by the Zoonomia Project with Cactus Comparative Genomics 
phyloP241wayBW Basewise Cons PhyloP Basewise Conservation of Zoonomia 241 Placental Mammals Comparative Genomics 
covidHgiGwas COVID GWAS v3 GWAS meta-analyses from the COVID-19 Host Genetics Initiative Phenotypes, Variants, and Literature Description This track set shows GWAS meta-analyses from the COVID-19 Host Genetics Initiative (HGI): a collaborative effort to facilitate the generation, analysis and sharing of COVID-19 host genetics research. The COVID-19 HGI organizes meta-analyses across multiple studies contributed by partners world-wide to identify the genetic determinants of SARS-CoV-2 infection susceptibility and disease severity and outcomes. Moreover, the COVID-19 HGI also aims to provide a platform for study partners to share analytical results in the form of summary statistics and/or individual level data where possible. The specific phenotypes studied by the COVID-19 HGI are those that benefit from maximal sample size: primary analysis on disease severity. Two meta-analyses are represented in this track: ANA_C2_V2: covid vs. population (6696 cases from 18 studies) ANA_B2_V2: hospitalized covid vs. population (3199 cases from 8 studies) Display Conventions Displayed items are colored by GWAS effect: red for positive, blue for negative. The height of the item reflects the effect size. The effect size, defined as the contribution of a SNP to the genetic variance of the trait, was measured as beta coefficient (beta). The higher the absolute value of the beta coefficient, the stronger the effect. The color saturation indicates statistical significance: p-values smaller than 1e-5 are brightly colored (bright red &nbsp;&nbsp; , bright blue &nbsp;&nbsp; ), those with less significance (p >= 1e-5) are paler (light red &nbsp;&nbsp; , light blue &nbsp;&nbsp; ). For better visualization of the data, only SNPs with p-values smaller than 1e-3 are displayed by default. Each track has separate display controls and data can be filtered according to the number of studies, minimum -log10 p-value, and the effect size (beta coefficient), using the track Configure options. Mouseover on items shows the rs ID (or chrom:pos if none assigned), both the non-effect and effect alleles, the effect size (beta coefficient), the p-value, and the number of studies. Additional information on each variant can be found on the details page by clicking on the item. Methods COVID-19 Host Genetics Initiative (HGI) GWAS meta-analysis round 3 (July 2020) results were used in this study. Each participating study partner submitted GWAS summary statistics for up to four of the COVID-19 phenotype definitions. Data were generated from genome-wide SNP array and whole exome and genome sequencing, leveraging the impact of both common and rare variants. The statistical analysis performed takes into account differences between sex, ancestry, and date of sample collection. Alleles were harmonized across studies and reported allele frequencies are based on gnomAD version 3.0 reference data. Most study partners used the SAIGE GWAS pipeline in order to generate summary statistics used for the COVID-19 HGI meta-analysis. The summary statistics of individual studies were manually examined for inflation, deflation, and excessive number of false positives. Qualifying summary statistics were filtered for INFO > 0.6 and MAF > 0.0001 prior to meta-analyzing the entirety of the data. The meta-analysis was done using inverse variance weighting of effects method, accounting for strand differences and allele flips in the individual studies. The meta-analysis results of variants appearing in at least three studies (analysis C2) or two studies (all other analyses) were made publicly available. The meta-analysis software and workflow are available here. More information about the prospective studies, processing pipeline, results and data sharing can be found here. Data Access The data underlying these tracks and summary statistics results are publicly available in COVID19-hg Release 3 (June 2020). The raw data can be explored interactively with the Table Browser, or the Data Integrator. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credits Thanks to the COVID-19 Host Genetics Initiative contributors and project leads for making these data available, and in particular to Rachel Liao, Juha Karjalainen, and Kumar Veerapen at the Broad Institute for their review and input during browser track development. References COVID-19 Host Genetics Initiative. The COVID-19 Host Genetics Initiative, a global initiative to elucidate the role of host genetic factors in susceptibility and severity of the SARS-CoV-2 virus pandemic. Eur J Hum Genet. 2020 Jun;28(6):715-718. PMID: 32404885; PMC: PMC7220587 
covidHgiGwasB2 Hosp COVID GWAS Hospitalized COVID GWAS from the COVID-19 Host Genetics Initiative (3199 cases, 8 studies) Phenotypes, Variants, and Literature 
covidHgiGwasC2 COVID GWAS COVID GWAS from the COVID-19 Host Genetics Initiative (6696 cases, 18 studies) Phenotypes, Variants, and Literature 
wgEncodeReg4RnaSeq RNA-seq (Indiv.) Signal from individual total RNA-seq experiments from ENCODE 4 Experimental Description This track displays genome-wide, strand-specific transcription levels from 523 individual ENCODE total RNA-seq experiments. The data capture both coding and non-coding RNAs profiled across all phases of the ENCODE project. The signal shown is derived from the reads per million (RPM) of uniquely mapped reads on each genomic strand. The data are processed following the ENCODE bulk RNA-seq pipeline. Each subtrack represents a single RNA-seq experiment in a specific biosample, with separate signal tracks for the plus and minus strands. These datasets provide the underlying experimental signals used to generate the corresponding layered summary tracks. Additional datasets measuring transcription levels are available at the ENCODE portal. Display Conventions and Configuration Click a specific biosample type and organ/tissue combination to view available datasets. Subtracks can be further filtered by Organ, Biosample Type, Life Stage, and Strand (plus or minus). Each track is colored based on the organ/tissue of origin. Plus Strand and Minus Strand subtracks are colored by the organ or tissue of origin, as shown below. adipose adrenal gland blood blood vessel bone brain breast connective tissue embryo epithelium esophagus eye gallbladder heart kidney large intestine liver lung mouth muscle nerve nose ovary pancreas penis placenta prostate skin small intestine spinal cord spleen stomach testis thyroid trachea urinary bladder uterus vagina Data Access The ENCODE 4 Regulation data on the UCSC Genome Browser can be explored interactively with the Table Browser or the Data Integrator. For automated download and analysis, the genome annotation is stored in bigWig files that can be downloaded from our download server. The data may also be explored interactively using our REST API. The original data files are also available from the ENCODE portal. Clicking any accession in the track's configuration table links directly to the corresponding file details page on the ENCODE portal. These files may also be locally explored using our tool bigWigToWig, which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tool can also be used to obtain data confined to a given range, e.g., bigWigToWig -chrom=chr1 -start=100000 -end=100500 https://encode-public.s3.amazonaws.com/2020/07/14/2b6cd419-144d-49fe-aa19-b5214ca04297/ENCFF102QGV.bigWig stdout Credits Data were generated by the ENCODE Consortium through the following production labs: Drs. Barbara Wold (Caltech) and Thomas Gingeras (CSHL). The data were further processed for visualization through a collaborative effort between the Weng lab and the Moore lab at UMass Chan Medical School (funded by NIH grant HG012343). Integration and visualization were developed by Drs. Mingshi Gao, Jill Moore, and Zhiping Weng at UMass Chan Medical School, who were part of the ENCODE Data Analysis Center. References ENCODE Project Consortium, Moore JE, Purcaro MJ, Pratt HE, Epstein CB, Shoresh N, Adrian J, Kawli T, Davis CA, Dobin A et al. Expanded encyclopaedias of DNA elements in the human and mouse genomes. Nature. 2020 Jul;583(7818):699-710. PMID: 32728249; PMC: PMC7410828 Moore JE, Pratt HE, Fan K, Phalke N, Fisher J, Elhajjajy SI, Andrews G, Gao M, Shedd N, Fu Y et al. An Expanded Registry of Candidate cis-Regulatory Elements for Studying Transcriptional Regulation. Nature. 2026 January 7. PMID: 39763870; PMC: PMC11703161 
wgEncodeReg4RnaSeq_ENCFF367VCU ENCSR997XXK - strand with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (86 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF286ZLQ ENCSR997XXK + strand with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (86 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF370QPM ENCSR997KDB - strand heart right ventricle tissue female adult (59 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF895JFS ENCSR997KDB + strand heart right ventricle tissue female adult (59 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF693XMJ ENCSR996OED - strand activated naive CD4-positive, alpha-beta T cell male adult (43 years) treated with anti-CD3 and anti-CD28 coated beads for 36 hours - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF098OUC ENCSR996OED + strand activated naive CD4-positive, alpha-beta T cell male adult (43 years) treated with anti-CD3 and anti-CD28 coated beads for 36 hours + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF285SGT ENCSR995GRL - strand activated T-cell female adult (21 years) treated with 50 U/mL Interleukin-2 for 72 hours, anti-CD3 and anti-CD28 coated beads for 72 hours - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF279KWD ENCSR995GRL + strand activated T-cell female adult (21 years) treated with 50 U/mL Interleukin-2 for 72 hours, anti-CD3 and anti-CD28 coated beads for 72 hours + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF250SDR ENCSR993JMV - strand endothelial cell of umbilical vein male newborn - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF118SVL ENCSR993JMV + strand endothelial cell of umbilical vein male newborn + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF941QXN ENCSR993IPO - strand left cardiac atrium tissue male adult (60 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF573WTP ENCSR993IPO + strand left cardiac atrium tissue male adult (60 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF740PET ENCSR991HIR - strand lower leg skin tissue female adult (53 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF057TXE ENCSR991HIR + strand lower leg skin tissue female adult (53 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF690PCV ENCSR989IFF - strand CD8-positive, alpha-beta memory T cell male adult (30 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF684CHN ENCSR989IFF + strand CD8-positive, alpha-beta memory T cell male adult (30 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF148OKE ENCSR985WSV - strand dorsolateral prefrontal cortex tissue female adult (84 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF776XRR ENCSR985WSV + strand dorsolateral prefrontal cortex tissue female adult (84 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF359LGA ENCSR971KNW - strand MG63 - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF943UFE ENCSR971KNW + strand MG63 + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF407KMF ENCSR971GPJ - strand HT-29 - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF418DSY ENCSR971GPJ + strand HT-29 + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF564NKV ENCSR968WKR - strand bipolar neuron originated from GM23338 treated with 0.5 μg/mL doxycycline hyclate for 4 days - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF403JFA ENCSR968WKR + strand bipolar neuron originated from GM23338 treated with 0.5 μg/mL doxycycline hyclate for 4 days + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF555RVY ENCSR967JPI - strand gastrocnemius medialis tissue male adult (54 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF497QCQ ENCSR967JPI + strand gastrocnemius medialis tissue male adult (54 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF676BNC ENCSR965OKL - strand with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (78 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF736DOX ENCSR965OKL + strand with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (78 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF577IJV ENCSR964JRR - strand activated T-helper 17 cell male adult (50 years) treated with 50 U/mL Interleukin-2 for 72 hours, anti-CD3 and anti-CD28 coated beads for 72 hours - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF553NXV ENCSR964JRR + strand activated T-helper 17 cell male adult (50 years) treated with 50 U/mL Interleukin-2 for 72 hours, anti-CD3 and anti-CD28 coated beads for 72 hours + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF550DNX ENCSR959ENR - strand with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (90 or above years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF221SGO ENCSR959ENR + strand with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (90 or above years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF185LZQ ENCSR957WSE - strand activated naive CD8-positive, alpha-beta T cell male adult (30 years) treated with 10 ng/mL Interleukin-2 for 5 days, anti-CD3 and anti-CD28 coated beads for 7 days - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF995SOX ENCSR957WSE + strand activated naive CD8-positive, alpha-beta T cell male adult (30 years) treated with 10 ng/mL Interleukin-2 for 5 days, anti-CD3 and anti-CD28 coated beads for 7 days + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF873GBQ ENCSR956ZVR - strand naive thymus-derived CD4-positive, alpha-beta T cell male adult (43 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF095UOA ENCSR956ZVR + strand naive thymus-derived CD4-positive, alpha-beta T cell male adult (43 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF488CDU ENCSR954PZB - strand adrenal gland tissue male adult (54 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF496YJK ENCSR954PZB + strand adrenal gland tissue male adult (54 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF759EQT ENCSR951DTJ - strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue female adult (90 or above years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF085ISO ENCSR951DTJ + strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue female adult (90 or above years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF410FVM ENCSR949UTT - strand with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (83 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF568QQJ ENCSR949UTT + strand with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (83 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF679QEM ENCSR945VLG - strand HCT116 genetically modified (insertion) using CRISPR inserting O. sativa LOC4335696, (insertion) using CRISPR targeting H. sapiens POLR2A - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF877GJY ENCSR945VLG + strand HCT116 genetically modified (insertion) using CRISPR inserting O. sativa LOC4335696, (insertion) using CRISPR targeting H. sapiens POLR2A + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF431ABS ENCSR944UJZ - strand dorsolateral prefrontal cortex tissue female adult (87 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF096ZIS ENCSR944UJZ + strand dorsolateral prefrontal cortex tissue female adult (87 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF506NXV ENCSR944OIX - strand activated naive CD4-positive, alpha-beta T cell male adult (43 years) treated with anti-CD3 and anti-CD28 coated beads for 36 hours - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF526ILL ENCSR944OIX + strand activated naive CD4-positive, alpha-beta T cell male adult (43 years) treated with anti-CD3 and anti-CD28 coated beads for 36 hours + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF933SBA ENCSR942YMN - strand placenta tissue male embryo - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF413WXI ENCSR942YMN + strand placenta tissue male embryo + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF278MMI ENCSR938LSP - strand GM23338 originated from GM23248 - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF850SIL ENCSR938LSP + strand GM23338 originated from GM23248 + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF067VGO ENCSR931ATS - strand HCT116 genetically modified (insertion) using CRISPR inserting O. sativa LOC4335696, (insertion) using CRISPR targeting H. sapiens MED14 treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF503QTZ ENCSR931ATS + strand HCT116 genetically modified (insertion) using CRISPR inserting O. sativa LOC4335696, (insertion) using CRISPR targeting H. sapiens MED14 treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF835KTE ENCSR927KSI - strand natural killer cell male adult (33 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF992USK ENCSR927KSI + strand natural killer cell male adult (33 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF389ERJ ENCSR925GFP - strand activated CD4-positive, alpha-beta T cell male adult (20 years) treated with anti-CD3 and anti-CD28 coated beads for 36 hours - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF150XAC ENCSR925GFP + strand activated CD4-positive, alpha-beta T cell male adult (20 years) treated with anti-CD3 and anti-CD28 coated beads for 36 hours + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF327NGT ENCSR925DZW - strand activated T-cell male adult (43 years) treated with 50 U/mL Interleukin-2 for 72 hours, anti-CD3 and anti-CD28 coated beads for 72 hours - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF921YKB ENCSR925DZW + strand activated T-cell male adult (43 years) treated with 50 U/mL Interleukin-2 for 72 hours, anti-CD3 and anti-CD28 coated beads for 72 hours + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF661BLC ENCSR924MSZ - strand heart left ventricle tissue male adult (40 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF974VUT ENCSR924MSZ + strand heart left ventricle tissue male adult (40 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF180NNR ENCSR922XPO - strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue male adult (90 or above years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF321YQT ENCSR922XPO + strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue male adult (90 or above years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF373YQC ENCSR920OZR - strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue male adult (90 or above years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF324FQI ENCSR920OZR + strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue male adult (90 or above years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF915MPM ENCSR919QJT - strand H4 - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF396BMJ ENCSR919QJT + strand H4 + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF665SWA ENCSR919MZM - strand endometrial microvascular endothelial cells female adult (34 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF403HKJ ENCSR919MZM + strand endometrial microvascular endothelial cells female adult (34 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF208LKU ENCSR915EBZ - strand heart right ventricle tissue male adult (40 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF043VUO ENCSR915EBZ + strand heart right ventricle tissue male adult (40 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF809AXM ENCSR914PRM - strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue female adult (90 or above years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF096TRE ENCSR914PRM + strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue female adult (90 or above years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF938XDX ENCSR911XSA - strand naive thymus-derived CD4-positive, alpha-beta T cell male adult (43 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF107LSA ENCSR911XSA + strand naive thymus-derived CD4-positive, alpha-beta T cell male adult (43 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF807SPN ENCSR908ZAS - strand hepatocyte originated from H9 - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF003SKI ENCSR908ZAS + strand hepatocyte originated from H9 + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF305RDA ENCSR903XMI - strand placenta tissue female embryo - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF430NYX ENCSR903XMI + strand placenta tissue female embryo + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF110DHB ENCSR900SGE - strand spleen tissue female adult (53 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF359MDK ENCSR900SGE + strand spleen tissue female adult (53 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF507HQY ENCSR900GIC - strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue female adult (74 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF149ROH ENCSR900GIC + strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue female adult (74 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF861QHO ENCSR900FUP - strand heart left ventricle tissue female adult (59 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF353PFR ENCSR900FUP + strand heart left ventricle tissue female adult (59 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF761HMP ENCSR900DUO - strand activated T-cell female adult (33 years) treated with 50 U/mL Interleukin-2 for 4 hours, anti-CD3 and anti-CD28 coated beads for 4 hours - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF544TFG ENCSR900DUO + strand activated T-cell female adult (33 years) treated with 50 U/mL Interleukin-2 for 4 hours, anti-CD3 and anti-CD28 coated beads for 4 hours + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF749LNB ENCSR899OKE - strand placenta tissue female embryo - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF297UUV ENCSR899OKE + strand placenta tissue female embryo + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF171SRT ENCSR899IVV - strand activated CD4-positive, alpha-beta T cell male adult (20 years) treated with 10 ng/mL Interleukin-2 for 5 days, anti-CD3 and anti-CD28 coated beads for 7 days - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF801IUE ENCSR899IVV + strand activated CD4-positive, alpha-beta T cell male adult (20 years) treated with 10 ng/mL Interleukin-2 for 5 days, anti-CD3 and anti-CD28 coated beads for 7 days + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF871VQW ENCSR897KTO - strand epithelial cell of alveolus of lung NONE and female embryo (21 weeks) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF726XQV ENCSR897KTO + strand epithelial cell of alveolus of lung NONE and female embryo (21 weeks) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF339JFL ENCSR897JEH - strand Calu3 - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF873UUS ENCSR897JEH + strand Calu3 + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF984RFS ENCSR896YYL - strand B cell male adult (22 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF262JRD ENCSR896YYL + strand B cell male adult (22 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF605VHG ENCSR895ZTB - strand H1 - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF094ZZR ENCSR895ZTB + strand H1 + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF881PVU ENCSR894WMQ - strand myocyte originated from LHCN-M2 - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF199TSX ENCSR894WMQ + strand myocyte originated from LHCN-M2 + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF531FNT ENCSR892LBU - strand kidney tissue female adult (47 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF649RYB ENCSR892LBU + strand kidney tissue female adult (47 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF957LSE ENCSR889IAP - strand heart right ventricle tissue male adult (61 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF762IUC ENCSR889IAP + strand heart right ventricle tissue male adult (61 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF325WCN ENCSR882RCG - strand heart left ventricle tissue male adult (54 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF222RNF ENCSR882RCG + strand heart left ventricle tissue male adult (54 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF144YDO ENCSR882HXI - strand dorsolateral prefrontal cortex tissue male adult (83 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF396GXB ENCSR882HXI + strand dorsolateral prefrontal cortex tissue male adult (83 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF564LNR ENCSR880EGO - strand SJSA1 - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF318MTJ ENCSR880EGO + strand SJSA1 + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF669VKT ENCSR878EUT - strand glomerular endothelial cell female embryo (22 weeks) and male embryo (22 weeks) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF866LXF ENCSR878EUT + strand glomerular endothelial cell female embryo (22 weeks) and male embryo (22 weeks) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF207NBB ENCSR877FRY - strand glutamatergic neuron - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF163AGZ ENCSR877FRY + strand glutamatergic neuron + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF282UYT ENCSR876TAN - strand left ventricle myocardium superior tissue male adult (60 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF571AFR ENCSR876TAN + strand left ventricle myocardium superior tissue male adult (60 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF468UQS ENCSR875MVZ - strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue male adult (90 or above years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF701JUX ENCSR875MVZ + strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue male adult (90 or above years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF289LEV ENCSR870IUI - strand psoas muscle tissue female child (16 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF055NIC ENCSR870IUI + strand psoas muscle tissue female child (16 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF256GON ENCSR867WQC - strand right cardiac atrium tissue male adult (40 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF858QRQ ENCSR867WQC + strand right cardiac atrium tissue male adult (40 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF604SPP ENCSR863VFU - strand dorsolateral prefrontal cortex tissue female adult (88 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF193HXZ ENCSR863VFU + strand dorsolateral prefrontal cortex tissue female adult (88 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF520BGD ENCSR863EIY - strand dorsolateral prefrontal cortex tissue male adult (82 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF218IYR ENCSR863EIY + strand dorsolateral prefrontal cortex tissue male adult (82 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF352FNR ENCSR862RGX - strand suprapubic skin tissue male adult (37 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF726WTR ENCSR862RGX + strand suprapubic skin tissue male adult (37 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF051QNJ ENCSR858QEL - strand tibial nerve tissue female adult (53 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF108RDF ENCSR858QEL + strand tibial nerve tissue female adult (53 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF833RVA ENCSR857WJK - strand sigmoid colon tissue male adult (37 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF593EJA ENCSR857WJK + strand sigmoid colon tissue male adult (37 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF729LGG ENCSR856VAD - strand activated CD4-positive, alpha-beta memory T cell male adult (43 years) treated with 10 ng/mL Interleukin-2 for 5 days, anti-CD3 and anti-CD28 coated beads for 7 days - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF918QTH ENCSR856VAD + strand activated CD4-positive, alpha-beta memory T cell male adult (43 years) treated with 10 ng/mL Interleukin-2 for 5 days, anti-CD3 and anti-CD28 coated beads for 7 days + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF594WAI ENCSR854VRX - strand heart right ventricle tissue male adult (43 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF097IIL ENCSR854VRX + strand heart right ventricle tissue male adult (43 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF368BUM ENCSR853WOM - strand stomach tissue female adult (51 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF818TKM ENCSR853WOM + strand stomach tissue female adult (51 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF721LQD ENCSR853TXT - strand right cardiac atrium tissue male adult (60 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF756IDW ENCSR853TXT + strand right cardiac atrium tissue male adult (60 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF576AJP ENCSR853BNH - strand gastrocnemius medialis tissue male adult (37 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF720AKI ENCSR853BNH + strand gastrocnemius medialis tissue male adult (37 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF396NBJ ENCSR844SCP - strand activated T-cell male adult (38 years) treated with 50 U/mL Interleukin-2 for 4 hours, anti-CD3 and anti-CD28 coated beads for 4 hours - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF203UBD ENCSR844SCP + strand activated T-cell male adult (38 years) treated with 50 U/mL Interleukin-2 for 4 hours, anti-CD3 and anti-CD28 coated beads for 4 hours + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF382VDL ENCSR842NDO - strand natural killer cell female adult (41 years) treated with 100 ng/mL Interleukin-12 subunit alpha for 72 hours, 100 ng/mL Interleukin-15 for 72 hours, 100 ng/mL Interleukin-12 subunit beta for 72 hours, 100 ng/mL Interleukin-18 for 72 hours - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF822LOE ENCSR842NDO + strand natural killer cell female adult (41 years) treated with 100 ng/mL Interleukin-12 subunit alpha for 72 hours, 100 ng/mL Interleukin-15 for 72 hours, 100 ng/mL Interleukin-12 subunit beta for 72 hours, 100 ng/mL Interleukin-18 for 72 hours + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF071FIS ENCSR841QAC - strand HFFc6 - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF863HRX ENCSR841QAC + strand HFFc6 + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF817YVL ENCSR841ADZ - strand ovary tissue female adult (53 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF368TTD ENCSR841ADZ + strand ovary tissue female adult (53 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF824IYR ENCSR839ZDH - strand upper lobe of left lung tissue male adult (54 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF237XXC ENCSR839ZDH + strand upper lobe of left lung tissue male adult (54 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF912ZWS ENCSR838XNO - strand mesenteric fat pad tissue female adult (59 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF668DGV ENCSR838XNO + strand mesenteric fat pad tissue female adult (59 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF653MGF ENCSR837ZLY - strand thoracic aorta tissue male adult (54 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF512AIP ENCSR837ZLY + strand thoracic aorta tissue male adult (54 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF013POY ENCSR837VMK - strand heart left ventricle tissue female adult (46 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF553FQR ENCSR837VMK + strand heart left ventricle tissue female adult (46 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF145ZZI ENCSR832YWU - strand dorsolateral prefrontal cortex tissue male adult (87 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF706XIV ENCSR832YWU + strand dorsolateral prefrontal cortex tissue male adult (87 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF915OXI ENCSR831GLL - strand T-helper 17 cell male adult (50 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF805LCX ENCSR831GLL + strand T-helper 17 cell male adult (50 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF399CED ENCSR828TEI - strand myotube originated from skeletal muscle myoblast - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF589DYO ENCSR828TEI + strand myotube originated from skeletal muscle myoblast + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF316EVF ENCSR828JSJ - strand heart right ventricle tissue male adult (69 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF697ZFD ENCSR828JSJ + strand heart right ventricle tissue male adult (69 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF527ISR ENCSR827IXS - strand sigmoid colon tissue female adult (51 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF118XUB ENCSR827IXS + strand sigmoid colon tissue female adult (51 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF175WIB ENCSR826FNO - strand dorsolateral prefrontal cortex tissue male adult (84 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF835IFP ENCSR826FNO + strand dorsolateral prefrontal cortex tissue male adult (84 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF469SUX ENCSR825UXP - strand lower lobe of right lung tissue male adult (60 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF577ZXA ENCSR825UXP + strand lower lobe of right lung tissue male adult (60 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF629LJJ ENCSR822SUG - strand airway epithelial cell - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF945IRO ENCSR822SUG + strand airway epithelial cell + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF965VYA ENCSR820PHH - strand GM12878 - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF902WWV ENCSR820PHH + strand GM12878 + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF083LEJ ENCSR820IIL - strand activated naive CD8-positive, alpha-beta T cell male adult (30 years) treated with anti-CD3 and anti-CD28 coated beads for 36 hours - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF045JED ENCSR820IIL + strand activated naive CD8-positive, alpha-beta T cell male adult (30 years) treated with anti-CD3 and anti-CD28 coated beads for 36 hours + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF007MZH ENCSR818DBU - strand cardiac septum tissue female adult (41 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF403PZE ENCSR818DBU + strand cardiac septum tissue female adult (41 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF980OGB ENCSR817WHQ - strand activated CD8-positive, alpha-beta memory T cell male adult (30 years) treated with anti-CD3 and anti-CD28 coated beads for 36 hours - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF840DDQ ENCSR817WHQ + strand activated CD8-positive, alpha-beta memory T cell male adult (30 years) treated with anti-CD3 and anti-CD28 coated beads for 36 hours + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF913RSU ENCSR816IZA - strand upper lobe of right lung tissue male adult (60 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF740HBZ ENCSR816IZA + strand upper lobe of right lung tissue male adult (60 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF580NQN ENCSR816HLU - strand left lung tissue male adult (40 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF573JBK ENCSR816HLU + strand left lung tissue male adult (40 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF602PTU ENCSR815UVL - strand mammary microvascular endothelial cell female adult (26 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF880SCY ENCSR815UVL + strand mammary microvascular endothelial cell female adult (26 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF284WTH ENCSR815NTL - strand MCF 10A - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF417XMH ENCSR815NTL + strand MCF 10A + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF524JOF ENCSR812AKX - strand sigmoid colon tissue male adult (54 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF372DGR ENCSR812AKX + strand sigmoid colon tissue male adult (54 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF654TWW ENCSR802HPM - strand Peyer's patch tissue male adult (37 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF980FZG ENCSR802HPM + strand Peyer's patch tissue male adult (37 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF483SOV ENCSR801MKV - strand adrenal gland tissue female adult (51 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF718DUW ENCSR801MKV + strand adrenal gland tissue female adult (51 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF666BMY ENCSR800WIY - strand transverse colon tissue female adult (53 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF542OVF ENCSR800WIY + strand transverse colon tissue female adult (53 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF534EGY ENCSR800PJQ - strand with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (90 or above years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF494ZRU ENCSR800PJQ + strand with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (90 or above years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF703FXM ENCSR800KLD - strand HCT116 genetically modified (insertion) using CRISPR inserting O. sativa LOC4335696, (insertion) using CRISPR targeting H. sapiens RAD21 - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF928WEO ENCSR800KLD + strand HCT116 genetically modified (insertion) using CRISPR inserting O. sativa LOC4335696, (insertion) using CRISPR targeting H. sapiens RAD21 + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF529CZT ENCSR798USR - strand T-cell male adult (43 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF815QHD ENCSR798USR + strand T-cell male adult (43 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF543PFP ENCSR797RXV - strand IMR-90 - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF722TDX ENCSR797RXV + strand IMR-90 + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF924QJU ENCSR797BPP - strand GM23248 - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF537XPY ENCSR797BPP + strand GM23248 + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF900QPE ENCSR796HLX - strand tibial nerve tissue male adult (37 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF532KPO ENCSR796HLX + strand tibial nerve tissue male adult (37 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF542OFZ ENCSR795GYH - strand dorsolateral prefrontal cortex tissue female adult (85 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF145JTX ENCSR795GYH + strand dorsolateral prefrontal cortex tissue female adult (85 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF585NME ENCSR793SPM - strand with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (89 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF305VAX ENCSR793SPM + strand with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (89 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF530FJG ENCSR792OIJ - strand K562 - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF312ZLI ENCSR792OIJ + strand K562 + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF984WIV ENCSR790BBE - strand heart left ventricle tissue female adult (56 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF998DHM ENCSR790BBE + strand heart left ventricle tissue female adult (56 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF649AHX ENCSR789PJB - strand with mild cognitive impairment; dorsolateral prefrontal cortex tissue male adult (90 or above years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF750IET ENCSR789PJB + strand with mild cognitive impairment; dorsolateral prefrontal cortex tissue male adult (90 or above years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF942QIZ ENCSR777TBF - strand activated CD4-positive, alpha-beta memory T cell male adult (43 years) treated with anti-CD3 and anti-CD28 coated beads for 36 hours - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF462CKY ENCSR777TBF + strand activated CD4-positive, alpha-beta memory T cell male adult (43 years) treated with anti-CD3 and anti-CD28 coated beads for 36 hours + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF662RQH ENCSR777KAR - strand with Cognitive impairment; dorsolateral prefrontal cortex tissue female adult (81 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF763DEA ENCSR777KAR + strand with Cognitive impairment; dorsolateral prefrontal cortex tissue female adult (81 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF585YXE ENCSR776PQP - strand with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (90 or above years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF464HNU ENCSR776PQP + strand with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (90 or above years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF059BLY ENCSR774MGO - strand chondrocyte - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF353PPA ENCSR774MGO + strand chondrocyte + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF515TSE ENCSR773COB - strand left colon tissue female adult (46 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF270YAA ENCSR773COB + strand left colon tissue female adult (46 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF563LQH ENCSR763OMY - strand adrenal gland tissue female adult (41 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF133LYJ ENCSR763OMY + strand adrenal gland tissue female adult (41 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF814BZJ ENCSR761SHI - strand neural crest cell - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF961OQN ENCSR761SHI + strand neural crest cell + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF677HGP ENCSR759TPN - strand left colon tissue female adult (59 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF541ZMB ENCSR759TPN + strand left colon tissue female adult (59 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF151RAG ENCSR755FNG - strand dorsolateral prefrontal cortex tissue female adult (90 or above years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF673JLI ENCSR755FNG + strand dorsolateral prefrontal cortex tissue female adult (90 or above years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF905PIP ENCSR754WLW - strand adrenal gland tissue female adult (53 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF349IKE ENCSR754WLW + strand adrenal gland tissue female adult (53 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF752NFT ENCSR753BWD - strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue male adult (87 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF307HAN ENCSR753BWD + strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue male adult (87 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF746KMZ ENCSR752UNJ - strand stomach tissue female adult (53 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF056FRZ ENCSR752UNJ + strand stomach tissue female adult (53 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF027ZWW ENCSR750ETS - strand esophagus muscularis mucosa tissue male adult (54 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF008POE ENCSR750ETS + strand esophagus muscularis mucosa tissue male adult (54 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF168JFF ENCSR745APD - strand natural killer cell male adult (47 years) treated with 100 ng/mL Interleukin-12 subunit alpha for 72 hours, 100 ng/mL Interleukin-15 for 72 hours, 100 ng/mL Interleukin-12 subunit beta for 72 hours, 100 ng/mL Interleukin-18 for 72 hours - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF804UTP ENCSR745APD + strand natural killer cell male adult (47 years) treated with 100 ng/mL Interleukin-12 subunit alpha for 72 hours, 100 ng/mL Interleukin-15 for 72 hours, 100 ng/mL Interleukin-12 subunit beta for 72 hours, 100 ng/mL Interleukin-18 for 72 hours + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF830RPO ENCSR743TJZ - strand T-helper 1 cell male adult (35 years) treated with 30 ng/mL Interleukin-12 subunit beta for 36 hours, 30 ng/mL Interleukin-12 subunit alpha for 36 hours, 1 μg/mL Interleukin-4 antibody for 36 hours - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF988OAV ENCSR743TJZ + strand T-helper 1 cell male adult (35 years) treated with 30 ng/mL Interleukin-12 subunit beta for 36 hours, 30 ng/mL Interleukin-12 subunit alpha for 36 hours, 1 μg/mL Interleukin-4 antibody for 36 hours + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF617YFI ENCSR743GKS - strand PC-9 - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF682NDW ENCSR743GKS + strand PC-9 + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF313ZMP ENCSR740YMS - strand gastroesophageal sphincter tissue female adult (53 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF553LFH ENCSR740YMS + strand gastroesophageal sphincter tissue female adult (53 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF262XNE ENCSR735JKB - strand HFFc6 - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF381OAF ENCSR735JKB + strand HFFc6 + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF913EPA ENCSR733JBX - strand progenitor cell of endocrine pancreas - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF225CYB ENCSR733JBX + strand progenitor cell of endocrine pancreas + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF118EHF ENCSR733DBA - strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue female adult (90 or above years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF833ZJA ENCSR733DBA + strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue female adult (90 or above years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF635UMF ENCSR729VMM - strand HCT116 genetically modified (insertion) using CRISPR inserting O. sativa LOC4335696, (insertion) using CRISPR targeting H. sapiens CTCF - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF522IQE ENCSR729VMM + strand HCT116 genetically modified (insertion) using CRISPR inserting O. sativa LOC4335696, (insertion) using CRISPR targeting H. sapiens CTCF + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF552PFD ENCSR729CAZ - strand omental fat pad tissue male adult (37 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF900XSJ ENCSR729CAZ + strand omental fat pad tissue male adult (37 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF541EYF ENCSR728FFT - strand with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (88 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF117MQV ENCSR728FFT + strand with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (88 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF118YUJ ENCSR727DPU - strand heart right ventricle tissue female adult (56 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF292PFL ENCSR727DPU + strand heart right ventricle tissue female adult (56 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF314DVA ENCSR719PXC - strand ascending aorta tissue female adult (53 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF597SVD ENCSR719PXC + strand ascending aorta tissue female adult (53 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF303HVE ENCSR718YUW - strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue female adult (85 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF003NFE ENCSR718YUW + strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue female adult (85 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF829IIG ENCSR718RTN - strand lower lobe of left lung tissue female adult (59 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF350OVE ENCSR718RTN + strand lower lobe of left lung tissue female adult (59 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF359DBV ENCSR714CHF - strand HCT116 genetically modified (insertion) using CRISPR inserting O. sativa LOC4335696, (insertion) using CRISPR targeting H. sapiens SMARCA5 - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF010VSY ENCSR714CHF + strand HCT116 genetically modified (insertion) using CRISPR inserting O. sativa LOC4335696, (insertion) using CRISPR targeting H. sapiens SMARCA5 + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF727SUX ENCSR712GOC - strand H1 - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF811FXS ENCSR712GOC + strand H1 + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF774QSB ENCSR712BRU - strand H9 - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF270EUJ ENCSR712BRU + strand H9 + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF749MRL ENCSR708VVE - strand subcutaneous adipose tissue tissue male adult (37 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF911IWQ ENCSR708VVE + strand subcutaneous adipose tissue tissue male adult (37 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF921IWC ENCSR706NYL - strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue male adult (90 or above years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF818CZX ENCSR706NYL + strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue male adult (90 or above years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF160UJZ ENCSR701TST - strand prostate gland tissue male adult (54 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF854EBH ENCSR701TST + strand prostate gland tissue male adult (54 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF870WXZ ENCSR698RPL - strand HCT116 - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF087ORU ENCSR698RPL + strand HCT116 + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF170EAF ENCSR696SMK - strand M059J - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF245PRB ENCSR696SMK + strand M059J + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF760YVU ENCSR694AWV - strand activated CD4-positive, alpha-beta memory T cell male adult (43 years) treated with anti-CD3 and anti-CD28 coated beads for 36 hours - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF632MAZ ENCSR694AWV + strand activated CD4-positive, alpha-beta memory T cell male adult (43 years) treated with anti-CD3 and anti-CD28 coated beads for 36 hours + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF540QGL ENCSR693YZA - strand with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (90 or above years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF531DSA ENCSR693YZA + strand with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (90 or above years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF129IUV ENCSR693KOP - strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue female adult (86 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF927ANS ENCSR693KOP + strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue female adult (86 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF714XJN ENCSR693CVD - strand with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (90 or above years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF092EMR ENCSR693CVD + strand with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (90 or above years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF265DJC ENCSR692DIM - strand naive thymus-derived CD8-positive, alpha-beta T cell male adult (30 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF334KVA ENCSR692DIM + strand naive thymus-derived CD8-positive, alpha-beta T cell male adult (30 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF773GPK ENCSR687HJY - strand thyroid gland tissue female adult (51 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF166WWA ENCSR687HJY + strand thyroid gland tissue female adult (51 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF635LOC ENCSR681ARR - strand mucosa of descending colon tissue male adult (26 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF401WKO ENCSR681ARR + strand mucosa of descending colon tissue male adult (26 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF283CNR ENCSR680USE - strand hair follicular keratinocyte male adult (55 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF089RAP ENCSR680USE + strand hair follicular keratinocyte male adult (55 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF458SAI ENCSR678TMV - strand gastrocnemius medialis tissue female adult (53 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF340TAG ENCSR678TMV + strand gastrocnemius medialis tissue female adult (53 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF030SIX ENCSR676SRP - strand uterus tissue female adult (59 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF523NIT ENCSR676SRP + strand uterus tissue female adult (59 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF880YKH ENCSR675UIU - strand dorsolateral prefrontal cortex tissue female adult (90 or above years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF276PCR ENCSR675UIU + strand dorsolateral prefrontal cortex tissue female adult (90 or above years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF069RQE ENCSR674KHG - strand mucosa of descending colon tissue male adult (40 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF985BPB ENCSR674KHG + strand mucosa of descending colon tissue male adult (40 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF102QGV ENCSR671WMH - strand subcutaneous adipose tissue tissue male adult (54 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF402SEK ENCSR671WMH + strand subcutaneous adipose tissue tissue male adult (54 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF200EWP ENCSR671IYC - strand body of pancreas tissue female adult (51 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF784RHW ENCSR671IYC + strand body of pancreas tissue female adult (51 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF432QOV ENCSR671FBB - strand with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (86 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF871BXJ ENCSR671FBB + strand with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (86 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF228PZS ENCSR669KQU - strand SK-MEL-5 - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF334FVR ENCSR669KQU + strand SK-MEL-5 + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF748SGO ENCSR669GBC - strand with Cognitive impairment, Alzheimer's disease; dorsolateral prefrontal cortex tissue male adult (87 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF838EIM ENCSR669GBC + strand with Cognitive impairment, Alzheimer's disease; dorsolateral prefrontal cortex tissue male adult (87 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF088ZXI ENCSR653ZJF - strand transverse colon tissue male adult (37 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF844TIV ENCSR653ZJF + strand transverse colon tissue male adult (37 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF165QWB ENCSR653DFZ - strand G401 - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF539ISW ENCSR653DFZ + strand G401 + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF045FFB ENCSR652PHZ - strand left cardiac atrium tissue female adult (59 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF185FBE ENCSR652PHZ + strand left cardiac atrium tissue female adult (59 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF199EQA ENCSR650SDA - strand with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (90 or above years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF639CHW ENCSR650SDA + strand with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (90 or above years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF399DLW ENCSR648YUM - strand placenta tissue female embryo - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF196UHI ENCSR648YUM + strand placenta tissue female embryo + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF410TEC ENCSR648OSR - strand tibial nerve tissue male adult (54 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF304ZAM ENCSR648OSR + strand tibial nerve tissue male adult (54 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF345VPP ENCSR648KDM - strand PC-3 - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF702XYL ENCSR648KDM + strand PC-3 + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF835ZBE ENCSR648JOK - strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue female adult (90 or above years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF857GII ENCSR648JOK + strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue female adult (90 or above years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF890ZEY ENCSR645TCG - strand omental fat pad tissue female adult (53 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF889JRS ENCSR645TCG + strand omental fat pad tissue female adult (53 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF004CUF ENCSR642FZN - strand with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (90 or above years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF791SUJ ENCSR642FZN + strand with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (90 or above years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF160YBR ENCSR641XXD - strand with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (90 or above years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF560BUY ENCSR641XXD + strand with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (90 or above years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF597FZD ENCSR636QDK - strand esophagus mucosa tissue female adult (47 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF556SUJ ENCSR636QDK + strand esophagus mucosa tissue female adult (47 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF894GCH ENCSR636LEU - strand HFFc6 - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF114DWJ ENCSR636LEU + strand HFFc6 + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF803FBL ENCSR634JQK - strand dorsolateral prefrontal cortex tissue female adult (90 or above years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF482BDQ ENCSR634JQK + strand dorsolateral prefrontal cortex tissue female adult (90 or above years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF404ODY ENCSR631NUQ - strand sciatic nerve tissue female adult (41 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF296HLN ENCSR631NUQ + strand sciatic nerve tissue female adult (41 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF040GCB ENCSR631GOR - strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue female adult (90 or above years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF374VCP ENCSR631GOR + strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue female adult (90 or above years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF693CQZ ENCSR631FXT - strand T-cell male adult (38 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF983RQU ENCSR631FXT + strand T-cell male adult (38 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF699WAG ENCSR630VJN - strand transverse colon tissue male adult (54 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF672VYQ ENCSR630VJN + strand transverse colon tissue male adult (54 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF417SKD ENCSR629HFE - strand psoas muscle tissue female adult (59 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF850AAB ENCSR629HFE + strand psoas muscle tissue female adult (59 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF360QRL ENCSR622PIH - strand right cardiac atrium tissue female adult (59 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF808SDN ENCSR622PIH + strand right cardiac atrium tissue female adult (59 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF852YRE ENCSR621PZI - strand spleen tissue female adult (41 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF733JPK ENCSR621PZI + strand spleen tissue female adult (41 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF092RWL ENCSR620YAV - strand with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (90 or above years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF309IAM ENCSR620YAV + strand with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (90 or above years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF586JHA ENCSR620NSN - strand bronchus fibroblast of lung - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF549UKW ENCSR620NSN + strand bronchus fibroblast of lung + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF700SGM ENCSR620LQN - strand esophagus muscularis mucosa tissue female adult (51 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF973BSN ENCSR620LQN + strand esophagus muscularis mucosa tissue female adult (51 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF921PHQ ENCSR619DQO - strand ureter tissue female adult (47 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF592NIB ENCSR619DQO + strand ureter tissue female adult (47 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF876JOV ENCSR615EEK - strand K562 - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF585HTZ ENCSR615EEK + strand K562 + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF518WGP ENCSR609NZM - strand gastrocnemius medialis tissue female adult (51 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF007ZBY ENCSR609NZM + strand gastrocnemius medialis tissue female adult (51 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF630MQF ENCSR596KAH - strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue female adult (90 or above years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF455CDH ENCSR596KAH + strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue female adult (90 or above years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF606UME ENCSR593MZL - strand activated CD4-positive, alpha-beta T cell male adult (20 years) treated with 10 ng/mL Interleukin-2 for 5 days, anti-CD3 and anti-CD28 coated beads for 7 days - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF827UHC ENCSR593MZL + strand activated CD4-positive, alpha-beta T cell male adult (20 years) treated with 10 ng/mL Interleukin-2 for 5 days, anti-CD3 and anti-CD28 coated beads for 7 days + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF947WGB ENCSR591ZCN - strand with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (90 or above years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF435QTX ENCSR591ZCN + strand with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (90 or above years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF228UMC ENCSR591NFI - strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue female adult (90 or above years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF594QYO ENCSR591NFI + strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue female adult (90 or above years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF501PQR ENCSR589EBT - strand upper lobe of left lung tissue female adult (61 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF034RBU ENCSR589EBT + strand upper lobe of left lung tissue female adult (61 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF613YYC ENCSR588TIV - strand T-helper 2 cell male adult (35 years) treated with 100 ng/mL Interleukin-4 for 36 hours, 5 μg/mL Interferon-gamma antibody for 36 hours - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF660NRG ENCSR588TIV + strand T-helper 2 cell male adult (35 years) treated with 100 ng/mL Interleukin-4 for 36 hours, 5 μg/mL Interferon-gamma antibody for 36 hours + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF231WHO ENCSR586SYA - strand body of pancreas tissue female adult (53 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF731FYT ENCSR586SYA + strand body of pancreas tissue female adult (53 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF079ZNM ENCSR585EUI - strand dorsolateral prefrontal cortex tissue female adult (82 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF438BHV ENCSR585EUI + strand dorsolateral prefrontal cortex tissue female adult (82 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF715QEV ENCSR584JXD - strand Caki2 - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF189JPF ENCSR584JXD + strand Caki2 + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF562TZY ENCSR584CVV - strand natural killer cell female adult (41 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF121VHL ENCSR584CVV + strand natural killer cell female adult (41 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF218ROS ENCSR580GSX - strand A172 - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF228AHT ENCSR580GSX + strand A172 + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF354SCD ENCSR579KTN - strand dorsolateral prefrontal cortex tissue female adult (83 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF705PZN ENCSR579KTN + strand dorsolateral prefrontal cortex tissue female adult (83 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF033ZKJ ENCSR579BDN - strand pancreas tissue female adult (41 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF788FRD ENCSR579BDN + strand pancreas tissue female adult (41 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF144WWA ENCSR574PFY - strand psoas muscle tissue female adult (41 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF462KBX ENCSR574PFY + strand psoas muscle tissue female adult (41 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF752XPX ENCSR571RXE - strand right atrium auricular region tissue female adult (53 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF025THJ ENCSR571RXE + strand right atrium auricular region tissue female adult (53 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF205NSS ENCSR570DQR - strand heart left ventricle tissue male adult (43 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF187KHG ENCSR570DQR + strand heart left ventricle tissue male adult (43 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF845HPD ENCSR568YRP - strand SJCRH30 - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF205ELZ ENCSR568YRP + strand SJCRH30 + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF385AXC ENCSR568UGZ - strand lower lobe of left lung tissue female adult (61 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF139SIC ENCSR568UGZ + strand lower lobe of left lung tissue female adult (61 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF110GNY ENCSR564CRW - strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue female adult (90 or above years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF087XDY ENCSR564CRW + strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue female adult (90 or above years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF710VWY ENCSR563VMC - strand psoas muscle tissue female adult (61 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF233HOM ENCSR563VMC + strand psoas muscle tissue female adult (61 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF590OZS ENCSR563SJY - strand dorsolateral prefrontal cortex tissue female adult (87 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF044YOY ENCSR563SJY + strand dorsolateral prefrontal cortex tissue female adult (87 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF634GXP ENCSR562ORH - strand with mild cognitive impairment; dorsolateral prefrontal cortex tissue male adult (90 or above years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF486EBM ENCSR562ORH + strand with mild cognitive impairment; dorsolateral prefrontal cortex tissue male adult (90 or above years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF739OVE ENCSR562BUN - strand dorsolateral prefrontal cortex tissue female adult (90 or above years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF104NDB ENCSR562BUN + strand dorsolateral prefrontal cortex tissue female adult (90 or above years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF180OLA ENCSR559HWG - strand endodermal cell originated from H1 - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF631SMY ENCSR559HWG + strand endodermal cell originated from H1 + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF966ZPC ENCSR558SEE - strand A673 - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF274TDF ENCSR558SEE + strand A673 + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF989KZH ENCSR552RFJ - strand activated CD8-positive, alpha-beta T cell male adult (21 years) treated with 10 ng/mL Interleukin-2 for 5 days, anti-CD3 and anti-CD28 coated beads for 7 days - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF707WTD ENCSR552RFJ + strand activated CD8-positive, alpha-beta T cell male adult (21 years) treated with 10 ng/mL Interleukin-2 for 5 days, anti-CD3 and anti-CD28 coated beads for 7 days + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF564GZH ENCSR551NII - strand lower leg skin tissue female adult (51 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF410QZX ENCSR551NII + strand lower leg skin tissue female adult (51 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF117NCC ENCSR544SAU - strand Peyer's patch tissue female adult (53 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF684FER ENCSR544SAU + strand Peyer's patch tissue female adult (53 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF685WZJ ENCSR539OQU - strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue female adult (90 or above years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF654QFS ENCSR539OQU + strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue female adult (90 or above years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF025LRR ENCSR538FRP - strand activated CD8-positive, alpha-beta memory T cell male adult (30 years) treated with 10 ng/mL Interleukin-2 for 5 days, anti-CD3 and anti-CD28 coated beads for 7 days - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF982JPV ENCSR538FRP + strand activated CD8-positive, alpha-beta memory T cell male adult (30 years) treated with 10 ng/mL Interleukin-2 for 5 days, anti-CD3 and anti-CD28 coated beads for 7 days + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF278CTO ENCSR535VTR - strand HT1080 - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF667TTV ENCSR535VTR + strand HT1080 + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF152MZM ENCSR534OAS - strand right lobe of liver tissue male adult (45 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF707VPL ENCSR534OAS + strand right lobe of liver tissue male adult (45 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF665OOW ENCSR533TOW - strand activated CD8-positive, alpha-beta T cell male adult (21 years) treated with anti-CD3 and anti-CD28 coated beads for 36 hours - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF646ZZQ ENCSR533TOW + strand activated CD8-positive, alpha-beta T cell male adult (21 years) treated with anti-CD3 and anti-CD28 coated beads for 36 hours + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF385YRD ENCSR532LJV - strand thyroid gland tissue male adult (37 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF744XXD ENCSR532LJV + strand thyroid gland tissue male adult (37 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF619JUZ ENCSR530OOO - strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue male adult (90 or above years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF401ALX ENCSR530OOO + strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue male adult (90 or above years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF561WGZ ENCSR530ESE - strand with Cognitive impairment, Alzheimer's disease; dorsolateral prefrontal cortex tissue male adult (84 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF212SAI ENCSR530ESE + strand with Cognitive impairment, Alzheimer's disease; dorsolateral prefrontal cortex tissue male adult (84 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF135LQG ENCSR528ZKN - strand gastroesophageal sphincter tissue male adult (37 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF069OIK ENCSR528ZKN + strand gastroesophageal sphincter tissue male adult (37 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF832EEZ ENCSR523RGW - strand pancreas tissue female adult (47 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF901ATL ENCSR523RGW + strand pancreas tissue female adult (47 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF324SIB ENCSR521ZFP - strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue female adult (90 or above years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF886ULO ENCSR521ZFP + strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue female adult (90 or above years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF009NID ENCSR516TTH - strand left ventricle myocardium inferior tissue male adult (60 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF709QRA ENCSR516TTH + strand left ventricle myocardium inferior tissue male adult (60 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF354AAN ENCSR516BJM - strand colonic mucosa tissue female child (16 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF672RNN ENCSR516BJM + strand colonic mucosa tissue female child (16 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF800KIJ ENCSR515MED - strand with Cognitive impairment, Alzheimer's disease; dorsolateral prefrontal cortex tissue female adult (90 or above years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF149RKR ENCSR515MED + strand with Cognitive impairment, Alzheimer's disease; dorsolateral prefrontal cortex tissue female adult (90 or above years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF174FTO ENCSR510MIA - strand esophagus squamous epithelium tissue female adult (51 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF833QMT ENCSR510MIA + strand esophagus squamous epithelium tissue female adult (51 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF668XTN ENCSR504VXC - strand A375 - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF280YRS ENCSR504VXC + strand A375 + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF776YAA ENCSR504QMK - strand right lobe of liver tissue female adult (53 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF672AXQ ENCSR504QMK + strand right lobe of liver tissue female adult (53 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF218AFX ENCSR504NIU - strand subcutaneous adipose tissue tissue female adult (53 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF560FVE ENCSR504NIU + strand subcutaneous adipose tissue tissue female adult (53 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF371KCC ENCSR502PAY - strand HCT116 genetically modified (insertion) using CRISPR inserting O. sativa LOC4335696, (insertion) using CRISPR targeting H. sapiens CDK7 treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF773TUH ENCSR502PAY + strand HCT116 genetically modified (insertion) using CRISPR inserting O. sativa LOC4335696, (insertion) using CRISPR targeting H. sapiens CDK7 treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF323IVQ ENCSR501XXE - strand dorsolateral prefrontal cortex tissue female adult (90 or above years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF585RYH ENCSR501XXE + strand dorsolateral prefrontal cortex tissue female adult (90 or above years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF381LRT ENCSR501DTN - strand CD8-positive, alpha-beta T cell male adult (21 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF845DJW ENCSR501DTN + strand CD8-positive, alpha-beta T cell male adult (21 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF221ZLD ENCSR500JSJ - strand upper lobe of left lung tissue male adult (60 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF849BKN ENCSR500JSJ + strand upper lobe of left lung tissue male adult (60 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF954TYS ENCSR497KUU - strand with Cognitive impairment; dorsolateral prefrontal cortex tissue female adult (86 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF948SFF ENCSR497KUU + strand with Cognitive impairment; dorsolateral prefrontal cortex tissue female adult (86 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF707KWY ENCSR495HDM - strand prostate gland tissue male adult (37 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF535TIX ENCSR495HDM + strand prostate gland tissue male adult (37 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF061BHN ENCSR490SQH - strand H7 - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF333TRZ ENCSR490SQH + strand H7 + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF713QAB ENCSR485WBR - strand gastroesophageal sphincter tissue male adult (54 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF263ZRO ENCSR485WBR + strand gastroesophageal sphincter tissue male adult (54 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF362EDN ENCSR484WZL - strand placenta tissue embryo - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF697OAU ENCSR484WZL + strand placenta tissue embryo + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF430BEX ENCSR483IHO - strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue female adult (90 or above years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF715SXQ ENCSR483IHO + strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue female adult (90 or above years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF862GSE ENCSR480SLD - strand suprapubic skin tissue female adult (51 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF685FCX ENCSR480SLD + strand suprapubic skin tissue female adult (51 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF133ABU ENCSR479MNN - strand placenta tissue male embryo - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF400CHK ENCSR479MNN + strand placenta tissue male embryo + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF006GRG ENCSR475KPG - strand activated T-helper 1 cell male adult (35 years) treated with anti-CD3 and anti-CD28 coated beads for 24 hours, 30 ng/mL Interleukin-12 subunit beta for 36 hours, 10 ng/mL Interleukin-2 for 14 days, anti-CD3 and anti-CD28 coated beads for 14 days, 1 μg/mL Interleukin-4 antibody for 36 hours, 30 ng/mL Interleukin-12 subunit alpha for 36 hours - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF102TNA ENCSR475KPG + strand activated T-helper 1 cell male adult (35 years) treated with anti-CD3 and anti-CD28 coated beads for 24 hours, 30 ng/mL Interleukin-12 subunit beta for 36 hours, 10 ng/mL Interleukin-2 for 14 days, anti-CD3 and anti-CD28 coated beads for 14 days, 1 μg/mL Interleukin-4 antibody for 36 hours, 30 ng/mL Interleukin-12 subunit alpha for 36 hours + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF977KXI ENCSR474TRG - strand esophagus squamous epithelium tissue male adult (54 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF213LRI ENCSR474TRG + strand esophagus squamous epithelium tissue male adult (54 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF255PXJ ENCSR473XAP - strand naive thymus-derived CD8-positive, alpha-beta T cell male adult (30 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF291GNY ENCSR473XAP + strand naive thymus-derived CD8-positive, alpha-beta T cell male adult (30 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF331GDT ENCSR471RUK - strand stomach tissue male adult (37 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF561TMR ENCSR471RUK + strand stomach tissue male adult (37 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF147TAN ENCSR469WPG - strand Caco-2 - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF144BNP ENCSR469WPG + strand Caco-2 + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF991YML ENCSR464VSR - strand placenta tissue male embryo - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF992XOR ENCSR464VSR + strand placenta tissue male embryo + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF097TXJ ENCSR460YCS - strand lower leg skin tissue male adult (54 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF318EJE ENCSR460YCS + strand lower leg skin tissue male adult (54 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF467RFT ENCSR458FZP - strand activated naive CD4-positive, alpha-beta T cell male adult (43 years) treated with anti-CD3 and anti-CD28 coated beads for 36 hours, 10 ng/mL Interleukin-2 for 5 days - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF286TKQ ENCSR458FZP + strand activated naive CD4-positive, alpha-beta T cell male adult (43 years) treated with anti-CD3 and anti-CD28 coated beads for 36 hours, 10 ng/mL Interleukin-2 for 5 days + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF884LKT ENCSR457ENP - strand right atrium auricular region tissue female adult (51 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF263KEJ ENCSR457ENP + strand right atrium auricular region tissue female adult (51 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF733OMD ENCSR454MWR - strand with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (90 or above years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF709ALI ENCSR454MWR + strand with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (90 or above years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF716BAI ENCSR454GQC - strand with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (90 or above years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF790EBY ENCSR454GQC + strand with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (90 or above years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF016OSN ENCSR452BSJ - strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue female adult (90 or above years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF017FXS ENCSR452BSJ + strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue female adult (90 or above years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF317YUR ENCSR450EXF - strand WTC11 - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF101HNE ENCSR450EXF + strand WTC11 + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF051DSY ENCSR450ENK - strand suprapubic skin tissue female adult (53 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF498TQF ENCSR450ENK + strand suprapubic skin tissue female adult (53 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF777ZGT ENCSR450BNZ - strand Peyer's patch tissue female adult (51 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF542BVY ENCSR450BNZ + strand Peyer's patch tissue female adult (51 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF282EII ENCSR448BTT - strand lower lobe of left lung tissue male adult (60 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF327YQU ENCSR448BTT + strand lower lobe of left lung tissue male adult (60 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF756BSK ENCSR447WLU - strand dorsolateral prefrontal cortex tissue male adult (78 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF681QWB ENCSR447WLU + strand dorsolateral prefrontal cortex tissue male adult (78 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF428VUP ENCSR446QMB - strand dorsolateral prefrontal cortex tissue female adult (85 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF474TCR ENCSR446QMB + strand dorsolateral prefrontal cortex tissue female adult (85 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF822RUA ENCSR446LDS - strand CD8-positive, alpha-beta memory T cell male adult (30 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF030XBO ENCSR446LDS + strand CD8-positive, alpha-beta memory T cell male adult (30 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF701QPQ ENCSR444WHQ - strand skeletal muscle myoblast - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF485JGG ENCSR444WHQ + strand skeletal muscle myoblast + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF895AFC ENCSR443ASQ - strand dorsolateral prefrontal cortex tissue female adult (83 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF257WBX ENCSR443ASQ + strand dorsolateral prefrontal cortex tissue female adult (83 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF037ZMH ENCSR441IDG - strand heart right ventricle tissue male adult (55 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF418QHL ENCSR441IDG + strand heart right ventricle tissue male adult (55 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF005HCR ENCSR439PRN - strand dorsolateral prefrontal cortex tissue male adult (83 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF698NHI ENCSR439PRN + strand dorsolateral prefrontal cortex tissue male adult (83 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF577TIW ENCSR438YPF - strand breast epithelium tissue female adult (51 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF603PIL ENCSR438YPF + strand breast epithelium tissue female adult (51 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF102NAI ENCSR437HKI - strand activated naive CD8-positive, alpha-beta T cell male adult (30 years) treated with 10 ng/mL Interleukin-2 for 5 days, anti-CD3 and anti-CD28 coated beads for 7 days - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF237QNH ENCSR437HKI + strand activated naive CD8-positive, alpha-beta T cell male adult (30 years) treated with 10 ng/mL Interleukin-2 for 5 days, anti-CD3 and anti-CD28 coated beads for 7 days + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF192HBL ENCSR436QDU - strand heart left ventricle tissue female adult (51 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF671DKT ENCSR436QDU + strand heart left ventricle tissue female adult (51 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF314LDC ENCSR434TEU - strand breast epithelium tissue female adult (53 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF169FHE ENCSR434TEU + strand breast epithelium tissue female adult (53 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF538YBZ ENCSR432EBE - strand pancreas tissue female adult (59 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF210MJF ENCSR432EBE + strand pancreas tissue female adult (59 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF984JLW ENCSR429EWK - strand thoracic aorta tissue male adult (37 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF833YCY ENCSR429EWK + strand thoracic aorta tissue male adult (37 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF367WHE ENCSR429EGC - strand endothelial cell - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF950PCD ENCSR429EGC + strand endothelial cell + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF780JCL ENCSR425RGZ - strand upper lobe of left lung tissue female adult (51 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF520NHF ENCSR425RGZ + strand upper lobe of left lung tissue female adult (51 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF098CDA ENCSR420ZKB - strand HFFc6 - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF948GWD ENCSR420ZKB + strand HFFc6 + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF684QVX ENCSR420YFF - strand placenta tissue female embryo - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF581PRF ENCSR420YFF + strand placenta tissue female embryo + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF467LTN ENCSR420NLC - strand PC-3 - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF506BHU ENCSR420NLC + strand PC-3 + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF959YYD ENCSR418WMG - strand with mild cognitive impairment; dorsolateral prefrontal cortex tissue male adult (89 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF610PWN ENCSR418WMG + strand with mild cognitive impairment; dorsolateral prefrontal cortex tissue male adult (89 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF610UVF ENCSR415SXI - strand activated CD8-positive, alpha-beta memory T cell male adult (30 years) treated with anti-CD3 and anti-CD28 coated beads for 36 hours - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF474MDU ENCSR415SXI + strand activated CD8-positive, alpha-beta memory T cell male adult (30 years) treated with anti-CD3 and anti-CD28 coated beads for 36 hours + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF847KND ENCSR413QAL - strand osteocyte - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF730QUO ENCSR413QAL + strand osteocyte + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF232RTU ENCSR411MUF - strand CD4-positive, alpha-beta T cell male adult (20 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF515TIF ENCSR411MUF + strand CD4-positive, alpha-beta T cell male adult (20 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF629ZBA ENCSR410MSS - strand left lung tissue female child (16 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF808KRP ENCSR410MSS + strand left lung tissue female child (16 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF015CMN ENCSR409UYW - strand activated naive CD8-positive, alpha-beta T cell male adult (30 years) treated with anti-CD3 and anti-CD28 coated beads for 36 hours - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF251CIC ENCSR409UYW + strand activated naive CD8-positive, alpha-beta T cell male adult (30 years) treated with anti-CD3 and anti-CD28 coated beads for 36 hours + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF756MSA ENCSR406SAW - strand upper lobe of left lung tissue female adult (53 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF493OET ENCSR406SAW + strand upper lobe of left lung tissue female adult (53 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF966BXX ENCSR403SZN - strand transverse colon tissue female adult (51 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF807KQZ ENCSR403SZN + strand transverse colon tissue female adult (51 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF145SGH ENCSR401DHH - strand activated CD4-positive, alpha-beta memory T cell male adult (43 years) treated with 10 ng/mL Interleukin-2 for 5 days, anti-CD3 and anti-CD28 coated beads for 7 days - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF330EUN ENCSR401DHH + strand activated CD4-positive, alpha-beta memory T cell male adult (43 years) treated with 10 ng/mL Interleukin-2 for 5 days, anti-CD3 and anti-CD28 coated beads for 7 days + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF415LOT ENCSR398REC - strand activated B cell male adult (22 years) treated with 0.5 μM CpG ODN for 24 hours - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF435USS ENCSR398REC + strand activated B cell male adult (22 years) treated with 0.5 μM CpG ODN for 24 hours + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF405MYG ENCSR397GDU - strand dorsolateral prefrontal cortex tissue female adult (90 or above years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF833EAI ENCSR397GDU + strand dorsolateral prefrontal cortex tissue female adult (90 or above years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF611QTO ENCSR395DKP - strand dorsolateral prefrontal cortex tissue male adult (87 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF939BQK ENCSR395DKP + strand dorsolateral prefrontal cortex tissue male adult (87 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF935KUB ENCSR394ZSF - strand dorsolateral prefrontal cortex tissue male adult (87 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF733YEJ ENCSR394ZSF + strand dorsolateral prefrontal cortex tissue male adult (87 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF632ZBY ENCSR394HJK - strand dorsolateral prefrontal cortex tissue male adult (83 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF607FEG ENCSR394HJK + strand dorsolateral prefrontal cortex tissue male adult (83 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF730PXW ENCSR391VGU - strand heart left ventricle tissue female adult (53 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF248QVA ENCSR391VGU + strand heart left ventricle tissue female adult (53 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF082GXZ ENCSR390MBR - strand dorsolateral prefrontal cortex tissue male adult (83 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF804VSU ENCSR390MBR + strand dorsolateral prefrontal cortex tissue male adult (83 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF744YDW ENCSR388NNP - strand natural killer cell male adult (47 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF625QBW ENCSR388NNP + strand natural killer cell male adult (47 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF061YLN ENCSR385KVQ - strand activated CD4-positive, alpha-beta T cell male adult (20 years) treated with anti-CD3 and anti-CD28 coated beads for 36 hours - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF362PNM ENCSR385KVQ + strand activated CD4-positive, alpha-beta T cell male adult (20 years) treated with anti-CD3 and anti-CD28 coated beads for 36 hours + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF010FBD ENCSR381OTM - strand HFFc6 - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF358XLV ENCSR381OTM + strand HFFc6 + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF229SQR ENCSR379YAE - strand cardiac muscle cell originated from RUES2 - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF205VDK ENCSR379YAE + strand cardiac muscle cell originated from RUES2 + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF977MYR ENCSR379DEC - strand GM23338 - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF527SQU ENCSR379DEC + strand GM23338 + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF494GYS ENCSR378WUC - strand dorsolateral prefrontal cortex tissue male adult (90 or above years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF161EIR ENCSR378WUC + strand dorsolateral prefrontal cortex tissue male adult (90 or above years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF465YRK ENCSR377MTB - strand dorsolateral prefrontal cortex tissue male adult (86 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF111DZZ ENCSR377MTB + strand dorsolateral prefrontal cortex tissue male adult (86 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF865DOH ENCSR377FPC - strand aorta tissue female adult (59 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF197PEN ENCSR377FPC + strand aorta tissue female adult (59 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF118WOE ENCSR373BDG - strand kidney epithelial cell male embryo (22 weeks) and male newborn - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF635XGR ENCSR373BDG + strand kidney epithelial cell male embryo (22 weeks) and male newborn + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF428RWH ENCSR371VGV - strand myometrial cell female adult (34 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF610DVT ENCSR371VGV + strand myometrial cell female adult (34 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF907CHI ENCSR369RVN - strand cardiac ventricle fibroblast NONE and male adult (18 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF287LRZ ENCSR369RVN + strand cardiac ventricle fibroblast NONE and male adult (18 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF202SOV ENCSR368HRJ - strand ovary tissue female adult (61 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF119GRF ENCSR368HRJ + strand ovary tissue female adult (61 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF662XKZ ENCSR366LFQ - strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue female adult (88 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF759YTG ENCSR366LFQ + strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue female adult (88 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF702KPF ENCSR365ARV - strand dorsolateral prefrontal cortex tissue female adult (90 or above years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF987VHA ENCSR365ARV + strand dorsolateral prefrontal cortex tissue female adult (90 or above years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF751RDP ENCSR363EVQ - strand with Cognitive impairment; dorsolateral prefrontal cortex tissue female adult (90 or above years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF698DVE ENCSR363EVQ + strand with Cognitive impairment; dorsolateral prefrontal cortex tissue female adult (90 or above years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF598UYU ENCSR362HMX - strand pericardium fibroblast NONE and female embryo (20 weeks) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF462KTY ENCSR362HMX + strand pericardium fibroblast NONE and female embryo (20 weeks) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF065AJK ENCSR357BYU - strand left lobe of liver tissue male adult (45 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF253SBE ENCSR357BYU + strand left lobe of liver tissue male adult (45 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF162JXM ENCSR355JZC - strand MCF-7 - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF301XEH ENCSR355JZC + strand MCF-7 + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF249NNE ENCSR354QPN - strand esophagus squamous epithelium tissue male adult (37 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF187QYU ENCSR354QPN + strand esophagus squamous epithelium tissue male adult (37 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF176FYG ENCSR352JCY - strand type B pancreatic cell - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF995AUL ENCSR352JCY + strand type B pancreatic cell + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF762BGZ ENCSR351OTL - strand esophagus squamous epithelium tissue female adult (53 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF766JPS ENCSR351OTL + strand esophagus squamous epithelium tissue female adult (53 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF339PMH ENCSR344MQK - strand testis tissue male adult (54 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF333KHL ENCSR344MQK + strand testis tissue male adult (54 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF969TXR ENCSR343XXH - strand mucosa of gallbladder tissue female child (16 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF905ARA ENCSR343XXH + strand mucosa of gallbladder tissue female child (16 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF928QXY ENCSR341VFG - strand activated T-helper 2 cell male adult (35 years) treated with 5 μg/mL Interferon-gamma antibody for 36 hours, anti-CD3 and anti-CD28 coated beads for 24 hours, 10 ng/mL Interleukin-2 for 14 days, anti-CD3 and anti-CD28 coated beads for 14 days, 100 ng/mL Interleukin-4 for 36 hours - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF610ZWK ENCSR341VFG + strand activated T-helper 2 cell male adult (35 years) treated with 5 μg/mL Interferon-gamma antibody for 36 hours, anti-CD3 and anti-CD28 coated beads for 24 hours, 10 ng/mL Interleukin-2 for 14 days, anti-CD3 and anti-CD28 coated beads for 14 days, 100 ng/mL Interleukin-4 for 36 hours + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF445JWJ ENCSR339NMQ - strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue female adult (89 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF629NUI ENCSR339NMQ + strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue female adult (89 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF377QZF ENCSR339GOD - strand with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (90 or above years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF584SUQ ENCSR339GOD + strand with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (90 or above years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF762DKI ENCSR336VTK - strand T-cell female adult (33 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF896UEY ENCSR336VTK + strand T-cell female adult (33 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF461XZA ENCSR332DBS - strand LHCN-M2 - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF634DYK ENCSR332DBS + strand LHCN-M2 + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF587SDL ENCSR330UMQ - strand spleen tissue male adult (37 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF643UKE ENCSR330UMQ + strand spleen tissue male adult (37 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF640CVB ENCSR323YXV - strand with Cognitive impairment, Alzheimer's disease; dorsolateral prefrontal cortex tissue female adult (90 or above years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF940BMO ENCSR323YXV + strand with Cognitive impairment, Alzheimer's disease; dorsolateral prefrontal cortex tissue female adult (90 or above years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF321WIO ENCSR323GUF - strand right lobe of liver tissue female adult (47 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF119SVC ENCSR323GUF + strand right lobe of liver tissue female adult (47 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF648JWZ ENCSR321PGV - strand lower leg skin tissue male adult (37 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF596HNR ENCSR321PGV + strand lower leg skin tissue male adult (37 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF343BHK ENCSR320OTJ - strand ovary tissue female adult (41 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF649MKX ENCSR320OTJ + strand ovary tissue female adult (41 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF727RDW ENCSR320BRR - strand RPMI7951 - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF819GMD ENCSR320BRR + strand RPMI7951 + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF834GZX ENCSR320AJD - strand with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (87 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF666PER ENCSR320AJD + strand with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (87 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF970EWT ENCSR318WUN - strand with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (90 or above years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF443PUM ENCSR318WUN + strand with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (90 or above years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF586HFN ENCSR317HKT - strand naive thymus-derived CD4-positive, alpha-beta T cell male adult (35 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF536BKN ENCSR317HKT + strand naive thymus-derived CD4-positive, alpha-beta T cell male adult (35 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF617KSY ENCSR314LXG - strand Karpas-422 - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF486HVO ENCSR314LXG + strand Karpas-422 + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF466QPL ENCSR313COD - strand upper lobe of left lung tissue male adult (37 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF138GLV ENCSR313COD + strand upper lobe of left lung tissue male adult (37 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF745MAN ENCSR308XAR - strand placenta tissue male embryo - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF597XJZ ENCSR308XAR + strand placenta tissue male embryo + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF160YNN ENCSR307PZR - strand with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (90 or above years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF935QBK ENCSR307PZR + strand with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (90 or above years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF179ZBQ ENCSR306IAW - strand T-cell male adult (42 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF258NBG ENCSR306IAW + strand T-cell male adult (42 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF105KNT ENCSR297AZN - strand CD4-positive, alpha-beta memory T cell male adult (43 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF430DVF ENCSR297AZN + strand CD4-positive, alpha-beta memory T cell male adult (43 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF510OPM ENCSR296RWI - strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue female adult (89 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF585QCN ENCSR296RWI + strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue female adult (89 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF679RXH ENCSR296PMS - strand stomach tissue male adult (54 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF145OAS ENCSR296PMS + strand stomach tissue male adult (54 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF599YXF ENCSR294AKN - strand HCT116 genetically modified (insertion) using CRISPR inserting O. sativa LOC4335696, (insertion) using CRISPR targeting H. sapiens CDK7 - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF846UWT ENCSR294AKN + strand HCT116 genetically modified (insertion) using CRISPR inserting O. sativa LOC4335696, (insertion) using CRISPR targeting H. sapiens CDK7 + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF336NCQ ENCSR292TYT - strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue female adult (90 or above years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF030JXK ENCSR292TYT + strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue female adult (90 or above years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF981JCH ENCSR291TRJ - strand endodermal cell - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF960OZG ENCSR291TRJ + strand endodermal cell + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF426XVD ENCSR290IHM - strand dorsolateral prefrontal cortex tissue female adult (79 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF634JRF ENCSR290IHM + strand dorsolateral prefrontal cortex tissue female adult (79 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF362JKC ENCSR288RRZ - strand placenta tissue male embryo - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF189MNY ENCSR288RRZ + strand placenta tissue male embryo + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF682DCM ENCSR282UMY - strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue female adult (90 or above years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF381SWT ENCSR282UMY + strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue female adult (90 or above years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF223UFM ENCSR282GZU - strand activated CD8-positive, alpha-beta T cell male adult (21 years) treated with 10 ng/mL Interleukin-2 for 5 days, anti-CD3 and anti-CD28 coated beads for 7 days - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF547YEW ENCSR282GZU + strand activated CD8-positive, alpha-beta T cell male adult (21 years) treated with 10 ng/mL Interleukin-2 for 5 days, anti-CD3 and anti-CD28 coated beads for 7 days + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF201YHH ENCSR278TQR - strand heart right ventricle tissue male adult (66 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF698OWI ENCSR278TQR + strand heart right ventricle tissue male adult (66 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF934RUY ENCSR277QAN - strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue female adult (90 or above years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF570WHH ENCSR277QAN + strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue female adult (90 or above years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF928RQD ENCSR276QGJ - strand T-helper 17 cell male adult (48 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF682QRK ENCSR276QGJ + strand T-helper 17 cell male adult (48 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF476JTJ ENCSR276MMH - strand adrenal gland tissue male adult (37 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF037OMX ENCSR276MMH + strand adrenal gland tissue male adult (37 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF047QMV ENCSR275SNI - strand HCT116 genetically modified (insertion) using CRISPR inserting O. sativa LOC4335696, (insertion) using CRISPR targeting H. sapiens BRD4 treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF289NIF ENCSR275SNI + strand HCT116 genetically modified (insertion) using CRISPR inserting O. sativa LOC4335696, (insertion) using CRISPR targeting H. sapiens BRD4 treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF546RFS ENCSR275JSL - strand with Alzheimer's disease, Cognitive impairment; dorsolateral prefrontal cortex tissue male adult (73 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF587USA ENCSR275JSL + strand with Alzheimer's disease, Cognitive impairment; dorsolateral prefrontal cortex tissue male adult (73 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF433ZJK ENCSR272UNO - strand tibial nerve tissue female adult (51 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF281UGH ENCSR272UNO + strand tibial nerve tissue female adult (51 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF646BWX ENCSR267FRL - strand HCT116 genetically modified (insertion) using CRISPR inserting O. sativa LOC4335696, (insertion) using CRISPR targeting H. sapiens BRD4 - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF355IGM ENCSR267FRL + strand HCT116 genetically modified (insertion) using CRISPR inserting O. sativa LOC4335696, (insertion) using CRISPR targeting H. sapiens BRD4 + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF644PKV ENCSR266SBI - strand HCT116 genetically modified (insertion) using CRISPR inserting O. sativa LOC4335696, (insertion) using CRISPR targeting H. sapiens CTCF treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF758KBC ENCSR266SBI + strand HCT116 genetically modified (insertion) using CRISPR inserting O. sativa LOC4335696, (insertion) using CRISPR targeting H. sapiens CTCF treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF810KRH ENCSR266PVZ - strand right cardiac atrium tissue female adult (46 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF474WFJ ENCSR266PVZ + strand right cardiac atrium tissue female adult (46 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF419HYJ ENCSR265EHG - strand activated T-helper 17 cell male adult (48 years) treated with 50 U/mL Interleukin-2 for 72 hours, anti-CD3 and anti-CD28 coated beads for 72 hours - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF420JDM ENCSR265EHG + strand activated T-helper 17 cell male adult (48 years) treated with 50 U/mL Interleukin-2 for 72 hours, anti-CD3 and anti-CD28 coated beads for 72 hours + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF591IUP ENCSR264VJN - strand activated CD8-positive, alpha-beta T cell male adult (21 years) treated with anti-CD3 and anti-CD28 coated beads for 36 hours - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF393ZMQ ENCSR264VJN + strand activated CD8-positive, alpha-beta T cell male adult (21 years) treated with anti-CD3 and anti-CD28 coated beads for 36 hours + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF754QRX ENCSR258ELN - strand spleen tissue female adult (59 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF239BUM ENCSR258ELN + strand spleen tissue female adult (59 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF466VSY ENCSR257NIR - strand Peyer's patch tissue male adult (54 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF666KUJ ENCSR257NIR + strand Peyer's patch tissue male adult (54 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF192PSN ENCSR257FJF - strand HCT116 genetically modified (insertion) using CRISPR inserting O. sativa LOC4335696, (insertion) using CRISPR targeting H. sapiens POLR2A treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF590GQV ENCSR257FJF + strand HCT116 genetically modified (insertion) using CRISPR inserting O. sativa LOC4335696, (insertion) using CRISPR targeting H. sapiens POLR2A treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF603NZP ENCSR254JJM - strand Daoy - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF003RPR ENCSR254JJM + strand Daoy + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF108ODQ ENCSR252UHW - strand heart right ventricle tissue female adult (46 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF645AYP ENCSR252UHW + strand heart right ventricle tissue female adult (46 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF007IUY ENCSR252IPQ - strand with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (90 or above years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF438KRA ENCSR252IPQ + strand with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (90 or above years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF991LOA ENCSR245ATJ - strand HepG2 - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF908VIH ENCSR245ATJ + strand HepG2 + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF940INU ENCSR244ISQ - strand neural progenitor cell originated from H9 - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF674SIO ENCSR244ISQ + strand neural progenitor cell originated from H9 + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF360BWC ENCSR244HHV - strand placenta tissue male embryo - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF503NGO ENCSR244HHV + strand placenta tissue male embryo + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF720NBW ENCSR241EBI - strand activated naive CD4-positive, alpha-beta T cell male adult (50 years) treated with 50 U/mL Interleukin-2 for 72 hours, anti-CD3 and anti-CD28 coated beads for 72 hours - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF201YLL ENCSR241EBI + strand activated naive CD4-positive, alpha-beta T cell male adult (50 years) treated with 50 U/mL Interleukin-2 for 72 hours, anti-CD3 and anti-CD28 coated beads for 72 hours + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF186NMP ENCSR240JQW - strand activated CD8-positive, alpha-beta memory T cell male adult (30 years) treated with 10 ng/mL Interleukin-2 for 5 days, anti-CD3 and anti-CD28 coated beads for 7 days - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF008UXK ENCSR240JQW + strand activated CD8-positive, alpha-beta memory T cell male adult (30 years) treated with 10 ng/mL Interleukin-2 for 5 days, anti-CD3 and anti-CD28 coated beads for 7 days + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF714XZG ENCSR238ZZD - strand thyroid gland tissue female adult (53 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF837FLM ENCSR238ZZD + strand thyroid gland tissue female adult (53 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF388ZLS ENCSR235PLU - strand naive thymus-derived CD4-positive, alpha-beta T cell male adult (50 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF011SVY ENCSR235PLU + strand naive thymus-derived CD4-positive, alpha-beta T cell male adult (50 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF004MYZ ENCSR233IVG - strand dorsolateral prefrontal cortex tissue female adult (82 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF640YYQ ENCSR233IVG + strand dorsolateral prefrontal cortex tissue female adult (82 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF806ODK ENCSR233IJT - strand astrocyte - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF155PJH ENCSR233IJT + strand astrocyte + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF215GNJ ENCSR231ICM - strand ovary tissue female adult (47 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF372CVL ENCSR231ICM + strand ovary tissue female adult (47 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF946DUM ENCSR229LFK - strand right lobe of liver tissue female child (16 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF128YXB ENCSR229LFK + strand right lobe of liver tissue female child (16 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF481ZPW ENCSR226KML - strand right lobe of liver tissue female adult (53 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF103EZF ENCSR226KML + strand right lobe of liver tissue female adult (53 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF674YOS ENCSR216RNR - strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue female adult (88 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF654UYF ENCSR216RNR + strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue female adult (88 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF844ADU ENCSR209TIR - strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue male adult (90 or above years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF651UKQ ENCSR209TIR + strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue male adult (90 or above years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF317NMC ENCSR202OWR - strand colonic mucosa tissue female adult (41 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF767NPP ENCSR202OWR + strand colonic mucosa tissue female adult (41 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF272FSE ENCSR201XOZ - strand adrenal gland tissue female child (16 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF290PRJ ENCSR201XOZ + strand adrenal gland tissue female child (16 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF497JYE ENCSR198TKA - strand mesangial cell NONE and female embryo (21 weeks) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF999JRR ENCSR198TKA + strand mesangial cell NONE and female embryo (21 weeks) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF714APG ENCSR198QAJ - strand dorsolateral prefrontal cortex tissue female adult (90 or above years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF424DIT ENCSR198QAJ + strand dorsolateral prefrontal cortex tissue female adult (90 or above years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF377GVX ENCSR197GCF - strand heart right ventricle tissue male adult (54 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF859QIP ENCSR197GCF + strand heart right ventricle tissue male adult (54 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF127VSW ENCSR196KBV - strand T-cell female adult (21 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF654LYX ENCSR196KBV + strand T-cell female adult (21 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF775ADT ENCSR194HVU - strand spleen tissue female adult (51 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF371QSS ENCSR194HVU + strand spleen tissue female adult (51 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF726KEH ENCSR185TQB - strand aorta tissue female adult (41 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF542TGZ ENCSR185TQB + strand aorta tissue female adult (41 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF920PNV ENCSR184LTL - strand mucosa of descending colon tissue female adult (61 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF837ZJA ENCSR184LTL + strand mucosa of descending colon tissue female adult (61 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF807ZPP ENCSR182CBU - strand esophagus muscularis mucosa tissue male adult (37 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF741HPN ENCSR182CBU + strand esophagus muscularis mucosa tissue male adult (37 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF218TXJ ENCSR177XCG - strand CD4-positive, alpha-beta memory T cell male adult (43 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF014YFU ENCSR177XCG + strand CD4-positive, alpha-beta memory T cell male adult (43 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF487CYI ENCSR177CWW - strand activated naive CD4-positive, alpha-beta T cell male adult (48 years) treated with 50 U/mL Interleukin-2 for 72 hours, anti-CD3 and anti-CD28 coated beads for 72 hours - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF964AQJ ENCSR177CWW + strand activated naive CD4-positive, alpha-beta T cell male adult (48 years) treated with 50 U/mL Interleukin-2 for 72 hours, anti-CD3 and anti-CD28 coated beads for 72 hours + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF896WDT ENCSR176KEW - strand adrenal gland tissue female adult (59 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF809PGE ENCSR176KEW + strand adrenal gland tissue female adult (59 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF179AXC ENCSR171ZNI - strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue female adult (90 or above years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF295ITZ ENCSR171ZNI + strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue female adult (90 or above years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF602IWY ENCSR171CLQ - strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue female adult (81 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF574EJQ ENCSR171CLQ + strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue female adult (81 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF509LFJ ENCSR168PXI - strand mesothelial cell of epicardium - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF280UGW ENCSR168PXI + strand mesothelial cell of epicardium + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF798COU ENCSR165QTZ - strand pancreas tissue female adult (61 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF013IKJ ENCSR165QTZ + strand pancreas tissue female adult (61 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF289QYR ENCSR164OCT - strand NCI-H460 - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF448PWM ENCSR164OCT + strand NCI-H460 + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF938TXU ENCSR162SPJ - strand dorsolateral prefrontal cortex tissue female adult (77 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF861QIF ENCSR162SPJ + strand dorsolateral prefrontal cortex tissue female adult (77 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF977WWQ ENCSR158VWD - strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue female adult (90 or above years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF766TPR ENCSR158VWD + strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue female adult (90 or above years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF355JXD ENCSR158KFO - strand omental fat pad tissue female adult (51 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF669TRH ENCSR158KFO + strand omental fat pad tissue female adult (51 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF500BHN ENCSR158IHB - strand dorsolateral prefrontal cortex tissue female adult (75 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF037HVL ENCSR158IHB + strand dorsolateral prefrontal cortex tissue female adult (75 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF712NWK ENCSR154PNU - strand with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (90 or above years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF957WVH ENCSR154PNU + strand with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (90 or above years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF361WVC ENCSR152FDX - strand activated naive CD4-positive, alpha-beta T cell male adult (43 years) treated with anti-CD3 and anti-CD28 coated beads for 36 hours, 10 ng/mL Interleukin-2 for 5 days - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF969VXC ENCSR152FDX + strand activated naive CD4-positive, alpha-beta T cell male adult (43 years) treated with anti-CD3 and anti-CD28 coated beads for 36 hours, 10 ng/mL Interleukin-2 for 5 days + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF700SCB ENCSR151NGC - strand GM12878 - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF782HFV ENCSR151NGC + strand GM12878 + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF071JET ENCSR151FXS - strand CD8-positive, alpha-beta T cell male adult (21 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF535NFF ENCSR151FXS + strand CD8-positive, alpha-beta T cell male adult (21 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF541EUU ENCSR150QJY - strand subcutaneous adipose tissue tissue female adult (51 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF359ATD ENCSR150QJY + strand subcutaneous adipose tissue tissue female adult (51 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF353AFV ENCSR149AHS - strand posterior vena cava tissue female adult (59 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF509OMC ENCSR149AHS + strand posterior vena cava tissue female adult (59 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF920SOI ENCSR146ZSP - strand HFFc6 - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF908IDY ENCSR146ZSP + strand HFFc6 + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF968JGZ ENCSR146ZLV - strand ovary tissue female adult (59 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF769QDV ENCSR146ZLV + strand ovary tissue female adult (59 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF533UMY ENCSR146LBD - strand vagina tissue female adult (53 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF477AQU ENCSR146LBD + strand vagina tissue female adult (53 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF353SDE ENCSR146GSS - strand HCT116 genetically modified (insertion) using CRISPR inserting O. sativa LOC4335696, (insertion) using CRISPR targeting H. sapiens SMARCA5 treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF773IJT ENCSR146GSS + strand HCT116 genetically modified (insertion) using CRISPR inserting O. sativa LOC4335696, (insertion) using CRISPR targeting H. sapiens SMARCA5 treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF628JXI ENCSR140DCD - strand ovary tissue female adult (46 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF105TXB ENCSR140DCD + strand ovary tissue female adult (46 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF393XRH ENCSR138MMB - strand with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (90 or above years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF534EDO ENCSR138MMB + strand with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (90 or above years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF386YHW ENCSR136WGP - strand SK-N-DZ treated with dimethyl sulfoxide for 72 hours - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF200EXX ENCSR136WGP + strand SK-N-DZ treated with dimethyl sulfoxide for 72 hours + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF253OSP ENCSR135IAL - strand right lobe of liver tissue female adult (41 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF565QRM ENCSR135IAL + strand right lobe of liver tissue female adult (41 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF190QYM ENCSR133PLR - strand dorsolateral prefrontal cortex tissue male adult (85 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF160SEG ENCSR133PLR + strand dorsolateral prefrontal cortex tissue male adult (85 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF344SXR ENCSR132VGJ - strand Right ventricle myocardium superior tissue male adult (60 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF198IBF ENCSR132VGJ + strand Right ventricle myocardium superior tissue male adult (60 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF279GXE ENCSR131FDP - strand heart left ventricle tissue male adult (69 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF263IMB ENCSR131FDP + strand heart left ventricle tissue male adult (69 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF917VEL ENCSR130TZW - strand posterior vena cava tissue female adult (47 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF568EVH ENCSR130TZW + strand posterior vena cava tissue female adult (47 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF106NHZ ENCSR129VBC - strand astrocyte - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF547RAL ENCSR129VBC + strand astrocyte + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF427HZZ ENCSR128CYL - strand Panc1 - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF962EZE ENCSR128CYL + strand Panc1 + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF991ZXA ENCSR118TVR - strand epithelial cell of proximal tubule - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF767MLU ENCSR118TVR + strand epithelial cell of proximal tubule + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF572MQV ENCSR113HQM - strand uterus tissue female adult (53 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF823LKJ ENCSR113HQM + strand uterus tissue female adult (53 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF645QTA ENCSR113CCF - strand HCT116 genetically modified (insertion) using CRISPR inserting O. sativa LOC4335696, (insertion) using CRISPR targeting H. sapiens MED14 - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF638RVA ENCSR113CCF + strand HCT116 genetically modified (insertion) using CRISPR inserting O. sativa LOC4335696, (insertion) using CRISPR targeting H. sapiens MED14 + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF535BQI ENCSR111PSY - strand activated T-cell male adult (42 years) treated with 50 U/mL Interleukin-2 for 4 hours, anti-CD3 and anti-CD28 coated beads for 4 hours - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF122XJD ENCSR111PSY + strand activated T-cell male adult (42 years) treated with 50 U/mL Interleukin-2 for 4 hours, anti-CD3 and anti-CD28 coated beads for 4 hours + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF020YUS ENCSR110BDY - strand cardiac atrium fibroblast male child (2 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF413ZPN ENCSR110BDY + strand cardiac atrium fibroblast male child (2 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF928QTX ENCSR108MAU - strand suprapubic skin tissue male adult (54 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF136YVC ENCSR108MAU + strand suprapubic skin tissue male adult (54 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF520WUA ENCSR106SZN - strand spleen tissue male adult (54 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF507FAA ENCSR106SZN + strand spleen tissue male adult (54 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF482XRR ENCSR102NWB - strand with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (87 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF007YKS ENCSR102NWB + strand with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (87 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF660WUT ENCSR098BUF - strand esophagus muscularis mucosa tissue female adult (53 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF071TXL ENCSR098BUF + strand esophagus muscularis mucosa tissue female adult (53 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF586UIF ENCSR096YLM - strand with mild cognitive impairment; dorsolateral prefrontal cortex tissue male adult (84 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF086PNQ ENCSR096YLM + strand with mild cognitive impairment; dorsolateral prefrontal cortex tissue male adult (84 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF739HWP ENCSR096UGR - strand HCT116 genetically modified (insertion) using CRISPR inserting O. sativa LOC4335696, (insertion) using CRISPR targeting H. sapiens SUPT16H treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF033RAM ENCSR096UGR + strand HCT116 genetically modified (insertion) using CRISPR inserting O. sativa LOC4335696, (insertion) using CRISPR targeting H. sapiens SUPT16H treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF370NHN ENCSR096LTX - strand spleen tissue female adult (61 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF942QIE ENCSR096LTX + strand spleen tissue female adult (61 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF495ROB ENCSR094VRQ - strand breast epithelium tissue male adult (37 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF863UAA ENCSR094VRQ + strand breast epithelium tissue male adult (37 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF372ZNZ ENCSR094RQC - strand HCT116 genetically modified (insertion) using CRISPR inserting O. sativa LOC4335696, (insertion) using CRISPR targeting H. sapiens RAD21 treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF050ZLU ENCSR094RQC + strand HCT116 genetically modified (insertion) using CRISPR inserting O. sativa LOC4335696, (insertion) using CRISPR targeting H. sapiens RAD21 treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF779RGY ENCSR094GVZ - strand sigmoid colon tissue female adult (53 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF387UUZ ENCSR094GVZ + strand sigmoid colon tissue female adult (53 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF666EAW ENCSR090RYJ - strand with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (90 or above years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF369OGU ENCSR090RYJ + strand with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (90 or above years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF016BVV ENCSR082XSF - strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue female adult (90 or above years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF162VJY ENCSR082XSF + strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue female adult (90 or above years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF814MGD ENCSR080VMJ - strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue female adult (89 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF957UTK ENCSR080VMJ + strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue female adult (89 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF725EWR ENCSR080HPT - strand omental fat pad tissue male adult (54 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF847OUD ENCSR080HPT + strand omental fat pad tissue male adult (54 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF347WST ENCSR078WNY - strand dorsolateral prefrontal cortex tissue female adult (78 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF402API ENCSR078WNY + strand dorsolateral prefrontal cortex tissue female adult (78 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF189YZU ENCSR077EAM - strand CD4-positive, CD25-positive, alpha-beta regulatory T cell female adult (21 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF622PHJ ENCSR077EAM + strand CD4-positive, CD25-positive, alpha-beta regulatory T cell female adult (21 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF325ZFM ENCSR075ZTG - strand pancreas tissue male adult (26 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF579HXI ENCSR075ZTG + strand pancreas tissue male adult (26 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF087IOH ENCSR074FTH - strand spleen tissue male adult (26 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF434LID ENCSR074FTH + strand spleen tissue male adult (26 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF537UAQ ENCSR073XFZ - strand OCI-LY7 - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF480GYV ENCSR073XFZ + strand OCI-LY7 + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF642VAM ENCSR071ZLM - strand uterus tissue female adult (51 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF432ENB ENCSR071ZLM + strand uterus tissue female adult (51 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF509ECI ENCSR071DYD - strand pancreas tissue female child (16 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF656OUX ENCSR071DYD + strand pancreas tissue female child (16 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF142HCE ENCSR067GOC - strand with Cognitive impairment; dorsolateral prefrontal cortex tissue female adult (90 or above years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF349JMQ ENCSR067GOC + strand with Cognitive impairment; dorsolateral prefrontal cortex tissue female adult (90 or above years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF409FXN ENCSR061RDC - strand with Alzheimer's disease, Cognitive impairment; dorsolateral prefrontal cortex tissue female adult (87 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF381TII ENCSR061RDC + strand with Alzheimer's disease, Cognitive impairment; dorsolateral prefrontal cortex tissue female adult (87 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF707WMO ENCSR061HMO - strand dorsolateral prefrontal cortex tissue female adult (90 or above years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF035GJD ENCSR061HMO + strand dorsolateral prefrontal cortex tissue female adult (90 or above years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF730JXD ENCSR052SDT - strand activated CD4-positive, alpha-beta T cell male adult (35 years) treated with 10 ng/mL Interleukin-2 for 14 days, anti-CD3 and anti-CD28 coated beads for 24 hours, anti-CD3 and anti-CD28 coated beads for 14 days - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF978IZK ENCSR052SDT + strand activated CD4-positive, alpha-beta T cell male adult (35 years) treated with 10 ng/mL Interleukin-2 for 14 days, anti-CD3 and anti-CD28 coated beads for 24 hours, anti-CD3 and anti-CD28 coated beads for 14 days + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF566YDS ENCSR052LON - strand dorsolateral prefrontal cortex tissue male adult (71 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF196HWN ENCSR052LON + strand dorsolateral prefrontal cortex tissue male adult (71 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF283ANB ENCSR052FJA - strand smooth muscle cell originated from H9 - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF652ISB ENCSR052FJA + strand smooth muscle cell originated from H9 + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF801HGQ ENCSR045GTF - strand lung tissue female adult (47 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF905NZB ENCSR045GTF + strand lung tissue female adult (47 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF093KRC ENCSR042GYH - strand ovary tissue female adult (51 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF411VWO ENCSR042GYH + strand ovary tissue female adult (51 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF167JKM ENCSR036SUN - strand with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (90 or above years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF475JUK ENCSR036SUN + strand with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (90 or above years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF757VDY ENCSR035SKV - strand gastroesophageal sphincter tissue female adult (51 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF487XUM ENCSR035SKV + strand gastroesophageal sphincter tissue female adult (51 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF872OZF ENCSR034DEZ - strand HCT116 genetically modified (insertion) using CRISPR inserting O. sativa LOC4335696, (insertion) using CRISPR targeting H. sapiens SUPT16H - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF673FLP ENCSR034DEZ + strand HCT116 genetically modified (insertion) using CRISPR inserting O. sativa LOC4335696, (insertion) using CRISPR targeting H. sapiens SUPT16H + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF500JUA ENCSR033XWU - strand CD4-positive, alpha-beta T cell male adult (20 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF579IBH ENCSR033XWU + strand CD4-positive, alpha-beta T cell male adult (20 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF320DQM ENCSR029KNZ - strand testis tissue male adult (37 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF182JIC ENCSR029KNZ + strand testis tissue male adult (37 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF071PMH ENCSR025BZY - strand dorsolateral prefrontal cortex tissue female adult (82 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF177UMP ENCSR025BZY + strand dorsolateral prefrontal cortex tissue female adult (82 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF230MJR ENCSR023ZXN - strand thyroid gland tissue male adult (54 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF796PND ENCSR023ZXN + strand thyroid gland tissue male adult (54 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF963DOX ENCSR020YQE - strand mammary epithelial cell female adult (19 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF401YXF ENCSR020YQE + strand mammary epithelial cell female adult (19 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF697SGZ ENCSR019ICB - strand dorsolateral prefrontal cortex tissue female adult (90 or above years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF233HJC ENCSR019ICB + strand dorsolateral prefrontal cortex tissue female adult (90 or above years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF332GTA ENCSR015SAL - strand with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (90 or above years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF520VBQ ENCSR015SAL + strand with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (90 or above years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF811NYJ ENCSR015PUN - strand Right ventricle myocardium inferior tissue male adult (60 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF952CKD ENCSR015PUN + strand Right ventricle myocardium inferior tissue male adult (60 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF087NIN ENCSR013HWB - strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue female adult (88 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF765OZR ENCSR013HWB + strand with Alzheimer's disease; dorsolateral prefrontal cortex tissue female adult (88 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF148EZJ ENCSR012UFU - strand dorsolateral prefrontal cortex tissue male adult (86 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF738NMC ENCSR012UFU + strand dorsolateral prefrontal cortex tissue male adult (86 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF981OYU ENCSR011VQI - strand naive thymus-derived CD4-positive, alpha-beta T cell male adult (48 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF130HHE ENCSR011VQI + strand naive thymus-derived CD4-positive, alpha-beta T cell male adult (48 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF304ZHS ENCSR010HIU - strand placenta tissue male embryo - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF419TJX ENCSR010HIU + strand placenta tissue male embryo + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF069ZNL ENCSR007SVQ - strand dorsolateral prefrontal cortex tissue female adult (86 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF333RMV ENCSR007SVQ + strand dorsolateral prefrontal cortex tissue female adult (86 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF075ZYH ENCSR003BTD - strand adrenal gland tissue female adult (47 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF357VZF ENCSR003BTD + strand adrenal gland tissue female adult (47 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF054IYT ENCSR001QSI - strand with Cognitive impairment, Alzheimer's disease; dorsolateral prefrontal cortex tissue male adult (80 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF819DZM ENCSR001QSI + strand with Cognitive impairment, Alzheimer's disease; dorsolateral prefrontal cortex tissue male adult (80 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF932CMH ENCSR001HHK - strand OCI-LY7 - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF824TCL ENCSR001HHK + strand OCI-LY7 + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF904TSK ENCSR000AHH - strand heart tissue male adult (34 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF018EZY ENCSR000AHH + strand heart tissue male adult (34 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF099HWY ENCSR000AFO - strand camera-type eye tissue female embryo (20 weeks) and female embryo (24 weeks) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF676EVQ ENCSR000AFO + strand camera-type eye tissue female embryo (20 weeks) and female embryo (24 weeks) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF245ODT ENCSR000AFN - strand uterus tissue female embryo (24 weeks) and female embryo (28 weeks) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF172ZKT ENCSR000AFN + strand uterus tissue female embryo (24 weeks) and female embryo (28 weeks) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF413VZU ENCSR000AFM - strand umbilical cord tissue male embryo (20 weeks) and male embryo (31 weeks) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF298LRD ENCSR000AFM + strand umbilical cord tissue male embryo (20 weeks) and male embryo (31 weeks) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF963RNI ENCSR000AFL - strand tongue tissue female embryo (20 weeks) and female embryo (24 weeks) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF967PCH ENCSR000AFL + strand tongue tissue female embryo (20 weeks) and female embryo (24 weeks) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF759LPC ENCSR000AFK - strand thyroid gland tissue female embryo (37 weeks) and female embryo (40 weeks) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF907UHD ENCSR000AFK + strand thyroid gland tissue female embryo (37 weeks) and female embryo (40 weeks) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF827RCP ENCSR000AFJ - strand temporal lobe tissue female embryo (20 weeks) and female embryo (24 weeks) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF112ZFT ENCSR000AFJ + strand temporal lobe tissue female embryo (20 weeks) and female embryo (24 weeks) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF785JVZ ENCSR000AFI - strand stomach tissue female embryo (40 weeks) and male embryo (36 weeks) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF718MVN ENCSR000AFI + strand stomach tissue female embryo (40 weeks) and male embryo (36 weeks) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF529VVX ENCSR000AFH - strand spinal cord tissue female embryo (24 weeks) and male embryo (22 weeks) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF921RUL ENCSR000AFH + strand spinal cord tissue female embryo (24 weeks) and male embryo (22 weeks) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF733NCQ ENCSR000AFG - strand skin of body tissue female embryo (24 weeks) and male embryo (22 weeks) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF198ZSA ENCSR000AFG + strand skin of body tissue female embryo (24 weeks) and male embryo (22 weeks) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF180QPD ENCSR000AFF - strand skeletal muscle tissue tissue female embryo (19 weeks) and male embryo (22 weeks) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF679IIG ENCSR000AFF + strand skeletal muscle tissue tissue female embryo (19 weeks) and male embryo (22 weeks) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF754STC ENCSR000AFE - strand parietal lobe tissue female embryo (24 weeks) and male embryo (22 weeks) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF470OAY ENCSR000AFE + strand parietal lobe tissue female embryo (24 weeks) and male embryo (22 weeks) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF905QKV ENCSR000AFD - strand occipital lobe tissue female embryo (20 weeks) and male embryo (22 weeks) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF605ZUY ENCSR000AFD + strand occipital lobe tissue female embryo (20 weeks) and male embryo (22 weeks) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF743EXL ENCSR000AFC - strand lung tissue female embryo (20 weeks) and female embryo (24 weeks) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF340HZJ ENCSR000AFC + strand lung tissue female embryo (20 weeks) and female embryo (24 weeks) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF711ARV ENCSR000AFB - strand liver tissue female embryo (20 weeks) and male embryo (22 weeks) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF861FSP ENCSR000AFB + strand liver tissue female embryo (20 weeks) and male embryo (22 weeks) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF277EOS ENCSR000AFA - strand metanephros tissue female embryo (20 weeks) and female embryo (24 weeks) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF236DSW ENCSR000AFA + strand metanephros tissue female embryo (20 weeks) and female embryo (24 weeks) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF187OVQ ENCSR000AEZ - strand heart tissue female embryo (19 weeks) and female embryo (28 weeks) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF454SXU ENCSR000AEZ + strand heart tissue female embryo (19 weeks) and female embryo (28 weeks) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF167SSR ENCSR000AEY - strand frontal cortex tissue female embryo (20 weeks) and male embryo (22 weeks) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF217HQN ENCSR000AEY + strand frontal cortex tissue female embryo (20 weeks) and male embryo (22 weeks) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF800CGN ENCSR000AEX - strand diencephalon tissue female embryo (20 weeks) and male embryo (22 weeks) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF409QSM ENCSR000AEX + strand diencephalon tissue female embryo (20 weeks) and male embryo (22 weeks) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF290HJK ENCSR000AEW - strand cerebellum tissue female embryo (19 weeks) and female embryo (37 weeks) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF205FCQ ENCSR000AEW + strand cerebellum tissue female embryo (19 weeks) and female embryo (37 weeks) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF273HCM ENCSR000AEV - strand urinary bladder tissue female embryo (20 weeks) and female embryo (24 weeks) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF775XPO ENCSR000AEV + strand urinary bladder tissue female embryo (20 weeks) and female embryo (24 weeks) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF552YJA ENCSR000AEU - strand liver tissue female child (6 years) and with nonobstructive coronary artery disease; liver tissue male adult (32 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF945UHI ENCSR000AEU + strand liver tissue female child (6 years) and with nonobstructive coronary artery disease; liver tissue male adult (32 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF257NOL ENCSR000AEL - strand K562 - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF335LVS ENCSR000AEL + strand K562 + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF830QII ENCSR000AEC - strand GM12878 - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF470BSF ENCSR000AEC + strand GM12878 + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF762IFO ENCSR000AAV - strand uterine smooth muscle cell female adult (48 years) and female adult (50 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF369BVA ENCSR000AAV + strand uterine smooth muscle cell female adult (48 years) and female adult (50 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF010WFY ENCSR000AAU - strand smooth muscle cell of the umbilical artery female newborn and male newborn - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF368GDY ENCSR000AAU + strand smooth muscle cell of the umbilical artery female newborn and male newborn + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF296OUP ENCSR000AAT - strand epithelial cell of umbilical artery female newborn and male newborn - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF572FWT ENCSR000AAT + strand epithelial cell of umbilical artery female newborn and male newborn + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF228UEL ENCSR000AAS - strand smooth muscle cell of trachea male adult (28 years) and male adult (56 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF980NBI ENCSR000AAS + strand smooth muscle cell of trachea male adult (28 years) and male adult (56 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF132WII ENCSR000AAR - strand tracheal epithelial cell male adult (21 years) and male adult (68 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF792SYD ENCSR000AAR + strand tracheal epithelial cell male adult (21 years) and male adult (68 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF732FPG ENCSR000AAQ - strand renal cortical epithelial cell female adult (69 years) and male adult (84 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF818OXF ENCSR000AAQ + strand renal cortical epithelial cell female adult (69 years) and male adult (84 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF912QIW ENCSR000AAP - strand lung microvascular endothelial cell female adult (55 years) and male adult (63 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF618FQK ENCSR000AAP + strand lung microvascular endothelial cell female adult (55 years) and male adult (63 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF400FIM ENCSR000AAO - strand fibroblast of lung female adult (83 years) and male adult (23 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF545THT ENCSR000AAO + strand fibroblast of lung female adult (83 years) and male adult (23 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF492BDO ENCSR000AAN - strand smooth muscle cell of the pulmonary artery male adult (26 years) and male adult (28 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF295TQL ENCSR000AAN + strand smooth muscle cell of the pulmonary artery male adult (26 years) and male adult (28 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF067VBH ENCSR000AAM - strand pulmonary artery endothelial cell male adult (23 years) and male adult (52 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF811OBN ENCSR000AAM + strand pulmonary artery endothelial cell male adult (23 years) and male adult (52 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF945NGT ENCSR000AAL - strand nasal cavity respiratory epithelium epithelial cell of viscerocranial mucosa female adult (70 years) and male adult (46 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF114NWW ENCSR000AAL + strand nasal cavity respiratory epithelium epithelial cell of viscerocranial mucosa female adult (70 years) and male adult (46 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF149SKB ENCSR000AAK - strand dermis microvascular lymphatic vessel endothelial cell female adult (38 years) and female adult (64 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF079OMS ENCSR000AAK + strand dermis microvascular lymphatic vessel endothelial cell female adult (38 years) and female adult (64 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF765UYO ENCSR000AAJ - strand dermis lymphatic vessel endothelial cell female adult (45 years) and male child (6 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF772AKN ENCSR000AAJ + strand dermis lymphatic vessel endothelial cell female adult (45 years) and male child (6 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF290TZQ ENCSR000AAI - strand dermis blood vessel endothelial cell female child (16 years) and male child (13 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF827XBB ENCSR000AAI + strand dermis blood vessel endothelial cell female child (16 years) and male child (13 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF933WED ENCSR000AAH - strand regular cardiac myocyte female adult (51 years) and male adult (48 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF263MKB ENCSR000AAH + strand regular cardiac myocyte female adult (51 years) and male adult (48 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF086AHW ENCSR000AAG - strand smooth muscle cell of the coronary artery female adult (53 years) and male adult (55 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF821UQE ENCSR000AAG + strand smooth muscle cell of the coronary artery female adult (53 years) and male adult (55 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF273WQL ENCSR000AAF - strand endothelial cell of coronary artery female adult (41 years) and male adult (77 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF678MUA ENCSR000AAF + strand endothelial cell of coronary artery female adult (41 years) and male adult (77 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF368QGM ENCSR000AAE - strand bronchial smooth muscle cell male adult (52 years) and male adult (59 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF073UEV ENCSR000AAE + strand bronchial smooth muscle cell male adult (52 years) and male adult (59 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF891TIX ENCSR000AAD - strand bronchial epithelial cell female adult (40 years) and male adult (68 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF153YEN ENCSR000AAD + strand bronchial epithelial cell female adult (40 years) and male adult (68 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF972JBP ENCSR000AAC - strand smooth muscle cell of bladder female adult (53 years) and male adult (62 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF442VHH ENCSR000AAC + strand smooth muscle cell of bladder female adult (53 years) and male adult (62 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF474UIV ENCSR000AAB - strand bladder microvascular endothelial cell male adult (46 years) and male adult (60 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF168OLY ENCSR000AAB + strand bladder microvascular endothelial cell male adult (46 years) and male adult (60 years) + strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF948NTI ENCSR000AAA - strand aortic smooth muscle cell male adult (21 years) and male adult (54 years) - strand total RNA-seq signal Experimental 
wgEncodeReg4RnaSeq_ENCFF281BWX ENCSR000AAA + strand aortic smooth muscle cell male adult (21 years) and male adult (54 years) + strand total RNA-seq signal Experimental 
covidMuts COVID Rare Harmful Var Rare variants underlying COVID-19 severity and susceptibility from the COVID Human Genetics Effort Phenotypes, Variants, and Literature Description This track shows rare variants associated with monogenic congenital defects of immunity to the SARS-CoV-2 virus identified by the COVID Human Genetic Effort. This international consortium aims to discover truly causative variations: those underlying severe forms of COVID-19 in previously healthy individuals, and those that make certain individuals resistant to infection by the SARS-CoV2 virus despite repeated exposure. The major feature of the small set of variants in this track is that they are functionally tested to be deleterious and genetically tested to be disease-causing. Specifically, rare variants were predicted to be loss-of-function at human loci known to govern interferon (IFN) immunity to influenza virus in patients with life-threatening COVID-19 pneumonia, relative to subjects with asymptomatic or benign infection. These genetic defects display incomplete penetrance for influenza respiratory distress and only appear clinically upon infection with the more virulent SARS-CoV-2. Display Conventions Only eight genes with 23 variants are contained in this track. Use the links below to navigate to the gene of interest or view all eight genes together using the following sessions for hg38 or hg19. Gene Name Human GRCh37/hg19 Assembly Human GRCh38/hg38 Assembly TLR3 chr4:186990309-187006252 chr4:186069152-186088069 IRF7 chr11:612555-615999 chr11:612591-615970 UNC93B1 chr11:67758575-67771593 chr11:67991100-68004097 TBK1 chr12:64845840-64895899 chr12:64452120-64502114 TICAM1 chr19:4815936-4831754 chr19:4815932-4831704 IRF3 chr19:50162826-50169132 chr19:49659570-49665875 IFNAR1 chr21:34697214-34732128 chr21:33324970-33359864 IFNAR2 chr21:34602231-34636820 chr21:33229974-33264525 Methods This track uses variant calls in autosomal IFN-related genes from whole exome and genome data with a MAF lower than 0.001 (gnomAD v2.1.1) and experimental demonstration of loss-of-function. The patient population studied consisted of 659 patients with life-threatening COVID-19 pneumonia relative to 534 subjects with asymptomatic or benign infection of varying ethnicities. Variants underlying autosomal-recessive or autosomal-dominant deficiencies were identified in 23 patients (3.5%) 17 to 77 years of age. The proportion of individuals carrying at least one variant was compared between severe cases and control cases by means of logistic regression with the likelihood ratio test. Principal Component Analysis (PCA) was conducted with Plink v1.9 software on whole exome and genome sequencing data with the 1000 Genomes (1kG) Project phase 3 public database as reference. Analysis of enrichment in rare synonymous variants of the genes was performed to check the calibration of the burden test. The odds ratio was also estimated by logistic regression and adjusted for ethnic heterogeneity. Data Access The raw data can be explored interactively with the Table Browser, or the Data Integrator. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credits Thanks to the COVID Human Genetic Effort contributors for making these data available, and in particular to Qian Zhang at the Rockefeller University for review and input during browser track development. References Zhang Q, Bastard P, Liu Z, Le Pen J, Moncada-Velez M, Chen J, Ogishi M, Sabli IKD, Hodeib S, Korol C et al. Inborn errors of type I IFN immunity in patients with life-threatening COVID-19. Science. 2020 Sep 24;. PMID: 32972995 
wgEncodeReg4TfChip TF ChIP-seq (Indiv.) Peaks and signal from individual transcription factor ChIP experiments from ENCODE 4 Experimental Description This track displays genome-wide binding profiles of DNA-associated proteins from 2,503 individual ENCODE ChIP-seq experiments, which form the experimental basis for the TF rPeaks track. These proteins include transcription factors (TFs), RNA polymerase, and chromatin-associated proteins involved in transcriptional regulation. Sequence-specific TFs bind directly to DNA motifs via DNA-binding domains, while others interact indirectly through protein-protein interactions. ChIP-seq (chromatin immunoprecipitation followed by sequencing) enables genome-wide mapping of protein-DNA interactions. Each ChIP-seq experiment is shown as two subtracks: Signal - a bigWig track of the experiment's signal Peak - a bigBed track of the experiment's peaks, colored in grayscale by ChIP-seq signal (darker = higher signal, score 0 to 1,000): Color Score 1000 (highest signal) 750 500 250 1 (lowest signal) Peaks often correspond to protein binding sites in specific biosamples. Additional ChIP-seq datasets can be explored through the ENCODE portal. Display Conventions and Configuration Click a specific protein target and organ/tissue combination to view available datasets. Subtracks can be further filtered by Tf, Organ, Biosample Type, Life Stage, and Data Type (Signal or Peak). Signal subtracks are colored by the organ or tissue of origin, as shown below. Peak subtracks use the grayscale shading by ChIP-seq signal described above and are not colored by organ. adipose adrenal gland blood blood vessel bone bone marrow brain breast connective tissue embryo epithelium esophagus eye heart kidney large intestine liver lung lymphoid tissue mouth muscle nerve ovary pancreas parathyroid gland penis placenta prostate skin small intestine spinal cord spleen stomach testis thyroid uterus vagina Data Access The ENCODE 4 Regulation data on the UCSC Genome Browser can be explored interactively with the Table Browser or the Data Integrator. For automated download and analysis, the genome annotation is stored in bigBed files that can be downloaded from our download server. The data may also be explored interactively using our REST API. The original data files are also available from the ENCODE portal. Clicking any accession in the track's configuration table links directly to the corresponding file details page on the ENCODE portal. These files may also be locally explored using our tool bigBedToBed, which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tool can also be used to obtain features confined to a given range, e.g., bigBedToBed -chrom=chr1 -start=100000 -end=100500 https://encode-public.s3.amazonaws.com/2020/12/04/ddd64b54-7aad-4a2d-9270-ce677581b64b/ENCFF492SKF.bigBed stdout Credits Data were generated by the ENCODE Consortium through the following production labs: Drs. Bradley Bernstein (Broad), John Stamatoyannopoulos (UW), Kevin Struhl (HMS), Kevin White (UChicago), Michael Snyder (Stanford), Peggy Farnham (USC), Richard Myers (HAIB), Sherman Weissman (Yale), Tim Reddy (Duke), Vishwanath Iyer (UTA), and Xiang-Dong Fu (UCSD). The data were further processed for visualization through a collaborative effort between the Weng lab and the Moore lab at UMass Chan Medical School (funded by NIH grant HG012343). Integration and visualization were developed by Drs. Mingshi Gao, Jill Moore, and Zhiping Weng at UMass Chan Medical School, who were part of the ENCODE Data Analysis Center. References ENCODE Project Consortium, Moore JE, Purcaro MJ, Pratt HE, Epstein CB, Shoresh N, Adrian J, Kawli T, Davis CA, Dobin A et al. Expanded encyclopaedias of DNA elements in the human and mouse genomes. Nature. 2020 Jul;583(7818):699-710. PMID: 32728249; PMC: PMC7410828 Moore JE, Pratt HE, Fan K, Phalke N, Fisher J, Elhajjajy SI, Andrews G, Gao M, Shedd N, Fu Y et al. An Expanded Registry of Candidate cis-Regulatory Elements for Studying Transcriptional Regulation. Nature. 2026 January 7. PMID: 39763870; PMC: PMC11703161 
wgEncodeReg4TfChip_ENCFF708ISH ENCSR999QVR signal uterus tissue female adult (51 years) POLR2A ENCSR999QVR signal Experimental 
wgEncodeReg4TfChip_ENCFF566ZPY ENCSR999QVR uterus tissue female adult (51 years) POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF686NAT ENCSR999JKC signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens HOXA3 HOXA3 ENCSR999JKC signal Experimental 
wgEncodeReg4TfChip_ENCFF374TCI ENCSR999JKC HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens HOXA3 HOXA3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF787GND ENCSR998YJI signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF503 ZNF503 ENCSR998YJI signal Experimental 
wgEncodeReg4TfChip_ENCFF923HZL ENCSR998YJI HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF503 ZNF503 peaks Experimental 
wgEncodeReg4TfChip_ENCFF636QDP ENCSR998OMC signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens TFCP2 TFCP2 ENCSR998OMC signal Experimental 
wgEncodeReg4TfChip_ENCFF984WXL ENCSR998OMC K562 genetically modified (insertion) using CRISPR targeting H. sapiens TFCP2 TFCP2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF782JRA ENCSR998NQG signal gastrocnemius medialis tissue male adult (54 years) CTCF ENCSR998NQG signal Experimental 
wgEncodeReg4TfChip_ENCFF468QWC ENCSR998NQG gastrocnemius medialis tissue male adult (54 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF732ISZ ENCSR998AJK signal K562 NRF1 ENCSR998AJK signal Experimental 
wgEncodeReg4TfChip_ENCFF689EWI ENCSR998AJK K562 NRF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF453FOQ ENCSR996FYT signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF202 ZNF202 ENCSR996FYT signal Experimental 
wgEncodeReg4TfChip_ENCFF574FZA ENCSR996FYT HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF202 ZNF202 peaks Experimental 
wgEncodeReg4TfChip_ENCFF227FLD ENCSR996ESX signal K562 NFRKB ENCSR996ESX signal Experimental 
wgEncodeReg4TfChip_ENCFF221WAF ENCSR996ESX K562 NFRKB peaks Experimental 
wgEncodeReg4TfChip_ENCFF568UZF ENCSR995QNB signal Peyer's patch tissue female adult (53 years) POLR2A ENCSR995QNB signal Experimental 
wgEncodeReg4TfChip_ENCFF767HVN ENCSR995QNB Peyer's patch tissue female adult (53 years) POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF623LTS ENCSR995FUM signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF79 ZNF79 ENCSR995FUM signal Experimental 
wgEncodeReg4TfChip_ENCFF558WWN ENCSR995FUM K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF79 ZNF79 peaks Experimental 
wgEncodeReg4TfChip_ENCFF851TCY ENCSR995CFS signal A549 genetically modified (insertion) using CRISPR targeting H. sapiens HEYL HEYL ENCSR995CFS signal Experimental 
wgEncodeReg4TfChip_ENCFF588UHP ENCSR995CFS A549 genetically modified (insertion) using CRISPR targeting H. sapiens HEYL HEYL peaks Experimental 
wgEncodeReg4TfChip_ENCFF131CIF ENCSR994YLZ signal liver tissue female child (4 years) YY1 ENCSR994YLZ signal Experimental 
wgEncodeReg4TfChip_ENCFF515BWJ ENCSR994YLZ liver tissue female child (4 years) YY1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF644FHA ENCSR993LMB signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens TGIF2 TGIF2 ENCSR993LMB signal Experimental 
wgEncodeReg4TfChip_ENCFF421ZJN ENCSR993LMB HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens TGIF2 TGIF2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF723RKS ENCSR991ELG signal K562 SP1 ENCSR991ELG signal Experimental 
wgEncodeReg4TfChip_ENCFF907BMO ENCSR991ELG K562 SP1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF221SGM ENCSR991ADX signal HepG2 U2AF2 ENCSR991ADX signal Experimental 
wgEncodeReg4TfChip_ENCFF948FDH ENCSR991ADX HepG2 U2AF2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF964ITE ENCSR988ZSI signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens RERE RERE ENCSR988ZSI signal Experimental 
wgEncodeReg4TfChip_ENCFF145QRA ENCSR988ZSI HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens RERE RERE peaks Experimental 
wgEncodeReg4TfChip_ENCFF774HXK ENCSR988LZG signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ARID5B ARID4B ENCSR988LZG signal Experimental 
wgEncodeReg4TfChip_ENCFF519OXJ ENCSR988LZG HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ARID5B ARID4B peaks Experimental 
wgEncodeReg4TfChip_ENCFF715ZTQ ENCSR988EVQ signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens XBP1 XBP1 ENCSR988EVQ signal Experimental 
wgEncodeReg4TfChip_ENCFF519XEF ENCSR988EVQ HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens XBP1 XBP1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF151LNY ENCSR987PBI signal K562 DNMT1 ENCSR987PBI signal Experimental 
wgEncodeReg4TfChip_ENCFF742HMD ENCSR987PBI K562 DNMT1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF196SOU ENCSR987MTA signal GM12878 BHLHE40 ENCSR987MTA signal Experimental 
wgEncodeReg4TfChip_ENCFF521IZR ENCSR987MTA GM12878 BHLHE40 peaks Experimental 
wgEncodeReg4TfChip_ENCFF622JEC ENCSR987GXT signal GM23338 originated from GM23248 CTCF ENCSR987GXT signal Experimental 
wgEncodeReg4TfChip_ENCFF531QOI ENCSR987GXT GM23338 originated from GM23248 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF905OAA ENCSR986XYK signal MCF-7 PKNOX1 ENCSR986XYK signal Experimental 
wgEncodeReg4TfChip_ENCFF116OCS ENCSR986XYK MCF-7 PKNOX1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF080WHZ ENCSR986QAR signal upper lobe of left lung tissue female adult (53 years) POLR2AphosphoS5 ENCSR986QAR signal Experimental 
wgEncodeReg4TfChip_ENCFF095BJW ENCSR986QAR upper lobe of left lung tissue female adult (53 years) POLR2AphosphoS5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF478NBS ENCSR986CDX signal K562 NEUROD1 ENCSR986CDX signal Experimental 
wgEncodeReg4TfChip_ENCFF718PFO ENCSR986CDX K562 NEUROD1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF478KSR ENCSR985OYK signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZBTB11 ZBTB11 ENCSR985OYK signal Experimental 
wgEncodeReg4TfChip_ENCFF672LNV ENCSR985OYK K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZBTB11 ZBTB11 peaks Experimental 
wgEncodeReg4TfChip_ENCFF362OEE ENCSR984MDV signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF24 ZNF24 ENCSR984MDV signal Experimental 
wgEncodeReg4TfChip_ENCFF308WOW ENCSR984MDV HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF24 ZNF24 peaks Experimental 
wgEncodeReg4TfChip_ENCFF838EZK ENCSR984IXF signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF709 ZNF709 ENCSR984IXF signal Experimental 
wgEncodeReg4TfChip_ENCFF151DHM ENCSR984IXF HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF709 ZNF709 peaks Experimental 
wgEncodeReg4TfChip_ENCFF618PGH ENCSR983KRB signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens MTA1 MTA1 ENCSR983KRB signal Experimental 
wgEncodeReg4TfChip_ENCFF038CCB ENCSR983KRB HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens MTA1 MTA1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF660NKO ENCSR983FBD signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens NFE2 NFE2 ENCSR983FBD signal Experimental 
wgEncodeReg4TfChip_ENCFF403RMK ENCSR983FBD HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens NFE2 NFE2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF469PQE ENCSR982CFC signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens NR0B2 NR0B2 ENCSR982CFC signal Experimental 
wgEncodeReg4TfChip_ENCFF071MVY ENCSR982CFC HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens NR0B2 NR0B2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF245HIM ENCSR981CID signal testis tissue male adult (54 years) CTCF ENCSR981CID signal Experimental 
wgEncodeReg4TfChip_ENCFF409BGH ENCSR981CID testis tissue male adult (54 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF290ZNR ENCSR981BHT signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ADNP ADNP ENCSR981BHT signal Experimental 
wgEncodeReg4TfChip_ENCFF096JUW ENCSR981BHT HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ADNP ADNP peaks Experimental 
wgEncodeReg4TfChip_ENCFF070OXR ENCSR980HGI signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ELF4 ELF4 ENCSR980HGI signal Experimental 
wgEncodeReg4TfChip_ENCFF752OAT ENCSR980HGI HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ELF4 ELF4 peaks Experimental 
wgEncodeReg4TfChip_ENCFF165EDT ENCSR980EGJ signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens TP53 TP53 ENCSR980EGJ signal Experimental 
wgEncodeReg4TfChip_ENCFF687JDU ENCSR980EGJ HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens TP53 TP53 peaks Experimental 
wgEncodeReg4TfChip_ENCFF401NSA ENCSR979QYJ signal K562 MNT ENCSR979QYJ signal Experimental 
wgEncodeReg4TfChip_ENCFF342DNS ENCSR979QYJ K562 MNT peaks Experimental 
wgEncodeReg4TfChip_ENCFF393UAO ENCSR979PTL signal middle frontal area 46 tissue male adult (86 years) CTCF ENCSR979PTL signal Experimental 
wgEncodeReg4TfChip_ENCFF841TWE ENCSR979PTL middle frontal area 46 tissue male adult (86 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF788BXK ENCSR979IOT signal A549 HES2 ENCSR979IOT signal Experimental 
wgEncodeReg4TfChip_ENCFF842NHR ENCSR979IOT A549 HES2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF240UZK ENCSR979FQP signal MCF-7 GATAD2B ENCSR979FQP signal Experimental 
wgEncodeReg4TfChip_ENCFF718AXM ENCSR979FQP MCF-7 GATAD2B peaks Experimental 
wgEncodeReg4TfChip_ENCFF913CZZ ENCSR979DMN signal body of pancreas tissue female adult (53 years) POLR2A ENCSR979DMN signal Experimental 
wgEncodeReg4TfChip_ENCFF084VJR ENCSR979DMN body of pancreas tissue female adult (53 years) POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF698TMI ENCSR978LQC signal sigmoid colon tissue male adult (54 years) POLR2AphosphoS5 ENCSR978LQC signal Experimental 
wgEncodeReg4TfChip_ENCFF725QFT ENCSR978LQC sigmoid colon tissue male adult (54 years) POLR2AphosphoS5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF475XTI ENCSR978EQY signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens GLI2 GLI2 ENCSR978EQY signal Experimental 
wgEncodeReg4TfChip_ENCFF700EUN ENCSR978EQY HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens GLI2 GLI2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF267XNF ENCSR977HTH signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF18 ZNF18 ENCSR977HTH signal Experimental 
wgEncodeReg4TfChip_ENCFF066NGR ENCSR977HTH HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF18 ZNF18 peaks Experimental 
wgEncodeReg4TfChip_ENCFF070QOI ENCSR977FEF signal A549 genetically modified (insertion) using CRISPR targeting H. sapiens PRDM1 PRDM1 ENCSR977FEF signal Experimental 
wgEncodeReg4TfChip_ENCFF012KDW ENCSR977FEF A549 genetically modified (insertion) using CRISPR targeting H. sapiens PRDM1 PRDM1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF686LMA ENCSR976TBC signal GM12878 IRF5 ENCSR976TBC signal Experimental 
wgEncodeReg4TfChip_ENCFF562PPN ENCSR976TBC GM12878 IRF5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF532BNR ENCSR975SSR signal K562 stably expressing ELF1 ELF1 ENCSR975SSR signal Experimental 
wgEncodeReg4TfChip_ENCFF886KFV ENCSR975SSR K562 stably expressing ELF1 ELF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF190VIG ENCSR974OFJ signal GM12878 KLF5 ENCSR974OFJ signal Experimental 
wgEncodeReg4TfChip_ENCFF570KBU ENCSR974OFJ GM12878 KLF5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF882NZV ENCSR972ZBV signal K562 ATF7 ENCSR972ZBV signal Experimental 
wgEncodeReg4TfChip_ENCFF308SKS ENCSR972ZBV K562 ATF7 peaks Experimental 
wgEncodeReg4TfChip_ENCFF483PKD ENCSR972LYL signal upper lobe of left lung tissue female adult (51 years) CTCF ENCSR972LYL signal Experimental 
wgEncodeReg4TfChip_ENCFF962AIJ ENCSR972LYL upper lobe of left lung tissue female adult (51 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF042WYK ENCSR971EWR signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens ETV5 ETV5 ENCSR971EWR signal Experimental 
wgEncodeReg4TfChip_ENCFF336FFA ENCSR971EWR K562 genetically modified (insertion) using CRISPR targeting H. sapiens ETV5 ETV5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF906JMX ENCSR970UZD signal upper lobe of left lung tissue female adult (53 years) CTCF ENCSR970UZD signal Experimental 
wgEncodeReg4TfChip_ENCFF645BXH ENCSR970UZD upper lobe of left lung tissue female adult (53 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF855LPH ENCSR970OJY signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens TCF3 TCF3 ENCSR970OJY signal Experimental 
wgEncodeReg4TfChip_ENCFF319QZT ENCSR970OJY K562 genetically modified (insertion) using CRISPR targeting H. sapiens TCF3 TCF3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF239LIU ENCSR970NKQ signal K562 NR2F1 ENCSR970NKQ signal Experimental 
wgEncodeReg4TfChip_ENCFF221HJH ENCSR970NKQ K562 NR2F1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF448BKK ENCSR969AIM signal SK-N-SH genetically modified (insertion) using CRISPR targeting H. sapiens PATZ1 treated with 6 μM all-trans-retinoic acid for 48 hours PATZ1 ENCSR969AIM signal Experimental 
wgEncodeReg4TfChip_ENCFF650NCN ENCSR969AIM SK-N-SH genetically modified (insertion) using CRISPR targeting H. sapiens PATZ1 treated with 6 μM all-trans-retinoic acid for 48 hours PATZ1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF123HEG ENCSR968GIB signal K562 RFX1 ENCSR968GIB signal Experimental 
wgEncodeReg4TfChip_ENCFF421AVO ENCSR968GIB K562 RFX1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF476EWU ENCSR967ZMR signal A549 genetically modified (insertion) using CRISPR targeting H. sapiens HOXB13 HOXB13 ENCSR967ZMR signal Experimental 
wgEncodeReg4TfChip_ENCFF870NOA ENCSR967ZMR A549 genetically modified (insertion) using CRISPR targeting H. sapiens HOXB13 HOXB13 peaks Experimental 
wgEncodeReg4TfChip_ENCFF341CQE ENCSR967QUQ signal with mild cognitive impairment; middle frontal area 46 tissue male adult (89 years) CTCF ENCSR967QUQ signal Experimental 
wgEncodeReg4TfChip_ENCFF458OBF ENCSR967QUQ with mild cognitive impairment; middle frontal area 46 tissue male adult (89 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF215HQE ENCSR967BSF signal spleen tissue female adult (41 years) CTCF ENCSR967BSF signal Experimental 
wgEncodeReg4TfChip_ENCFF121QGK ENCSR967BSF spleen tissue female adult (41 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF557RWE ENCSR966YYJ signal MCF-7 BMI1 ENCSR966YYJ signal Experimental 
wgEncodeReg4TfChip_ENCFF570JPP ENCSR966YYJ MCF-7 BMI1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF899RMK ENCSR966ULI signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens PATZ1 PATZ1 ENCSR966ULI signal Experimental 
wgEncodeReg4TfChip_ENCFF016MNJ ENCSR966ULI HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens PATZ1 PATZ1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF642TFE ENCSR966PJY signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens MIXL1 MIXL1 ENCSR966PJY signal Experimental 
wgEncodeReg4TfChip_ENCFF817YFO ENCSR966PJY HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens MIXL1 MIXL1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF563ZYK ENCSR966PJJ signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens WT1 WT1 ENCSR966PJJ signal Experimental 
wgEncodeReg4TfChip_ENCFF906HIR ENCSR966PJJ HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens WT1 WT1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF227QIR ENCSR966OUM signal nephron organoid female embryo (5 days): 21 days post differentiation originated from H9 CTCF ENCSR966OUM signal Experimental 
wgEncodeReg4TfChip_ENCFF589HXU ENCSR966OUM nephron organoid female embryo (5 days): 21 days post differentiation originated from H9 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF328XJI ENCSR964ZJC signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF547 ZNF547 ENCSR964ZJC signal Experimental 
wgEncodeReg4TfChip_ENCFF834XWI ENCSR964ZJC HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF547 ZNF547 peaks Experimental 
wgEncodeReg4TfChip_ENCFF079MDX ENCSR964BKO signal upper lobe of left lung tissue male adult (54 years) CTCF ENCSR964BKO signal Experimental 
wgEncodeReg4TfChip_ENCFF374MAK ENCSR964BKO upper lobe of left lung tissue male adult (54 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF409KOM ENCSR961WLZ signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens SOX5 SOX5 ENCSR961WLZ signal Experimental 
wgEncodeReg4TfChip_ENCFF470KZD ENCSR961WLZ HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens SOX5 SOX5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF980HXI ENCSR961SKY signal spleen tissue male adult (26 years) CTCF ENCSR961SKY signal Experimental 
wgEncodeReg4TfChip_ENCFF065CBS ENCSR961SKY spleen tissue male adult (26 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF335GKG ENCSR961PPA signal GM12878 ATF2 ENCSR961PPA signal Experimental 
wgEncodeReg4TfChip_ENCFF066HPG ENCSR961PPA GM12878 ATF2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF258ZDQ ENCSR960MDF signal ascending aorta tissue female adult (51 years) CTCF ENCSR960MDF signal Experimental 
wgEncodeReg4TfChip_ENCFF440JQB ENCSR960MDF ascending aorta tissue female adult (51 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF598MMN ENCSR960ASR signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens TIGD6 TIGD6 ENCSR960ASR signal Experimental 
wgEncodeReg4TfChip_ENCFF358XWR ENCSR960ASR HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens TIGD6 TIGD6 peaks Experimental 
wgEncodeReg4TfChip_ENCFF136GJN ENCSR959XNY signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens MED1 MED1 ENCSR959XNY signal Experimental 
wgEncodeReg4TfChip_ENCFF495TSS ENCSR959XNY HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens MED1 MED1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF926WSE ENCSR959UQA signal spleen tissue female adult (53 years) POLR2AphosphoS5 ENCSR959UQA signal Experimental 
wgEncodeReg4TfChip_ENCFF044PYR ENCSR959UQA spleen tissue female adult (53 years) POLR2AphosphoS5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF088XUG ENCSR959OMS signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens SAP130 SAP130 ENCSR959OMS signal Experimental 
wgEncodeReg4TfChip_ENCFF892EHZ ENCSR959OMS HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens SAP130 SAP130 peaks Experimental 
wgEncodeReg4TfChip_ENCFF374FHE ENCSR959COF signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZBTB10 ZBTB10 ENCSR959COF signal Experimental 
wgEncodeReg4TfChip_ENCFF916WXO ENCSR959COF HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZBTB10 ZBTB10 peaks Experimental 
wgEncodeReg4TfChip_ENCFF645DBZ ENCSR959BQO signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF700 ZNF700 ENCSR959BQO signal Experimental 
wgEncodeReg4TfChip_ENCFF657OXY ENCSR959BQO K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF700 ZNF700 peaks Experimental 
wgEncodeReg4TfChip_ENCFF414BLJ ENCSR958JPH signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens TSHZ1 TSHZ1 ENCSR958JPH signal Experimental 
wgEncodeReg4TfChip_ENCFF289XHG ENCSR958JPH K562 genetically modified (insertion) using CRISPR targeting H. sapiens TSHZ1 TSHZ1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF695EYC ENCSR957UPE signal with Alzheimer's disease; middle frontal area 46 tissue female adult (89 years) CTCF ENCSR957UPE signal Experimental 
wgEncodeReg4TfChip_ENCFF457ZGY ENCSR957UPE with Alzheimer's disease; middle frontal area 46 tissue female adult (89 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF753EQS ENCSR957LDM signal K562 TRIM24 ENCSR957LDM signal Experimental 
wgEncodeReg4TfChip_ENCFF284DKY ENCSR957LDM K562 TRIM24 peaks Experimental 
wgEncodeReg4TfChip_ENCFF885CQD ENCSR957KYB signal IMR-90 BHLHE40 ENCSR957KYB signal Experimental 
wgEncodeReg4TfChip_ENCFF312JYK ENCSR957KYB IMR-90 BHLHE40 peaks Experimental 
wgEncodeReg4TfChip_ENCFF221FNE ENCSR957FIZ signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens UBTF UBTF ENCSR957FIZ signal Experimental 
wgEncodeReg4TfChip_ENCFF424RNN ENCSR957FIZ HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens UBTF UBTF peaks Experimental 
wgEncodeReg4TfChip_ENCFF151KEG ENCSR956OSX signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ONECUT1 ONECUT1 ENCSR956OSX signal Experimental 
wgEncodeReg4TfChip_ENCFF243FIR ENCSR956OSX HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ONECUT1 ONECUT1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF397CJU ENCSR955BIB signal thyroid gland tissue female adult (51 years) CTCF ENCSR955BIB signal Experimental 
wgEncodeReg4TfChip_ENCFF204HWS ENCSR955BIB thyroid gland tissue female adult (51 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF237PUD ENCSR954WVZ signal MCF-7 ESRRA ENCSR954WVZ signal Experimental 
wgEncodeReg4TfChip_ENCFF569SII ENCSR954WVZ MCF-7 ESRRA peaks Experimental 
wgEncodeReg4TfChip_ENCFF595KAV ENCSR954KIC signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens KAT8 KAT8 ENCSR954KIC signal Experimental 
wgEncodeReg4TfChip_ENCFF890JFC ENCSR954KIC HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens KAT8 KAT8 peaks Experimental 
wgEncodeReg4TfChip_ENCFF597RGZ ENCSR953MMC signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZC3H4 ZC3H4 ENCSR953MMC signal Experimental 
wgEncodeReg4TfChip_ENCFF603QUY ENCSR953MMC HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZC3H4 ZC3H4 peaks Experimental 
wgEncodeReg4TfChip_ENCFF808TLR ENCSR953KEY signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens TFE3 TFE3 ENCSR953KEY signal Experimental 
wgEncodeReg4TfChip_ENCFF697ABG ENCSR953KEY K562 genetically modified (insertion) using CRISPR targeting H. sapiens TFE3 TFE3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF475BWW ENCSR953DVM signal K562 E2F8 ENCSR953DVM signal Experimental 
wgEncodeReg4TfChip_ENCFF985IKY ENCSR953DVM K562 E2F8 peaks Experimental 
wgEncodeReg4TfChip_ENCFF720UBZ ENCSR950NAZ signal HepG2 LCORL ENCSR950NAZ signal Experimental 
wgEncodeReg4TfChip_ENCFF659AVU ENCSR950NAZ HepG2 LCORL peaks Experimental 
wgEncodeReg4TfChip_ENCFF809TGF ENCSR950FIL signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens HDAC2 HDAC2 ENCSR950FIL signal Experimental 
wgEncodeReg4TfChip_ENCFF990GUQ ENCSR950FIL HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens HDAC2 HDAC2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF943QGW ENCSR950CUQ signal spleen tissue male adult (37 years) POLR2AphosphoS5 ENCSR950CUQ signal Experimental 
wgEncodeReg4TfChip_ENCFF706IUS ENCSR950CUQ spleen tissue male adult (37 years) POLR2AphosphoS5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF364LNI ENCSR950ACO signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF785 ZNF785 ENCSR950ACO signal Experimental 
wgEncodeReg4TfChip_ENCFF777AIW ENCSR950ACO HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF785 ZNF785 peaks Experimental 
wgEncodeReg4TfChip_ENCFF829RLG ENCSR949OEV signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZFY ZFY ENCSR949OEV signal Experimental 
wgEncodeReg4TfChip_ENCFF106ELT ENCSR949OEV HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZFY ZFY peaks Experimental 
wgEncodeReg4TfChip_ENCFF900SQF ENCSR949NVY signal K562 ZNF639 ENCSR949NVY signal Experimental 
wgEncodeReg4TfChip_ENCFF267NLX ENCSR949NVY K562 ZNF639 peaks Experimental 
wgEncodeReg4TfChip_ENCFF957MXZ ENCSR948VFL signal K562 IKZF1 ENCSR948VFL signal Experimental 
wgEncodeReg4TfChip_ENCFF771OHZ ENCSR948VFL K562 IKZF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF069MUM ENCSR948QLZ signal K562 CBX1 ENCSR948QLZ signal Experimental 
wgEncodeReg4TfChip_ENCFF008KGK ENCSR948QLZ K562 CBX1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF986RWU ENCSR948KMB signal K562 PTBP1 ENCSR948KMB signal Experimental 
wgEncodeReg4TfChip_ENCFF238NLS ENCSR948KMB K562 PTBP1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF142VTP ENCSR947PJZ signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens HIVEP1 HIVEP1 ENCSR947PJZ signal Experimental 
wgEncodeReg4TfChip_ENCFF983WKN ENCSR947PJZ K562 genetically modified (insertion) using CRISPR targeting H. sapiens HIVEP1 HIVEP1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF612EKJ ENCSR946WBN signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens JUN JUN ENCSR946WBN signal Experimental 
wgEncodeReg4TfChip_ENCFF372VWH ENCSR946WBN K562 genetically modified (insertion) using CRISPR targeting H. sapiens JUN JUN peaks Experimental 
wgEncodeReg4TfChip_ENCFF166YMY ENCSR946RZN signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens SP2 SP2 ENCSR946RZN signal Experimental 
wgEncodeReg4TfChip_ENCFF667RFH ENCSR946RZN HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens SP2 SP2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF105PJG ENCSR946PKH signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF678 ZNF678 ENCSR946PKH signal Experimental 
wgEncodeReg4TfChip_ENCFF492GSH ENCSR946PKH HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF678 ZNF678 peaks Experimental 
wgEncodeReg4TfChip_ENCFF837DCK ENCSR946MNG signal prostate gland tissue male adult (37 years) CTCF ENCSR946MNG signal Experimental 
wgEncodeReg4TfChip_ENCFF193LJV ENCSR946MNG prostate gland tissue male adult (37 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF431CIQ ENCSR946BXO signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens BRCA1 BRCA1 ENCSR946BXO signal Experimental 
wgEncodeReg4TfChip_ENCFF777JCR ENCSR946BXO K562 genetically modified (insertion) using CRISPR targeting H. sapiens BRCA1 BRCA1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF588VCN ENCSR945QEW signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF121 ZNF121 ENCSR945QEW signal Experimental 
wgEncodeReg4TfChip_ENCFF343YSL ENCSR945QEW HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF121 ZNF121 peaks Experimental 
wgEncodeReg4TfChip_ENCFF707DIF ENCSR945NSF signal HepG2 PCBP2 ENCSR945NSF signal Experimental 
wgEncodeReg4TfChip_ENCFF068FIG ENCSR945NSF HepG2 PCBP2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF838KGD ENCSR945NFL signal SK-N-SH USF2 ENCSR945NFL signal Experimental 
wgEncodeReg4TfChip_ENCFF736ZYW ENCSR945NFL SK-N-SH USF2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF219OBL ENCSR944LSA signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens DBP DBP ENCSR944LSA signal Experimental 
wgEncodeReg4TfChip_ENCFF224LZF ENCSR944LSA HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens DBP DBP peaks Experimental 
wgEncodeReg4TfChip_ENCFF011KML ENCSR940MHE signal MCF-7 MBD2 ENCSR940MHE signal Experimental 
wgEncodeReg4TfChip_ENCFF757JNN ENCSR940MHE MCF-7 MBD2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF436KVY ENCSR940EZR signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF280B ZNF280B ENCSR940EZR signal Experimental 
wgEncodeReg4TfChip_ENCFF084BYB ENCSR940EZR HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF280B ZNF280B peaks Experimental 
wgEncodeReg4TfChip_ENCFF426VPL ENCSR939FGB signal breast epithelium tissue female adult (53 years) POLR2AphosphoS5 ENCSR939FGB signal Experimental 
wgEncodeReg4TfChip_ENCFF065JSZ ENCSR939FGB breast epithelium tissue female adult (53 years) POLR2AphosphoS5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF831PIW ENCSR939CDD signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens ARID4B ARID4B ENCSR939CDD signal Experimental 
wgEncodeReg4TfChip_ENCFF791HBV ENCSR939CDD K562 genetically modified (insertion) using CRISPR targeting H. sapiens ARID4B ARID4B peaks Experimental 
wgEncodeReg4TfChip_ENCFF630FCT ENCSR938VRO signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF343 ZNF343 ENCSR938VRO signal Experimental 
wgEncodeReg4TfChip_ENCFF003KCM ENCSR938VRO HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF343 ZNF343 peaks Experimental 
wgEncodeReg4TfChip_ENCFF330NXZ ENCSR938ETG signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens KLF9 KLF9 ENCSR938ETG signal Experimental 
wgEncodeReg4TfChip_ENCFF961QZM ENCSR938ETG HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens KLF9 KLF9 peaks Experimental 
wgEncodeReg4TfChip_ENCFF085ZXF ENCSR936JHB signal esophagus muscularis mucosa tissue female adult (53 years) POLR2AphosphoS5 ENCSR936JHB signal Experimental 
wgEncodeReg4TfChip_ENCFF791ZXN ENCSR936JHB esophagus muscularis mucosa tissue female adult (53 years) POLR2AphosphoS5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF015EWW ENCSR935XOT signal tibial nerve tissue female adult (53 years) POLR2A ENCSR935XOT signal Experimental 
wgEncodeReg4TfChip_ENCFF162IDM ENCSR935XOT tibial nerve tissue female adult (53 years) POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF879CAL ENCSR935GZV signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens NFYB NFYB ENCSR935GZV signal Experimental 
wgEncodeReg4TfChip_ENCFF174VYX ENCSR935GZV HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens NFYB NFYB peaks Experimental 
wgEncodeReg4TfChip_ENCFF623HQN ENCSR934NHU neural cell originated from H1 MXI1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF783ZVX ENCSR934JDG signal MCF-7 CLOCK ENCSR934JDG signal Experimental 
wgEncodeReg4TfChip_ENCFF642OGE ENCSR934JDG MCF-7 CLOCK peaks Experimental 
wgEncodeReg4TfChip_ENCFF261XUD ENCSR933MHJ signal A549 KDM5A ENCSR933MHJ signal Experimental 
wgEncodeReg4TfChip_ENCFF513MKL ENCSR933MHJ A549 KDM5A peaks Experimental 
wgEncodeReg4TfChip_ENCFF903QOR ENCSR933EYC signal GM12878 HDAC6 ENCSR933EYC signal Experimental 
wgEncodeReg4TfChip_ENCFF918SGD ENCSR933EYC GM12878 HDAC6 peaks Experimental 
wgEncodeReg4TfChip_ENCFF474CVO ENCSR932ZRD signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZBTB38 ZBTB38 ENCSR932ZRD signal Experimental 
wgEncodeReg4TfChip_ENCFF875UQX ENCSR932ZRD HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZBTB38 ZBTB38 peaks Experimental 
wgEncodeReg4TfChip_ENCFF369MIX ENCSR932ZMX signal GM23338 originated from GM23248 CTCF ENCSR932ZMX signal Experimental 
wgEncodeReg4TfChip_ENCFF772DML ENCSR932ZMX GM23338 originated from GM23248 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF982KVV ENCSR932XBJ signal with Alzheimer's disease: Cognitive impairment; middle frontal area 46 tissue male adult (87 years) CTCF ENCSR932XBJ signal Experimental 
wgEncodeReg4TfChip_ENCFF255MAF ENCSR932XBJ with Alzheimer's disease: Cognitive impairment; middle frontal area 46 tissue male adult (87 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF768DJN ENCSR931ZOM signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF451 ZNF451 ENCSR931ZOM signal Experimental 
wgEncodeReg4TfChip_ENCFF602YJX ENCSR931ZOM HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF451 ZNF451 peaks Experimental 
wgEncodeReg4TfChip_ENCFF693NUC ENCSR931SYA signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZBTB46 ZBTB46 ENCSR931SYA signal Experimental 
wgEncodeReg4TfChip_ENCFF806TPY ENCSR931SYA HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZBTB46 ZBTB46 peaks Experimental 
wgEncodeReg4TfChip_ENCFF510HQQ ENCSR931HNY signal K562 NCOA1 ENCSR931HNY signal Experimental 
wgEncodeReg4TfChip_ENCFF395XLS ENCSR931HNY K562 NCOA1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF305GTF ENCSR930SOT signal brain organoid female embryo (5 days): 30 days post differentiation CTCF ENCSR930SOT signal Experimental 
wgEncodeReg4TfChip_ENCFF685VRG ENCSR930SOT brain organoid female embryo (5 days): 30 days post differentiation CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF260IRE ENCSR930CPA signal transverse colon tissue male adult (37 years) POLR2AphosphoS5 ENCSR930CPA signal Experimental 
wgEncodeReg4TfChip_ENCFF607LKE ENCSR930CPA transverse colon tissue male adult (37 years) POLR2AphosphoS5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF770NFX ENCSR929IMB signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens AKNA AKNA ENCSR929IMB signal Experimental 
wgEncodeReg4TfChip_ENCFF446RJQ ENCSR929IMB HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens AKNA AKNA peaks Experimental 
wgEncodeReg4TfChip_ENCFF505OIJ ENCSR928RNP signal heart right ventricle tissue male adult (43 years) CTCF ENCSR928RNP signal Experimental 
wgEncodeReg4TfChip_ENCFF027ORH ENCSR928RNP heart right ventricle tissue male adult (43 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF091QYI ENCSR928LDG signal suprapubic skin tissue female adult (53 years) EP300 ENCSR928LDG signal Experimental 
wgEncodeReg4TfChip_ENCFF262SZA ENCSR928LDG suprapubic skin tissue female adult (53 years) EP300 peaks Experimental 
wgEncodeReg4TfChip_ENCFF183TXN ENCSR928KOR signal K562 GMEB1 ENCSR928KOR signal Experimental 
wgEncodeReg4TfChip_ENCFF705LHX ENCSR928KOR K562 GMEB1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF148FYN ENCSR928API signal HepG2 RFX1 ENCSR928API signal Experimental 
wgEncodeReg4TfChip_ENCFF144SCF ENCSR928API HepG2 RFX1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF259YQM ENCSR927UJQ signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZBTB1 ZBTB1 ENCSR927UJQ signal Experimental 
wgEncodeReg4TfChip_ENCFF916DEM ENCSR927UJQ HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZBTB1 ZBTB1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF345UOO ENCSR926KTP signal K562 stably expressing IRF9 IRF9 ENCSR926KTP signal Experimental 
wgEncodeReg4TfChip_ENCFF346PQL ENCSR926KTP K562 stably expressing IRF9 IRF9 peaks Experimental 
wgEncodeReg4TfChip_ENCFF827OVI ENCSR925TWM signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ETV6 ETV6 ENCSR925TWM signal Experimental 
wgEncodeReg4TfChip_ENCFF543QAU ENCSR925TWM HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ETV6 ETV6 peaks Experimental 
wgEncodeReg4TfChip_ENCFF394NSO ENCSR925QAW signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens HMG20B HMG20B ENCSR925QAW signal Experimental 
wgEncodeReg4TfChip_ENCFF756WYV ENCSR925QAW HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens HMG20B HMG20B peaks Experimental 
wgEncodeReg4TfChip_ENCFF154FOF ENCSR925GDS signal sigmoid colon tissue female adult (53 years) CTCF ENCSR925GDS signal Experimental 
wgEncodeReg4TfChip_ENCFF848HFJ ENCSR925GDS sigmoid colon tissue female adult (53 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF468ULE ENCSR925BFV signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens GATAD2A GATAD2A ENCSR925BFV signal Experimental 
wgEncodeReg4TfChip_ENCFF252XNH ENCSR925BFV HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens GATAD2A GATAD2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF057NWA ENCSR924TVL signal MCF-7 RFX5 ENCSR924TVL signal Experimental 
wgEncodeReg4TfChip_ENCFF983ILY ENCSR924TVL MCF-7 RFX5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF491MUP ENCSR924LSO signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens E2F4 E2F4 ENCSR924LSO signal Experimental 
wgEncodeReg4TfChip_ENCFF311TOD ENCSR924LSO HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens E2F4 E2F4 peaks Experimental 
wgEncodeReg4TfChip_ENCFF321TEP ENCSR924GXX signal K562 PHB2 ENCSR924GXX signal Experimental 
wgEncodeReg4TfChip_ENCFF772SGA ENCSR924GXX K562 PHB2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF306KIT ENCSR923WJS signal sigmoid colon tissue male adult (54 years) EP300 ENCSR923WJS signal Experimental 
wgEncodeReg4TfChip_ENCFF682PXQ ENCSR923WJS sigmoid colon tissue male adult (54 years) EP300 peaks Experimental 
wgEncodeReg4TfChip_ENCFF082IPY ENCSR923UTX signal HepG2 NONO ENCSR923UTX signal Experimental 
wgEncodeReg4TfChip_ENCFF819JPN ENCSR923UTX HepG2 NONO peaks Experimental 
wgEncodeReg4TfChip_ENCFF742AUP ENCSR923MOO signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens MEF2D MEF2D ENCSR923MOO signal Experimental 
wgEncodeReg4TfChip_ENCFF576WDO ENCSR923MOO HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens MEF2D MEF2D peaks Experimental 
wgEncodeReg4TfChip_ENCFF948PMU ENCSR922RFY signal SK-N-SH genetically modified (insertion) using CRISPR targeting H. sapiens TCF4 treated with 6 μM all-trans-retinoic acid for 48 hours TCF4 ENCSR922RFY signal Experimental 
wgEncodeReg4TfChip_ENCFF270OWF ENCSR922RFY SK-N-SH genetically modified (insertion) using CRISPR targeting H. sapiens TCF4 treated with 6 μM all-trans-retinoic acid for 48 hours TCF4 peaks Experimental 
wgEncodeReg4TfChip_ENCFF539FGK ENCSR922MQU signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens FUBP1 FUBP1 ENCSR922MQU signal Experimental 
wgEncodeReg4TfChip_ENCFF316FMQ ENCSR922MQU HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens FUBP1 FUBP1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF433RNM ENCSR922HGS signal with mild cognitive impairment; middle frontal area 46 tissue female adult (90 or above years) CTCF ENCSR922HGS signal Experimental 
wgEncodeReg4TfChip_ENCFF087VBI ENCSR922HGS with mild cognitive impairment; middle frontal area 46 tissue female adult (90 or above years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF593JAU ENCSR922GUA signal esophagus muscularis mucosa tissue female adult (53 years) POLR2A ENCSR922GUA signal Experimental 
wgEncodeReg4TfChip_ENCFF617PTB ENCSR922GUA esophagus muscularis mucosa tissue female adult (53 years) POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF748YVT ENCSR920ENCFF748YVT sigmoid colon tissue male adult (37 years) POLR2AphosphoS5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF084CSE ENCSR920ENCFF084CSE signal sigmoid colon tissue male adult (37 years) POLR2AphosphoS5 ENCSR920ENCFF084CSE signal Experimental 
wgEncodeReg4TfChip_ENCFF085NLG ENCSR920BLG signal K562 SIN3A ENCSR920BLG signal Experimental 
wgEncodeReg4TfChip_ENCFF984TCS ENCSR920BLG K562 SIN3A peaks Experimental 
wgEncodeReg4TfChip_ENCFF572ZZW ENCSR920ASP signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZFX ZFX ENCSR920ASP signal Experimental 
wgEncodeReg4TfChip_ENCFF169LZT ENCSR920ASP K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZFX ZFX peaks Experimental 
wgEncodeReg4TfChip_ENCFF069PIW ENCSR919UCY signal vagina tissue female adult (53 years) POLR2AphosphoS5 ENCSR919UCY signal Experimental 
wgEncodeReg4TfChip_ENCFF384GAB ENCSR919UCY vagina tissue female adult (53 years) POLR2AphosphoS5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF233AXB ENCSR919CZU signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens EGR2 EGR2 ENCSR919CZU signal Experimental 
wgEncodeReg4TfChip_ENCFF336LFH ENCSR919CZU HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens EGR2 EGR2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF533HKX ENCSR918OKK signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens TAF1 TAF1 ENCSR918OKK signal Experimental 
wgEncodeReg4TfChip_ENCFF946IUP ENCSR918OKK HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens TAF1 TAF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF785ACK ENCSR918LRB signal GM23338 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF331 ZNF331 ENCSR918LRB signal Experimental 
wgEncodeReg4TfChip_ENCFF410NSZ ENCSR918LRB GM23338 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF331 ZNF331 peaks Experimental 
wgEncodeReg4TfChip_ENCFF679DDH ENCSR918GHT signal A549 genetically modified (insertion) using CRISPR targeting H. sapiens FOSB FOSB ENCSR918GHT signal Experimental 
wgEncodeReg4TfChip_ENCFF029EEU ENCSR918GHT A549 genetically modified (insertion) using CRISPR targeting H. sapiens FOSB FOSB peaks Experimental 
wgEncodeReg4TfChip_ENCFF134FYR ENCSR917QNE signal with nonobstructive coronary artery disease; liver tissue male adult (32 years) RAD21 ENCSR917QNE signal Experimental 
wgEncodeReg4TfChip_ENCFF485PAC ENCSR917QNE with nonobstructive coronary artery disease; liver tissue male adult (32 years) RAD21 peaks Experimental 
wgEncodeReg4TfChip_ENCFF593GTX ENCSR916JAC signal gastroesophageal sphincter tissue male adult (37 years) POLR2AphosphoS5 ENCSR916JAC signal Experimental 
wgEncodeReg4TfChip_ENCFF070PCA ENCSR916JAC gastroesophageal sphincter tissue male adult (37 years) POLR2AphosphoS5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF884FWR ENCSR915APT signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens TUT4 ZCCHC11 ENCSR915APT signal Experimental 
wgEncodeReg4TfChip_ENCFF160WNN ENCSR915APT HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens TUT4 ZCCHC11 peaks Experimental 
wgEncodeReg4TfChip_ENCFF074TUE ENCSR914NEI signal K562 MTA3 ENCSR914NEI signal Experimental 
wgEncodeReg4TfChip_ENCFF289UFB ENCSR914NEI K562 MTA3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF157FHF ENCSR914HPP signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF44 ZNF44 ENCSR914HPP signal Experimental 
wgEncodeReg4TfChip_ENCFF984YCN ENCSR914HPP HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF44 ZNF44 peaks Experimental 
wgEncodeReg4TfChip_ENCFF754BJX ENCSR913SEI signal with Alzheimer's disease; middle frontal area 46 tissue female adult (86 years) CTCF ENCSR913SEI signal Experimental 
wgEncodeReg4TfChip_ENCFF277YTN ENCSR913SEI with Alzheimer's disease; middle frontal area 46 tissue female adult (86 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF762YJW ENCSR913ODG signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens MTF2 MTF2 ENCSR913ODG signal Experimental 
wgEncodeReg4TfChip_ENCFF916FZN ENCSR913ODG HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens MTF2 MTF2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF448FFF ENCSR913JBH signal A549 genetically modified (insertion) using CRISPR targeting H. sapiens TP63 TP63 ENCSR913JBH signal Experimental 
wgEncodeReg4TfChip_ENCFF399JYQ ENCSR913JBH A549 genetically modified (insertion) using CRISPR targeting H. sapiens TP63 TP63 peaks Experimental 
wgEncodeReg4TfChip_ENCFF417MVR ENCSR911MML signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens TCF3 TCF3 ENCSR911MML signal Experimental 
wgEncodeReg4TfChip_ENCFF066OAK ENCSR911MML HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens TCF3 TCF3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF131ARU ENCSR911JAX signal prostate gland tissue male adult (37 years) POLR2A ENCSR911JAX signal Experimental 
wgEncodeReg4TfChip_ENCFF832RQK ENCSR911JAX prostate gland tissue male adult (37 years) POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF005YBS ENCSR911GFJ signal right lobe of liver tissue female adult (53 years) CTCF ENCSR911GFJ signal Experimental 
wgEncodeReg4TfChip_ENCFF956UTA ENCSR911GFJ right lobe of liver tissue female adult (53 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF793WLZ ENCSR910MUD signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF138 ZNF138 ENCSR910MUD signal Experimental 
wgEncodeReg4TfChip_ENCFF770NCL ENCSR910MUD HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF138 ZNF138 peaks Experimental 
wgEncodeReg4TfChip_ENCFF403TML ENCSR910JAI signal K562 NCOR1 ENCSR910JAI signal Experimental 
wgEncodeReg4TfChip_ENCFF788MPU ENCSR910JAI K562 NCOR1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF517XUA ENCSR909TSW signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF547 ZNF547 ENCSR909TSW signal Experimental 
wgEncodeReg4TfChip_ENCFF693MRM ENCSR909TSW HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF547 ZNF547 peaks Experimental 
wgEncodeReg4TfChip_ENCFF007TAP ENCSR909HMT HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZEB1 ZEB1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF699KLB ENCSR909GJR signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens MXD3 MXD3 ENCSR909GJR signal Experimental 
wgEncodeReg4TfChip_ENCFF996XNT ENCSR909GJR HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens MXD3 MXD3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF562SBY ENCSR908HWZ signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ATF2 ATF2 ENCSR908HWZ signal Experimental 
wgEncodeReg4TfChip_ENCFF578ZBI ENCSR908HWZ HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ATF2 ATF2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF077ZMN ENCSR908CMW signal K562 KDM1A ENCSR908CMW signal Experimental 
wgEncodeReg4TfChip_ENCFF128TYE ENCSR908CMW K562 KDM1A peaks Experimental 
wgEncodeReg4TfChip_ENCFF933XGN ENCSR907MZR signal K562 TRIM24 ENCSR907MZR signal Experimental 
wgEncodeReg4TfChip_ENCFF616RIL ENCSR907MZR K562 TRIM24 peaks Experimental 
wgEncodeReg4TfChip_ENCFF435CDF ENCSR907BES signal transverse colon tissue male adult (54 years) CTCF ENCSR907BES signal Experimental 
wgEncodeReg4TfChip_ENCFF594PFO ENCSR907BES transverse colon tissue male adult (54 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF770OAS ENCSR906UPC signal sigmoid colon tissue male adult (37 years) EP300 ENCSR906UPC signal Experimental 
wgEncodeReg4TfChip_ENCFF524QSR ENCSR906UPC sigmoid colon tissue male adult (37 years) EP300 peaks Experimental 
wgEncodeReg4TfChip_ENCFF796OMY ENCSR906PCS signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF223 ZNF223 ENCSR906PCS signal Experimental 
wgEncodeReg4TfChip_ENCFF408UAU ENCSR906PCS HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF223 ZNF223 peaks Experimental 
wgEncodeReg4TfChip_ENCFF108ZVB ENCSR906OMM signal gastroesophageal sphincter tissue male adult (54 years) EP300 ENCSR906OMM signal Experimental 
wgEncodeReg4TfChip_ENCFF309DOR ENCSR906OMM gastroesophageal sphincter tissue male adult (54 years) EP300 peaks Experimental 
wgEncodeReg4TfChip_ENCFF504UUB ENCSR905BNO signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF816 ZNF816 ENCSR905BNO signal Experimental 
wgEncodeReg4TfChip_ENCFF294VPD ENCSR905BNO HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF816 ZNF816 peaks Experimental 
wgEncodeReg4TfChip_ENCFF310JID ENCSR904RIA signal heart left ventricle tissue male adult (61 years) CTCF ENCSR904RIA signal Experimental 
wgEncodeReg4TfChip_ENCFF440XFJ ENCSR904RIA heart left ventricle tissue male adult (61 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF477CLA ENCSR904JEY signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF34 ZNF34 ENCSR904JEY signal Experimental 
wgEncodeReg4TfChip_ENCFF739BBD ENCSR904JEY HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF34 ZNF34 peaks Experimental 
wgEncodeReg4TfChip_ENCFF705KIU ENCSR903MVU signal GM12878 genetically modified (insertion) using CRISPR targeting H. sapiens MAZ MAZ ENCSR903MVU signal Experimental 
wgEncodeReg4TfChip_ENCFF453CES ENCSR903MVU GM12878 genetically modified (insertion) using CRISPR targeting H. sapiens MAZ MAZ peaks Experimental 
wgEncodeReg4TfChip_ENCFF370EDC ENCSR903JFF signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF605 ZNF605 ENCSR903JFF signal Experimental 
wgEncodeReg4TfChip_ENCFF640NFJ ENCSR903JFF HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF605 ZNF605 peaks Experimental 
wgEncodeReg4TfChip_ENCFF070ENN ENCSR903ELW signal HepG2 CREM ENCSR903ELW signal Experimental 
wgEncodeReg4TfChip_ENCFF049UDY ENCSR903ELW HepG2 CREM peaks Experimental 
wgEncodeReg4TfChip_ENCFF475LZZ ENCSR902SBX signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens POGZ POGZ ENCSR902SBX signal Experimental 
wgEncodeReg4TfChip_ENCFF153UUK ENCSR902SBX HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens POGZ POGZ peaks Experimental 
wgEncodeReg4TfChip_ENCFF559SRW ENCSR901NIN signal progenitor cell of endocrine pancreas CTCF ENCSR901NIN signal Experimental 
wgEncodeReg4TfChip_ENCFF492KHV ENCSR901NIN progenitor cell of endocrine pancreas CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF810RXW ENCSR900XDB signal GM12878 ZFP36 ENCSR900XDB signal Experimental 
wgEncodeReg4TfChip_ENCFF234WRG ENCSR900XDB GM12878 ZFP36 peaks Experimental 
wgEncodeReg4TfChip_ENCFF804PBU ENCSR899JSO signal adrenal gland tissue male adult (37 years) CTCF ENCSR899JSO signal Experimental 
wgEncodeReg4TfChip_ENCFF596QXB ENCSR899JSO adrenal gland tissue male adult (37 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF848BDW ENCSR899BKM signal MCF-7 ZNF687 ENCSR899BKM signal Experimental 
wgEncodeReg4TfChip_ENCFF440BFX ENCSR899BKM MCF-7 ZNF687 peaks Experimental 
wgEncodeReg4TfChip_ENCFF263UCJ ENCSR898XMH signal K562 ZFP91 ENCSR898XMH signal Experimental 
wgEncodeReg4TfChip_ENCFF501CDP ENCSR898XMH K562 ZFP91 peaks Experimental 
wgEncodeReg4TfChip_ENCFF955FQW ENCSR897MYK A549 SREBF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF245XUS ENCSR897MMC signal GM12878 JUNB ENCSR897MMC signal Experimental 
wgEncodeReg4TfChip_ENCFF667EJQ ENCSR897MMC GM12878 JUNB peaks Experimental 
wgEncodeReg4TfChip_ENCFF526QYQ ENCSR897LDT signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens GATA2 GATA2 ENCSR897LDT signal Experimental 
wgEncodeReg4TfChip_ENCFF905PYM ENCSR897LDT HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens GATA2 GATA2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF607RWX ENCSR897JAS signal MCF-7 CREB1 ENCSR897JAS signal Experimental 
wgEncodeReg4TfChip_ENCFF867SAS ENCSR897JAS MCF-7 CREB1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF258BHC ENCSR896UBV signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens REST REST ENCSR896UBV signal Experimental 
wgEncodeReg4TfChip_ENCFF073DOT ENCSR896UBV HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens REST REST peaks Experimental 
wgEncodeReg4TfChip_ENCFF353UUT ENCSR895KNN signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens DZIP1 DZIP1 ENCSR895KNN signal Experimental 
wgEncodeReg4TfChip_ENCFF407CJD ENCSR895KNN HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens DZIP1 DZIP1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF231HQU ENCSR895HSJ signal K562 SMARCA5 ENCSR895HSJ signal Experimental 
wgEncodeReg4TfChip_ENCFF936KHY ENCSR895HSJ K562 SMARCA5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF498YTJ ENCSR894CGX signal K562 SUPT5H ENCSR894CGX signal Experimental 
wgEncodeReg4TfChip_ENCFF902PAW ENCSR894CGX K562 SUPT5H peaks Experimental 
wgEncodeReg4TfChip_ENCFF007JMV ENCSR893WSB signal K562 HDAC2 ENCSR893WSB signal Experimental 
wgEncodeReg4TfChip_ENCFF744ALD ENCSR893WSB K562 HDAC2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF612TBU ENCSR893QWP signal liver tissue female child (4 years) REST ENCSR893QWP signal Experimental 
wgEncodeReg4TfChip_ENCFF577AZT ENCSR893QWP liver tissue female child (4 years) REST peaks Experimental 
wgEncodeReg4TfChip_ENCFF166RSF ENCSR893MYW signal upper lobe of left lung tissue female adult (51 years) POLR2AphosphoS5 ENCSR893MYW signal Experimental 
wgEncodeReg4TfChip_ENCFF199JUI ENCSR893MYW upper lobe of left lung tissue female adult (51 years) POLR2AphosphoS5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF844JSO ENCSR892ZTO signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF548 ZNF548 ENCSR892ZTO signal Experimental 
wgEncodeReg4TfChip_ENCFF762PDF ENCSR892ZTO HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF548 ZNF548 peaks Experimental 
wgEncodeReg4TfChip_ENCFF251YQZ ENCSR892RCP HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens CBX5 CBX5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF711YQN ENCSR892QHR signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens PRDM6 PRDM6 ENCSR892QHR signal Experimental 
wgEncodeReg4TfChip_ENCFF283AJL ENCSR892QHR HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens PRDM6 PRDM6 peaks Experimental 
wgEncodeReg4TfChip_ENCFF720KUQ ENCSR892DRK signal A549 REST ENCSR892DRK signal Experimental 
wgEncodeReg4TfChip_ENCFF148AIS ENCSR892DRK A549 REST peaks Experimental 
wgEncodeReg4TfChip_ENCFF148WZB ENCSR891KPP signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF865 ZNF865 ENCSR891KPP signal Experimental 
wgEncodeReg4TfChip_ENCFF472KAQ ENCSR891KPP HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF865 ZNF865 peaks Experimental 
wgEncodeReg4TfChip_ENCFF733RHG ENCSR891KNP signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF30 ZNF30 ENCSR891KNP signal Experimental 
wgEncodeReg4TfChip_ENCFF688UNH ENCSR891KNP HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF30 ZNF30 peaks Experimental 
wgEncodeReg4TfChip_ENCFF775DML ENCSR890DSP signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens IRF1 IRF1 ENCSR890DSP signal Experimental 
wgEncodeReg4TfChip_ENCFF140LNG ENCSR890DSP HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens IRF1 IRF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF883YDF ENCSR888XZK signal K562 TCF7L2 ENCSR888XZK signal Experimental 
wgEncodeReg4TfChip_ENCFF543OSB ENCSR888XZK K562 TCF7L2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF686QLD ENCSR888OWU signal upper lobe of left lung tissue female adult (51 years) POLR2A ENCSR888OWU signal Experimental 
wgEncodeReg4TfChip_ENCFF603FIH ENCSR888OWU upper lobe of left lung tissue female adult (51 years) POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF408ZCM ENCSR887TWV signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ATF5 ATF5 ENCSR887TWV signal Experimental 
wgEncodeReg4TfChip_ENCFF730PBL ENCSR887TWV HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ATF5 ATF5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF626LAD ENCSR887MXT signal HeLa-S3 ZHX1 ENCSR887MXT signal Experimental 
wgEncodeReg4TfChip_ENCFF035SWK ENCSR887MXT HeLa-S3 ZHX1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF458UUH ENCSR886YJI signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF574 ZNF574 ENCSR886YJI signal Experimental 
wgEncodeReg4TfChip_ENCFF206MMY ENCSR886YJI HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF574 ZNF574 peaks Experimental 
wgEncodeReg4TfChip_ENCFF304GKK ENCSR886VSY signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF224 ZNF224 ENCSR886VSY signal Experimental 
wgEncodeReg4TfChip_ENCFF298FFZ ENCSR886VSY HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF224 ZNF224 peaks Experimental 
wgEncodeReg4TfChip_ENCFF416WMT ENCSR886RYH signal K562 NONO ENCSR886RYH signal Experimental 
wgEncodeReg4TfChip_ENCFF268WFF ENCSR886RYH K562 NONO peaks Experimental 
wgEncodeReg4TfChip_ENCFF134ILE ENCSR886OEO signal A549 EP300 ENCSR886OEO signal Experimental 
wgEncodeReg4TfChip_ENCFF960ZEI ENCSR886OEO A549 EP300 peaks Experimental 
wgEncodeReg4TfChip_ENCFF251HZK ENCSR883UGG signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF445 ZNF445 ENCSR883UGG signal Experimental 
wgEncodeReg4TfChip_ENCFF939SEG ENCSR883UGG K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF445 ZNF445 peaks Experimental 
wgEncodeReg4TfChip_ENCFF899UXF ENCSR882ZTS signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZBTB11 ZBTB11 ENCSR882ZTS signal Experimental 
wgEncodeReg4TfChip_ENCFF262GZJ ENCSR882ZTS HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZBTB11 ZBTB11 peaks Experimental 
wgEncodeReg4TfChip_ENCFF916JVL ENCSR882YYL signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF883 ZNF883 ENCSR882YYL signal Experimental 
wgEncodeReg4TfChip_ENCFF807XLY ENCSR882YYL HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF883 ZNF883 peaks Experimental 
wgEncodeReg4TfChip_ENCFF681CQH ENCSR882ICT signal HEK293T ZNF384 ENCSR882ICT signal Experimental 
wgEncodeReg4TfChip_ENCFF019DZX ENCSR882ICT HEK293T ZNF384 peaks Experimental 
wgEncodeReg4TfChip_ENCFF027OVX ENCSR882ERE signal K562 ZKSCAN1 ENCSR882ERE signal Experimental 
wgEncodeReg4TfChip_ENCFF977CBA ENCSR882ERE K562 ZKSCAN1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF251ATC ENCSR881YFU signal heart left ventricle tissue male adult (66 years) CTCF ENCSR881YFU signal Experimental 
wgEncodeReg4TfChip_ENCFF769GAB ENCSR881YFU heart left ventricle tissue male adult (66 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF150HZS ENCSR880PMU signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens LCORL LCORL ENCSR880PMU signal Experimental 
wgEncodeReg4TfChip_ENCFF017FTI ENCSR880PMU HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens LCORL LCORL peaks Experimental 
wgEncodeReg4TfChip_ENCFF715HLA ENCSR879KXD signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens RAD21 RAD21 ENCSR879KXD signal Experimental 
wgEncodeReg4TfChip_ENCFF066JWO ENCSR879KXD K562 genetically modified (insertion) using CRISPR targeting H. sapiens RAD21 RAD21 peaks Experimental 
wgEncodeReg4TfChip_ENCFF137GXV ENCSR877OYD signal esophagus squamous epithelium tissue female adult (51 years) POLR2A ENCSR877OYD signal Experimental 
wgEncodeReg4TfChip_ENCFF947QGB ENCSR877OYD esophagus squamous epithelium tissue female adult (51 years) POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF580NQU ENCSR876UYH signal MCF-7 ZHX2 ENCSR876UYH signal Experimental 
wgEncodeReg4TfChip_ENCFF733XRY ENCSR876UYH MCF-7 ZHX2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF792AHT ENCSR876GXA signal K562 ZBTB33 ENCSR876GXA signal Experimental 
wgEncodeReg4TfChip_ENCFF875HLX ENCSR876GXA K562 ZBTB33 peaks Experimental 
wgEncodeReg4TfChip_ENCFF596XRL ENCSR875PEI MCF-7 TRIM22 peaks Experimental 
wgEncodeReg4TfChip_ENCFF678PGU ENCSR875NEW signal tibial nerve tissue female adult (53 years) CTCF ENCSR875NEW signal Experimental 
wgEncodeReg4TfChip_ENCFF322NFK ENCSR875NEW tibial nerve tissue female adult (53 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF875ABM ENCSR874AFU signal GM12878 IKZF1 ENCSR874AFU signal Experimental 
wgEncodeReg4TfChip_ENCFF753XDO ENCSR874AFU GM12878 IKZF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF344REQ ENCSR872ZHM signal HepG2 KDM5A ENCSR872ZHM signal Experimental 
wgEncodeReg4TfChip_ENCFF105YGO ENCSR872ZHM HepG2 KDM5A peaks Experimental 
wgEncodeReg4TfChip_ENCFF062VWY ENCSR872EVQ signal HepG2 PCBP1 ENCSR872EVQ signal Experimental 
wgEncodeReg4TfChip_ENCFF604TPT ENCSR872EVQ HepG2 PCBP1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF198BUP ENCSR871VNN signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF274 ZNF274 ENCSR871VNN signal Experimental 
wgEncodeReg4TfChip_ENCFF155SWH ENCSR871VNN HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF274 ZNF274 peaks Experimental 
wgEncodeReg4TfChip_ENCFF314MEN ENCSR871TKJ signal K562 THRAP3 ENCSR871TKJ signal Experimental 
wgEncodeReg4TfChip_ENCFF445ZEJ ENCSR871TKJ K562 THRAP3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF963CHU ENCSR871MKQ signal H9 CTCF ENCSR871MKQ signal Experimental 
wgEncodeReg4TfChip_ENCFF152GTF ENCSR871MKQ H9 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF225DIC ENCSR871KYB signal GM23338 originated from GM23248 REST ENCSR871KYB signal Experimental 
wgEncodeReg4TfChip_ENCFF024TCL ENCSR871KYB GM23338 originated from GM23248 REST peaks Experimental 
wgEncodeReg4TfChip_ENCFF461CUZ ENCSR870YEN signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZSCAN32 ZSCAN32 ENCSR870YEN signal Experimental 
wgEncodeReg4TfChip_ENCFF960API ENCSR870YEN K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZSCAN32 ZSCAN32 peaks Experimental 
wgEncodeReg4TfChip_ENCFF164FWL ENCSR869RSW signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF766 ZNF766 ENCSR869RSW signal Experimental 
wgEncodeReg4TfChip_ENCFF774VLV ENCSR869RSW HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF766 ZNF766 peaks Experimental 
wgEncodeReg4TfChip_ENCFF544BBF ENCSR869JZW signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens HOXA5 HOXA5 ENCSR869JZW signal Experimental 
wgEncodeReg4TfChip_ENCFF580MCT ENCSR869JZW HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens HOXA5 HOXA5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF425JAF ENCSR869IUD signal K562 ATF2 ENCSR869IUD signal Experimental 
wgEncodeReg4TfChip_ENCFF139ZZG ENCSR869IUD K562 ATF2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF773TNP ENCSR868JLS signal HepG2 U2AF1 ENCSR868JLS signal Experimental 
wgEncodeReg4TfChip_ENCFF758IXU ENCSR868JLS HepG2 U2AF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF071URU ENCSR867WPH signal with nonobstructive coronary artery disease; liver tissue male adult (32 years) REST ENCSR867WPH signal Experimental 
wgEncodeReg4TfChip_ENCFF240FWT ENCSR867WPH with nonobstructive coronary artery disease; liver tissue male adult (32 years) REST peaks Experimental 
wgEncodeReg4TfChip_ENCFF079EEJ ENCSR866QPZ signal MCF-7 ATF7 ENCSR866QPZ signal Experimental 
wgEncodeReg4TfChip_ENCFF578WKB ENCSR866QPZ MCF-7 ATF7 peaks Experimental 
wgEncodeReg4TfChip_ENCFF472SVW ENCSR865RXA signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens FOXA1 FOXA1 ENCSR865RXA signal Experimental 
wgEncodeReg4TfChip_ENCFF361KNY ENCSR865RXA HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens FOXA1 FOXA1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF605NBV ENCSR864VJE signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZSCAN16 ZSCAN16 ENCSR864VJE signal Experimental 
wgEncodeReg4TfChip_ENCFF533NFT ENCSR864VJE HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZSCAN16 ZSCAN16 peaks Experimental 
wgEncodeReg4TfChip_ENCFF372PUR ENCSR863KUB K562 TCF7 peaks Experimental 
wgEncodeReg4TfChip_ENCFF686GDU ENCSR862VDD signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZIK1 ZIK1 ENCSR862VDD signal Experimental 
wgEncodeReg4TfChip_ENCFF031XIP ENCSR862VDD HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZIK1 ZIK1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF472YKH ENCSR862PNL signal HEK293T L3MBTL2 ENCSR862PNL signal Experimental 
wgEncodeReg4TfChip_ENCFF482NJV ENCSR862PNL HEK293T L3MBTL2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF650TLK ENCSR862LJQ HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF296 ZNF296 peaks Experimental 
wgEncodeReg4TfChip_ENCFF641UEU ENCSR861XGM signal suprapubic skin tissue male adult (54 years) POLR2AphosphoS5 ENCSR861XGM signal Experimental 
wgEncodeReg4TfChip_ENCFF083NEJ ENCSR861XGM suprapubic skin tissue male adult (54 years) POLR2AphosphoS5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF546FJN ENCSR861JUQ GM12878 FOXK2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF670LHO ENCSR860UHK signal GM12878 CBFB ENCSR860UHK signal Experimental 
wgEncodeReg4TfChip_ENCFF056JUS ENCSR860UHK GM12878 CBFB peaks Experimental 
wgEncodeReg4TfChip_ENCFF258PGM ENCSR859RAO signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens YY1 YY1 ENCSR859RAO signal Experimental 
wgEncodeReg4TfChip_ENCFF734SBY ENCSR859RAO HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens YY1 YY1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF371AND ENCSR859FDL signal GM12878 ZNF687 ENCSR859FDL signal Experimental 
wgEncodeReg4TfChip_ENCFF233SGE ENCSR859FDL GM12878 ZNF687 peaks Experimental 
wgEncodeReg4TfChip_ENCFF719ILH ENCSR859BMR signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens KLF1 KLF1 ENCSR859BMR signal Experimental 
wgEncodeReg4TfChip_ENCFF159QSW ENCSR859BMR HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens KLF1 KLF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF634JUC ENCSR857RJQ signal sigmoid colon tissue male adult (54 years) CTCF ENCSR857RJQ signal Experimental 
wgEncodeReg4TfChip_ENCFF397ZZF ENCSR857RJQ sigmoid colon tissue male adult (54 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF101XPW ENCSR857PBV signal 22Rv1 CTCF ENCSR857PBV signal Experimental 
wgEncodeReg4TfChip_ENCFF466OXN ENCSR857PBV 22Rv1 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF920TYM ENCSR856QJP signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF775 ZNF775 ENCSR856QJP signal Experimental 
wgEncodeReg4TfChip_ENCFF488TVQ ENCSR856QJP HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF775 ZNF775 peaks Experimental 
wgEncodeReg4TfChip_ENCFF508ALM ENCSR856JJB signal RWPE2 CTCF ENCSR856JJB signal Experimental 
wgEncodeReg4TfChip_ENCFF911IEE ENCSR856JJB RWPE2 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF163YSC ENCSR855XFL signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens CREB3 CREB3 ENCSR855XFL signal Experimental 
wgEncodeReg4TfChip_ENCFF847HIL ENCSR855XFL HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens CREB3 CREB3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF843BFO ENCSR854MCV signal K562 stably expressing IRF1 IRF1 ENCSR854MCV signal Experimental 
wgEncodeReg4TfChip_ENCFF277KTJ ENCSR854MCV K562 stably expressing IRF1 IRF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF682STT ENCSR854JES signal HepG2 POLR2G ENCSR854JES signal Experimental 
wgEncodeReg4TfChip_ENCFF508UTS ENCSR854JES HepG2 POLR2G peaks Experimental 
wgEncodeReg4TfChip_ENCFF180AYY ENCSR854IPI signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF707 ZNF707 ENCSR854IPI signal Experimental 
wgEncodeReg4TfChip_ENCFF249FMX ENCSR854IPI HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF707 ZNF707 peaks Experimental 
wgEncodeReg4TfChip_ENCFF815THH ENCSR853ADA signal HepG2 NRF1 ENCSR853ADA signal Experimental 
wgEncodeReg4TfChip_ENCFF694NVY ENCSR853ADA HepG2 NRF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF521NYK ENCSR852BLA signal pancreas tissue female child (16 years) CTCF ENCSR852BLA signal Experimental 
wgEncodeReg4TfChip_ENCFF759HAE ENCSR852BLA pancreas tissue female child (16 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF730TBA ENCSR851BNE signal K562 MEIS2 ENCSR851BNE signal Experimental 
wgEncodeReg4TfChip_ENCFF320GSD ENCSR851BNE K562 MEIS2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF550NSU ENCSR850KIP signal H1 ASH2L ENCSR850KIP signal Experimental 
wgEncodeReg4TfChip_ENCFF399KAM ENCSR850KIP H1 ASH2L peaks Experimental 
wgEncodeReg4TfChip_ENCFF407QCF ENCSR849WCQ signal GM12878 ASH2L ENCSR849WCQ signal Experimental 
wgEncodeReg4TfChip_ENCFF143PXG ENCSR849WCQ GM12878 ASH2L peaks Experimental 
wgEncodeReg4TfChip_ENCFF165UZH ENCSR849TMV signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens SIX4 SIX4 ENCSR849TMV signal Experimental 
wgEncodeReg4TfChip_ENCFF372NPG ENCSR849TMV HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens SIX4 SIX4 peaks Experimental 
wgEncodeReg4TfChip_ENCFF032TRR ENCSR849FVL signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens GFI1 GFI1 ENCSR849FVL signal Experimental 
wgEncodeReg4TfChip_ENCFF472INF ENCSR849FVL HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens GFI1 GFI1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF924QDD ENCSR849DFF signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens PBX2 PBX2 ENCSR849DFF signal Experimental 
wgEncodeReg4TfChip_ENCFF225AJT ENCSR849DFF HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens PBX2 PBX2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF722IVD ENCSR848YWD signal HepG2 ZMYM3 ENCSR848YWD signal Experimental 
wgEncodeReg4TfChip_ENCFF667RVD ENCSR848YWD HepG2 ZMYM3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF338KQK ENCSR848AOP signal K562 RBM22 ENCSR848AOP signal Experimental 
wgEncodeReg4TfChip_ENCFF629OUL ENCSR848AOP K562 RBM22 peaks Experimental 
wgEncodeReg4TfChip_ENCFF374AEG ENCSR847OSL signal with mild cognitive impairment; middle frontal area 46 tissue female adult (90 or above years) CTCF ENCSR847OSL signal Experimental 
wgEncodeReg4TfChip_ENCFF812HQJ ENCSR847OSL with mild cognitive impairment; middle frontal area 46 tissue female adult (90 or above years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF412DEZ ENCSR847LBF signal K562 stably expressing FOXJ2 FOXJ2 ENCSR847LBF signal Experimental 
wgEncodeReg4TfChip_ENCFF457GZC ENCSR847LBF K562 stably expressing FOXJ2 FOXJ2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF259IHT ENCSR847DIT signal liver tissue female child (4 years) MAX ENCSR847DIT signal Experimental 
wgEncodeReg4TfChip_ENCFF092GVW ENCSR847DIT liver tissue female child (4 years) MAX peaks Experimental 
wgEncodeReg4TfChip_ENCFF880CZK ENCSR846JKO signal ascending aorta tissue female adult (51 years) CTCF ENCSR846JKO signal Experimental 
wgEncodeReg4TfChip_ENCFF252UBR ENCSR846JKO ascending aorta tissue female adult (51 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF608OJM ENCSR845BCL signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF639 ZNF639 ENCSR845BCL signal Experimental 
wgEncodeReg4TfChip_ENCFF271FQR ENCSR845BCL K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF639 ZNF639 peaks Experimental 
wgEncodeReg4TfChip_ENCFF735YEL ENCSR844PVS signal breast epithelium tissue male adult (54 years) POLR2AphosphoS5 ENCSR844PVS signal Experimental 
wgEncodeReg4TfChip_ENCFF960NNA ENCSR844PVS breast epithelium tissue male adult (54 years) POLR2AphosphoS5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF053OBW ENCSR843ZUP signal neural cell originated from H1 EP300 ENCSR843ZUP signal Experimental 
wgEncodeReg4TfChip_ENCFF442QNK ENCSR843ZUP neural cell originated from H1 EP300 peaks Experimental 
wgEncodeReg4TfChip_ENCFF475ZZS ENCSR843JCI signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZMAT3 ZMAT3 ENCSR843JCI signal Experimental 
wgEncodeReg4TfChip_ENCFF053XGJ ENCSR843JCI HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZMAT3 ZMAT3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF549YPC ENCSR842SRB signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF350 ZNF350 ENCSR842SRB signal Experimental 
wgEncodeReg4TfChip_ENCFF595LWL ENCSR842SRB HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF350 ZNF350 peaks Experimental 
wgEncodeReg4TfChip_ENCFF204BXZ ENCSR841YWU signal MCF-7 E4F1 ENCSR841YWU signal Experimental 
wgEncodeReg4TfChip_ENCFF679UFD ENCSR841YWU MCF-7 E4F1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF137FIN ENCSR841NDX signal GM12878 ELF1 ENCSR841NDX signal Experimental 
wgEncodeReg4TfChip_ENCFF692SMY ENCSR841NDX GM12878 ELF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF317FXL ENCSR840EYN signal heart right ventricle tissue female adult (59 years) CTCF ENCSR840EYN signal Experimental 
wgEncodeReg4TfChip_ENCFF741WMU ENCSR840EYN heart right ventricle tissue female adult (59 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF657GQY ENCSR839XZU signal GM12878 CREM ENCSR839XZU signal Experimental 
wgEncodeReg4TfChip_ENCFF391UGE ENCSR839XZU GM12878 CREM peaks Experimental 
wgEncodeReg4TfChip_ENCFF984NMY ENCSR839AJZ signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF446 ZNF446 ENCSR839AJZ signal Experimental 
wgEncodeReg4TfChip_ENCFF070XRR ENCSR839AJZ HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF446 ZNF446 peaks Experimental 
wgEncodeReg4TfChip_ENCFF536DEU ENCSR838RUX signal esophagus squamous epithelium tissue male adult (37 years) CTCF ENCSR838RUX signal Experimental 
wgEncodeReg4TfChip_ENCFF700BXI ENCSR838RUX esophagus squamous epithelium tissue male adult (37 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF437TOP ENCSR837YGS signal SK-N-SH genetically modified (insertion) using CRISPR targeting H. sapiens ZNF608 treated with 6 μM all-trans-retinoic acid for 48 hours ZNF608 ENCSR837YGS signal Experimental 
wgEncodeReg4TfChip_ENCFF518LYG ENCSR837YGS SK-N-SH genetically modified (insertion) using CRISPR targeting H. sapiens ZNF608 treated with 6 μM all-trans-retinoic acid for 48 hours ZNF608 peaks Experimental 
wgEncodeReg4TfChip_ENCFF983ZXM ENCSR837GTK signal with nonobstructive coronary artery disease; liver tissue male adult (32 years) JUND ENCSR837GTK signal Experimental 
wgEncodeReg4TfChip_ENCFF007WWT ENCSR837GTK with nonobstructive coronary artery disease; liver tissue male adult (32 years) JUND peaks Experimental 
wgEncodeReg4TfChip_ENCFF641LDS ENCSR837GLU signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF232 ZNF232 ENCSR837GLU signal Experimental 
wgEncodeReg4TfChip_ENCFF905UTT ENCSR837GLU HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF232 ZNF232 peaks Experimental 
wgEncodeReg4TfChip_ENCFF744HIE ENCSR837EYC signal K562 NRF1 ENCSR837EYC signal Experimental 
wgEncodeReg4TfChip_ENCFF130SGK ENCSR837EYC K562 NRF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF538KFN ENCSR835XKS signal GM12878 TRIM22 ENCSR835XKS signal Experimental 
wgEncodeReg4TfChip_ENCFF919OMX ENCSR835XKS GM12878 TRIM22 peaks Experimental 
wgEncodeReg4TfChip_ENCFF905ISB ENCSR835VBH signal SK-N-SH genetically modified (insertion) using CRISPR targeting H. sapiens CSRNP3 treated with 6 μM all-trans-retinoic acid for 48 hours CSRNP3 ENCSR835VBH signal Experimental 
wgEncodeReg4TfChip_ENCFF710BXD ENCSR835VBH SK-N-SH genetically modified (insertion) using CRISPR targeting H. sapiens CSRNP3 treated with 6 μM all-trans-retinoic acid for 48 hours CSRNP3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF765DXU ENCSR835TCD signal K562 stably expressing HDAC8 HDAC8 ENCSR835TCD signal Experimental 
wgEncodeReg4TfChip_ENCFF784HCJ ENCSR835TCD K562 stably expressing HDAC8 HDAC8 peaks Experimental 
wgEncodeReg4TfChip_ENCFF517GQE ENCSR833FWC signal transverse colon tissue male adult (54 years) CTCF ENCSR833FWC signal Experimental 
wgEncodeReg4TfChip_ENCFF077CMZ ENCSR833FWC transverse colon tissue male adult (54 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF423POG ENCSR832TWW signal middle frontal area 46 tissue male adult (82 years) CTCF ENCSR832TWW signal Experimental 
wgEncodeReg4TfChip_ENCFF483ZLP ENCSR832TWW middle frontal area 46 tissue male adult (82 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF665JGL ENCSR832PID signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF318 ZNF318 ENCSR832PID signal Experimental 
wgEncodeReg4TfChip_ENCFF054INI ENCSR832PID HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF318 ZNF318 peaks Experimental 
wgEncodeReg4TfChip_ENCFF640XIF ENCSR832OGB signal K562 LEF1 ENCSR832OGB signal Experimental 
wgEncodeReg4TfChip_ENCFF889WGL ENCSR832OGB K562 LEF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF784PBW ENCSR831EIW signal HEK293T FOXM1 ENCSR831EIW signal Experimental 
wgEncodeReg4TfChip_ENCFF914UUM ENCSR831EIW HEK293T FOXM1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF789ZQD ENCSR830LDY signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens MEIS2 MEIS2 ENCSR830LDY signal Experimental 
wgEncodeReg4TfChip_ENCFF157BEH ENCSR830LDY HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens MEIS2 MEIS2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF968QSZ ENCSR830FJY signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens SOX18 SOX18 ENCSR830FJY signal Experimental 
wgEncodeReg4TfChip_ENCFF348QIP ENCSR830FJY HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens SOX18 SOX18 peaks Experimental 
wgEncodeReg4TfChip_ENCFF975TWI ENCSR829WBA signal MCF-7 genetically modified (insertion) using CRISPR targeting H. sapiens OVOL1 OVOL1 ENCSR829WBA signal Experimental 
wgEncodeReg4TfChip_ENCFF537GWI ENCSR829WBA MCF-7 genetically modified (insertion) using CRISPR targeting H. sapiens OVOL1 OVOL1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF555JYG ENCSR829UCH signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens NFXL1 NFXL1 ENCSR829UCH signal Experimental 
wgEncodeReg4TfChip_ENCFF898RYR ENCSR829UCH K562 genetically modified (insertion) using CRISPR targeting H. sapiens NFXL1 NFXL1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF308OYN ENCSR829HTO signal prostate gland tissue male adult (54 years) CTCF ENCSR829HTO signal Experimental 
wgEncodeReg4TfChip_ENCFF655GBO ENCSR829HTO prostate gland tissue male adult (54 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF182VQJ ENCSR828PZH signal upper lobe of left lung tissue male adult (37 years) EP300 ENCSR828PZH signal Experimental 
wgEncodeReg4TfChip_ENCFF720RAR ENCSR828PZH upper lobe of left lung tissue male adult (37 years) EP300 peaks Experimental 
wgEncodeReg4TfChip_ENCFF056XZR ENCSR828NCB signal GM12878 GATAD2B ENCSR828NCB signal Experimental 
wgEncodeReg4TfChip_ENCFF781IAU ENCSR828NCB GM12878 GATAD2B peaks Experimental 
wgEncodeReg4TfChip_ENCFF779MAP ENCSR827NWO signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens FEZF1 FEZF1 ENCSR827NWO signal Experimental 
wgEncodeReg4TfChip_ENCFF528YED ENCSR827NWO HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens FEZF1 FEZF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF371PAD ENCSR826YMT signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens SMAD4 SMAD4 ENCSR826YMT signal Experimental 
wgEncodeReg4TfChip_ENCFF615GTE ENCSR826YMT HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens SMAD4 SMAD4 peaks Experimental 
wgEncodeReg4TfChip_ENCFF593FIE ENCSR825RBI signal suprapubic skin tissue female adult (53 years) POLR2A ENCSR825RBI signal Experimental 
wgEncodeReg4TfChip_ENCFF535ETE ENCSR825RBI suprapubic skin tissue female adult (53 years) POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF412TOH ENCSR825NXC signal heart left ventricle tissue female adult (56 years) CTCF ENCSR825NXC signal Experimental 
wgEncodeReg4TfChip_ENCFF413JHX ENCSR825NXC heart left ventricle tissue female adult (56 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF174ODY ENCSR825MZS signal HepG2 TAF15 ENCSR825MZS signal Experimental 
wgEncodeReg4TfChip_ENCFF406BOT ENCSR825MZS HepG2 TAF15 peaks Experimental 
wgEncodeReg4TfChip_ENCFF284YVH ENCSR823FFR signal stomach tissue female adult (53 years) POLR2AphosphoS5 ENCSR823FFR signal Experimental 
wgEncodeReg4TfChip_ENCFF607ZPU ENCSR823FFR stomach tissue female adult (53 years) POLR2AphosphoS5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF928YIM ENCSR823ADL signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens RFXANK RFXANK ENCSR823ADL signal Experimental 
wgEncodeReg4TfChip_ENCFF276CBT ENCSR823ADL HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens RFXANK RFXANK peaks Experimental 
wgEncodeReg4TfChip_ENCFF836KZK ENCSR822PJT signal tibial nerve tissue female adult (51 years) CTCF ENCSR822PJT signal Experimental 
wgEncodeReg4TfChip_ENCFF665IWH ENCSR822PJT tibial nerve tissue female adult (51 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF821XXA ENCSR822LBD signal K562 RBFOX2 ENCSR822LBD signal Experimental 
wgEncodeReg4TfChip_ENCFF967GRF ENCSR822LBD K562 RBFOX2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF270DID ENCSR822CEA signal neural cell originated from H1 CTCF ENCSR822CEA signal Experimental 
wgEncodeReg4TfChip_ENCFF335ADI ENCSR822CEA neural cell originated from H1 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF980AHZ ENCSR822CCM signal K562 ARID1B ENCSR822CCM signal Experimental 
wgEncodeReg4TfChip_ENCFF938UXQ ENCSR822CCM K562 ARID1B peaks Experimental 
wgEncodeReg4TfChip_ENCFF909WHO ENCSR822AHX signal GM12878 IKZF2 ENCSR822AHX signal Experimental 
wgEncodeReg4TfChip_ENCFF238LYK ENCSR822AHX GM12878 IKZF2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF511JBH ENCSR820GND signal K562 RNF2 ENCSR820GND signal Experimental 
wgEncodeReg4TfChip_ENCFF022XJR ENCSR820GND K562 RNF2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF895JUC ENCSR819WZE signal HepG2 CBX1 ENCSR819WZE signal Experimental 
wgEncodeReg4TfChip_ENCFF050DIL ENCSR819WZE HepG2 CBX1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF870DIP ENCSR819ATC signal GM12878 MYB ENCSR819ATC signal Experimental 
wgEncodeReg4TfChip_ENCFF904SON ENCSR819ATC GM12878 MYB peaks Experimental 
wgEncodeReg4TfChip_ENCFF056BBN ENCSR818DQV signal K562 stably expressing MAFG MAFG ENCSR818DQV signal Experimental 
wgEncodeReg4TfChip_ENCFF455EEO ENCSR818DQV K562 stably expressing MAFG MAFG peaks Experimental 
wgEncodeReg4TfChip_ENCFF859XJZ ENCSR817QKV signal K562 EP400 ENCSR817QKV signal Experimental 
wgEncodeReg4TfChip_ENCFF850OZQ ENCSR817QKV K562 EP400 peaks Experimental 
wgEncodeReg4TfChip_ENCFF237XNE ENCSR817HTJ signal foreskin keratinocyte male newborn (2-4 days) CTCF ENCSR817HTJ signal Experimental 
wgEncodeReg4TfChip_ENCFF980OWR ENCSR817HTJ foreskin keratinocyte male newborn (2-4 days) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF397AUP ENCSR817FMN signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens TEAD4 TEAD4 ENCSR817FMN signal Experimental 
wgEncodeReg4TfChip_ENCFF843TII ENCSR817FMN K562 genetically modified (insertion) using CRISPR targeting H. sapiens TEAD4 TEAD4 peaks Experimental 
wgEncodeReg4TfChip_ENCFF191GNN ENCSR815ZDS signal K562 SREBF1 ENCSR815ZDS signal Experimental 
wgEncodeReg4TfChip_ENCFF441TTT ENCSR815ZDS K562 SREBF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF015SRZ ENCSR813QEO signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens DPF2 DPF2 ENCSR813QEO signal Experimental 
wgEncodeReg4TfChip_ENCFF700HHQ ENCSR813QEO HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens DPF2 DPF2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF693AEK ENCSR813KUE signal middle frontal area 46 tissue male adult (78 years) CTCF ENCSR813KUE signal Experimental 
wgEncodeReg4TfChip_ENCFF149PUN ENCSR813KUE middle frontal area 46 tissue male adult (78 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF130NRZ ENCSR813DCK GM12878 SMAD1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF523FKB ENCSR810WXH signal MCF-7 TOE1 ENCSR810WXH signal Experimental 
wgEncodeReg4TfChip_ENCFF544WQF ENCSR810WXH MCF-7 TOE1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF742LZF ENCSR808FFI signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZKSCAN8 ZKSCAN8 ENCSR808FFI signal Experimental 
wgEncodeReg4TfChip_ENCFF555WYO ENCSR808FFI HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZKSCAN8 ZKSCAN8 peaks Experimental 
wgEncodeReg4TfChip_ENCFF957TCK ENCSR808AKZ signal K562 BCOR ENCSR808AKZ signal Experimental 
wgEncodeReg4TfChip_ENCFF343XWA ENCSR808AKZ K562 BCOR peaks Experimental 
wgEncodeReg4TfChip_ENCFF986DQP ENCSR807LQP signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens SP2 SP2 ENCSR807LQP signal Experimental 
wgEncodeReg4TfChip_ENCFF181QXT ENCSR807LQP HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens SP2 SP2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF134PQZ ENCSR807BGP signal K562 MTA1 ENCSR807BGP signal Experimental 
wgEncodeReg4TfChip_ENCFF230ZKA ENCSR807BGP K562 MTA1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF389OGV ENCSR805YLE signal gastroesophageal sphincter tissue male adult (54 years) CTCF ENCSR805YLE signal Experimental 
wgEncodeReg4TfChip_ENCFF487MYN ENCSR805YLE gastroesophageal sphincter tissue male adult (54 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF020PYP ENCSR804HMZ signal HepG2 HNRNPLL ENCSR804HMZ signal Experimental 
wgEncodeReg4TfChip_ENCFF355PIC ENCSR804HMZ HepG2 HNRNPLL peaks Experimental 
wgEncodeReg4TfChip_ENCFF365FMS ENCSR803IYP signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZBTB49 ZBTB49 ENCSR803IYP signal Experimental 
wgEncodeReg4TfChip_ENCFF200LWQ ENCSR803IYP HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZBTB49 ZBTB49 peaks Experimental 
wgEncodeReg4TfChip_ENCFF872VJT ENCSR803GYT signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens HIC1 HIC1 ENCSR803GYT signal Experimental 
wgEncodeReg4TfChip_ENCFF252CFL ENCSR803GYT HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens HIC1 HIC1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF998HID ENCSR803FAP signal testis tissue male adult (54 years) POLR2A ENCSR803FAP signal Experimental 
wgEncodeReg4TfChip_ENCFF678GSH ENCSR803FAP testis tissue male adult (54 years) POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF400ZAU ENCSR803EKW signal K562 NCOA2 ENCSR803EKW signal Experimental 
wgEncodeReg4TfChip_ENCFF684PAU ENCSR803EKW K562 NCOA2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF781XAV ENCSR802UCW signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens MLXIP MLXIP ENCSR802UCW signal Experimental 
wgEncodeReg4TfChip_ENCFF634EYT ENCSR802UCW HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens MLXIP MLXIP peaks Experimental 
wgEncodeReg4TfChip_ENCFF728SYV ENCSR802AHH signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens BCL6 BCL6 ENCSR802AHH signal Experimental 
wgEncodeReg4TfChip_ENCFF501MST ENCSR802AHH K562 genetically modified (insertion) using CRISPR targeting H. sapiens BCL6 BCL6 peaks Experimental 
wgEncodeReg4TfChip_ENCFF844SQA ENCSR801SWX signal MCF-7 TARDBP ENCSR801SWX signal Experimental 
wgEncodeReg4TfChip_ENCFF924WTI ENCSR801SWX MCF-7 TARDBP peaks Experimental 
wgEncodeReg4TfChip_ENCFF040PDQ ENCSR801SNX signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF512B ZNF512B ENCSR801SNX signal Experimental 
wgEncodeReg4TfChip_ENCFF126PJB ENCSR801SNX HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF512B ZNF512B peaks Experimental 
wgEncodeReg4TfChip_ENCFF362BXA ENCSR801RPW signal K562 stably expressing GTF2A2 GTF2A2 ENCSR801RPW signal Experimental 
wgEncodeReg4TfChip_ENCFF041WRN ENCSR801RPW K562 stably expressing GTF2A2 GTF2A2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF661UYZ ENCSR801GJU signal HepG2 CBX2 ENCSR801GJU signal Experimental 
wgEncodeReg4TfChip_ENCFF838BNI ENCSR801GJU HepG2 CBX2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF898UYA ENCSR800QIT signal HepG2 HNF1A ENCSR800QIT signal Experimental 
wgEncodeReg4TfChip_ENCFF352VYI ENCSR800QIT HepG2 HNF1A peaks Experimental 
wgEncodeReg4TfChip_ENCFF048LUW ENCSR800JRG signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens TEAD4 TEAD4 ENCSR800JRG signal Experimental 
wgEncodeReg4TfChip_ENCFF250NXO ENCSR800JRG HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens TEAD4 TEAD4 peaks Experimental 
wgEncodeReg4TfChip_ENCFF202GMP ENCSR800ASH signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF234 ZNF234 ENCSR800ASH signal Experimental 
wgEncodeReg4TfChip_ENCFF434CIY ENCSR800ASH HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF234 ZNF234 peaks Experimental 
wgEncodeReg4TfChip_ENCFF694HBV ENCSR799WDT signal Peyer's patch tissue male adult (54 years) CTCF ENCSR799WDT signal Experimental 
wgEncodeReg4TfChip_ENCFF828IDE ENCSR799WDT Peyer's patch tissue male adult (54 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF468WUY ENCSR799TJD signal upper lobe of left lung tissue female adult (51 years) CTCF ENCSR799TJD signal Experimental 
wgEncodeReg4TfChip_ENCFF101TOL ENCSR799TJD upper lobe of left lung tissue female adult (51 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF696PKK ENCSR799GOY signal HepG2 YBX1 ENCSR799GOY signal Experimental 
wgEncodeReg4TfChip_ENCFF027HFW ENCSR799GOY HepG2 YBX1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF041NZX ENCSR799GJD signal nephron progenitor cell: 8 days post differentiation CTCF ENCSR799GJD signal Experimental 
wgEncodeReg4TfChip_ENCFF455DMI ENCSR799GJD nephron progenitor cell: 8 days post differentiation CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF482RVX ENCSR799DUB signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens IKZF4 IKZF4 ENCSR799DUB signal Experimental 
wgEncodeReg4TfChip_ENCFF823YYW ENCSR799DUB HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens IKZF4 IKZF4 peaks Experimental 
wgEncodeReg4TfChip_ENCFF245FMZ ENCSR798NVH signal uterus tissue female adult (51 years) CTCF ENCSR798NVH signal Experimental 
wgEncodeReg4TfChip_ENCFF631BWF ENCSR798NVH uterus tissue female adult (51 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF134MED ENCSR798MFW signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens NR1H2 NR1H2 ENCSR798MFW signal Experimental 
wgEncodeReg4TfChip_ENCFF386VZB ENCSR798MFW K562 genetically modified (insertion) using CRISPR targeting H. sapiens NR1H2 NR1H2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF898KEI ENCSR798KXG signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens TBP TBP ENCSR798KXG signal Experimental 
wgEncodeReg4TfChip_ENCFF242ZCY ENCSR798KXG HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens TBP TBP peaks Experimental 
wgEncodeReg4TfChip_ENCFF243PFD ENCSR798ILC signal K562 NCOR1 ENCSR798ILC signal Experimental 
wgEncodeReg4TfChip_ENCFF866HRM ENCSR798ILC K562 NCOR1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF481DRI ENCSR798IJO signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens NR2F6 NR2F6 ENCSR798IJO signal Experimental 
wgEncodeReg4TfChip_ENCFF514UJI ENCSR798IJO HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens NR2F6 NR2F6 peaks Experimental 
wgEncodeReg4TfChip_ENCFF101YCA ENCSR798EGJ signal A549 RNF2 ENCSR798EGJ signal Experimental 
wgEncodeReg4TfChip_ENCFF650XYA ENCSR798EGJ A549 RNF2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF578BJE ENCSR797SWM signal K562 MITF ENCSR797SWM signal Experimental 
wgEncodeReg4TfChip_ENCFF731XJJ ENCSR797SWM K562 MITF peaks Experimental 
wgEncodeReg4TfChip_ENCFF084FGR ENCSR796ITY signal K562 NFIC ENCSR796ITY signal Experimental 
wgEncodeReg4TfChip_ENCFF167YID ENCSR796ITY K562 NFIC peaks Experimental 
wgEncodeReg4TfChip_ENCFF799YBH ENCSR795IYP signal K562 JUNB ENCSR795IYP signal Experimental 
wgEncodeReg4TfChip_ENCFF785CFE ENCSR795IYP K562 JUNB peaks Experimental 
wgEncodeReg4TfChip_ENCFF786FPY ENCSR795CKZ signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZSCAN30 ZSCAN30 ENCSR795CKZ signal Experimental 
wgEncodeReg4TfChip_ENCFF093LBM ENCSR795CKZ HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZSCAN30 ZSCAN30 peaks Experimental 
wgEncodeReg4TfChip_ENCFF217GCH ENCSR794LVK HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ARNTL ARNTL peaks Experimental 
wgEncodeReg4TfChip_ENCFF670COF ENCSR793YAD signal tibial nerve tissue female adult (51 years) CTCF ENCSR793YAD signal Experimental 
wgEncodeReg4TfChip_ENCFF420SAZ ENCSR793YAD tibial nerve tissue female adult (51 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF364XKI ENCSR793HVL signal GM12878 E2F8 ENCSR793HVL signal Experimental 
wgEncodeReg4TfChip_ENCFF910KAC ENCSR793HVL GM12878 E2F8 peaks Experimental 
wgEncodeReg4TfChip_ENCFF095NGO ENCSR793EHQ signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens HNF4G HNF4G ENCSR793EHQ signal Experimental 
wgEncodeReg4TfChip_ENCFF150UPI ENCSR793EHQ HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens HNF4G HNF4G peaks Experimental 
wgEncodeReg4TfChip_ENCFF063QGL ENCSR792MZV signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens MYRF MYRF ENCSR792MZV signal Experimental 
wgEncodeReg4TfChip_ENCFF506XRP ENCSR792MZV HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens MYRF MYRF peaks Experimental 
wgEncodeReg4TfChip_ENCFF281TJW ENCSR791OZM signal K562 RBM25 ENCSR791OZM signal Experimental 
wgEncodeReg4TfChip_ENCFF957ORK ENCSR791OZM K562 RBM25 peaks Experimental 
wgEncodeReg4TfChip_ENCFF958BQA ENCSR791AYW signal heart left ventricle tissue female adult (51 years) CTCF ENCSR791AYW signal Experimental 
wgEncodeReg4TfChip_ENCFF987PUT ENCSR791AYW heart left ventricle tissue female adult (51 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF039BEU ENCSR791AGT signal HepG2 ZNF24 ENCSR791AGT signal Experimental 
wgEncodeReg4TfChip_ENCFF357JVV ENCSR791AGT HepG2 ZNF24 peaks Experimental 
wgEncodeReg4TfChip_ENCFF306TKC ENCSR788XNX signal MCF-7 RFX1 ENCSR788XNX signal Experimental 
wgEncodeReg4TfChip_ENCFF973QAD ENCSR788XNX MCF-7 RFX1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF254DRR ENCSR788SXN signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF607 ZNF607 ENCSR788SXN signal Experimental 
wgEncodeReg4TfChip_ENCFF118ANP ENCSR788SXN HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF607 ZNF607 peaks Experimental 
wgEncodeReg4TfChip_ENCFF489ISQ ENCSR788RSW signal K562 SOX6 ENCSR788RSW signal Experimental 
wgEncodeReg4TfChip_ENCFF059YCJ ENCSR788RSW K562 SOX6 peaks Experimental 
wgEncodeReg4TfChip_ENCFF955YDT ENCSR788DXU signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens FOXA3 FOXA3 ENCSR788DXU signal Experimental 
wgEncodeReg4TfChip_ENCFF348SOM ENCSR788DXU K562 genetically modified (insertion) using CRISPR targeting H. sapiens FOXA3 FOXA3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF217HMR ENCSR787CHF signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens USF1 USF1 ENCSR787CHF signal Experimental 
wgEncodeReg4TfChip_ENCFF202SFC ENCSR787CHF K562 genetically modified (insertion) using CRISPR targeting H. sapiens USF1 USF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF099IYC ENCSR786OQY signal K562 ZBTB5 ENCSR786OQY signal Experimental 
wgEncodeReg4TfChip_ENCFF856PUG ENCSR786OQY K562 ZBTB5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF300LXQ ENCSR785YRL signal neutrophil CTCF ENCSR785YRL signal Experimental 
wgEncodeReg4TfChip_ENCFF770HHA ENCSR785YRL neutrophil CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF860LHP ENCSR785OKZ signal GM12878 RB1 ENCSR785OKZ signal Experimental 
wgEncodeReg4TfChip_ENCFF495RZI ENCSR785OKZ GM12878 RB1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF168GWK ENCSR784VUY signal H1 RNF2 ENCSR784VUY signal Experimental 
wgEncodeReg4TfChip_ENCFF239FFS ENCSR784VUY H1 RNF2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF675EPS ENCSR784VIQ signal GM12878 NR2C1 ENCSR784VIQ signal Experimental 
wgEncodeReg4TfChip_ENCFF101ELO ENCSR784VIQ GM12878 NR2C1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF540VCA ENCSR784FYS signal HepG2 RBFOX2 ENCSR784FYS signal Experimental 
wgEncodeReg4TfChip_ENCFF554DMZ ENCSR784FYS HepG2 RBFOX2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF162QPJ ENCSR784BVD signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens MYC MYC ENCSR784BVD signal Experimental 
wgEncodeReg4TfChip_ENCFF575FXK ENCSR784BVD HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens MYC MYC peaks Experimental 
wgEncodeReg4TfChip_ENCFF911WKX ENCSR783EPA signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens TBPL1 TBPL1 ENCSR783EPA signal Experimental 
wgEncodeReg4TfChip_ENCFF544VTV ENCSR783EPA K562 genetically modified (insertion) using CRISPR targeting H. sapiens TBPL1 TBPL1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF138XSR ENCSR782WRO signal K562 BMI1 ENCSR782WRO signal Experimental 
wgEncodeReg4TfChip_ENCFF139VAJ ENCSR782WRO K562 BMI1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF484RVX ENCSR781EQJ signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZBTB48 ZBTB48 ENCSR781EQJ signal Experimental 
wgEncodeReg4TfChip_ENCFF809BPK ENCSR781EQJ HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZBTB48 ZBTB48 peaks Experimental 
wgEncodeReg4TfChip_ENCFF105LYV ENCSR780OZE signal parathyroid adenoma tissue male adult (62 years) CTCF ENCSR780OZE signal Experimental 
wgEncodeReg4TfChip_ENCFF173CEN ENCSR780OZE parathyroid adenoma tissue male adult (62 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF693THW ENCSR780OXL signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens GMEB1 GMEB1 ENCSR780OXL signal Experimental 
wgEncodeReg4TfChip_ENCFF434UDC ENCSR780OXL HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens GMEB1 GMEB1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF481FFX ENCSR780BBJ signal K562 ZZZ3 ENCSR780BBJ signal Experimental 
wgEncodeReg4TfChip_ENCFF845XAO ENCSR780BBJ K562 ZZZ3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF488PRF ENCSR779YTI signal middle frontal area 46 tissue female adult (90 or above years) CTCF ENCSR779YTI signal Experimental 
wgEncodeReg4TfChip_ENCFF403LNW ENCSR779YTI middle frontal area 46 tissue female adult (90 or above years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF541CSJ ENCSR778ZPK signal heart left ventricle tissue female adult (59 years) CTCF ENCSR778ZPK signal Experimental 
wgEncodeReg4TfChip_ENCFF888ERQ ENCSR778ZPK heart left ventricle tissue female adult (59 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF830CXC ENCSR778UBR signal GM12878 ARID3A ENCSR778UBR signal Experimental 
wgEncodeReg4TfChip_ENCFF006WWZ ENCSR778UBR GM12878 ARID3A peaks Experimental 
wgEncodeReg4TfChip_ENCFF956HGR ENCSR778QLY signal HEK293T ELF4 ENCSR778QLY signal Experimental 
wgEncodeReg4TfChip_ENCFF509MGU ENCSR778QLY HEK293T ELF4 peaks Experimental 
wgEncodeReg4TfChip_ENCFF081IRZ ENCSR778NDP signal with Cognitive impairment; middle frontal area 46 tissue female adult (81 years) CTCF ENCSR778NDP signal Experimental 
wgEncodeReg4TfChip_ENCFF883PFA ENCSR778NDP with Cognitive impairment; middle frontal area 46 tissue female adult (81 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF514SEB ENCSR776CYN signal K562 ZFP36 ENCSR776CYN signal Experimental 
wgEncodeReg4TfChip_ENCFF255RZG ENCSR776CYN K562 ZFP36 peaks Experimental 
wgEncodeReg4TfChip_ENCFF355RLV ENCSR775YXE signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZBTB37 ZBTB37 ENCSR775YXE signal Experimental 
wgEncodeReg4TfChip_ENCFF717TTW ENCSR775YXE HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZBTB37 ZBTB37 peaks Experimental 
wgEncodeReg4TfChip_ENCFF826EHF ENCSR775HFF signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF791 ZNF791 ENCSR775HFF signal Experimental 
wgEncodeReg4TfChip_ENCFF232OEV ENCSR775HFF HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF791 ZNF791 peaks Experimental 
wgEncodeReg4TfChip_ENCFF430VFG ENCSR775EQV signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF583 ZNF583 ENCSR775EQV signal Experimental 
wgEncodeReg4TfChip_ENCFF879KXH ENCSR775EQV K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF583 ZNF583 peaks Experimental 
wgEncodeReg4TfChip_ENCFF890FKH ENCSR774PGN signal pancreas tissue female adult (41 years) CTCF ENCSR774PGN signal Experimental 
wgEncodeReg4TfChip_ENCFF315CUI ENCSR774PGN pancreas tissue female adult (41 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF987OZW ENCSR773REP signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZBTB7A ZBTB7A ENCSR773REP signal Experimental 
wgEncodeReg4TfChip_ENCFF420MRZ ENCSR773REP HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZBTB7A ZBTB7A peaks Experimental 
wgEncodeReg4TfChip_ENCFF799HMN ENCSR773JBP signal esophagus squamous epithelium tissue female adult (53 years) CTCF ENCSR773JBP signal Experimental 
wgEncodeReg4TfChip_ENCFF683HYK ENCSR773JBP esophagus squamous epithelium tissue female adult (53 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF225FHQ ENCSR772EEN signal K562 stably expressing RELA RELA ENCSR772EEN signal Experimental 
wgEncodeReg4TfChip_ENCFF892SPR ENCSR772EEN K562 stably expressing RELA RELA peaks Experimental 
wgEncodeReg4TfChip_ENCFF284JDC ENCSR771SNW signal H1 CBX8 ENCSR771SNW signal Experimental 
wgEncodeReg4TfChip_ENCFF095JHA ENCSR771SNW H1 CBX8 peaks Experimental 
wgEncodeReg4TfChip_ENCFF260LYD ENCSR771GTF signal HepG2 SUZ12 ENCSR771GTF signal Experimental 
wgEncodeReg4TfChip_ENCFF160KZP ENCSR771GTF HepG2 SUZ12 peaks Experimental 
wgEncodeReg4TfChip_ENCFF381PRX ENCSR770PQN signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens BCL11B BCL11B ENCSR770PQN signal Experimental 
wgEncodeReg4TfChip_ENCFF859UHP ENCSR770PQN HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens BCL11B BCL11B peaks Experimental 
wgEncodeReg4TfChip_ENCFF419QIY ENCSR770IWO signal adrenal gland tissue female adult (53 years) CTCF ENCSR770IWO signal Experimental 
wgEncodeReg4TfChip_ENCFF678WUB ENCSR770IWO adrenal gland tissue female adult (53 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF222FJX ENCSR770AOR signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ELF3 ELF3 ENCSR770AOR signal Experimental 
wgEncodeReg4TfChip_ENCFF633ULY ENCSR770AOR HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ELF3 ELF3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF493XMW ENCSR769WKR signal transverse colon tissue female adult (53 years) CTCF ENCSR769WKR signal Experimental 
wgEncodeReg4TfChip_ENCFF471AZS ENCSR769WKR transverse colon tissue female adult (53 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF803JQQ ENCSR769CWW signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ATF6 ATF6 ENCSR769CWW signal Experimental 
wgEncodeReg4TfChip_ENCFF008QTF ENCSR769CWW HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ATF6 ATF6 peaks Experimental 
wgEncodeReg4TfChip_ENCFF150WES ENCSR768VNZ signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZSCAN30 ZSCAN30 ENCSR768VNZ signal Experimental 
wgEncodeReg4TfChip_ENCFF082YBI ENCSR768VNZ HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZSCAN30 ZSCAN30 peaks Experimental 
wgEncodeReg4TfChip_ENCFF401SPR ENCSR768LIO signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens OVOL3 OVOL3 ENCSR768LIO signal Experimental 
wgEncodeReg4TfChip_ENCFF898STB ENCSR768LIO HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens OVOL3 OVOL3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF515AKR ENCSR768HOH signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF324 ZNF324 ENCSR768HOH signal Experimental 
wgEncodeReg4TfChip_ENCFF062DPE ENCSR768HOH HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF324 ZNF324 peaks Experimental 
wgEncodeReg4TfChip_ENCFF832FHF ENCSR767XSF signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF555 ZNF555 ENCSR767XSF signal Experimental 
wgEncodeReg4TfChip_ENCFF406QFI ENCSR767XSF HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF555 ZNF555 peaks Experimental 
wgEncodeReg4TfChip_ENCFF441PNV ENCSR767NGL signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens FOSL1 FOSL1 ENCSR767NGL signal Experimental 
wgEncodeReg4TfChip_ENCFF095FBN ENCSR767NGL HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens FOSL1 FOSL1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF799EYQ ENCSR767HDQ signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens CERS6 CERS6 ENCSR767HDQ signal Experimental 
wgEncodeReg4TfChip_ENCFF111ABD ENCSR767HDQ HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens CERS6 CERS6 peaks Experimental 
wgEncodeReg4TfChip_ENCFF244FDO ENCSR766TSU signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens SOX6 SOX6 ENCSR766TSU signal Experimental 
wgEncodeReg4TfChip_ENCFF767OCK ENCSR766TSU HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens SOX6 SOX6 peaks Experimental 
wgEncodeReg4TfChip_ENCFF416EZP ENCSR765MKZ signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens DRAP1 DRAP1 ENCSR765MKZ signal Experimental 
wgEncodeReg4TfChip_ENCFF296JHR ENCSR765MKZ HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens DRAP1 DRAP1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF460NBT ENCSR764ZBK signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens HSF2 HSF2 ENCSR764ZBK signal Experimental 
wgEncodeReg4TfChip_ENCFF562EOM ENCSR764ZBK HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens HSF2 HSF2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF953NJK ENCSR764OXF signal K562 RBM39 ENCSR764OXF signal Experimental 
wgEncodeReg4TfChip_ENCFF151RQE ENCSR764OXF K562 RBM39 peaks Experimental 
wgEncodeReg4TfChip_ENCFF341CIW ENCSR764CZW signal GM12878 ZNF217 ENCSR764CZW signal Experimental 
wgEncodeReg4TfChip_ENCFF978IGL ENCSR764CZW GM12878 ZNF217 peaks Experimental 
wgEncodeReg4TfChip_ENCFF250VKH ENCSR763VUL signal with Cognitive impairment; middle frontal area 46 tissue female adult (90 or above years) CTCF ENCSR763VUL signal Experimental 
wgEncodeReg4TfChip_ENCFF406ZHG ENCSR763VUL with Cognitive impairment; middle frontal area 46 tissue female adult (90 or above years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF408MYD ENCSR763FNU signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens CGGBP1 CGGBP1 ENCSR763FNU signal Experimental 
wgEncodeReg4TfChip_ENCFF412PRC ENCSR763FNU K562 genetically modified (insertion) using CRISPR targeting H. sapiens CGGBP1 CGGBP1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF469TWS ENCSR762LIP signal WTC11 genetically modified (insertion) using CRISPR targeting H. sapiens AR AR ENCSR762LIP signal Experimental 
wgEncodeReg4TfChip_ENCFF267GQJ ENCSR762LIP WTC11 genetically modified (insertion) using CRISPR targeting H. sapiens AR AR peaks Experimental 
wgEncodeReg4TfChip_ENCFF092ZYP ENCSR761LRR signal MCF-7 ZNF512B ENCSR761LRR signal Experimental 
wgEncodeReg4TfChip_ENCFF233IPF ENCSR761LRR MCF-7 ZNF512B peaks Experimental 
wgEncodeReg4TfChip_ENCFF835ULR ENCSR760UVO signal K562 KLF16 ENCSR760UVO signal Experimental 
wgEncodeReg4TfChip_ENCFF464PIV ENCSR760UVO K562 KLF16 peaks Experimental 
wgEncodeReg4TfChip_ENCFF966SAC ENCSR760UKJ signal HEK293T ARNT ENCSR760UKJ signal Experimental 
wgEncodeReg4TfChip_ENCFF302BEZ ENCSR760UKJ HEK293T ARNT peaks Experimental 
wgEncodeReg4TfChip_ENCFF230PIP ENCSR759KXQ signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF337 ZNF337 ENCSR759KXQ signal Experimental 
wgEncodeReg4TfChip_ENCFF530ZHE ENCSR759KXQ HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF337 ZNF337 peaks Experimental 
wgEncodeReg4TfChip_ENCFF423EJH ENCSR759BDG HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens BCL6 BCL6 peaks Experimental 
wgEncodeReg4TfChip_ENCFF618XPH ENCSR758GOA signal SK-N-SH genetically modified (insertion) using CRISPR targeting H. sapiens CREB5 treated with 6 μM all-trans-retinoic acid for 48 hours CREB5 ENCSR758GOA signal Experimental 
wgEncodeReg4TfChip_ENCFF144PMI ENCSR758GOA SK-N-SH genetically modified (insertion) using CRISPR targeting H. sapiens CREB5 treated with 6 μM all-trans-retinoic acid for 48 hours CREB5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF577NOB ENCSR757IIU signal K562 HMBOX1 ENCSR757IIU signal Experimental 
wgEncodeReg4TfChip_ENCFF055GAZ ENCSR757IIU K562 HMBOX1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF917GED ENCSR757HBB signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens SFPQ SFPQ ENCSR757HBB signal Experimental 
wgEncodeReg4TfChip_ENCFF145CDF ENCSR757HBB HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens SFPQ SFPQ peaks Experimental 
wgEncodeReg4TfChip_ENCFF106XBP ENCSR757EMK signal MCF-7 SUZ12 ENCSR757EMK signal Experimental 
wgEncodeReg4TfChip_ENCFF739TYI ENCSR757EMK MCF-7 SUZ12 peaks Experimental 
wgEncodeReg4TfChip_ENCFF662ZOU ENCSR757EKM signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens KLF6 KLF6 ENCSR757EKM signal Experimental 
wgEncodeReg4TfChip_ENCFF834YJR ENCSR757EKM HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens KLF6 KLF6 peaks Experimental 
wgEncodeReg4TfChip_ENCFF786GSZ ENCSR756ZKG signal OCI-LY3 CTCF ENCSR756ZKG signal Experimental 
wgEncodeReg4TfChip_ENCFF939BYJ ENCSR756ZKG OCI-LY3 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF934YSC ENCSR756URL signal esophagus squamous epithelium tissue female adult (53 years) CTCF ENCSR756URL signal Experimental 
wgEncodeReg4TfChip_ENCFF797YPG ENCSR756URL esophagus squamous epithelium tissue female adult (53 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF907WES ENCSR756UNW signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF548 ZNF548 ENCSR756UNW signal Experimental 
wgEncodeReg4TfChip_ENCFF586TZH ENCSR756UNW HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF548 ZNF548 peaks Experimental 
wgEncodeReg4TfChip_ENCFF753WYQ ENCSR756SZU signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens KLF13 KLF13 ENCSR756SZU signal Experimental 
wgEncodeReg4TfChip_ENCFF548HIW ENCSR756SZU HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens KLF13 KLF13 peaks Experimental 
wgEncodeReg4TfChip_ENCFF580ZIB ENCSR756KRS signal suprapubic skin tissue female adult (51 years) CTCF ENCSR756KRS signal Experimental 
wgEncodeReg4TfChip_ENCFF198TWE ENCSR756KRS suprapubic skin tissue female adult (51 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF833FRP ENCSR756CJS signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF850 ZNF850 ENCSR756CJS signal Experimental 
wgEncodeReg4TfChip_ENCFF671RTH ENCSR756CJS HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF850 ZNF850 peaks Experimental 
wgEncodeReg4TfChip_ENCFF477PRQ ENCSR755ZAY signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF740 ZNF740 ENCSR755ZAY signal Experimental 
wgEncodeReg4TfChip_ENCFF298KPI ENCSR755ZAY HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF740 ZNF740 peaks Experimental 
wgEncodeReg4TfChip_ENCFF812RLY ENCSR755WXO signal with Alzheimer's disease; middle frontal area 46 tissue female adult (89 years) CTCF ENCSR755WXO signal Experimental 
wgEncodeReg4TfChip_ENCFF562MJV ENCSR755WXO with Alzheimer's disease; middle frontal area 46 tissue female adult (89 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF152JWQ ENCSR754SOI signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF529 ZNF529 ENCSR754SOI signal Experimental 
wgEncodeReg4TfChip_ENCFF090MHG ENCSR754SOI HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF529 ZNF529 peaks Experimental 
wgEncodeReg4TfChip_ENCFF587ZKO ENCSR754MUD signal HepG2 SKI ENCSR754MUD signal Experimental 
wgEncodeReg4TfChip_ENCFF631IPX ENCSR754MUD HepG2 SKI peaks Experimental 
wgEncodeReg4TfChip_ENCFF189WKN ENCSR754KCC signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens KDM2A KDM2A ENCSR754KCC signal Experimental 
wgEncodeReg4TfChip_ENCFF491GTR ENCSR754KCC HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens KDM2A KDM2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF187JXU ENCSR754GYI signal SK-N-SH genetically modified (insertion) using CRISPR targeting H. sapiens BNC2 treated with 6 μM all-trans-retinoic acid for 48 hours BNC2 ENCSR754GYI signal Experimental 
wgEncodeReg4TfChip_ENCFF174EMC ENCSR754GYI SK-N-SH genetically modified (insertion) using CRISPR targeting H. sapiens BNC2 treated with 6 μM all-trans-retinoic acid for 48 hours BNC2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF258INE ENCSR754DWU signal ovary tissue female adult (53 years) POLR2A ENCSR754DWU signal Experimental 
wgEncodeReg4TfChip_ENCFF425PQK ENCSR754DWU ovary tissue female adult (53 years) POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF453LVK ENCSR753RME signal testis tissue male adult (37 years) CTCF ENCSR753RME signal Experimental 
wgEncodeReg4TfChip_ENCFF919VBQ ENCSR753RME testis tissue male adult (37 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF431TPT ENCSR753KZY signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens SATB2 SATB2 ENCSR753KZY signal Experimental 
wgEncodeReg4TfChip_ENCFF749IAK ENCSR753KZY HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens SATB2 SATB2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF751JWA ENCSR753GIA signal HEK293T TARDBP ENCSR753GIA signal Experimental 
wgEncodeReg4TfChip_ENCFF840XEZ ENCSR753GIA HEK293T TARDBP peaks Experimental 
wgEncodeReg4TfChip_ENCFF112LIJ ENCSR750OWO signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens HDAC1 HDAC1 ENCSR750OWO signal Experimental 
wgEncodeReg4TfChip_ENCFF304IEJ ENCSR750OWO HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens HDAC1 HDAC1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF690LIN ENCSR750LYM signal K562 stably expressing NR2C2 NR2C2 ENCSR750LYM signal Experimental 
wgEncodeReg4TfChip_ENCFF750AXF ENCSR750LYM K562 stably expressing NR2C2 NR2C2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF867ZNR ENCSR748HJZ signal A549 genetically modified (insertion) using CRISPR targeting H. sapiens HOXB5 HOXB5 ENCSR748HJZ signal Experimental 
wgEncodeReg4TfChip_ENCFF891VDO ENCSR748HJZ A549 genetically modified (insertion) using CRISPR targeting H. sapiens HOXB5 HOXB5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF888XEN ENCSR747VUU signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens JUN JUN ENCSR747VUU signal Experimental 
wgEncodeReg4TfChip_ENCFF910FFW ENCSR747VUU HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens JUN JUN peaks Experimental 
wgEncodeReg4TfChip_ENCFF394DFE ENCSR746XEG signal GM12878 NFXL1 ENCSR746XEG signal Experimental 
wgEncodeReg4TfChip_ENCFF513WDR ENCSR746XEG GM12878 NFXL1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF950DRC ENCSR745VSQ signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens GMEB2 GMEB2 ENCSR745VSQ signal Experimental 
wgEncodeReg4TfChip_ENCFF334QXA ENCSR745VSQ HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens GMEB2 GMEB2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF603TNI ENCSR744YJR signal thyroid gland tissue female adult (53 years) CTCF ENCSR744YJR signal Experimental 
wgEncodeReg4TfChip_ENCFF748ICQ ENCSR744YJR thyroid gland tissue female adult (53 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF023QKJ ENCSR744WOO signal K562 TCF12 ENCSR744WOO signal Experimental 
wgEncodeReg4TfChip_ENCFF931DJY ENCSR744WOO K562 TCF12 peaks Experimental 
wgEncodeReg4TfChip_ENCFF607GDG ENCSR744JJU signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens MYC MYC ENCSR744JJU signal Experimental 
wgEncodeReg4TfChip_ENCFF295NDX ENCSR744JJU K562 genetically modified (insertion) using CRISPR targeting H. sapiens MYC MYC peaks Experimental 
wgEncodeReg4TfChip_ENCFF991SNO ENCSR742TMU signal K562 ZNF282 ENCSR742TMU signal Experimental 
wgEncodeReg4TfChip_ENCFF657WOV ENCSR742TMU K562 ZNF282 peaks Experimental 
wgEncodeReg4TfChip_ENCFF078XWA ENCSR742KNZ signal A549 genetically modified (insertion) using CRISPR targeting H. sapiens TFCP2L1 TFCP2L1 ENCSR742KNZ signal Experimental 
wgEncodeReg4TfChip_ENCFF393VBT ENCSR742KNZ A549 genetically modified (insertion) using CRISPR targeting H. sapiens TFCP2L1 TFCP2L1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF402KLO ENCSR742IDN signal K562 NR2C1 ENCSR742IDN signal Experimental 
wgEncodeReg4TfChip_ENCFF239KMA ENCSR742IDN K562 NR2C1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF195OIO ENCSR742DAU signal WTC11 genetically modified (insertion) using CRISPR targeting H. sapiens HMGA2 HMGA2 ENCSR742DAU signal Experimental 
wgEncodeReg4TfChip_ENCFF535JLP ENCSR742DAU WTC11 genetically modified (insertion) using CRISPR targeting H. sapiens HMGA2 HMGA2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF423JWV ENCSR741TTE signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens JRK JRK ENCSR741TTE signal Experimental 
wgEncodeReg4TfChip_ENCFF350YLO ENCSR741TTE HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens JRK JRK peaks Experimental 
wgEncodeReg4TfChip_ENCFF146XNW ENCSR740NPG signal K562 stably expressing BACH1 BACH1 ENCSR740NPG signal Experimental 
wgEncodeReg4TfChip_ENCFF419VIM ENCSR740NPG K562 stably expressing BACH1 BACH1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF884XLS ENCSR740GKG signal with Cognitive impairment; middle frontal area 46 tissue female adult (86 years) CTCF ENCSR740GKG signal Experimental 
wgEncodeReg4TfChip_ENCFF748IBN ENCSR740GKG with Cognitive impairment; middle frontal area 46 tissue female adult (86 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF031SFE ENCSR739IHN signal GM12878 TBX21 ENCSR739IHN signal Experimental 
wgEncodeReg4TfChip_ENCFF951HUW ENCSR739IHN GM12878 TBX21 peaks Experimental 
wgEncodeReg4TfChip_ENCFF862GEA ENCSR738SLS signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF449 ZNF449 ENCSR738SLS signal Experimental 
wgEncodeReg4TfChip_ENCFF764ZIC ENCSR738SLS HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF449 ZNF449 peaks Experimental 
wgEncodeReg4TfChip_ENCFF296VQY ENCSR737UST signal K562 stably expressing ZNF740 ZNF740 ENCSR737UST signal Experimental 
wgEncodeReg4TfChip_ENCFF505NFV ENCSR737UST K562 stably expressing ZNF740 ZNF740 peaks Experimental 
wgEncodeReg4TfChip_ENCFF131HJY ENCSR737LTZ signal K562 MYNN ENCSR737LTZ signal Experimental 
wgEncodeReg4TfChip_ENCFF399UNK ENCSR737LTZ K562 MYNN peaks Experimental 
wgEncodeReg4TfChip_ENCFF975RFH ENCSR736PZW signal left lung tissue female child (16 years) CTCF ENCSR736PZW signal Experimental 
wgEncodeReg4TfChip_ENCFF696EWL ENCSR736PZW left lung tissue female child (16 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF157YUU ENCSR736BUG signal with nonobstructive coronary artery disease; liver tissue male adult (32 years) EGR1 ENCSR736BUG signal Experimental 
wgEncodeReg4TfChip_ENCFF130MBW ENCSR736BUG with nonobstructive coronary artery disease; liver tissue male adult (32 years) EGR1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF458LVH ENCSR735VJE signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens LBX2 LBX2 ENCSR735VJE signal Experimental 
wgEncodeReg4TfChip_ENCFF188CXN ENCSR735VJE HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens LBX2 LBX2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF033XXZ ENCSR735KEY signal with nonobstructive coronary artery disease; liver tissue male adult (32 years) FOXA1 ENCSR735KEY signal Experimental 
wgEncodeReg4TfChip_ENCFF749ERP ENCSR735KEY with nonobstructive coronary artery disease; liver tissue male adult (32 years) FOXA1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF528DCP ENCSR734WFB signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF697 ZNF697 ENCSR734WFB signal Experimental 
wgEncodeReg4TfChip_ENCFF153LJW ENCSR734WFB HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF697 ZNF697 peaks Experimental 
wgEncodeReg4TfChip_ENCFF163SKZ ENCSR734CRN signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZC3H8 ZC3H8 ENCSR734CRN signal Experimental 
wgEncodeReg4TfChip_ENCFF862NOM ENCSR734CRN HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZC3H8 ZC3H8 peaks Experimental 
wgEncodeReg4TfChip_ENCFF959MJR ENCSR732PJX signal GM12878 NKRF ENCSR732PJX signal Experimental 
wgEncodeReg4TfChip_ENCFF392NLB ENCSR732PJX GM12878 NKRF peaks Experimental 
wgEncodeReg4TfChip_ENCFF791VXH ENCSR731UPJ signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZFP41 ZFP41 ENCSR731UPJ signal Experimental 
wgEncodeReg4TfChip_ENCFF817WHL ENCSR731UPJ HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZFP41 ZFP41 peaks Experimental 
wgEncodeReg4TfChip_ENCFF838TLR ENCSR731LZB signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF788P ZNF788 ENCSR731LZB signal Experimental 
wgEncodeReg4TfChip_ENCFF689IBZ ENCSR731LZB HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF788P ZNF788 peaks Experimental 
wgEncodeReg4TfChip_ENCFF978GGB ENCSR731LHZ signal K562 E4F1 ENCSR731LHZ signal Experimental 
wgEncodeReg4TfChip_ENCFF622HMZ ENCSR731LHZ K562 E4F1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF231PLQ ENCSR731AGO signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZSCAN5C ZSCAN5C ENCSR731AGO signal Experimental 
wgEncodeReg4TfChip_ENCFF343DTU ENCSR731AGO HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZSCAN5C ZSCAN5C peaks Experimental 
wgEncodeReg4TfChip_ENCFF524WVN ENCSR730TBC signal HepG2 MNT ENCSR730TBC signal Experimental 
wgEncodeReg4TfChip_ENCFF502ATV ENCSR730TBC HepG2 MNT peaks Experimental 
wgEncodeReg4TfChip_ENCFF003ODG ENCSR730DZO signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ARID5B ARID5B ENCSR730DZO signal Experimental 
wgEncodeReg4TfChip_ENCFF964FWK ENCSR730DZO HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ARID5B ARID5B peaks Experimental 
wgEncodeReg4TfChip_ENCFF798VZZ ENCSR729HVR signal K562 stably expressing ZNF644 ZNF644 ENCSR729HVR signal Experimental 
wgEncodeReg4TfChip_ENCFF290PDB ENCSR729HVR K562 stably expressing ZNF644 ZNF644 peaks Experimental 
wgEncodeReg4TfChip_ENCFF696RJC ENCSR729GXE signal spleen tissue male adult (37 years) POLR2A ENCSR729GXE signal Experimental 
wgEncodeReg4TfChip_ENCFF870WCE ENCSR729GXE spleen tissue male adult (37 years) POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF665HTK ENCSR728MWW signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZIC2 ZIC2 ENCSR728MWW signal Experimental 
wgEncodeReg4TfChip_ENCFF033NQQ ENCSR728MWW HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZIC2 ZIC2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF833BGG ENCSR727PIC signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF34 ZNF34 ENCSR727PIC signal Experimental 
wgEncodeReg4TfChip_ENCFF481TFV ENCSR727PIC HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF34 ZNF34 peaks Experimental 
wgEncodeReg4TfChip_ENCFF450GYM ENCSR725VFL signal GM12878 TCF12 ENCSR725VFL signal Experimental 
wgEncodeReg4TfChip_ENCFF433DMU ENCSR725VFL GM12878 TCF12 peaks Experimental 
wgEncodeReg4TfChip_ENCFF469POI ENCSR725QZQ signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens TIGD3 TIGD3 ENCSR725QZQ signal Experimental 
wgEncodeReg4TfChip_ENCFF491KVL ENCSR725QZQ HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens TIGD3 TIGD3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF961RFY ENCSR724YTA signal middle frontal area 46 tissue male adult (87 years) CTCF ENCSR724YTA signal Experimental 
wgEncodeReg4TfChip_ENCFF327VLN ENCSR724YTA middle frontal area 46 tissue male adult (87 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF987BQK ENCSR724FCJ signal sigmoid colon tissue female adult (51 years) POLR2A ENCSR724FCJ signal Experimental 
wgEncodeReg4TfChip_ENCFF653CQA ENCSR724FCJ sigmoid colon tissue female adult (51 years) POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF623HWI ENCSR722TRY signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens PAWR PAWR ENCSR722TRY signal Experimental 
wgEncodeReg4TfChip_ENCFF986SDH ENCSR722TRY HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens PAWR PAWR peaks Experimental 
wgEncodeReg4TfChip_ENCFF948BFO ENCSR721QZV signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZSCAN18 ZSCAN18 ENCSR721QZV signal Experimental 
wgEncodeReg4TfChip_ENCFF537OVZ ENCSR721QZV HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZSCAN18 ZSCAN18 peaks Experimental 
wgEncodeReg4TfChip_ENCFF460ECX ENCSR721AHD signal sigmoid colon tissue male adult (37 years) CTCF ENCSR721AHD signal Experimental 
wgEncodeReg4TfChip_ENCFF219LPW ENCSR721AHD sigmoid colon tissue male adult (37 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF310UCW ENCSR720USO signal prostate gland tissue male adult (37 years) CTCF ENCSR720USO signal Experimental 
wgEncodeReg4TfChip_ENCFF979KAF ENCSR720USO prostate gland tissue male adult (37 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF922FXE ENCSR720PDY signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF20 ZNF20 ENCSR720PDY signal Experimental 
wgEncodeReg4TfChip_ENCFF518BKZ ENCSR720PDY HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF20 ZNF20 peaks Experimental 
wgEncodeReg4TfChip_ENCFF513XPM ENCSR720HUL signal K562 E2F1 ENCSR720HUL signal Experimental 
wgEncodeReg4TfChip_ENCFF191BFW ENCSR720HUL K562 E2F1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF311FLH ENCSR718SDR signal heart left ventricle tissue female adult (51 years) CTCF ENCSR718SDR signal Experimental 
wgEncodeReg4TfChip_ENCFF575JEQ ENCSR718SDR heart left ventricle tissue female adult (51 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF035IRM ENCSR718SDE signal K562 RLF ENCSR718SDE signal Experimental 
wgEncodeReg4TfChip_ENCFF998IPA ENCSR718SDE K562 RLF peaks Experimental 
wgEncodeReg4TfChip_ENCFF846JMO ENCSR717ZZW signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens E2F1 E2F1 ENCSR717ZZW signal Experimental 
wgEncodeReg4TfChip_ENCFF919WXY ENCSR717ZZW HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens E2F1 E2F1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF004KTE ENCSR717QSS signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ELK1 ELK1 ENCSR717QSS signal Experimental 
wgEncodeReg4TfChip_ENCFF917BQJ ENCSR717QSS HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ELK1 ELK1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF390UGT ENCSR715UCI signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens SOX13 SOX13 ENCSR715UCI signal Experimental 
wgEncodeReg4TfChip_ENCFF062VSQ ENCSR715UCI HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens SOX13 SOX13 peaks Experimental 
wgEncodeReg4TfChip_ENCFF043HPU ENCSR715QNO signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF362 ZNF362 ENCSR715QNO signal Experimental 
wgEncodeReg4TfChip_ENCFF436CGE ENCSR715QNO HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF362 ZNF362 peaks Experimental 
wgEncodeReg4TfChip_ENCFF878GGX ENCSR715CCR signal K562 DPF2 ENCSR715CCR signal Experimental 
wgEncodeReg4TfChip_ENCFF775HUO ENCSR715CCR K562 DPF2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF554IXW ENCSR714YZG signal HepG2 ETV4 ENCSR714YZG signal Experimental 
wgEncodeReg4TfChip_ENCFF534CDD ENCSR714YZG HepG2 ETV4 peaks Experimental 
wgEncodeReg4TfChip_ENCFF019EIF ENCSR714LZQ signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF664 ZNF664 ENCSR714LZQ signal Experimental 
wgEncodeReg4TfChip_ENCFF343XSW ENCSR714LZQ HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF664 ZNF664 peaks Experimental 
wgEncodeReg4TfChip_ENCFF907DLU ENCSR714JRB signal stomach tissue female adult (51 years) POLR2AphosphoS5 ENCSR714JRB signal Experimental 
wgEncodeReg4TfChip_ENCFF278MYS ENCSR714JRB stomach tissue female adult (51 years) POLR2AphosphoS5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF649RYJ ENCSR714EQS signal transverse colon tissue female adult (53 years) POLR2AphosphoS5 ENCSR714EQS signal Experimental 
wgEncodeReg4TfChip_ENCFF610RWV ENCSR714EQS transverse colon tissue female adult (53 years) POLR2AphosphoS5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF466BIT ENCSR713SXF signal cardiac muscle cell originated from RUES2 CTCF ENCSR713SXF signal Experimental 
wgEncodeReg4TfChip_ENCFF777TNC ENCSR713SXF cardiac muscle cell originated from RUES2 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF165ROS ENCSR713IFY signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF146 ZNF146 ENCSR713IFY signal Experimental 
wgEncodeReg4TfChip_ENCFF477SLH ENCSR713IFY K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF146 ZNF146 peaks Experimental 
wgEncodeReg4TfChip_ENCFF078UFB ENCSR712KVZ signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF324 ZNF324 ENCSR712KVZ signal Experimental 
wgEncodeReg4TfChip_ENCFF702GEM ENCSR712KVZ K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF324 ZNF324 peaks Experimental 
wgEncodeReg4TfChip_ENCFF695GFP ENCSR712FAM signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZSCAN9 ZSCAN9 ENCSR712FAM signal Experimental 
wgEncodeReg4TfChip_ENCFF196RWJ ENCSR712FAM HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZSCAN9 ZSCAN9 peaks Experimental 
wgEncodeReg4TfChip_ENCFF234CAE ENCSR711XNY signal GM12878 PKNOX1 ENCSR711XNY signal Experimental 
wgEncodeReg4TfChip_ENCFF589FCY ENCSR711XNY GM12878 PKNOX1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF684RNO ENCSR711VWL signal K562 HDAC1 ENCSR711VWL signal Experimental 
wgEncodeReg4TfChip_ENCFF928TKZ ENCSR711VWL K562 HDAC1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF590YJG ENCSR711KBM signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF12 ZNF12 ENCSR711KBM signal Experimental 
wgEncodeReg4TfChip_ENCFF347LSW ENCSR711KBM HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF12 ZNF12 peaks Experimental 
wgEncodeReg4TfChip_ENCFF432HAG ENCSR710WLO signal K562 MGA ENCSR710WLO signal Experimental 
wgEncodeReg4TfChip_ENCFF140CEX ENCSR710WLO K562 MGA peaks Experimental 
wgEncodeReg4TfChip_ENCFF638EHM ENCSR710EFA signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens TEAD2 TEAD2 ENCSR710EFA signal Experimental 
wgEncodeReg4TfChip_ENCFF261IHC ENCSR710EFA HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens TEAD2 TEAD2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF659UEG ENCSR709DRM signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens E2F5 E2F5 ENCSR709DRM signal Experimental 
wgEncodeReg4TfChip_ENCFF688PUB ENCSR709DRM K562 genetically modified (insertion) using CRISPR targeting H. sapiens E2F5 E2F5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF136CAF ENCSR708KAA signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens MAFG MAFG ENCSR708KAA signal Experimental 
wgEncodeReg4TfChip_ENCFF422NZT ENCSR708KAA HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens MAFG MAFG peaks Experimental 
wgEncodeReg4TfChip_ENCFF624JES ENCSR707WZK HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens NCOA1 NCOA1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF088DJI ENCSR707RKU signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens RORA RORA ENCSR707RKU signal Experimental 
wgEncodeReg4TfChip_ENCFF086FZV ENCSR707RKU HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens RORA RORA peaks Experimental 
wgEncodeReg4TfChip_ENCFF667ZBO ENCSR707QWA signal K562 NR2F6 ENCSR707QWA signal Experimental 
wgEncodeReg4TfChip_ENCFF674RQA ENCSR707QWA K562 NR2F6 peaks Experimental 
wgEncodeReg4TfChip_ENCFF354ZTB ENCSR707IUN signal HeLa-S3 NFE2L2 ENCSR707IUN signal Experimental 
wgEncodeReg4TfChip_ENCFF449JDM ENCSR707IUN HeLa-S3 NFE2L2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF038DEF ENCSR707BNG signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens MYNN MYNN ENCSR707BNG signal Experimental 
wgEncodeReg4TfChip_ENCFF897QZG ENCSR707BNG HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens MYNN MYNN peaks Experimental 
wgEncodeReg4TfChip_ENCFF461PLB ENCSR706YUH signal GM12878 SMARCA5 ENCSR706YUH signal Experimental 
wgEncodeReg4TfChip_ENCFF327LDR ENCSR706YUH GM12878 SMARCA5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF250XYD ENCSR706VOO signal SK-N-SH genetically modified (insertion) using CRISPR targeting H. sapiens GATA2 GATA2 ENCSR706VOO signal Experimental 
wgEncodeReg4TfChip_ENCFF764OZD ENCSR706VOO SK-N-SH genetically modified (insertion) using CRISPR targeting H. sapiens GATA2 GATA2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF221VVL ENCSR706OJM signal SK-N-SH genetically modified (insertion) using CRISPR targeting H. sapiens POU6F1 treated with 6 μM all-trans-retinoic acid for 48 hours POU6F1 ENCSR706OJM signal Experimental 
wgEncodeReg4TfChip_ENCFF834EMP ENCSR706OJM SK-N-SH genetically modified (insertion) using CRISPR targeting H. sapiens POU6F1 treated with 6 μM all-trans-retinoic acid for 48 hours POU6F1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF971NQN ENCSR706BJO signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZBTB11 ZBTB11 ENCSR706BJO signal Experimental 
wgEncodeReg4TfChip_ENCFF215OUF ENCSR706BJO K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZBTB11 ZBTB11 peaks Experimental 
wgEncodeReg4TfChip_ENCFF161XMB ENCSR705DNM signal middle frontal area 46 tissue female adult (90 or above years) CTCF ENCSR705DNM signal Experimental 
wgEncodeReg4TfChip_ENCFF812JWS ENCSR705DNM middle frontal area 46 tissue female adult (90 or above years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF127TFV ENCSR705ASR HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZSCAN23 ZSCAN23 peaks Experimental 
wgEncodeReg4TfChip_ENCFF854OTU ENCSR704IGU signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZGPAT ZGPAT ENCSR704IGU signal Experimental 
wgEncodeReg4TfChip_ENCFF055YSO ENCSR704IGU HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZGPAT ZGPAT peaks Experimental 
wgEncodeReg4TfChip_ENCFF375BPH ENCSR704ENT signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF776 ZNF776 ENCSR704ENT signal Experimental 
wgEncodeReg4TfChip_ENCFF009LSZ ENCSR704ENT HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF776 ZNF776 peaks Experimental 
wgEncodeReg4TfChip_ENCFF549ERC ENCSR703TNG signal MCF-7 genetically modified (insertion) using CRISPR targeting H. sapiens RAD21 RAD21 ENCSR703TNG signal Experimental 
wgEncodeReg4TfChip_ENCFF694KOM ENCSR703TNG MCF-7 genetically modified (insertion) using CRISPR targeting H. sapiens RAD21 RAD21 peaks Experimental 
wgEncodeReg4TfChip_ENCFF789SLR ENCSR702GMW signal PC-9 EZH2phosphoT487 ENCSR702GMW signal Experimental 
wgEncodeReg4TfChip_ENCFF634ONR ENCSR702GMW PC-9 EZH2phosphoT487 peaks Experimental 
wgEncodeReg4TfChip_ENCFF166ZQR ENCSR702BYX signal MCF-7 NFIB ENCSR702BYX signal Experimental 
wgEncodeReg4TfChip_ENCFF799WGQ ENCSR702BYX MCF-7 NFIB peaks Experimental 
wgEncodeReg4TfChip_ENCFF906ATW ENCSR701WPG signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF800 ZNF800 ENCSR701WPG signal Experimental 
wgEncodeReg4TfChip_ENCFF840FYM ENCSR701WPG HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF800 ZNF800 peaks Experimental 
wgEncodeReg4TfChip_ENCFF266KHK ENCSR701TCU signal A549 CEBPB ENCSR701TCU signal Experimental 
wgEncodeReg4TfChip_ENCFF797MXZ ENCSR701TCU A549 CEBPB peaks Experimental 
wgEncodeReg4TfChip_ENCFF562VLI ENCSR701AQS signal MCF-7 ZNF592 ENCSR701AQS signal Experimental 
wgEncodeReg4TfChip_ENCFF315RIM ENCSR701AQS MCF-7 ZNF592 peaks Experimental 
wgEncodeReg4TfChip_ENCFF873NBY ENCSR700PNE signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens MAZ MAZ ENCSR700PNE signal Experimental 
wgEncodeReg4TfChip_ENCFF068NYH ENCSR700PNE HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens MAZ MAZ peaks Experimental 
wgEncodeReg4TfChip_ENCFF977EXS ENCSR699ZGH signal heart left ventricle tissue female adult (51 years) POLR2A ENCSR699ZGH signal Experimental 
wgEncodeReg4TfChip_ENCFF206JCD ENCSR699ZGH heart left ventricle tissue female adult (51 years) POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF801NIV ENCSR699YFX signal MCF-7 CLOCK ENCSR699YFX signal Experimental 
wgEncodeReg4TfChip_ENCFF744CVK ENCSR699YFX MCF-7 CLOCK peaks Experimental 
wgEncodeReg4TfChip_ENCFF377FPR ENCSR699RWG signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF215 ZNF215 ENCSR699RWG signal Experimental 
wgEncodeReg4TfChip_ENCFF317MOH ENCSR699RWG K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF215 ZNF215 peaks Experimental 
wgEncodeReg4TfChip_ENCFF963TXY ENCSR699PVC K562 CBFA2T2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF685MPU ENCSR699BRV signal with mild cognitive impairment; middle frontal area 46 tissue female adult (90 or above years) CTCF ENCSR699BRV signal Experimental 
wgEncodeReg4TfChip_ENCFF835ZSJ ENCSR699BRV with mild cognitive impairment; middle frontal area 46 tissue female adult (90 or above years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF280MKQ ENCSR699BEK signal tibial artery tissue male adult (37 years) CTCF ENCSR699BEK signal Experimental 
wgEncodeReg4TfChip_ENCFF882IXS ENCSR699BEK tibial artery tissue male adult (37 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF698OFV ENCSR697YLJ signal K562 CBFA2T3 ENCSR697YLJ signal Experimental 
wgEncodeReg4TfChip_ENCFF673OEZ ENCSR697YLJ K562 CBFA2T3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF156LWF ENCSR697YIN signal breast epithelium tissue male adult (54 years) CTCF ENCSR697YIN signal Experimental 
wgEncodeReg4TfChip_ENCFF341QWO ENCSR697YIN breast epithelium tissue male adult (54 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF634SXN ENCSR697WMX signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens HIVEP1 HIVEP1 ENCSR697WMX signal Experimental 
wgEncodeReg4TfChip_ENCFF063BCC ENCSR697WMX HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens HIVEP1 HIVEP1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF969ZMG ENCSR697CUP signal MCF-7 HCFC1 ENCSR697CUP signal Experimental 
wgEncodeReg4TfChip_ENCFF595ZTV ENCSR697CUP MCF-7 HCFC1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF252YKZ ENCSR696MBC signal HepG2 SRSF4 ENCSR696MBC signal Experimental 
wgEncodeReg4TfChip_ENCFF958PYB ENCSR696MBC HepG2 SRSF4 peaks Experimental 
wgEncodeReg4TfChip_ENCFF667UNR ENCSR696LQU signal ovary tissue female adult (53 years) EP300 ENCSR696LQU signal Experimental 
wgEncodeReg4TfChip_ENCFF767VVG ENCSR696LQU ovary tissue female adult (53 years) EP300 peaks Experimental 
wgEncodeReg4TfChip_ENCFF347EEF ENCSR695WOH signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens MEIS1 MEIS1 ENCSR695WOH signal Experimental 
wgEncodeReg4TfChip_ENCFF706DID ENCSR695WOH HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens MEIS1 MEIS1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF957ESR ENCSR695SLS signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF510 ZNF510 ENCSR695SLS signal Experimental 
wgEncodeReg4TfChip_ENCFF088QOO ENCSR695SLS HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF510 ZNF510 peaks Experimental 
wgEncodeReg4TfChip_ENCFF871CNV ENCSR695EQB signal K562 ZNF24 ENCSR695EQB signal Experimental 
wgEncodeReg4TfChip_ENCFF877JCX ENCSR695EQB K562 ZNF24 peaks Experimental 
wgEncodeReg4TfChip_ENCFF513THY ENCSR692RET signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens NR4A1 NR4A1 ENCSR692RET signal Experimental 
wgEncodeReg4TfChip_ENCFF679FCN ENCSR692RET K562 genetically modified (insertion) using CRISPR targeting H. sapiens NR4A1 NR4A1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF615RAF ENCSR692ILH signal spleen tissue female adult (53 years) CTCF ENCSR692ILH signal Experimental 
wgEncodeReg4TfChip_ENCFF643KOU ENCSR692ILH spleen tissue female adult (53 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF042TPP ENCSR692HSE signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens YY2 YY2 ENCSR692HSE signal Experimental 
wgEncodeReg4TfChip_ENCFF997QEP ENCSR692HSE HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens YY2 YY2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF645HUD ENCSR692GFR signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens KMT2A KMT2A ENCSR692GFR signal Experimental 
wgEncodeReg4TfChip_ENCFF103PKS ENCSR692GFR HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens KMT2A KMT2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF347ZUP ENCSR691TXI signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF610 ZNF610 ENCSR691TXI signal Experimental 
wgEncodeReg4TfChip_ENCFF778UKJ ENCSR691TXI HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF610 ZNF610 peaks Experimental 
wgEncodeReg4TfChip_ENCFF433NCO ENCSR691CPM signal spleen tissue female adult (51 years) POLR2A ENCSR691CPM signal Experimental 
wgEncodeReg4TfChip_ENCFF955VIQ ENCSR691CPM spleen tissue female adult (51 years) POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF925DHZ ENCSR690GUG signal K562 U2AF1 ENCSR690GUG signal Experimental 
wgEncodeReg4TfChip_ENCFF620FYM ENCSR690GUG K562 U2AF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF040AQZ ENCSR690FIA signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens EED EED ENCSR690FIA signal Experimental 
wgEncodeReg4TfChip_ENCFF347CCA ENCSR690FIA HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens EED EED peaks Experimental 
wgEncodeReg4TfChip_ENCFF158AHP ENCSR689YFA signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF146 ZNF146 ENCSR689YFA signal Experimental 
wgEncodeReg4TfChip_ENCFF602LWH ENCSR689YFA HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF146 ZNF146 peaks Experimental 
wgEncodeReg4TfChip_ENCFF543LIT ENCSR689VEF signal tibial nerve tissue male adult (54 years) CTCF ENCSR689VEF signal Experimental 
wgEncodeReg4TfChip_ENCFF755YSO ENCSR689VEF tibial nerve tissue male adult (54 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF992YXC ENCSR689LFJ signal middle frontal area 46 tissue female adult (83 years) CTCF ENCSR689LFJ signal Experimental 
wgEncodeReg4TfChip_ENCFF359BHR ENCSR689LFJ middle frontal area 46 tissue female adult (83 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF411BUN ENCSR687APM signal body of pancreas tissue male adult (54 years) CTCF ENCSR687APM signal Experimental 
wgEncodeReg4TfChip_ENCFF128ALM ENCSR687APM body of pancreas tissue male adult (54 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF176OBD ENCSR686SOV signal MCF-7 NCOA3 ENCSR686SOV signal Experimental 
wgEncodeReg4TfChip_ENCFF105ZOX ENCSR686SOV MCF-7 NCOA3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF424AYZ ENCSR686EYO signal K562 KHSRP ENCSR686EYO signal Experimental 
wgEncodeReg4TfChip_ENCFF196BUB ENCSR686EYO K562 KHSRP peaks Experimental 
wgEncodeReg4TfChip_ENCFF120JDJ ENCSR686BQM signal A549 EP300 ENCSR686BQM signal Experimental 
wgEncodeReg4TfChip_ENCFF476KCM ENCSR686BQM A549 EP300 peaks Experimental 
wgEncodeReg4TfChip_ENCFF700PHX ENCSR684PGO signal uterus tissue female adult (53 years) CTCF ENCSR684PGO signal Experimental 
wgEncodeReg4TfChip_ENCFF837OEY ENCSR684PGO uterus tissue female adult (53 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF107DLV ENCSR684NJD signal stomach tissue male adult (54 years) EP300 ENCSR684NJD signal Experimental 
wgEncodeReg4TfChip_ENCFF818VAB ENCSR684NJD stomach tissue male adult (54 years) EP300 peaks Experimental 
wgEncodeReg4TfChip_ENCFF343CFV ENCSR681WHQ signal HepG2 ETS1 ENCSR681WHQ signal Experimental 
wgEncodeReg4TfChip_ENCFF117LNP ENCSR681WHQ HepG2 ETS1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF959NKD ENCSR681NOM signal GM12878 CEBPB ENCSR681NOM signal Experimental 
wgEncodeReg4TfChip_ENCFF088LCU ENCSR681NOM GM12878 CEBPB peaks Experimental 
wgEncodeReg4TfChip_ENCFF647OBK ENCSR681KXT signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF329 ZNF329 ENCSR681KXT signal Experimental 
wgEncodeReg4TfChip_ENCFF057KSB ENCSR681KXT HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF329 ZNF329 peaks Experimental 
wgEncodeReg4TfChip_ENCFF264VOP ENCSR680WMF signal with mild cognitive impairment; middle frontal area 46 tissue female adult (90 or above years) CTCF ENCSR680WMF signal Experimental 
wgEncodeReg4TfChip_ENCFF338KEP ENCSR680WMF with mild cognitive impairment; middle frontal area 46 tissue female adult (90 or above years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF816IYS ENCSR680UQE signal GM12878 IKZF2 ENCSR680UQE signal Experimental 
wgEncodeReg4TfChip_ENCFF918AID ENCSR680UQE GM12878 IKZF2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF497VNS ENCSR680OFU signal HeLa-S3 EP300 ENCSR680OFU signal Experimental 
wgEncodeReg4TfChip_ENCFF245KNK ENCSR680OFU HeLa-S3 EP300 peaks Experimental 
wgEncodeReg4TfChip_ENCFF134CTS ENCSR679STZ signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF792 ZNF792 ENCSR679STZ signal Experimental 
wgEncodeReg4TfChip_ENCFF347OUM ENCSR679STZ HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF792 ZNF792 peaks Experimental 
wgEncodeReg4TfChip_ENCFF018YBN ENCSR678KUJ signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZFP91 ZFP91 ENCSR678KUJ signal Experimental 
wgEncodeReg4TfChip_ENCFF012CME ENCSR678KUJ HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZFP91 ZFP91 peaks Experimental 
wgEncodeReg4TfChip_ENCFF286PBY ENCSR676ZEF signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF398 ZNF398 ENCSR676ZEF signal Experimental 
wgEncodeReg4TfChip_ENCFF184XEW ENCSR676ZEF HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF398 ZNF398 peaks Experimental 
wgEncodeReg4TfChip_ENCFF345GCX ENCSR676LDQ signal with Alzheimer's disease; middle frontal area 46 tissue female adult (90 or above years) CTCF ENCSR676LDQ signal Experimental 
wgEncodeReg4TfChip_ENCFF696JOF ENCSR676LDQ with Alzheimer's disease; middle frontal area 46 tissue female adult (90 or above years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF559EFC ENCSR675LRO signal K562 MLLT1 ENCSR675LRO signal Experimental 
wgEncodeReg4TfChip_ENCFF871DSA ENCSR675LRO K562 MLLT1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF991YOF ENCSR674SCQ signal K562 stably expressing ZNF354B ZNF354B ENCSR674SCQ signal Experimental 
wgEncodeReg4TfChip_ENCFF955JQT ENCSR674SCQ K562 stably expressing ZNF354B ZNF354B peaks Experimental 
wgEncodeReg4TfChip_ENCFF318GSA ENCSR674IEI signal upper lobe of left lung tissue male adult (37 years) POLR2A ENCSR674IEI signal Experimental 
wgEncodeReg4TfChip_ENCFF504HCM ENCSR674IEI upper lobe of left lung tissue male adult (37 years) POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF340RHQ ENCSR673SGK signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens BCL6B BCL6B ENCSR673SGK signal Experimental 
wgEncodeReg4TfChip_ENCFF555YRB ENCSR673SGK HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens BCL6B BCL6B peaks Experimental 
wgEncodeReg4TfChip_ENCFF278MZE ENCSR673GDQ signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF441 ZNF441 ENCSR673GDQ signal Experimental 
wgEncodeReg4TfChip_ENCFF738UDK ENCSR673GDQ HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF441 ZNF441 peaks Experimental 
wgEncodeReg4TfChip_ENCFF022WFN ENCSR672BSA signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ETS1 ETS1 ENCSR672BSA signal Experimental 
wgEncodeReg4TfChip_ENCFF890RRF ENCSR672BSA HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ETS1 ETS1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF439JKU ENCSR671GFC signal K562 stably expressing TAF7 TAF7 ENCSR671GFC signal Experimental 
wgEncodeReg4TfChip_ENCFF314WLE ENCSR671GFC K562 stably expressing TAF7 TAF7 peaks Experimental 
wgEncodeReg4TfChip_ENCFF792NKJ ENCSR670YPQ signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens DMAP1 DMAP1 ENCSR670YPQ signal Experimental 
wgEncodeReg4TfChip_ENCFF247MSU ENCSR670YPQ HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens DMAP1 DMAP1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF542TNG ENCSR670UEX signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF710 ZNF710 ENCSR670UEX signal Experimental 
wgEncodeReg4TfChip_ENCFF170JWO ENCSR670UEX HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF710 ZNF710 peaks Experimental 
wgEncodeReg4TfChip_ENCFF700TSU ENCSR670JDQ signal K562 RB1 ENCSR670JDQ signal Experimental 
wgEncodeReg4TfChip_ENCFF627ZBG ENCSR670JDQ K562 RB1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF071DIQ ENCSR670FDA signal K562 NFATC3 ENCSR670FDA signal Experimental 
wgEncodeReg4TfChip_ENCFF408QPR ENCSR670FDA K562 NFATC3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF300RKC ENCSR669NFS signal K562 ARNT ENCSR669NFS signal Experimental 
wgEncodeReg4TfChip_ENCFF703HVX ENCSR669NFS K562 ARNT peaks Experimental 
wgEncodeReg4TfChip_ENCFF310FUU ENCSR668HOP signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF580 ZNF580 ENCSR668HOP signal Experimental 
wgEncodeReg4TfChip_ENCFF906MQV ENCSR668HOP HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF580 ZNF580 peaks Experimental 
wgEncodeReg4TfChip_ENCFF798COD ENCSR668BTN signal thoracic aorta tissue male adult (37 years) CTCF ENCSR668BTN signal Experimental 
wgEncodeReg4TfChip_ENCFF012WJQ ENCSR668BTN thoracic aorta tissue male adult (37 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF850YOR ENCSR667WDR signal SK-N-SH genetically modified (insertion) using CRISPR targeting H. sapiens FOXJ3 FOXJ3 ENCSR667WDR signal Experimental 
wgEncodeReg4TfChip_ENCFF124KVL ENCSR667WDR SK-N-SH genetically modified (insertion) using CRISPR targeting H. sapiens FOXJ3 FOXJ3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF431NEB ENCSR667UWT signal transverse colon tissue male adult (37 years) POLR2A ENCSR667UWT signal Experimental 
wgEncodeReg4TfChip_ENCFF193UMS ENCSR667UWT transverse colon tissue male adult (37 years) POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF464BRV ENCSR666QNP signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens TEAD3 TEAD3 ENCSR666QNP signal Experimental 
wgEncodeReg4TfChip_ENCFF802TPU ENCSR666QNP HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens TEAD3 TEAD3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF263VJQ ENCSR666JEF signal with Alzheimer's disease; middle frontal area 46 tissue female adult (85 years) CTCF ENCSR666JEF signal Experimental 
wgEncodeReg4TfChip_ENCFF092NXX ENCSR666JEF with Alzheimer's disease; middle frontal area 46 tissue female adult (85 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF622OOZ ENCSR665UFC signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF639 ZNF639 ENCSR665UFC signal Experimental 
wgEncodeReg4TfChip_ENCFF176TBX ENCSR665UFC HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF639 ZNF639 peaks Experimental 
wgEncodeReg4TfChip_ENCFF628SQS ENCSR664AOA signal K562 TRIM25 ENCSR664AOA signal Experimental 
wgEncodeReg4TfChip_ENCFF537QZW ENCSR664AOA K562 TRIM25 peaks Experimental 
wgEncodeReg4TfChip_ENCFF844DDB ENCSR663ZZZ signal MCF-7 MNT ENCSR663ZZZ signal Experimental 
wgEncodeReg4TfChip_ENCFF144ZFZ ENCSR663ZZZ MCF-7 MNT peaks Experimental 
wgEncodeReg4TfChip_ENCFF225HWX ENCSR663WAR signal H1 REST ENCSR663WAR signal Experimental 
wgEncodeReg4TfChip_ENCFF203SWY ENCSR663WAR H1 REST peaks Experimental 
wgEncodeReg4TfChip_ENCFF458ILL ENCSR663CTC signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF572 ZNF572 ENCSR663CTC signal Experimental 
wgEncodeReg4TfChip_ENCFF507EFS ENCSR663CTC HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF572 ZNF572 peaks Experimental 
wgEncodeReg4TfChip_ENCFF002SOY ENCSR662EOU signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens NR2F1 NR2F1 ENCSR662EOU signal Experimental 
wgEncodeReg4TfChip_ENCFF953UJL ENCSR662EOU HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens NR2F1 NR2F1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF922TZX ENCSR661XNQ signal gastroesophageal sphincter tissue male adult (54 years) CTCF ENCSR661XNQ signal Experimental 
wgEncodeReg4TfChip_ENCFF582GAX ENCSR661XNQ gastroesophageal sphincter tissue male adult (54 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF775TCW ENCSR661PKJ signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ONECUT2 ONECUT2 ENCSR661PKJ signal Experimental 
wgEncodeReg4TfChip_ENCFF460COO ENCSR661PKJ HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ONECUT2 ONECUT2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF271PWB ENCSR661NXJ signal breast epithelium tissue female adult (51 years) CTCF ENCSR661NXJ signal Experimental 
wgEncodeReg4TfChip_ENCFF080KNR ENCSR661NXJ breast epithelium tissue female adult (51 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF812JIP ENCSR661IKO signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens TRAFD1 TRAFD1 ENCSR661IKO signal Experimental 
wgEncodeReg4TfChip_ENCFF355OOY ENCSR661IKO HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens TRAFD1 TRAFD1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF815FGV ENCSR660ENW signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens CAMTA2 CAMTA2 ENCSR660ENW signal Experimental 
wgEncodeReg4TfChip_ENCFF305ZLM ENCSR660ENW HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens CAMTA2 CAMTA2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF521YCW ENCSR659YWQ signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF449 ZNF449 ENCSR659YWQ signal Experimental 
wgEncodeReg4TfChip_ENCFF038VEZ ENCSR659YWQ K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF449 ZNF449 peaks Experimental 
wgEncodeReg4TfChip_ENCFF108GEJ ENCSR659SCK signal HepG2 TOE1 ENCSR659SCK signal Experimental 
wgEncodeReg4TfChip_ENCFF776YJH ENCSR659SCK HepG2 TOE1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF090SPB ENCSR659LJJ signal A549 HDAC2 ENCSR659LJJ signal Experimental 
wgEncodeReg4TfChip_ENCFF195CCI ENCSR659LJJ A549 HDAC2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF196JAB ENCSR659CCI signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens FOXK1 FOXK1 ENCSR659CCI signal Experimental 
wgEncodeReg4TfChip_ENCFF801IBC ENCSR659CCI K562 genetically modified (insertion) using CRISPR targeting H. sapiens FOXK1 FOXK1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF318CGU ENCSR658YLN signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens PATZ1 PATZ1 ENCSR658YLN signal Experimental 
wgEncodeReg4TfChip_ENCFF723PFC ENCSR658YLN HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens PATZ1 PATZ1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF526BWY ENCSR658WFQ signal K562 NCOA1 ENCSR658WFQ signal Experimental 
wgEncodeReg4TfChip_ENCFF962VHQ ENCSR658WFQ K562 NCOA1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF941WFR ENCSR657PEW signal GM12878 LARP7 ENCSR657PEW signal Experimental 
wgEncodeReg4TfChip_ENCFF513CEX ENCSR657PEW GM12878 LARP7 peaks Experimental 
wgEncodeReg4TfChip_ENCFF947JQN ENCSR657JLK signal K562 SIN3B ENCSR657JLK signal Experimental 
wgEncodeReg4TfChip_ENCFF168IBR ENCSR657JLK K562 SIN3B peaks Experimental 
wgEncodeReg4TfChip_ENCFF672LLW ENCSR657EOF signal K562 NFRKB ENCSR657EOF signal Experimental 
wgEncodeReg4TfChip_ENCFF057YFW ENCSR657EOF K562 NFRKB peaks Experimental 
wgEncodeReg4TfChip_ENCFF117OQV ENCSR656SIB signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZBED5 ZBED5 ENCSR656SIB signal Experimental 
wgEncodeReg4TfChip_ENCFF991QZL ENCSR656SIB HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZBED5 ZBED5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF797XTU ENCSR656MXA signal neural progenitor cell originated from H9 EZH2phosphoT487 ENCSR656MXA signal Experimental 
wgEncodeReg4TfChip_ENCFF018MKA ENCSR656MXA neural progenitor cell originated from H9 EZH2phosphoT487 peaks Experimental 
wgEncodeReg4TfChip_ENCFF749YZS ENCSR656JZL signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens HHEX HHEX ENCSR656JZL signal Experimental 
wgEncodeReg4TfChip_ENCFF618PVM ENCSR656JZL HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens HHEX HHEX peaks Experimental 
wgEncodeReg4TfChip_ENCFF258LTU ENCSR655ECZ signal vagina tissue female adult (51 years) CTCF ENCSR655ECZ signal Experimental 
wgEncodeReg4TfChip_ENCFF902RQN ENCSR655ECZ vagina tissue female adult (51 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF983TKQ ENCSR654PQY signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF616 ZNF616 ENCSR654PQY signal Experimental 
wgEncodeReg4TfChip_ENCFF837QVX ENCSR654PQY HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF616 ZNF616 peaks Experimental 
wgEncodeReg4TfChip_ENCFF842DIG ENCSR654CQU signal K562 SNIP1 ENCSR654CQU signal Experimental 
wgEncodeReg4TfChip_ENCFF551HCU ENCSR654CQU K562 SNIP1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF943OMR ENCSR653WFU signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens GTF2I GTF2I ENCSR653WFU signal Experimental 
wgEncodeReg4TfChip_ENCFF539BYI ENCSR653WFU K562 genetically modified (insertion) using CRISPR targeting H. sapiens GTF2I GTF2I peaks Experimental 
wgEncodeReg4TfChip_ENCFF717KTN ENCSR650AWW signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens PHB PHB ENCSR650AWW signal Experimental 
wgEncodeReg4TfChip_ENCFF225VHG ENCSR650AWW K562 genetically modified (insertion) using CRISPR targeting H. sapiens PHB PHB peaks Experimental 
wgEncodeReg4TfChip_ENCFF125BET ENCSR647ZXA signal K562 stably expressing MEF2D MEF2D ENCSR647ZXA signal Experimental 
wgEncodeReg4TfChip_ENCFF392LDT ENCSR647ZXA K562 stably expressing MEF2D MEF2D peaks Experimental 
wgEncodeReg4TfChip_ENCFF962LOU ENCSR647SQF signal mesothelial cell of epicardium CTCF ENCSR647SQF signal Experimental 
wgEncodeReg4TfChip_ENCFF427RFE ENCSR647SQF mesothelial cell of epicardium CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF475QVA ENCSR647PSR signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF687 ZNF687 ENCSR647PSR signal Experimental 
wgEncodeReg4TfChip_ENCFF653WIX ENCSR647PSR HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF687 ZNF687 peaks Experimental 
wgEncodeReg4TfChip_ENCFF031ZWH ENCSR647CXR HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens NKX3-1 NKX3-1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF631HWQ ENCSR647BZJ signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens YEATS2 YEATS2 ENCSR647BZJ signal Experimental 
wgEncodeReg4TfChip_ENCFF409XOA ENCSR647BZJ HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens YEATS2 YEATS2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF645KDK ENCSR645JVW signal vagina tissue female adult (51 years) POLR2AphosphoS5 ENCSR645JVW signal Experimental 
wgEncodeReg4TfChip_ENCFF305NWS ENCSR645JVW vagina tissue female adult (51 years) POLR2AphosphoS5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF417GXT ENCSR644WQN signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF556 ZNF556 ENCSR644WQN signal Experimental 
wgEncodeReg4TfChip_ENCFF008WIK ENCSR644WQN HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF556 ZNF556 peaks Experimental 
wgEncodeReg4TfChip_ENCFF355ARQ ENCSR643VTW signal K562 SMARCA4 ENCSR643VTW signal Experimental 
wgEncodeReg4TfChip_ENCFF316MCJ ENCSR643VTW K562 SMARCA4 peaks Experimental 
wgEncodeReg4TfChip_ENCFF459WXZ ENCSR643JRH signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens MAZ MAZ ENCSR643JRH signal Experimental 
wgEncodeReg4TfChip_ENCFF982GSZ ENCSR643JRH K562 genetically modified (insertion) using CRISPR targeting H. sapiens MAZ MAZ peaks Experimental 
wgEncodeReg4TfChip_ENCFF549HGC ENCSR642VZY signal K562 KDM4B ENCSR642VZY signal Experimental 
wgEncodeReg4TfChip_ENCFF819LGW ENCSR642VZY K562 KDM4B peaks Experimental 
wgEncodeReg4TfChip_ENCFF289KIK ENCSR641XWH signal SK-N-SH genetically modified (insertion) using CRISPR targeting H. sapiens TOX treated with 6 μM all-trans-retinoic acid for 48 hours TOX ENCSR641XWH signal Experimental 
wgEncodeReg4TfChip_ENCFF977TQV ENCSR641XWH SK-N-SH genetically modified (insertion) using CRISPR targeting H. sapiens TOX treated with 6 μM all-trans-retinoic acid for 48 hours TOX peaks Experimental 
wgEncodeReg4TfChip_ENCFF583LSH ENCSR641BSL signal K562 AGO1 ENCSR641BSL signal Experimental 
wgEncodeReg4TfChip_ENCFF025NLP ENCSR641BSL K562 AGO1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF435CJY ENCSR639IIZ signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens CEBPG CEBPG ENCSR639IIZ signal Experimental 
wgEncodeReg4TfChip_ENCFF503XBC ENCSR639IIZ HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens CEBPG CEBPG peaks Experimental 
wgEncodeReg4TfChip_ENCFF877GHD ENCSR639GWS signal A549 KDM1A ENCSR639GWS signal Experimental 
wgEncodeReg4TfChip_ENCFF633QSB ENCSR639GWS A549 KDM1A peaks Experimental 
wgEncodeReg4TfChip_ENCFF379DNG ENCSR638QYO signal A549 SREBF2 ENCSR638QYO signal Experimental 
wgEncodeReg4TfChip_ENCFF252BOY ENCSR638QYO A549 SREBF2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF463LVY ENCSR638QHV signal K562 ELF4 ENCSR638QHV signal Experimental 
wgEncodeReg4TfChip_ENCFF454SBL ENCSR638QHV K562 ELF4 peaks Experimental 
wgEncodeReg4TfChip_ENCFF533COL ENCSR637RKG signal A549 genetically modified (insertion) using CRISPR targeting H. sapiens PBX1 PBX1 ENCSR637RKG signal Experimental 
wgEncodeReg4TfChip_ENCFF475JCE ENCSR637RKG A549 genetically modified (insertion) using CRISPR targeting H. sapiens PBX1 PBX1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF980WYP ENCSR637QAM signal GM12878 TRIM22 ENCSR637QAM signal Experimental 
wgEncodeReg4TfChip_ENCFF313QBQ ENCSR637QAM GM12878 TRIM22 peaks Experimental 
wgEncodeReg4TfChip_ENCFF387TDK ENCSR636YLV signal A549 MAZ ENCSR636YLV signal Experimental 
wgEncodeReg4TfChip_ENCFF935UWH ENCSR636YLV A549 MAZ peaks Experimental 
wgEncodeReg4TfChip_ENCFF900OJJ ENCSR636MKU signal GM12878 BACH1 ENCSR636MKU signal Experimental 
wgEncodeReg4TfChip_ENCFF576UEQ ENCSR636MKU GM12878 BACH1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF033DSQ ENCSR636EYA signal MCF-7 CTBP1 ENCSR636EYA signal Experimental 
wgEncodeReg4TfChip_ENCFF969VBY ENCSR636EYA MCF-7 CTBP1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF741LER ENCSR635XLM signal upper lobe of left lung tissue female adult (53 years) EP300 ENCSR635XLM signal Experimental 
wgEncodeReg4TfChip_ENCFF790ZRQ ENCSR635XLM upper lobe of left lung tissue female adult (53 years) EP300 peaks Experimental 
wgEncodeReg4TfChip_ENCFF245KTF ENCSR635SKD signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens NFATC3 NFATC3 ENCSR635SKD signal Experimental 
wgEncodeReg4TfChip_ENCFF594LZE ENCSR635SKD HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens NFATC3 NFATC3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF711GHA ENCSR635OSG signal liver tissue female child (6 years) and with nonobstructive coronary artery disease; liver tissue male adult (32 years) RAD21 ENCSR635OSG signal Experimental 
wgEncodeReg4TfChip_ENCFF289RIE ENCSR635OSG liver tissue female child (6 years) and with nonobstructive coronary artery disease; liver tissue male adult (32 years) RAD21 peaks Experimental 
wgEncodeReg4TfChip_ENCFF091JYJ ENCSR635NOQ signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens KLF8 KLF8 ENCSR635NOQ signal Experimental 
wgEncodeReg4TfChip_ENCFF929IAJ ENCSR635NOQ HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens KLF8 KLF8 peaks Experimental 
wgEncodeReg4TfChip_ENCFF322YXF ENCSR635GTR signal K562 stably expressing TEAD2 TEAD2 ENCSR635GTR signal Experimental 
wgEncodeReg4TfChip_ENCFF039ZWC ENCSR635GTR K562 stably expressing TEAD2 TEAD2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF444KTT ENCSR635EXI signal K562 ZSCAN29 ENCSR635EXI signal Experimental 
wgEncodeReg4TfChip_ENCFF842XOY ENCSR635EXI K562 ZSCAN29 peaks Experimental 
wgEncodeReg4TfChip_ENCFF327WOL ENCSR634OAQ signal NCI-H929 CTCF ENCSR634OAQ signal Experimental 
wgEncodeReg4TfChip_ENCFF305JAB ENCSR634OAQ NCI-H929 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF477OOO ENCSR633OVO signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens RFX3 RFX3 ENCSR633OVO signal Experimental 
wgEncodeReg4TfChip_ENCFF681ZHO ENCSR633OVO HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens RFX3 RFX3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF785PVS ENCSR633OEO signal sigmoid colon tissue female adult (51 years) POLR2AphosphoS5 ENCSR633OEO signal Experimental 
wgEncodeReg4TfChip_ENCFF754JQR ENCSR633OEO sigmoid colon tissue female adult (51 years) POLR2AphosphoS5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF921REB ENCSR633HRJ signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens HNF1A HNF1A ENCSR633HRJ signal Experimental 
wgEncodeReg4TfChip_ENCFF540TRC ENCSR633HRJ HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens HNF1A HNF1A peaks Experimental 
wgEncodeReg4TfChip_ENCFF840PGP ENCSR633EIC signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens PBX2 PBX2 ENCSR633EIC signal Experimental 
wgEncodeReg4TfChip_ENCFF385PDC ENCSR633EIC K562 genetically modified (insertion) using CRISPR targeting H. sapiens PBX2 PBX2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF716EMG ENCSR632TJQ signal K562 ILF3 ENCSR632TJQ signal Experimental 
wgEncodeReg4TfChip_ENCFF730DTW ENCSR632TJQ K562 ILF3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF850DYU ENCSR632SIM signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZFHX2 ZFHX2 ENCSR632SIM signal Experimental 
wgEncodeReg4TfChip_ENCFF167TUA ENCSR632SIM HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZFHX2 ZFHX2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF779XLK ENCSR632SHZ signal K562 stably expressing NFE2L1 NFE2L1 ENCSR632SHZ signal Experimental 
wgEncodeReg4TfChip_ENCFF138UHK ENCSR632SHZ K562 stably expressing NFE2L1 NFE2L1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF506QXK ENCSR632DCH signal K562 stably expressing ATF3 ATF3 ENCSR632DCH signal Experimental 
wgEncodeReg4TfChip_ENCFF921JQW ENCSR632DCH K562 stably expressing ATF3 ATF3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF731DQV ENCSR631WAA signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZBTB17 ZBTB17 ENCSR631WAA signal Experimental 
wgEncodeReg4TfChip_ENCFF865LIO ENCSR631WAA HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZBTB17 ZBTB17 peaks Experimental 
wgEncodeReg4TfChip_ENCFF211TXC ENCSR631JFU signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens IRF9 IRF9 ENCSR631JFU signal Experimental 
wgEncodeReg4TfChip_ENCFF654ZCV ENCSR631JFU HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens IRF9 IRF9 peaks Experimental 
wgEncodeReg4TfChip_ENCFF894HHJ ENCSR626VUC signal GM12878 ETV6 ENCSR626VUC signal Experimental 
wgEncodeReg4TfChip_ENCFF105ZMI ENCSR626VUC GM12878 ETV6 peaks Experimental 
wgEncodeReg4TfChip_ENCFF784XYP ENCSR625XAV signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZBTB8A ZBTB8A ENCSR625XAV signal Experimental 
wgEncodeReg4TfChip_ENCFF860JVN ENCSR625XAV HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZBTB8A ZBTB8A peaks Experimental 
wgEncodeReg4TfChip_ENCFF888ZSG ENCSR623TZE signal WTC11 genetically modified (insertion) using CRISPR targeting H. sapiens SMAD4 SMAD4 ENCSR623TZE signal Experimental 
wgEncodeReg4TfChip_ENCFF195KVB ENCSR623TZE WTC11 genetically modified (insertion) using CRISPR targeting H. sapiens SMAD4 SMAD4 peaks Experimental 
wgEncodeReg4TfChip_ENCFF999JJU ENCSR623RFC signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens SP110 SP110 ENCSR623RFC signal Experimental 
wgEncodeReg4TfChip_ENCFF955FSH ENCSR623RFC HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens SP110 SP110 peaks Experimental 
wgEncodeReg4TfChip_ENCFF192SII ENCSR622AMZ signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF761 ZNF761 ENCSR622AMZ signal Experimental 
wgEncodeReg4TfChip_ENCFF761IOF ENCSR622AMZ HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF761 ZNF761 peaks Experimental 
wgEncodeReg4TfChip_ENCFF017RVI ENCSR621PAN signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens HINFP HINFP ENCSR621PAN signal Experimental 
wgEncodeReg4TfChip_ENCFF838COC ENCSR621PAN HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens HINFP HINFP peaks Experimental 
wgEncodeReg4TfChip_ENCFF996GZR ENCSR621ATC signal K562 ZNF184 ENCSR621ATC signal Experimental 
wgEncodeReg4TfChip_ENCFF717TPQ ENCSR621ATC K562 ZNF184 peaks Experimental 
wgEncodeReg4TfChip_ENCFF024UHO ENCSR620YNB signal HepG2 KAT2B ENCSR620YNB signal Experimental 
wgEncodeReg4TfChip_ENCFF751WPG ENCSR620YNB HepG2 KAT2B peaks Experimental 
wgEncodeReg4TfChip_ENCFF034RSY ENCSR620VIC signal K562 stably expressing CEBPG CEBPG ENCSR620VIC signal Experimental 
wgEncodeReg4TfChip_ENCFF783ADE ENCSR620VIC K562 stably expressing CEBPG CEBPG peaks Experimental 
wgEncodeReg4TfChip_ENCFF337MWX ENCSR620MHD signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens KDM2B KDM2B ENCSR620MHD signal Experimental 
wgEncodeReg4TfChip_ENCFF392YVR ENCSR620MHD K562 genetically modified (insertion) using CRISPR targeting H. sapiens KDM2B KDM2B peaks Experimental 
wgEncodeReg4TfChip_ENCFF471FFW ENCSR620DUQ signal MCF-7 CREB1 ENCSR620DUQ signal Experimental 
wgEncodeReg4TfChip_ENCFF341ZEM ENCSR620DUQ MCF-7 CREB1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF122AJT ENCSR620DBD signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZFP14 ZFP14 ENCSR620DBD signal Experimental 
wgEncodeReg4TfChip_ENCFF136CIU ENCSR620DBD HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZFP14 ZFP14 peaks Experimental 
wgEncodeReg4TfChip_ENCFF477ROY ENCSR619OUC signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZBTB6 ZBTB6 ENCSR619OUC signal Experimental 
wgEncodeReg4TfChip_ENCFF881ECZ ENCSR619OUC HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZBTB6 ZBTB6 peaks Experimental 
wgEncodeReg4TfChip_ENCFF168UZK ENCSR619GFP signal K562 stably expressing HINFP HINFP ENCSR619GFP signal Experimental 
wgEncodeReg4TfChip_ENCFF361QXJ ENCSR619GFP K562 stably expressing HINFP HINFP peaks Experimental 
wgEncodeReg4TfChip_ENCFF945VGX ENCSR618HNF signal HEK293 TRIM28 ENCSR618HNF signal Experimental 
wgEncodeReg4TfChip_ENCFF265CEM ENCSR618HNF HEK293 TRIM28 peaks Experimental 
wgEncodeReg4TfChip_ENCFF092UIN ENCSR618GDK signal K562 CEBPZ ENCSR618GDK signal Experimental 
wgEncodeReg4TfChip_ENCFF909BYC ENCSR618GDK K562 CEBPZ peaks Experimental 
wgEncodeReg4TfChip_ENCFF297AGB ENCSR618END signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF430 ZNF430 ENCSR618END signal Experimental 
wgEncodeReg4TfChip_ENCFF967HQR ENCSR618END HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF430 ZNF430 peaks Experimental 
wgEncodeReg4TfChip_ENCFF316MAL ENCSR617RSQ signal PC-3 EZH2phosphoT487 ENCSR617RSQ signal Experimental 
wgEncodeReg4TfChip_ENCFF928VSN ENCSR617RSQ PC-3 EZH2phosphoT487 peaks Experimental 
wgEncodeReg4TfChip_ENCFF873EVF ENCSR617POJ signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZFP1 ZFP1 ENCSR617POJ signal Experimental 
wgEncodeReg4TfChip_ENCFF777OLK ENCSR617POJ K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZFP1 ZFP1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF369ARW ENCSR617IFZ signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens CTCF CTCF ENCSR617IFZ signal Experimental 
wgEncodeReg4TfChip_ENCFF821TIC ENCSR617IFZ HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens CTCF CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF422AGB ENCSR616WEG signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens HBP1 HBP1 ENCSR616WEG signal Experimental 
wgEncodeReg4TfChip_ENCFF512UDH ENCSR616WEG HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens HBP1 HBP1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF908OBY ENCSR616OSG signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens KLF11 KLF11 ENCSR616OSG signal Experimental 
wgEncodeReg4TfChip_ENCFF820VKU ENCSR616OSG HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens KLF11 KLF11 peaks Experimental 
wgEncodeReg4TfChip_ENCFF820JGD ENCSR614HHL signal vagina tissue female adult (51 years) CTCF ENCSR614HHL signal Experimental 
wgEncodeReg4TfChip_ENCFF026NYX ENCSR614HHL vagina tissue female adult (51 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF217MUV ENCSR613RDS signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF619 ZNF619 ENCSR613RDS signal Experimental 
wgEncodeReg4TfChip_ENCFF388NNO ENCSR613RDS HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF619 ZNF619 peaks Experimental 
wgEncodeReg4TfChip_ENCFF194PVJ ENCSR613NUC signal K562 ARNT ENCSR613NUC signal Experimental 
wgEncodeReg4TfChip_ENCFF451RAF ENCSR613NUC K562 ARNT peaks Experimental 
wgEncodeReg4TfChip_ENCFF363CKO ENCSR612XVQ signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens PHF20 PHF20 ENCSR612XVQ signal Experimental 
wgEncodeReg4TfChip_ENCFF609JBM ENCSR612XVQ HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens PHF20 PHF20 peaks Experimental 
wgEncodeReg4TfChip_ENCFF903PBY ENCSR611WZO signal HeLa-S3 SREBF2 ENCSR611WZO signal Experimental 
wgEncodeReg4TfChip_ENCFF787QBT ENCSR611WZO HeLa-S3 SREBF2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF070LLG ENCSR611JJS signal A673 CTCF ENCSR611JJS signal Experimental 
wgEncodeReg4TfChip_ENCFF412RKA ENCSR611JJS A673 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF553NAP ENCSR611HGB signal GM23338 CTCF ENCSR611HGB signal Experimental 
wgEncodeReg4TfChip_ENCFF832KWE ENCSR611HGB GM23338 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF729DUW ENCSR610UDC signal middle frontal area 46 tissue female adult (87 years) CTCF ENCSR610UDC signal Experimental 
wgEncodeReg4TfChip_ENCFF265AZL ENCSR610UDC middle frontal area 46 tissue female adult (87 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF849VXT ENCSR610EFT signal body of pancreas tissue female adult (51 years) POLR2A ENCSR610EFT signal Experimental 
wgEncodeReg4TfChip_ENCFF727UBE ENCSR610EFT body of pancreas tissue female adult (51 years) POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF027LBU ENCSR608XTF signal K562 RNF2 ENCSR608XTF signal Experimental 
wgEncodeReg4TfChip_ENCFF653BQJ ENCSR608XTF K562 RNF2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF184XZJ ENCSR608XRC signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF526 ZNF526 ENCSR608XRC signal Experimental 
wgEncodeReg4TfChip_ENCFF325FWI ENCSR608XRC HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF526 ZNF526 peaks Experimental 
wgEncodeReg4TfChip_ENCFF646EZE ENCSR608WPS signal transverse colon tissue male adult (37 years) CTCF ENCSR608WPS signal Experimental 
wgEncodeReg4TfChip_ENCFF653EYS ENCSR608WPS transverse colon tissue male adult (37 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF080HIT ENCSR608HVP signal K562 stably expressing KLF13 KLF13 ENCSR608HVP signal Experimental 
wgEncodeReg4TfChip_ENCFF738YZC ENCSR608HVP K562 stably expressing KLF13 KLF13 peaks Experimental 
wgEncodeReg4TfChip_ENCFF301SGJ ENCSR607XFI signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens CTCF CTCF ENCSR607XFI signal Experimental 
wgEncodeReg4TfChip_ENCFF757EKU ENCSR607XFI HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens CTCF CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF704JSE ENCSR606TNN signal vagina tissue female adult (53 years) CTCF ENCSR606TNN signal Experimental 
wgEncodeReg4TfChip_ENCFF057QBG ENCSR606TNN vagina tissue female adult (53 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF361AJH ENCSR606LDL signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens DNMT1 DNMT1 ENCSR606LDL signal Experimental 
wgEncodeReg4TfChip_ENCFF153HEB ENCSR606LDL HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens DNMT1 DNMT1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF888WNP ENCSR606KTL signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF239 ZNF239 ENCSR606KTL signal Experimental 
wgEncodeReg4TfChip_ENCFF703IKI ENCSR606KTL K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF239 ZNF239 peaks Experimental 
wgEncodeReg4TfChip_ENCFF720BXD ENCSR605YWG signal HepG2 TBX3 ENCSR605YWG signal Experimental 
wgEncodeReg4TfChip_ENCFF045YCM ENCSR605YWG HepG2 TBX3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF955YBZ ENCSR605MGM signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens SCRT1 SCRT1 ENCSR605MGM signal Experimental 
wgEncodeReg4TfChip_ENCFF513YVP ENCSR605MGM HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens SCRT1 SCRT1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF922EVI ENCSR605KVV signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF251 ZNF251 ENCSR605KVV signal Experimental 
wgEncodeReg4TfChip_ENCFF506XOB ENCSR605KVV HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF251 ZNF251 peaks Experimental 
wgEncodeReg4TfChip_ENCFF130TUH ENCSR604WXQ signal MCF-7 genetically modified (insertion) using CRISPR targeting H. sapiens MSX2 MSX2 ENCSR604WXQ signal Experimental 
wgEncodeReg4TfChip_ENCFF179YRV ENCSR604WXQ MCF-7 genetically modified (insertion) using CRISPR targeting H. sapiens MSX2 MSX2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF172ZUF ENCSR604VWJ signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens KLF7 KLF7 ENCSR604VWJ signal Experimental 
wgEncodeReg4TfChip_ENCFF599UKL ENCSR604VWJ HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens KLF7 KLF7 peaks Experimental 
wgEncodeReg4TfChip_ENCFF883FPT ENCSR604VAE signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens PHF8 PHF8 ENCSR604VAE signal Experimental 
wgEncodeReg4TfChip_ENCFF065NWR ENCSR604VAE HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens PHF8 PHF8 peaks Experimental 
wgEncodeReg4TfChip_ENCFF972GMR ENCSR604UJV signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens IRF2 IRF2 ENCSR604UJV signal Experimental 
wgEncodeReg4TfChip_ENCFF532TQV ENCSR604UJV HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens IRF2 IRF2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF500IUU ENCSR603XLW signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF589 ZNF589 ENCSR603XLW signal Experimental 
wgEncodeReg4TfChip_ENCFF770FHN ENCSR603XLW K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF589 ZNF589 peaks Experimental 
wgEncodeReg4TfChip_ENCFF862HAR ENCSR603TMB signal SK-N-SH genetically modified (insertion) using CRISPR targeting H. sapiens RARB treated with 6 μM all-trans-retinoic acid for 48 hours RARB ENCSR603TMB signal Experimental 
wgEncodeReg4TfChip_ENCFF475WOR ENCSR603TMB SK-N-SH genetically modified (insertion) using CRISPR targeting H. sapiens RARB treated with 6 μM all-trans-retinoic acid for 48 hours RARB peaks Experimental 
wgEncodeReg4TfChip_ENCFF064TWD ENCSR603REQ signal K562 PCBP2 ENCSR603REQ signal Experimental 
wgEncodeReg4TfChip_ENCFF299ETM ENCSR603REQ K562 PCBP2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF869HHT ENCSR603BJQ signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens FOXK1 FOXK1 ENCSR603BJQ signal Experimental 
wgEncodeReg4TfChip_ENCFF635XWY ENCSR603BJQ HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens FOXK1 FOXK1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF599PLJ ENCSR601OGE signal with nonobstructive coronary artery disease; liver tissue male adult (32 years) HNF4A ENCSR601OGE signal Experimental 
wgEncodeReg4TfChip_ENCFF354NRH ENCSR601OGE with nonobstructive coronary artery disease; liver tissue male adult (32 years) HNF4A peaks Experimental 
wgEncodeReg4TfChip_ENCFF144LJV ENCSR601KKB signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens HMGXB3 HMGXB3 ENCSR601KKB signal Experimental 
wgEncodeReg4TfChip_ENCFF161CYU ENCSR601KKB HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens HMGXB3 HMGXB3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF722HFK ENCSR601FEB signal spleen tissue female adult (53 years) CTCF ENCSR601FEB signal Experimental 
wgEncodeReg4TfChip_ENCFF653ONC ENCSR601FEB spleen tissue female adult (53 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF698TQW ENCSR599XKG signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens HMGXB4 HMGXB4 ENCSR599XKG signal Experimental 
wgEncodeReg4TfChip_ENCFF032DND ENCSR599XKG HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens HMGXB4 HMGXB4 peaks Experimental 
wgEncodeReg4TfChip_ENCFF565ZRH ENCSR598TIR signal K562 stably expressing ZNF507 ZNF507 ENCSR598TIR signal Experimental 
wgEncodeReg4TfChip_ENCFF577IRE ENCSR598TIR K562 stably expressing ZNF507 ZNF507 peaks Experimental 
wgEncodeReg4TfChip_ENCFF240SJF ENCSR598NQU signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens NAIF1 NAIF1 ENCSR598NQU signal Experimental 
wgEncodeReg4TfChip_ENCFF291NIS ENCSR598NQU HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens NAIF1 NAIF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF693TRY ENCSR597VGC signal GM12878 ETV6 ENCSR597VGC signal Experimental 
wgEncodeReg4TfChip_ENCFF348ABN ENCSR597VGC GM12878 ETV6 peaks Experimental 
wgEncodeReg4TfChip_ENCFF999QAY ENCSR597QZQ signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens USF3 KIAA2018 ENCSR597QZQ signal Experimental 
wgEncodeReg4TfChip_ENCFF010CPF ENCSR597QZQ HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens USF3 KIAA2018 peaks Experimental 
wgEncodeReg4TfChip_ENCFF016YRN ENCSR597MCV signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens LIN54 LIN54 ENCSR597MCV signal Experimental 
wgEncodeReg4TfChip_ENCFF662XDE ENCSR597MCV HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens LIN54 LIN54 peaks Experimental 
wgEncodeReg4TfChip_ENCFF092UYX ENCSR596FEL signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens RBPJ RBPJ ENCSR596FEL signal Experimental 
wgEncodeReg4TfChip_ENCFF367CFI ENCSR596FEL HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens RBPJ RBPJ peaks Experimental 
wgEncodeReg4TfChip_ENCFF404CGH ENCSR595FAO signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF510 ZNF510 ENCSR595FAO signal Experimental 
wgEncodeReg4TfChip_ENCFF202BSY ENCSR595FAO HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF510 ZNF510 peaks Experimental 
wgEncodeReg4TfChip_ENCFF142ZKQ ENCSR595BPR signal spleen tissue female adult (51 years) CTCF ENCSR595BPR signal Experimental 
wgEncodeReg4TfChip_ENCFF954DQD ENCSR595BPR spleen tissue female adult (51 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF135IPL ENCSR594SMP signal K562 PHF20 ENCSR594SMP signal Experimental 
wgEncodeReg4TfChip_ENCFF436SIT ENCSR594SMP K562 PHF20 peaks Experimental 
wgEncodeReg4TfChip_ENCFF070MOG ENCSR594NSU signal gastrocnemius medialis tissue male adult (37 years) CTCF ENCSR594NSU signal Experimental 
wgEncodeReg4TfChip_ENCFF307PRR ENCSR594NSU gastrocnemius medialis tissue male adult (37 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF848SJJ ENCSR594HXD signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens ELF2 ELF2 ENCSR594HXD signal Experimental 
wgEncodeReg4TfChip_ENCFF787SME ENCSR594HXD K562 genetically modified (insertion) using CRISPR targeting H. sapiens ELF2 ELF2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF309DOU ENCSR594BNR signal K562 HNRNPL ENCSR594BNR signal Experimental 
wgEncodeReg4TfChip_ENCFF296JLL ENCSR594BNR K562 HNRNPL peaks Experimental 
wgEncodeReg4TfChip_ENCFF855VZS ENCSR593DGU signal A549 FOSL2 ENCSR593DGU signal Experimental 
wgEncodeReg4TfChip_ENCFF651PDH ENCSR593DGU A549 FOSL2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF995ERW ENCSR591CCL signal K562 stably expressing ZNF512 ZNF512 ENCSR591CCL signal Experimental 
wgEncodeReg4TfChip_ENCFF601EMZ ENCSR591CCL K562 stably expressing ZNF512 ZNF512 peaks Experimental 
wgEncodeReg4TfChip_ENCFF244CFZ ENCSR591ASD signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens TEAD1 TEAD1 ENCSR591ASD signal Experimental 
wgEncodeReg4TfChip_ENCFF465AQA ENCSR591ASD K562 genetically modified (insertion) using CRISPR targeting H. sapiens TEAD1 TEAD1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF413PAJ ENCSR590QQP signal HepG2 FUS ENCSR590QQP signal Experimental 
wgEncodeReg4TfChip_ENCFF200RNY ENCSR590QQP HepG2 FUS peaks Experimental 
wgEncodeReg4TfChip_ENCFF343TRG ENCSR590KEQ signal GM12878 ARNT ENCSR590KEQ signal Experimental 
wgEncodeReg4TfChip_ENCFF831TWO ENCSR590KEQ GM12878 ARNT peaks Experimental 
wgEncodeReg4TfChip_ENCFF903RED ENCSR590CNM signal HepG2 GATA4 ENCSR590CNM signal Experimental 
wgEncodeReg4TfChip_ENCFF309FOQ ENCSR590CNM HepG2 GATA4 peaks Experimental 
wgEncodeReg4TfChip_ENCFF504UQU ENCSR589SNT signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens TFE3 TFE3 ENCSR589SNT signal Experimental 
wgEncodeReg4TfChip_ENCFF268PFH ENCSR589SNT HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens TFE3 TFE3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF196VHS ENCSR588AKU signal K562 RUNX1 ENCSR588AKU signal Experimental 
wgEncodeReg4TfChip_ENCFF136STE ENCSR588AKU K562 RUNX1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF721QMW ENCSR587OQL signal K562 SMARCA4 ENCSR587OQL signal Experimental 
wgEncodeReg4TfChip_ENCFF506JCB ENCSR587OQL K562 SMARCA4 peaks Experimental 
wgEncodeReg4TfChip_ENCFF011PEP ENCSR587KPW signal heart right ventricle tissue male adult (61 years) CTCF ENCSR587KPW signal Experimental 
wgEncodeReg4TfChip_ENCFF755UXZ ENCSR587KPW heart right ventricle tissue male adult (61 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF076ZNC ENCSR587BVQ signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens TFAP4 TFAP4 ENCSR587BVQ signal Experimental 
wgEncodeReg4TfChip_ENCFF932XOY ENCSR587BVQ HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens TFAP4 TFAP4 peaks Experimental 
wgEncodeReg4TfChip_ENCFF877CUL ENCSR586DEH signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZFP1 ZFP1 ENCSR586DEH signal Experimental 
wgEncodeReg4TfChip_ENCFF148GGU ENCSR586DEH HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZFP1 ZFP1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF181RAS ENCSR586BRJ signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF433 ZNF433 ENCSR586BRJ signal Experimental 
wgEncodeReg4TfChip_ENCFF115FJL ENCSR586BRJ HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF433 ZNF433 peaks Experimental 
wgEncodeReg4TfChip_ENCFF532WMJ ENCSR585KBH signal body of pancreas tissue female adult (51 years) CTCF ENCSR585KBH signal Experimental 
wgEncodeReg4TfChip_ENCFF021LNP ENCSR585KBH body of pancreas tissue female adult (51 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF359FNN ENCSR585JVS signal heart right ventricle tissue male adult (69 years) CTCF ENCSR585JVS signal Experimental 
wgEncodeReg4TfChip_ENCFF577TID ENCSR585JVS heart right ventricle tissue male adult (69 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF796HRU ENCSR584GHV signal A549 NFE2L2 ENCSR584GHV signal Experimental 
wgEncodeReg4TfChip_ENCFF474YMB ENCSR584GHV A549 NFE2L2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF883IUZ ENCSR584DEL signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF543 ZNF543 ENCSR584DEL signal Experimental 
wgEncodeReg4TfChip_ENCFF864SAR ENCSR584DEL HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF543 ZNF543 peaks Experimental 
wgEncodeReg4TfChip_ENCFF893GQJ ENCSR583KLD signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens TEF TEF ENCSR583KLD signal Experimental 
wgEncodeReg4TfChip_ENCFF661AUQ ENCSR583KLD HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens TEF TEF peaks Experimental 
wgEncodeReg4TfChip_ENCFF251SRH ENCSR583ACG signal K562 BRD4 ENCSR583ACG signal Experimental 
wgEncodeReg4TfChip_ENCFF092PWQ ENCSR583ACG K562 BRD4 peaks Experimental 
wgEncodeReg4TfChip_ENCFF925CGH ENCSR582ZOA MCF-7 NFIB peaks Experimental 
wgEncodeReg4TfChip_ENCFF838CRU ENCSR582MTM signal lower leg skin tissue male adult (37 years) CTCF ENCSR582MTM signal Experimental 
wgEncodeReg4TfChip_ENCFF414KCF ENCSR582MTM lower leg skin tissue male adult (37 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF106VTZ ENCSR582IAO signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens SRF SRF ENCSR582IAO signal Experimental 
wgEncodeReg4TfChip_ENCFF766EOO ENCSR582IAO K562 genetically modified (insertion) using CRISPR targeting H. sapiens SRF SRF peaks Experimental 
wgEncodeReg4TfChip_ENCFF540LQS ENCSR582EIB signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF830 ZNF830 ENCSR582EIB signal Experimental 
wgEncodeReg4TfChip_ENCFF958IPC ENCSR582EIB K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF830 ZNF830 peaks Experimental 
wgEncodeReg4TfChip_ENCFF318UXO ENCSR581KCO signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens MYBL2 MYBL2 ENCSR581KCO signal Experimental 
wgEncodeReg4TfChip_ENCFF650QJC ENCSR581KCO HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens MYBL2 MYBL2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF326FOR ENCSR581GUY signal SK-N-SH genetically modified (insertion) using CRISPR targeting H. sapiens ZFP3 treated with 6 μM all-trans-retinoic acid for 48 hours ZFP3 ENCSR581GUY signal Experimental 
wgEncodeReg4TfChip_ENCFF981MBE ENCSR581GUY SK-N-SH genetically modified (insertion) using CRISPR targeting H. sapiens ZFP3 treated with 6 μM all-trans-retinoic acid for 48 hours ZFP3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF148VJK ENCSR580XUK signal tibial nerve tissue male adult (37 years) EP300 ENCSR580XUK signal Experimental 
wgEncodeReg4TfChip_ENCFF346AYA ENCSR580XUK tibial nerve tissue male adult (37 years) EP300 peaks Experimental 
wgEncodeReg4TfChip_ENCFF736ZOP ENCSR580IAO signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF197 ZNF197 ENCSR580IAO signal Experimental 
wgEncodeReg4TfChip_ENCFF872BAU ENCSR580IAO K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF197 ZNF197 peaks Experimental 
wgEncodeReg4TfChip_ENCFF111KZQ ENCSR580HOI signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens RELA RELA ENCSR580HOI signal Experimental 
wgEncodeReg4TfChip_ENCFF872FLG ENCSR580HOI HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens RELA RELA peaks Experimental 
wgEncodeReg4TfChip_ENCFF462OEE ENCSR579XWM signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens HSF4 HSF4 ENCSR579XWM signal Experimental 
wgEncodeReg4TfChip_ENCFF158CQE ENCSR579XWM K562 genetically modified (insertion) using CRISPR targeting H. sapiens HSF4 HSF4 peaks Experimental 
wgEncodeReg4TfChip_ENCFF283YAM ENCSR578KEN signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens USF2 USF2 ENCSR578KEN signal Experimental 
wgEncodeReg4TfChip_ENCFF397QGU ENCSR578KEN K562 genetically modified (insertion) using CRISPR targeting H. sapiens USF2 USF2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF099DFU ENCSR578CXC signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF644 ZNF644 ENCSR578CXC signal Experimental 
wgEncodeReg4TfChip_ENCFF352VGJ ENCSR578CXC HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF644 ZNF644 peaks Experimental 
wgEncodeReg4TfChip_ENCFF992WUL ENCSR578AKX signal heart left ventricle tissue male adult (73 years) CTCF ENCSR578AKX signal Experimental 
wgEncodeReg4TfChip_ENCFF832OXT ENCSR578AKX heart left ventricle tissue male adult (73 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF801SCF ENCSR577YCO signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ARHGAP35 ARHGAP35 ENCSR577YCO signal Experimental 
wgEncodeReg4TfChip_ENCFF778RZN ENCSR577YCO HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ARHGAP35 ARHGAP35 peaks Experimental 
wgEncodeReg4TfChip_ENCFF514TMD ENCSR577KQD signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF507 ZNF507 ENCSR577KQD signal Experimental 
wgEncodeReg4TfChip_ENCFF235JOG ENCSR577KQD K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF507 ZNF507 peaks Experimental 
wgEncodeReg4TfChip_ENCFF516SWO ENCSR576PII signal Peyer's patch tissue male adult (54 years) POLR2A ENCSR576PII signal Experimental 
wgEncodeReg4TfChip_ENCFF990IYL ENCSR576PII Peyer's patch tissue male adult (54 years) POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF653MQB ENCSR575WYM signal middle frontal area 46 tissue female adult (87 years) CTCF ENCSR575WYM signal Experimental 
wgEncodeReg4TfChip_ENCFF478RRB ENCSR575WYM middle frontal area 46 tissue female adult (87 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF369LBW ENCSR574YRZ signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZSCAN12 ZSCAN12 ENCSR574YRZ signal Experimental 
wgEncodeReg4TfChip_ENCFF491QKS ENCSR574YRZ HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZSCAN12 ZSCAN12 peaks Experimental 
wgEncodeReg4TfChip_ENCFF419SPJ ENCSR574XEO signal K562 NUFIP1 ENCSR574XEO signal Experimental 
wgEncodeReg4TfChip_ENCFF119BQA ENCSR574XEO K562 NUFIP1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF431LIE ENCSR574VJG signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens NFIX NFIX ENCSR574VJG signal Experimental 
wgEncodeReg4TfChip_ENCFF382SJS ENCSR574VJG K562 genetically modified (insertion) using CRISPR targeting H. sapiens NFIX NFIX peaks Experimental 
wgEncodeReg4TfChip_ENCFF048FCA ENCSR574UJE signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF485 ZNF485 ENCSR574UJE signal Experimental 
wgEncodeReg4TfChip_ENCFF360UPH ENCSR574UJE HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF485 ZNF485 peaks Experimental 
wgEncodeReg4TfChip_ENCFF745QIM ENCSR573OJP signal MCF-7 NCOA3 ENCSR573OJP signal Experimental 
wgEncodeReg4TfChip_ENCFF858EKD ENCSR573OJP MCF-7 NCOA3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF885ZLN ENCSR572DUJ signal body of pancreas tissue male adult (37 years) CTCF ENCSR572DUJ signal Experimental 
wgEncodeReg4TfChip_ENCFF756FGB ENCSR572DUJ body of pancreas tissue male adult (37 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF517CGF ENCSR571PDN signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens SSRP1 SSRP1 ENCSR571PDN signal Experimental 
wgEncodeReg4TfChip_ENCFF540BLL ENCSR571PDN HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens SSRP1 SSRP1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF452FAK ENCSR571BUF signal K562 ARHGAP35 ENCSR571BUF signal Experimental 
wgEncodeReg4TfChip_ENCFF198TWI ENCSR571BUF K562 ARHGAP35 peaks Experimental 
wgEncodeReg4TfChip_ENCFF185NFN ENCSR569XNP signal MCF-7 FOS ENCSR569XNP signal Experimental 
wgEncodeReg4TfChip_ENCFF282FWZ ENCSR569XNP MCF-7 FOS peaks Experimental 
wgEncodeReg4TfChip_ENCFF858HYQ ENCSR569SZK signal tibial nerve tissue female adult (51 years) EP300 ENCSR569SZK signal Experimental 
wgEncodeReg4TfChip_ENCFF952OPK ENCSR569SZK tibial nerve tissue female adult (51 years) EP300 peaks Experimental 
wgEncodeReg4TfChip_ENCFF998FBW ENCSR569ARC signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens NFYC NFYC ENCSR569ARC signal Experimental 
wgEncodeReg4TfChip_ENCFF836FYP ENCSR569ARC HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens NFYC NFYC peaks Experimental 
wgEncodeReg4TfChip_ENCFF386RRT ENCSR568PGX K562 HDAC1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF788NGV ENCSR568IVD signal Peyer's patch tissue male adult (54 years) CTCF ENCSR568IVD signal Experimental 
wgEncodeReg4TfChip_ENCFF742AQK ENCSR568IVD Peyer's patch tissue male adult (54 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF903WGD ENCSR567NTZ signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens TCF15 TCF15 ENCSR567NTZ signal Experimental 
wgEncodeReg4TfChip_ENCFF099NVR ENCSR567NTZ K562 genetically modified (insertion) using CRISPR targeting H. sapiens TCF15 TCF15 peaks Experimental 
wgEncodeReg4TfChip_ENCFF252IVK ENCSR565HBN signal heart left ventricle tissue female adult (46 years) CTCF ENCSR565HBN signal Experimental 
wgEncodeReg4TfChip_ENCFF663LEI ENCSR565HBN heart left ventricle tissue female adult (46 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF938UWC ENCSR565BVI signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens NFAT5 NFAT5 ENCSR565BVI signal Experimental 
wgEncodeReg4TfChip_ENCFF107KRZ ENCSR565BVI HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens NFAT5 NFAT5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF200VXS ENCSR564YYW signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF157 ZNF157 ENCSR564YYW signal Experimental 
wgEncodeReg4TfChip_ENCFF799MOR ENCSR564YYW HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF157 ZNF157 peaks Experimental 
wgEncodeReg4TfChip_ENCFF305IEL ENCSR563YDA signal K562 HDGF ENCSR563YDA signal Experimental 
wgEncodeReg4TfChip_ENCFF195BET ENCSR563YDA K562 HDGF peaks Experimental 
wgEncodeReg4TfChip_ENCFF915YDJ ENCSR563SHQ signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZFP36L2 ZFP36L2 ENCSR563SHQ signal Experimental 
wgEncodeReg4TfChip_ENCFF594CVK ENCSR563SHQ HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZFP36L2 ZFP36L2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF387AXO ENCSR563LLO signal K562 E2F1 ENCSR563LLO signal Experimental 
wgEncodeReg4TfChip_ENCFF163BSY ENCSR563LLO K562 E2F1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF647OAY ENCSR563JME signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF256 ZNF256 ENCSR563JME signal Experimental 
wgEncodeReg4TfChip_ENCFF863RQR ENCSR563JME HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF256 ZNF256 peaks Experimental 
wgEncodeReg4TfChip_ENCFF103BAK ENCSR563FBT signal A549 USF2 ENCSR563FBT signal Experimental 
wgEncodeReg4TfChip_ENCFF343KII ENCSR563FBT A549 USF2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF598GDB ENCSR562POI signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens THAP11 THAP11 ENCSR562POI signal Experimental 
wgEncodeReg4TfChip_ENCFF272SWH ENCSR562POI HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens THAP11 THAP11 peaks Experimental 
wgEncodeReg4TfChip_ENCFF794FER ENCSR562NOP signal DOHH2 EZH2phosphoT487 ENCSR562NOP signal Experimental 
wgEncodeReg4TfChip_ENCFF528GDC ENCSR562NOP DOHH2 EZH2phosphoT487 peaks Experimental 
wgEncodeReg4TfChip_ENCFF188CDP ENCSR561BQM signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens SIX1 SIX1 ENCSR561BQM signal Experimental 
wgEncodeReg4TfChip_ENCFF587VYG ENCSR561BQM HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens SIX1 SIX1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF054BBA ENCSR560SEP signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens RXRB RXRB ENCSR560SEP signal Experimental 
wgEncodeReg4TfChip_ENCFF539ZAY ENCSR560SEP HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens RXRB RXRB peaks Experimental 
wgEncodeReg4TfChip_ENCFF157EYO ENCSR560BUE signal MCF-7 CTCF ENCSR560BUE signal Experimental 
wgEncodeReg4TfChip_ENCFF210JUZ ENCSR560BUE MCF-7 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF860GQY ENCSR559ZKI signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens NR2C2 NR2C2 ENCSR559ZKI signal Experimental 
wgEncodeReg4TfChip_ENCFF944PRH ENCSR559ZKI HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens NR2C2 NR2C2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF526HRV ENCSR559KAB signal esophagus muscularis mucosa tissue male adult (37 years) CTCF ENCSR559KAB signal Experimental 
wgEncodeReg4TfChip_ENCFF421MEH ENCSR559KAB esophagus muscularis mucosa tissue male adult (37 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF741ADU ENCSR559IOZ signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZXDB ZXDB ENCSR559IOZ signal Experimental 
wgEncodeReg4TfChip_ENCFF835SGA ENCSR559IOZ HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZXDB ZXDB peaks Experimental 
wgEncodeReg4TfChip_ENCFF381PES ENCSR558OMR signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens TFDP1 TFDP1 ENCSR558OMR signal Experimental 
wgEncodeReg4TfChip_ENCFF717XKC ENCSR558OMR HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens TFDP1 TFDP1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF349LWW ENCSR558HTE signal transverse colon tissue female adult (51 years) CTCF ENCSR558HTE signal Experimental 
wgEncodeReg4TfChip_ENCFF558VAH ENCSR558HTE transverse colon tissue female adult (51 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF526AHK ENCSR557RVF signal K562 ZHX1 ENCSR557RVF signal Experimental 
wgEncodeReg4TfChip_ENCFF344EFR ENCSR557RVF K562 ZHX1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF270QNR ENCSR557JTZ signal MCF-7 GTF2F1 ENCSR557JTZ signal Experimental 
wgEncodeReg4TfChip_ENCFF576OTX ENCSR557JTZ MCF-7 GTF2F1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF699ZZE ENCSR555ZMV signal HepG2 AGO1 ENCSR555ZMV signal Experimental 
wgEncodeReg4TfChip_ENCFF277EOU ENCSR555ZMV HepG2 AGO1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF773TNK ENCSR555PBN signal MCF-7 MAFK ENCSR555PBN signal Experimental 
wgEncodeReg4TfChip_ENCFF558JLG ENCSR555PBN MCF-7 MAFK peaks Experimental 
wgEncodeReg4TfChip_ENCFF857NIC ENCSR555DCD signal ascending aorta tissue female adult (53 years) CTCF ENCSR555DCD signal Experimental 
wgEncodeReg4TfChip_ENCFF138DXQ ENCSR555DCD ascending aorta tissue female adult (53 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF838WZJ ENCSR554YEH signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens TOE1 TOE1 ENCSR554YEH signal Experimental 
wgEncodeReg4TfChip_ENCFF490CXR ENCSR554YEH HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens TOE1 TOE1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF797JXT ENCSR553QMC signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF7 ZNF7 ENCSR553QMC signal Experimental 
wgEncodeReg4TfChip_ENCFF983XQI ENCSR553QMC HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF7 ZNF7 peaks Experimental 
wgEncodeReg4TfChip_ENCFF354ZOM ENCSR553NTC signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF134 ZNF134 ENCSR553NTC signal Experimental 
wgEncodeReg4TfChip_ENCFF502NWS ENCSR553NTC K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF134 ZNF134 peaks Experimental 
wgEncodeReg4TfChip_ENCFF017BBL ENCSR552YWL signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens KLF12 KLF12 ENCSR552YWL signal Experimental 
wgEncodeReg4TfChip_ENCFF395LSO ENCSR552YWL HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens KLF12 KLF12 peaks Experimental 
wgEncodeReg4TfChip_ENCFF340VXL ENCSR552YGL signal K562 stably expressing NFE2 NFE2 ENCSR552YGL signal Experimental 
wgEncodeReg4TfChip_ENCFF047YKA ENCSR552YGL K562 stably expressing NFE2 NFE2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF282NSB ENCSR552XSN signal GM12878 MLLT1 ENCSR552XSN signal Experimental 
wgEncodeReg4TfChip_ENCFF995GXC ENCSR552XSN GM12878 MLLT1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF400FMP ENCSR551QJT signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens THRA THRA ENCSR551QJT signal Experimental 
wgEncodeReg4TfChip_ENCFF025KMX ENCSR551QJT HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens THRA THRA peaks Experimental 
wgEncodeReg4TfChip_ENCFF458BXU ENCSR551MLB signal gastroesophageal sphincter tissue male adult (37 years) EP300 ENCSR551MLB signal Experimental 
wgEncodeReg4TfChip_ENCFF211FPL ENCSR551MLB gastroesophageal sphincter tissue male adult (37 years) EP300 peaks Experimental 
wgEncodeReg4TfChip_ENCFF503BJZ ENCSR550SCU signal A549 CHD4 ENCSR550SCU signal Experimental 
wgEncodeReg4TfChip_ENCFF005TEA ENCSR550SCU A549 CHD4 peaks Experimental 
wgEncodeReg4TfChip_ENCFF739JWP ENCSR550HCT signal K562 stably expressing KLF1 KLF1 ENCSR550HCT signal Experimental 
wgEncodeReg4TfChip_ENCFF078GIY ENCSR550HCT K562 stably expressing KLF1 KLF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF166JQQ ENCSR549WAU signal stomach tissue male adult (54 years) CTCF ENCSR549WAU signal Experimental 
wgEncodeReg4TfChip_ENCFF593FMT ENCSR549WAU stomach tissue male adult (54 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF429ZQN ENCSR549TXG signal thoracic aorta tissue male adult (37 years) CTCF ENCSR549TXG signal Experimental 
wgEncodeReg4TfChip_ENCFF692DLQ ENCSR549TXG thoracic aorta tissue male adult (37 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF907WHP ENCSR549PAU signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZBTB21 ZBTB21 ENCSR549PAU signal Experimental 
wgEncodeReg4TfChip_ENCFF276JLT ENCSR549PAU HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZBTB21 ZBTB21 peaks Experimental 
wgEncodeReg4TfChip_ENCFF666MLU ENCSR548DDS signal ovary tissue female adult (51 years) CTCF ENCSR548DDS signal Experimental 
wgEncodeReg4TfChip_ENCFF845YUT ENCSR548DDS ovary tissue female adult (51 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF943WWP ENCSR547LKC signal K562 GATAD2B ENCSR547LKC signal Experimental 
wgEncodeReg4TfChip_ENCFF696VMK ENCSR547LKC K562 GATAD2B peaks Experimental 
wgEncodeReg4TfChip_ENCFF867OEG ENCSR546KCN signal MCF-7 stably expressing FOSL2 FOSL2 ENCSR546KCN signal Experimental 
wgEncodeReg4TfChip_ENCFF188KBZ ENCSR546KCN MCF-7 stably expressing FOSL2 FOSL2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF770COF ENCSR546IHU signal K562 ZNF184 ENCSR546IHU signal Experimental 
wgEncodeReg4TfChip_ENCFF579ZRD ENCSR546IHU K562 ZNF184 peaks Experimental 
wgEncodeReg4TfChip_ENCFF530QXA ENCSR545FXC signal HepG2 ATF7 ENCSR545FXC signal Experimental 
wgEncodeReg4TfChip_ENCFF470FKK ENCSR545FXC HepG2 ATF7 peaks Experimental 
wgEncodeReg4TfChip_ENCFF809XDM ENCSR545ACM signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF549 ZNF549 ENCSR545ACM signal Experimental 
wgEncodeReg4TfChip_ENCFF499IIA ENCSR545ACM HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF549 ZNF549 peaks Experimental 
wgEncodeReg4TfChip_ENCFF728CFQ ENCSR544MTJ signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens THAP8 THAP8 ENCSR544MTJ signal Experimental 
wgEncodeReg4TfChip_ENCFF926AYJ ENCSR544MTJ HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens THAP8 THAP8 peaks Experimental 
wgEncodeReg4TfChip_ENCFF252HVZ ENCSR544GUO signal A549 BCL3 ENCSR544GUO signal Experimental 
wgEncodeReg4TfChip_ENCFF214WKT ENCSR544GUO A549 BCL3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF440RUS ENCSR544APK signal heart left ventricle tissue female adult (53 years) CTCF ENCSR544APK signal Experimental 
wgEncodeReg4TfChip_ENCFF185CKY ENCSR544APK heart left ventricle tissue female adult (53 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF187DNY ENCSR543SBE signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens NFE2L1 NFE2L1 ENCSR543SBE signal Experimental 
wgEncodeReg4TfChip_ENCFF220RKA ENCSR543SBE HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens NFE2L1 NFE2L1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF383WFG ENCSR543KOA signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZBTB12 ZBTB12 ENCSR543KOA signal Experimental 
wgEncodeReg4TfChip_ENCFF963HPT ENCSR543KOA HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZBTB12 ZBTB12 peaks Experimental 
wgEncodeReg4TfChip_ENCFF460VEH ENCSR543DUC signal lower leg skin tissue female adult (51 years) POLR2A ENCSR543DUC signal Experimental 
wgEncodeReg4TfChip_ENCFF107MUW ENCSR543DUC lower leg skin tissue female adult (51 years) POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF726ILL ENCSR543BNN signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ISX ISX ENCSR543BNN signal Experimental 
wgEncodeReg4TfChip_ENCFF878QAY ENCSR543BNN HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ISX ISX peaks Experimental 
wgEncodeReg4TfChip_ENCFF987CTM ENCSR542SCB signal Peyer's patch tissue female adult (51 years) CTCF ENCSR542SCB signal Experimental 
wgEncodeReg4TfChip_ENCFF213SXV ENCSR542SCB Peyer's patch tissue female adult (51 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF400IPA ENCSR542PZA signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF490 ZNF490 ENCSR542PZA signal Experimental 
wgEncodeReg4TfChip_ENCFF030RSJ ENCSR542PZA HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF490 ZNF490 peaks Experimental 
wgEncodeReg4TfChip_ENCFF197JUC ENCSR542FLV signal GM12878 ZBTB33 ENCSR542FLV signal Experimental 
wgEncodeReg4TfChip_ENCFF818EFA ENCSR542FLV GM12878 ZBTB33 peaks Experimental 
wgEncodeReg4TfChip_ENCFF362HUT ENCSR541WQI signal A549 MAFK ENCSR541WQI signal Experimental 
wgEncodeReg4TfChip_ENCFF371EPR ENCSR541WQI A549 MAFK peaks Experimental 
wgEncodeReg4TfChip_ENCFF526YPF ENCSR541AOQ signal A549 PHF8 ENCSR541AOQ signal Experimental 
wgEncodeReg4TfChip_ENCFF815XUD ENCSR541AOQ A549 PHF8 peaks Experimental 
wgEncodeReg4TfChip_ENCFF850MLW ENCSR541AMF signal SK-N-SH CTCF ENCSR541AMF signal Experimental 
wgEncodeReg4TfChip_ENCFF575DMG ENCSR541AMF SK-N-SH CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF323SFU ENCSR540LPD signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF839 ZNF839 ENCSR540LPD signal Experimental 
wgEncodeReg4TfChip_ENCFF481VFR ENCSR540LPD HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF839 ZNF839 peaks Experimental 
wgEncodeReg4TfChip_ENCFF178FEN ENCSR536CBU signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZBTB9 ZBTB9 ENCSR536CBU signal Experimental 
wgEncodeReg4TfChip_ENCFF233EFX ENCSR536CBU K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZBTB9 ZBTB9 peaks Experimental 
wgEncodeReg4TfChip_ENCFF652UZS ENCSR535DIA signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens GLIS2 GLIS2 ENCSR535DIA signal Experimental 
wgEncodeReg4TfChip_ENCFF446EIF ENCSR535DIA HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens GLIS2 GLIS2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF668JYW ENCSR534VHI signal GM23338 originated from GM23248 ETS1 ENCSR534VHI signal Experimental 
wgEncodeReg4TfChip_ENCFF701IZH ENCSR534VHI GM23338 originated from GM23248 ETS1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF612RHB ENCSR532WFC signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZBTB14 ZBTB14 ENCSR532WFC signal Experimental 
wgEncodeReg4TfChip_ENCFF570VWN ENCSR532WFC HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZBTB14 ZBTB14 peaks Experimental 
wgEncodeReg4TfChip_ENCFF201EBU ENCSR532KTI signal K562 stably expressing GTF2E2 GTF2E2 ENCSR532KTI signal Experimental 
wgEncodeReg4TfChip_ENCFF741URT ENCSR532KTI K562 stably expressing GTF2E2 GTF2E2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF408LCW ENCSR532EMP signal K562 stably expressing ZNF740 ZNF740 ENCSR532EMP signal Experimental 
wgEncodeReg4TfChip_ENCFF447IXE ENCSR532EMP K562 stably expressing ZNF740 ZNF740 peaks Experimental 
wgEncodeReg4TfChip_ENCFF409QFJ ENCSR531VIJ signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens MIER3 MIER3 ENCSR531VIJ signal Experimental 
wgEncodeReg4TfChip_ENCFF032KTL ENCSR531VIJ HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens MIER3 MIER3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF803AOB ENCSR530XQI signal K562 L3MBTL2 ENCSR530XQI signal Experimental 
wgEncodeReg4TfChip_ENCFF320EQC ENCSR530XQI K562 L3MBTL2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF258EIA ENCSR530WIV signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens FOXP1 FOXP1 ENCSR530WIV signal Experimental 
wgEncodeReg4TfChip_ENCFF954SDY ENCSR530WIV K562 genetically modified (insertion) using CRISPR targeting H. sapiens FOXP1 FOXP1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF231ODX ENCSR530ARJ signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens PAXIP1 PAXIP1 ENCSR530ARJ signal Experimental 
wgEncodeReg4TfChip_ENCFF526NOJ ENCSR530ARJ HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens PAXIP1 PAXIP1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF711IPM ENCSR529JYA signal HepG2 HCFC1 ENCSR529JYA signal Experimental 
wgEncodeReg4TfChip_ENCFF806CDY ENCSR529JYA HepG2 HCFC1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF314USV ENCSR528PSI signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens HLF HLF ENCSR528PSI signal Experimental 
wgEncodeReg4TfChip_ENCFF854JLR ENCSR528PSI HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens HLF HLF peaks Experimental 
wgEncodeReg4TfChip_ENCFF046WEZ ENCSR527TPP signal uterus tissue female adult (51 years) CTCF ENCSR527TPP signal Experimental 
wgEncodeReg4TfChip_ENCFF879PAY ENCSR527TPP uterus tissue female adult (51 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF762OAC ENCSR525YFS signal HepG2 ZBTB40 ENCSR525YFS signal Experimental 
wgEncodeReg4TfChip_ENCFF162FPR ENCSR525YFS HepG2 ZBTB40 peaks Experimental 
wgEncodeReg4TfChip_ENCFF782LSR ENCSR525VXD signal middle frontal area 46 tissue female adult (90 or above years) CTCF ENCSR525VXD signal Experimental 
wgEncodeReg4TfChip_ENCFF784LWO ENCSR525VXD middle frontal area 46 tissue female adult (90 or above years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF965VAA ENCSR525VAT signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens JUNB JUNB ENCSR525VAT signal Experimental 
wgEncodeReg4TfChip_ENCFF048VXC ENCSR525VAT K562 genetically modified (insertion) using CRISPR targeting H. sapiens JUNB JUNB peaks Experimental 
wgEncodeReg4TfChip_ENCFF478DPA ENCSR524RLU signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens RFXAP RFXAP ENCSR524RLU signal Experimental 
wgEncodeReg4TfChip_ENCFF359QOX ENCSR524RLU HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens RFXAP RFXAP peaks Experimental 
wgEncodeReg4TfChip_ENCFF565UZM ENCSR524BUE signal K562 RAD51 ENCSR524BUE signal Experimental 
wgEncodeReg4TfChip_ENCFF133ELP ENCSR524BUE K562 RAD51 peaks Experimental 
wgEncodeReg4TfChip_ENCFF171BIT ENCSR523XCR signal HepG2 RNF2 ENCSR523XCR signal Experimental 
wgEncodeReg4TfChip_ENCFF737WCD ENCSR523XCR HepG2 RNF2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF658UUW ENCSR521IID signal with nonobstructive coronary artery disease; liver tissue male adult (32 years) MAX ENCSR521IID signal Experimental 
wgEncodeReg4TfChip_ENCFF584QGB ENCSR521IID with nonobstructive coronary artery disease; liver tissue male adult (32 years) MAX peaks Experimental 
wgEncodeReg4TfChip_ENCFF247ZAW ENCSR520MCD signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens CEBPD CEBPD ENCSR520MCD signal Experimental 
wgEncodeReg4TfChip_ENCFF345JDB ENCSR520MCD HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens CEBPD CEBPD peaks Experimental 
wgEncodeReg4TfChip_ENCFF116RMR ENCSR519WMW signal K562 SMARCC2 ENCSR519WMW signal Experimental 
wgEncodeReg4TfChip_ENCFF368GSR ENCSR519WMW K562 SMARCC2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF052TPG ENCSR519QYU signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF101 ZNF101 ENCSR519QYU signal Experimental 
wgEncodeReg4TfChip_ENCFF152QRL ENCSR519QYU HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF101 ZNF101 peaks Experimental 
wgEncodeReg4TfChip_ENCFF794NZW ENCSR519QAA signal HepG2 HNRNPK ENCSR519QAA signal Experimental 
wgEncodeReg4TfChip_ENCFF493GNS ENCSR519QAA HepG2 HNRNPK peaks Experimental 
wgEncodeReg4TfChip_ENCFF631UIA ENCSR518WPL signal HepG2 NR2F6 ENCSR518WPL signal Experimental 
wgEncodeReg4TfChip_ENCFF429VKC ENCSR518WPL HepG2 NR2F6 peaks Experimental 
wgEncodeReg4TfChip_ENCFF316UIU ENCSR518KLO signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens NRL NRL ENCSR518KLO signal Experimental 
wgEncodeReg4TfChip_ENCFF528PUT ENCSR518KLO HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens NRL NRL peaks Experimental 
wgEncodeReg4TfChip_ENCFF071NOG ENCSR517HGZ signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF781 ZNF781 ENCSR517HGZ signal Experimental 
wgEncodeReg4TfChip_ENCFF209OTE ENCSR517HGZ HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF781 ZNF781 peaks Experimental 
wgEncodeReg4TfChip_ENCFF652ELQ ENCSR517FVL signal body of pancreas tissue male adult (54 years) POLR2A ENCSR517FVL signal Experimental 
wgEncodeReg4TfChip_ENCFF501FEC ENCSR517FVL body of pancreas tissue male adult (54 years) POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF661THK ENCSR516SMM signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens SRF SRF ENCSR516SMM signal Experimental 
wgEncodeReg4TfChip_ENCFF234ZEU ENCSR516SMM HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens SRF SRF peaks Experimental 
wgEncodeReg4TfChip_ENCFF451OTO ENCSR516HUP signal with nonobstructive coronary artery disease; liver tissue male adult (32 years) ZBTB33 ENCSR516HUP signal Experimental 
wgEncodeReg4TfChip_ENCFF592BJA ENCSR516HUP with nonobstructive coronary artery disease; liver tissue male adult (32 years) ZBTB33 peaks Experimental 
wgEncodeReg4TfChip_ENCFF523YQA ENCSR516DDO signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ATF7 ATF7 ENCSR516DDO signal Experimental 
wgEncodeReg4TfChip_ENCFF589EBD ENCSR516DDO HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ATF7 ATF7 peaks Experimental 
wgEncodeReg4TfChip_ENCFF081ZME ENCSR515LRI signal suprapubic skin tissue female adult (53 years) CTCF ENCSR515LRI signal Experimental 
wgEncodeReg4TfChip_ENCFF916QXW ENCSR515LRI suprapubic skin tissue female adult (53 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF553SLZ ENCSR514VYD signal GM12878 NR2F1 ENCSR514VYD signal Experimental 
wgEncodeReg4TfChip_ENCFF273VKX ENCSR514VYD GM12878 NR2F1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF887BNK ENCSR514VAY signal GM12878 HCFC1 ENCSR514VAY signal Experimental 
wgEncodeReg4TfChip_ENCFF372SXO ENCSR514VAY GM12878 HCFC1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF012KST ENCSR514RAH signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens RARG RARG ENCSR514RAH signal Experimental 
wgEncodeReg4TfChip_ENCFF989AQH ENCSR514RAH HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens RARG RARG peaks Experimental 
wgEncodeReg4TfChip_ENCFF094ETW ENCSR514EOE signal HepG2 BRD4 ENCSR514EOE signal Experimental 
wgEncodeReg4TfChip_ENCFF443VVF ENCSR514EOE HepG2 BRD4 peaks Experimental 
wgEncodeReg4TfChip_ENCFF508BKS ENCSR513XQX signal A549 SIN3A ENCSR513XQX signal Experimental 
wgEncodeReg4TfChip_ENCFF752ATT ENCSR513XQX A549 SIN3A peaks Experimental 
wgEncodeReg4TfChip_ENCFF909JSQ ENCSR513UQG signal IMR-90 USF2 ENCSR513UQG signal Experimental 
wgEncodeReg4TfChip_ENCFF438KUN ENCSR513UQG IMR-90 USF2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF488RON ENCSR513NBU signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF713 ZNF713 ENCSR513NBU signal Experimental 
wgEncodeReg4TfChip_ENCFF081LTD ENCSR513NBU HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF713 ZNF713 peaks Experimental 
wgEncodeReg4TfChip_ENCFF853ZLS ENCSR512NLO signal K562 MNT ENCSR512NLO signal Experimental 
wgEncodeReg4TfChip_ENCFF450LDL ENCSR512NLO K562 MNT peaks Experimental 
wgEncodeReg4TfChip_ENCFF077CVH ENCSR512ECF signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF142 ZNF142 ENCSR512ECF signal Experimental 
wgEncodeReg4TfChip_ENCFF422TCB ENCSR512ECF HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF142 ZNF142 peaks Experimental 
wgEncodeReg4TfChip_ENCFF450CAC ENCSR511CUH signal neural cell originated from H1 EZH2 ENCSR511CUH signal Experimental 
wgEncodeReg4TfChip_ENCFF610EPB ENCSR511CUH neural cell originated from H1 EZH2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF606RVI ENCSR510GKB signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF770 ZNF770 ENCSR510GKB signal Experimental 
wgEncodeReg4TfChip_ENCFF233UVH ENCSR510GKB HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF770 ZNF770 peaks Experimental 
wgEncodeReg4TfChip_ENCFF197LVJ ENCSR509FWH signal GM12878 DPF2 ENCSR509FWH signal Experimental 
wgEncodeReg4TfChip_ENCFF681AJV ENCSR509FWH GM12878 DPF2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF207QHL ENCSR508LMH HepG2 ASH2L peaks Experimental 
wgEncodeReg4TfChip_ENCFF131AOO ENCSR508EEX signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF397 ZNF397 ENCSR508EEX signal Experimental 
wgEncodeReg4TfChip_ENCFF203WSD ENCSR508EEX K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF397 ZNF397 peaks Experimental 
wgEncodeReg4TfChip_ENCFF461BWN ENCSR508DQA signal K562 FOXK2 ENCSR508DQA signal Experimental 
wgEncodeReg4TfChip_ENCFF851PFH ENCSR508DQA K562 FOXK2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF831NAK ENCSR507BWM signal SK-N-SH genetically modified (insertion) using CRISPR targeting H. sapiens GLIS3 treated with 6 μM all-trans-retinoic acid for 48 hours GLIS3 ENCSR507BWM signal Experimental 
wgEncodeReg4TfChip_ENCFF370MHZ ENCSR507BWM SK-N-SH genetically modified (insertion) using CRISPR targeting H. sapiens GLIS3 treated with 6 μM all-trans-retinoic acid for 48 hours GLIS3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF424MFP ENCSR506SSQ signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF354C ZNF354C ENCSR506SSQ signal Experimental 
wgEncodeReg4TfChip_ENCFF371JMA ENCSR506SSQ K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF354C ZNF354C peaks Experimental 
wgEncodeReg4TfChip_ENCFF544EVA ENCSR506KWJ signal K562 XRCC5 ENCSR506KWJ signal Experimental 
wgEncodeReg4TfChip_ENCFF115CTZ ENCSR506KWJ K562 XRCC5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF874CKO ENCSR505ZGX signal thyroid gland tissue male adult (37 years) CTCF ENCSR505ZGX signal Experimental 
wgEncodeReg4TfChip_ENCFF877DRR ENCSR505ZGX thyroid gland tissue male adult (37 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF635QKG ENCSR505UNL signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF333 ZNF333 ENCSR505UNL signal Experimental 
wgEncodeReg4TfChip_ENCFF038JAL ENCSR505UNL HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF333 ZNF333 peaks Experimental 
wgEncodeReg4TfChip_ENCFF803TUM ENCSR505RTK signal heart right ventricle tissue female adult (46 years) CTCF ENCSR505RTK signal Experimental 
wgEncodeReg4TfChip_ENCFF022KFI ENCSR505RTK heart right ventricle tissue female adult (46 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF567LTP ENCSR505LJT signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZFP37 ZFP37 ENCSR505LJT signal Experimental 
wgEncodeReg4TfChip_ENCFF721ZAA ENCSR505LJT HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZFP37 ZFP37 peaks Experimental 
wgEncodeReg4TfChip_ENCFF827TAE ENCSR505DVB signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZMYM3 ZMYM3 ENCSR505DVB signal Experimental 
wgEncodeReg4TfChip_ENCFF408KTI ENCSR505DVB HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZMYM3 ZMYM3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF866WHQ ENCSR504VDV signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF654 ZNF654 ENCSR504VDV signal Experimental 
wgEncodeReg4TfChip_ENCFF636WIC ENCSR504VDV HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF654 ZNF654 peaks Experimental 
wgEncodeReg4TfChip_ENCFF125EBG ENCSR503VTG signal MCF-7 ZNF24 ENCSR503VTG signal Experimental 
wgEncodeReg4TfChip_ENCFF861XIL ENCSR503VTG MCF-7 ZNF24 peaks Experimental 
wgEncodeReg4TfChip_ENCFF102UZB ENCSR503GVO signal HCT116 ZFX ENCSR503GVO signal Experimental 
wgEncodeReg4TfChip_ENCFF324IZY ENCSR503GVO HCT116 ZFX peaks Experimental 
wgEncodeReg4TfChip_ENCFF544SID ENCSR503DPC signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF513 ZNF513 ENCSR503DPC signal Experimental 
wgEncodeReg4TfChip_ENCFF457TCC ENCSR503DPC HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF513 ZNF513 peaks Experimental 
wgEncodeReg4TfChip_ENCFF848IQI ENCSR502YME signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens GLI4 GLI4 ENCSR502YME signal Experimental 
wgEncodeReg4TfChip_ENCFF099VAH ENCSR502YME HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens GLI4 GLI4 peaks Experimental 
wgEncodeReg4TfChip_ENCFF235IXK ENCSR502OEK signal K562 ELF1 ENCSR502OEK signal Experimental 
wgEncodeReg4TfChip_ENCFF457KVR ENCSR502OEK K562 ELF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF048UJA ENCSR502NRF signal MCF-7 ELF1 ENCSR502NRF signal Experimental 
wgEncodeReg4TfChip_ENCFF305BNP ENCSR502NRF MCF-7 ELF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF872VOH ENCSR502KPJ signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF843 ZNF843 ENCSR502KPJ signal Experimental 
wgEncodeReg4TfChip_ENCFF241QRH ENCSR502KPJ HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF843 ZNF843 peaks Experimental 
wgEncodeReg4TfChip_ENCFF842UYH ENCSR502GAX signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF652 ZNF652 ENCSR502GAX signal Experimental 
wgEncodeReg4TfChip_ENCFF331VPZ ENCSR502GAX HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF652 ZNF652 peaks Experimental 
wgEncodeReg4TfChip_ENCFF749DPM ENCSR501DKS GM12878 TCF7 peaks Experimental 
wgEncodeReg4TfChip_ENCFF445RZD ENCSR500WXT signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens RARA RARA ENCSR500WXT signal Experimental 
wgEncodeReg4TfChip_ENCFF582XUA ENCSR500WXT HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens RARA RARA peaks Experimental 
wgEncodeReg4TfChip_ENCFF545CDZ ENCSR498TWD signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens MAF1 MAF1 ENCSR498TWD signal Experimental 
wgEncodeReg4TfChip_ENCFF925PQA ENCSR498TWD HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens MAF1 MAF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF236EGW ENCSR497VFH signal K562 ZNF639 ENCSR497VFH signal Experimental 
wgEncodeReg4TfChip_ENCFF898FKC ENCSR497VFH K562 ZNF639 peaks Experimental 
wgEncodeReg4TfChip_ENCFF046TEG ENCSR497JLX signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens TEAD1 TEAD1 ENCSR497JLX signal Experimental 
wgEncodeReg4TfChip_ENCFF661PNM ENCSR497JLX HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens TEAD1 TEAD1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF164ZYG ENCSR494UQJ signal K562 NR3C1 ENCSR494UQJ signal Experimental 
wgEncodeReg4TfChip_ENCFF867JPF ENCSR494UQJ K562 NR3C1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF883KMQ ENCSR494TNM signal testis tissue male adult (37 years) CTCF ENCSR494TNM signal Experimental 
wgEncodeReg4TfChip_ENCFF128XQJ ENCSR494TNM testis tissue male adult (37 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF038PRI ENCSR494TDU signal K562 NRF1 ENCSR494TDU signal Experimental 
wgEncodeReg4TfChip_ENCFF791UHF ENCSR494TDU K562 NRF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF047UWV ENCSR494PWZ signal K562 ZC3H8 ENCSR494PWZ signal Experimental 
wgEncodeReg4TfChip_ENCFF495URH ENCSR494PWZ K562 ZC3H8 peaks Experimental 
wgEncodeReg4TfChip_ENCFF649VVD ENCSR493VBX signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZSCAN31 ZSCAN31 ENCSR493VBX signal Experimental 
wgEncodeReg4TfChip_ENCFF066FRL ENCSR493VBX HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZSCAN31 ZSCAN31 peaks Experimental 
wgEncodeReg4TfChip_ENCFF971DUO ENCSR493APD signal ovary tissue female adult (53 years) CTCF ENCSR493APD signal Experimental 
wgEncodeReg4TfChip_ENCFF062XMG ENCSR493APD ovary tissue female adult (53 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF510THG ENCSR492ZIW signal thyroid gland tissue male adult (54 years) CTCF ENCSR492ZIW signal Experimental 
wgEncodeReg4TfChip_ENCFF631QRY ENCSR492ZIW thyroid gland tissue male adult (54 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF645TMQ ENCSR492LTS signal K562 BCLAF1 ENCSR492LTS signal Experimental 
wgEncodeReg4TfChip_ENCFF902SHC ENCSR492LTS K562 BCLAF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF630JUN ENCSR492IHH signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ISL2 ISL2 ENCSR492IHH signal Experimental 
wgEncodeReg4TfChip_ENCFF742RIP ENCSR492IHH HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ISL2 ISL2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF056QUE ENCSR492FKD signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF257 ZNF257 ENCSR492FKD signal Experimental 
wgEncodeReg4TfChip_ENCFF849YZP ENCSR492FKD K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF257 ZNF257 peaks Experimental 
wgEncodeReg4TfChip_ENCFF670DYE ENCSR491PTJ signal suprapubic skin tissue female adult (51 years) POLR2AphosphoS5 ENCSR491PTJ signal Experimental 
wgEncodeReg4TfChip_ENCFF216JHX ENCSR491PTJ suprapubic skin tissue female adult (51 years) POLR2AphosphoS5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF748CGJ ENCSR491EBY signal K562 ARID2 ENCSR491EBY signal Experimental 
wgEncodeReg4TfChip_ENCFF099BVK ENCSR491EBY K562 ARID2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF443SWM ENCSR490LWA signal K562 stably expressing CEBPG CEBPG ENCSR490LWA signal Experimental 
wgEncodeReg4TfChip_ENCFF956TPS ENCSR490LWA K562 stably expressing CEBPG CEBPG peaks Experimental 
wgEncodeReg4TfChip_ENCFF637NJN ENCSR490AMH signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens FOXA2 FOXA2 ENCSR490AMH signal Experimental 
wgEncodeReg4TfChip_ENCFF894AYY ENCSR490AMH HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens FOXA2 FOXA2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF536VOI ENCSR489QDF signal excitatory neuron CTCF ENCSR489QDF signal Experimental 
wgEncodeReg4TfChip_ENCFF816BTR ENCSR489QDF excitatory neuron CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF253YSN ENCSR488ZNK signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF646 ZNF646 ENCSR488ZNK signal Experimental 
wgEncodeReg4TfChip_ENCFF141MBP ENCSR488ZNK HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF646 ZNF646 peaks Experimental 
wgEncodeReg4TfChip_ENCFF690PPG ENCSR488EES signal HepG2 NFE2L2 ENCSR488EES signal Experimental 
wgEncodeReg4TfChip_ENCFF178DRC ENCSR488EES HepG2 NFE2L2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF652XYW ENCSR487LUQ signal HepG2 PHF8 ENCSR487LUQ signal Experimental 
wgEncodeReg4TfChip_ENCFF892HVG ENCSR487LUQ HepG2 PHF8 peaks Experimental 
wgEncodeReg4TfChip_ENCFF997XLE ENCSR487CPI signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZFP64 ZFP64 ENCSR487CPI signal Experimental 
wgEncodeReg4TfChip_ENCFF873EPM ENCSR487CPI HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZFP64 ZFP64 peaks Experimental 
wgEncodeReg4TfChip_ENCFF297PTK ENCSR487ASM signal MCF-7 SMARCA5 ENCSR487ASM signal Experimental 
wgEncodeReg4TfChip_ENCFF666AAW ENCSR487ASM MCF-7 SMARCA5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF518RZY ENCSR486JYI signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens E2F5 E2F5 ENCSR486JYI signal Experimental 
wgEncodeReg4TfChip_ENCFF235FGV ENCSR486JYI HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens E2F5 E2F5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF038YZT ENCSR486IFJ signal K562 ESRRA ENCSR486IFJ signal Experimental 
wgEncodeReg4TfChip_ENCFF968PEP ENCSR486IFJ K562 ESRRA peaks Experimental 
wgEncodeReg4TfChip_ENCFF015NMW ENCSR485VQV signal suprapubic skin tissue male adult (37 years) CTCF ENCSR485VQV signal Experimental 
wgEncodeReg4TfChip_ENCFF237JBR ENCSR485VQV suprapubic skin tissue male adult (37 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF670LNB ENCSR485OYR signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZBTB25 ZBTB25 ENCSR485OYR signal Experimental 
wgEncodeReg4TfChip_ENCFF648SDH ENCSR485OYR HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZBTB25 ZBTB25 peaks Experimental 
wgEncodeReg4TfChip_ENCFF114FIM ENCSR485BEB signal thyroid gland tissue female adult (53 years) POLR2A ENCSR485BEB signal Experimental 
wgEncodeReg4TfChip_ENCFF967QCV ENCSR485BEB thyroid gland tissue female adult (53 years) POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF049EBZ ENCSR484DDO signal body of pancreas tissue female adult (53 years) CTCF ENCSR484DDO signal Experimental 
wgEncodeReg4TfChip_ENCFF881RGF ENCSR484DDO body of pancreas tissue female adult (53 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF622TBK ENCSR482TWQ signal GM12878 RAD51 ENCSR482TWQ signal Experimental 
wgEncodeReg4TfChip_ENCFF916JXQ ENCSR482TWQ GM12878 RAD51 peaks Experimental 
wgEncodeReg4TfChip_ENCFF101RDN ENCSR482PMN signal spleen tissue female adult (51 years) CTCF ENCSR482PMN signal Experimental 
wgEncodeReg4TfChip_ENCFF077XIZ ENCSR482PMN spleen tissue female adult (51 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF334BKW ENCSR482BBZ signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens GLIS1 GLIS1 ENCSR482BBZ signal Experimental 
wgEncodeReg4TfChip_ENCFF299RSE ENCSR482BBZ HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens GLIS1 GLIS1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF814GLB ENCSR481YWD signal A549 SMC3 ENCSR481YWD signal Experimental 
wgEncodeReg4TfChip_ENCFF747SCJ ENCSR481YWD A549 SMC3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF261TFA ENCSR481FEC signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZBTB8A ZBTB8A ENCSR481FEC signal Experimental 
wgEncodeReg4TfChip_ENCFF303WRD ENCSR481FEC HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZBTB8A ZBTB8A peaks Experimental 
wgEncodeReg4TfChip_ENCFF805GDK ENCSR481AIK signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZBTB3 ZBTB3 ENCSR481AIK signal Experimental 
wgEncodeReg4TfChip_ENCFF224AQL ENCSR481AIK HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZBTB3 ZBTB3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF967RRH ENCSR480LIS signal with nonobstructive coronary artery disease; liver tissue male adult (32 years) ATF3 ENCSR480LIS signal Experimental 
wgEncodeReg4TfChip_ENCFF375GID ENCSR480LIS with nonobstructive coronary artery disease; liver tissue male adult (32 years) ATF3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF758QHA ENCSR479WQX signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens GZF1 GZF1 ENCSR479WQX signal Experimental 
wgEncodeReg4TfChip_ENCFF060TLH ENCSR479WQX HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens GZF1 GZF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF332JEM ENCSR479RZV signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens CBFB CBFB ENCSR479RZV signal Experimental 
wgEncodeReg4TfChip_ENCFF349HFU ENCSR479RZV HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens CBFB CBFB peaks Experimental 
wgEncodeReg4TfChip_ENCFF228QGU ENCSR479PRL signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZBTB4 ZBTB4 ENCSR479PRL signal Experimental 
wgEncodeReg4TfChip_ENCFF828GZH ENCSR479PRL HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZBTB4 ZBTB4 peaks Experimental 
wgEncodeReg4TfChip_ENCFF933BIF ENCSR477OJI signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF423 ZNF423 ENCSR477OJI signal Experimental 
wgEncodeReg4TfChip_ENCFF937QHI ENCSR477OJI HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF423 ZNF423 peaks Experimental 
wgEncodeReg4TfChip_ENCFF297LPJ ENCSR475SOC signal MCF-7 stably expressing ELF1 ELF1 ENCSR475SOC signal Experimental 
wgEncodeReg4TfChip_ENCFF366KVK ENCSR475SOC MCF-7 stably expressing ELF1 ELF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF574HNA ENCSR474YDA signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens YEATS4 YEATS4 ENCSR474YDA signal Experimental 
wgEncodeReg4TfChip_ENCFF340OIC ENCSR474YDA HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens YEATS4 YEATS4 peaks Experimental 
wgEncodeReg4TfChip_ENCFF122TYB ENCSR474KBG signal SK-N-SH genetically modified (insertion) using CRISPR targeting H. sapiens CSDC2 treated with 6 μM all-trans-retinoic acid for 48 hours CSDC2 ENCSR474KBG signal Experimental 
wgEncodeReg4TfChip_ENCFF868MXA ENCSR474KBG SK-N-SH genetically modified (insertion) using CRISPR targeting H. sapiens CSDC2 treated with 6 μM all-trans-retinoic acid for 48 hours CSDC2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF436LBX ENCSR474CVP signal K562 TRIM28 ENCSR474CVP signal Experimental 
wgEncodeReg4TfChip_ENCFF429WPG ENCSR474CVP K562 TRIM28 peaks Experimental 
wgEncodeReg4TfChip_ENCFF567QFD ENCSR473SUA signal A549 ESRRA ENCSR473SUA signal Experimental 
wgEncodeReg4TfChip_ENCFF977FTJ ENCSR473SUA A549 ESRRA peaks Experimental 
wgEncodeReg4TfChip_ENCFF170TDI ENCSR473DVS signal heart right ventricle tissue male adult (40 years) CTCF ENCSR473DVS signal Experimental 
wgEncodeReg4TfChip_ENCFF163IJK ENCSR473DVS heart right ventricle tissue male adult (40 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF672NUF ENCSR472VBD signal sigmoid colon tissue male adult (54 years) POLR2A ENCSR472VBD signal Experimental 
wgEncodeReg4TfChip_ENCFF543ARF ENCSR472VBD sigmoid colon tissue male adult (54 years) POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF103LVM ENCSR471VAY signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF484 ZNF484 ENCSR471VAY signal Experimental 
wgEncodeReg4TfChip_ENCFF133ETH ENCSR471VAY HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF484 ZNF484 peaks Experimental 
wgEncodeReg4TfChip_ENCFF128CNB ENCSR469WII signal GM12878 BMI1 ENCSR469WII signal Experimental 
wgEncodeReg4TfChip_ENCFF249AMT ENCSR469WII GM12878 BMI1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF960DIA ENCSR469POZ signal tibial nerve tissue female adult (53 years) CTCF ENCSR469POZ signal Experimental 
wgEncodeReg4TfChip_ENCFF477JAK ENCSR469POZ tibial nerve tissue female adult (53 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF267ZWK ENCSR469GZL signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens LCOR LCOR ENCSR469GZL signal Experimental 
wgEncodeReg4TfChip_ENCFF499KCU ENCSR469GZL HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens LCOR LCOR peaks Experimental 
wgEncodeReg4TfChip_ENCFF741YLQ ENCSR469FBY signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens HNF4A HNF4A ENCSR469FBY signal Experimental 
wgEncodeReg4TfChip_ENCFF146SSF ENCSR469FBY HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens HNF4A HNF4A peaks Experimental 
wgEncodeReg4TfChip_ENCFF885EYZ ENCSR468LUO signal MCF-7 SIN3A ENCSR468LUO signal Experimental 
wgEncodeReg4TfChip_ENCFF437VFY ENCSR468LUO MCF-7 SIN3A peaks Experimental 
wgEncodeReg4TfChip_ENCFF313RMD ENCSR468IJT signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens SP7 SP7 ENCSR468IJT signal Experimental 
wgEncodeReg4TfChip_ENCFF733RBE ENCSR468IJT HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens SP7 SP7 peaks Experimental 
wgEncodeReg4TfChip_ENCFF485XTX ENCSR467EQP signal brain organoid female embryo (5 days): 90 days post differentiation CTCF ENCSR467EQP signal Experimental 
wgEncodeReg4TfChip_ENCFF067KUH ENCSR467EQP brain organoid female embryo (5 days): 90 days post differentiation CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF769JVM ENCSR466VYP signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF266 ZNF266 ENCSR466VYP signal Experimental 
wgEncodeReg4TfChip_ENCFF483FIW ENCSR466VYP HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF266 ZNF266 peaks Experimental 
wgEncodeReg4TfChip_ENCFF806GMH ENCSR466TNQ signal spleen tissue female adult (61 years) CTCF ENCSR466TNQ signal Experimental 
wgEncodeReg4TfChip_ENCFF139JDN ENCSR466TNQ spleen tissue female adult (61 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF666ESD ENCSR465XQW signal MCF-7 ZNF217 ENCSR465XQW signal Experimental 
wgEncodeReg4TfChip_ENCFF379OSU ENCSR465XQW MCF-7 ZNF217 peaks Experimental 
wgEncodeReg4TfChip_ENCFF725FTW ENCSR465BWW signal HepG2 SRSF1 ENCSR465BWW signal Experimental 
wgEncodeReg4TfChip_ENCFF666RVW ENCSR465BWW HepG2 SRSF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF689AFK ENCSR464KFG signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF140 ZNF140 ENCSR464KFG signal Experimental 
wgEncodeReg4TfChip_ENCFF501RUF ENCSR464KFG HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF140 ZNF140 peaks Experimental 
wgEncodeReg4TfChip_ENCFF699SOM ENCSR464DKE signal Loucy CTCF ENCSR464DKE signal Experimental 
wgEncodeReg4TfChip_ENCFF423XRG ENCSR464DKE Loucy CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF424MAD ENCSR464CSO signal suprapubic skin tissue male adult (37 years) POLR2AphosphoS5 ENCSR464CSO signal Experimental 
wgEncodeReg4TfChip_ENCFF748PRQ ENCSR464CSO suprapubic skin tissue male adult (37 years) POLR2AphosphoS5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF750ENA ENCSR463XCZ signal upper lobe of left lung tissue male adult (54 years) CTCF ENCSR463XCZ signal Experimental 
wgEncodeReg4TfChip_ENCFF654BFF ENCSR463XCZ upper lobe of left lung tissue male adult (54 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF004AKH ENCSR463GOT MCF-7 genetically modified (insertion) using CRISPR targeting H. sapiens ESR1 ESR1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF274ASN ENCSR463DPV signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens AFF4 AFF4 ENCSR463DPV signal Experimental 
wgEncodeReg4TfChip_ENCFF237BMI ENCSR463DPV HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens AFF4 AFF4 peaks Experimental 
wgEncodeReg4TfChip_ENCFF056UOA ENCSR462QZZ signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF395 ZNF395 ENCSR462QZZ signal Experimental 
wgEncodeReg4TfChip_ENCFF464EIT ENCSR462QZZ K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF395 ZNF395 peaks Experimental 
wgEncodeReg4TfChip_ENCFF384QNT ENCSR462KYU signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens GABPB1 GABPB1 ENCSR462KYU signal Experimental 
wgEncodeReg4TfChip_ENCFF315AWN ENCSR462KYU HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens GABPB1 GABPB1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF557DWN ENCSR461ZJT signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF501 ZNF501 ENCSR461ZJT signal Experimental 
wgEncodeReg4TfChip_ENCFF066RAQ ENCSR461ZJT HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF501 ZNF501 peaks Experimental 
wgEncodeReg4TfChip_ENCFF569HGW ENCSR461VHZ signal astrocyte CTCF ENCSR461VHZ signal Experimental 
wgEncodeReg4TfChip_ENCFF558APA ENCSR461VHZ astrocyte CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF995WZQ ENCSR461MQX signal A549 genetically modified (insertion) using CRISPR targeting H. sapiens RARB RARB ENCSR461MQX signal Experimental 
wgEncodeReg4TfChip_ENCFF837HCQ ENCSR461MQX A549 genetically modified (insertion) using CRISPR targeting H. sapiens RARB RARB peaks Experimental 
wgEncodeReg4TfChip_ENCFF572KHJ ENCSR460YAM signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens SP1 SP1 ENCSR460YAM signal Experimental 
wgEncodeReg4TfChip_ENCFF458MVB ENCSR460YAM HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens SP1 SP1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF960ARA ENCSR460MBI signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZBTB20 ZBTB20 ENCSR460MBI signal Experimental 
wgEncodeReg4TfChip_ENCFF524ADK ENCSR460MBI HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZBTB20 ZBTB20 peaks Experimental 
wgEncodeReg4TfChip_ENCFF478SCD ENCSR460LGH signal C4-2B CTCF ENCSR460LGH signal Experimental 
wgEncodeReg4TfChip_ENCFF821XVN ENCSR460LGH C4-2B CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF374CDE ENCSR459FUE signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens ERF ERF ENCSR459FUE signal Experimental 
wgEncodeReg4TfChip_ENCFF626IQJ ENCSR459FUE K562 genetically modified (insertion) using CRISPR targeting H. sapiens ERF ERF peaks Experimental 
wgEncodeReg4TfChip_ENCFF973VNM ENCSR458PYQ signal type B pancreatic cell CTCF ENCSR458PYQ signal Experimental 
wgEncodeReg4TfChip_ENCFF910FNQ ENCSR458PYQ type B pancreatic cell CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF034NUZ ENCSR455DOO signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens RCOR2 RCOR2 ENCSR455DOO signal Experimental 
wgEncodeReg4TfChip_ENCFF310RFX ENCSR455DOO HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens RCOR2 RCOR2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF870SFV ENCSR454SCH signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF7 ZNF7 ENCSR454SCH signal Experimental 
wgEncodeReg4TfChip_ENCFF096OHS ENCSR454SCH K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF7 ZNF7 peaks Experimental 
wgEncodeReg4TfChip_ENCFF143RXY ENCSR452YHM signal HepG2 SIN3B ENCSR452YHM signal Experimental 
wgEncodeReg4TfChip_ENCFF606IUR ENCSR452YHM HepG2 SIN3B peaks Experimental 
wgEncodeReg4TfChip_ENCFF271PJQ ENCSR452UFJ signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens SPEN SPEN ENCSR452UFJ signal Experimental 
wgEncodeReg4TfChip_ENCFF939VPY ENCSR452UFJ HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens SPEN SPEN peaks Experimental 
wgEncodeReg4TfChip_ENCFF496PUD ENCSR452KYY signal middle frontal area 46 tissue male adult (84 years) CTCF ENCSR452KYY signal Experimental 
wgEncodeReg4TfChip_ENCFF662EUG ENCSR452KYY middle frontal area 46 tissue male adult (84 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF737LJJ ENCSR451CYX signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF280D ZNF280D ENCSR451CYX signal Experimental 
wgEncodeReg4TfChip_ENCFF420AXB ENCSR451CYX HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF280D ZNF280D peaks Experimental 
wgEncodeReg4TfChip_ENCFF529SUF ENCSR450FRI signal esophagus squamous epithelium tissue male adult (54 years) CTCF ENCSR450FRI signal Experimental 
wgEncodeReg4TfChip_ENCFF037IYT ENCSR450FRI esophagus squamous epithelium tissue male adult (54 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF035TJC ENCSR450BLH signal adrenal gland tissue male adult (54 years) CTCF ENCSR450BLH signal Experimental 
wgEncodeReg4TfChip_ENCFF886WNR ENCSR450BLH adrenal gland tissue male adult (54 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF333UMV ENCSR449UFF signal MCF-7 ZKSCAN1 ENCSR449UFF signal Experimental 
wgEncodeReg4TfChip_ENCFF247MBY ENCSR449UFF MCF-7 ZKSCAN1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF626YRZ ENCSR449SEF signal transverse colon tissue female adult (51 years) CTCF ENCSR449SEF signal Experimental 
wgEncodeReg4TfChip_ENCFF986BNJ ENCSR449SEF transverse colon tissue female adult (51 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF972YFP ENCSR448UKK signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZKSCAN8 ZKSCAN8 ENCSR448UKK signal Experimental 
wgEncodeReg4TfChip_ENCFF387ETI ENCSR448UKK K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZKSCAN8 ZKSCAN8 peaks Experimental 
wgEncodeReg4TfChip_ENCFF606VQQ ENCSR448TVS signal A549 genetically modified (insertion) using CRISPR targeting H. sapiens FOSL2 FOSL2 ENCSR448TVS signal Experimental 
wgEncodeReg4TfChip_ENCFF195CES ENCSR448TVS A549 genetically modified (insertion) using CRISPR targeting H. sapiens FOSL2 FOSL2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF309QDX ENCSR448RAP signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF552 ZNF552 ENCSR448RAP signal Experimental 
wgEncodeReg4TfChip_ENCFF747BVA ENCSR448RAP HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF552 ZNF552 peaks Experimental 
wgEncodeReg4TfChip_ENCFF434UKF ENCSR447ZTA signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF558 ZNF558 ENCSR447ZTA signal Experimental 
wgEncodeReg4TfChip_ENCFF994JWH ENCSR447ZTA HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF558 ZNF558 peaks Experimental 
wgEncodeReg4TfChip_ENCFF481WXK ENCSR447ANW signal coronary artery tissue female adult (51 years) CTCF ENCSR447ANW signal Experimental 
wgEncodeReg4TfChip_ENCFF383OZM ENCSR447ANW coronary artery tissue female adult (51 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF215WHM ENCSR446LAV signal K562 DDX20 ENCSR446LAV signal Experimental 
wgEncodeReg4TfChip_ENCFF205RDN ENCSR446LAV K562 DDX20 peaks Experimental 
wgEncodeReg4TfChip_ENCFF920KHC ENCSR445QRF signal liver tissue female child (4 years) HNF4A ENCSR445QRF signal Experimental 
wgEncodeReg4TfChip_ENCFF449HPV ENCSR445QRF liver tissue female child (4 years) HNF4A peaks Experimental 
wgEncodeReg4TfChip_ENCFF128NOO ENCSR445PDR signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens GFI1B GFI1B ENCSR445PDR signal Experimental 
wgEncodeReg4TfChip_ENCFF264FBS ENCSR445PDR HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens GFI1B GFI1B peaks Experimental 
wgEncodeReg4TfChip_ENCFF203LSD ENCSR445NJB signal middle frontal area 46 tissue female adult (78 years) CTCF ENCSR445NJB signal Experimental 
wgEncodeReg4TfChip_ENCFF282ONV ENCSR445NJB middle frontal area 46 tissue female adult (78 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF495AQV ENCSR445FHB signal A549 genetically modified (insertion) using CRISPR targeting H. sapiens FOXF2 FOXF2 ENCSR445FHB signal Experimental 
wgEncodeReg4TfChip_ENCFF148XDC ENCSR445FHB A549 genetically modified (insertion) using CRISPR targeting H. sapiens FOXF2 FOXF2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF836RVM ENCSR445ACU signal HepG2 SOX13 ENCSR445ACU signal Experimental 
wgEncodeReg4TfChip_ENCFF231PAK ENCSR445ACU HepG2 SOX13 peaks Experimental 
wgEncodeReg4TfChip_ENCFF103BGK ENCSR444LIN signal HepG2 TCF7 ENCSR444LIN signal Experimental 
wgEncodeReg4TfChip_ENCFF628OFQ ENCSR444LIN HepG2 TCF7 peaks Experimental 
wgEncodeReg4TfChip_ENCFF204REI ENCSR444BFV signal WTC11 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF532 ZNF532 ENCSR444BFV signal Experimental 
wgEncodeReg4TfChip_ENCFF373VBX ENCSR444BFV WTC11 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF532 ZNF532 peaks Experimental 
wgEncodeReg4TfChip_ENCFF385AXR ENCSR443WKD signal esophagus muscularis mucosa tissue female adult (51 years) CTCF ENCSR443WKD signal Experimental 
wgEncodeReg4TfChip_ENCFF045JBW ENCSR443WKD esophagus muscularis mucosa tissue female adult (51 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF548SBE ENCSR443NWG signal with mild cognitive impairment; middle frontal area 46 tissue female adult (90 or above years) CTCF ENCSR443NWG signal Experimental 
wgEncodeReg4TfChip_ENCFF277CZQ ENCSR443NWG with mild cognitive impairment; middle frontal area 46 tissue female adult (90 or above years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF234PYO ENCSR443MVV signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens PRDM4 PRDM4 ENCSR443MVV signal Experimental 
wgEncodeReg4TfChip_ENCFF069PHD ENCSR443MVV HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens PRDM4 PRDM4 peaks Experimental 
wgEncodeReg4TfChip_ENCFF976HHF ENCSR442ZTI signal esophagus muscularis mucosa tissue female adult (51 years) POLR2AphosphoS5 ENCSR442ZTI signal Experimental 
wgEncodeReg4TfChip_ENCFF759BBR ENCSR442ZTI esophagus muscularis mucosa tissue female adult (51 years) POLR2AphosphoS5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF491ULK ENCSR442VBJ signal MCF-7 RAD51 ENCSR442VBJ signal Experimental 
wgEncodeReg4TfChip_ENCFF128SEB ENCSR442VBJ MCF-7 RAD51 peaks Experimental 
wgEncodeReg4TfChip_ENCFF338DNJ ENCSR442CIF signal prostate gland tissue male adult (54 years) POLR2AphosphoS5 ENCSR442CIF signal Experimental 
wgEncodeReg4TfChip_ENCFF545MVF ENCSR442CIF prostate gland tissue male adult (54 years) POLR2AphosphoS5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF096PPW ENCSR441VHN signal GM12878 IKZF1 ENCSR441VHN signal Experimental 
wgEncodeReg4TfChip_ENCFF824TGK ENCSR441VHN GM12878 IKZF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF599CGU ENCSR441KFW signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens MXD4 MXD4 ENCSR441KFW signal Experimental 
wgEncodeReg4TfChip_ENCFF308ELA ENCSR441KFW HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens MXD4 MXD4 peaks Experimental 
wgEncodeReg4TfChip_ENCFF852FRV ENCSR440VKE signal K562 stably expressing ADNP ADNP ENCSR440VKE signal Experimental 
wgEncodeReg4TfChip_ENCFF492SKF ENCSR440VKE K562 stably expressing ADNP ADNP peaks Experimental 
wgEncodeReg4TfChip_ENCFF070ATS ENCSR440UPD signal WTC11 genetically modified (insertion) using CRISPR targeting H. sapiens EMX1 EMX1 ENCSR440UPD signal Experimental 
wgEncodeReg4TfChip_ENCFF692RZJ ENCSR440UPD WTC11 genetically modified (insertion) using CRISPR targeting H. sapiens EMX1 EMX1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF062SJC ENCSR440COG signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF239 ZNF239 ENCSR440COG signal Experimental 
wgEncodeReg4TfChip_ENCFF850XGU ENCSR440COG HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF239 ZNF239 peaks Experimental 
wgEncodeReg4TfChip_ENCFF188UFJ ENCSR439WAF signal GM12878 E4F1 ENCSR439WAF signal Experimental 
wgEncodeReg4TfChip_ENCFF007QKJ ENCSR439WAF GM12878 E4F1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF291YGU ENCSR439OCL signal K562 ZNF407 ENCSR439OCL signal Experimental 
wgEncodeReg4TfChip_ENCFF893ASX ENCSR439OCL K562 ZNF407 peaks Experimental 
wgEncodeReg4TfChip_ENCFF272TVG ENCSR438RRM signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens FOXM1 FOXM1 ENCSR438RRM signal Experimental 
wgEncodeReg4TfChip_ENCFF490XGT ENCSR438RRM K562 genetically modified (insertion) using CRISPR targeting H. sapiens FOXM1 FOXM1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF309YZY ENCSR437GBJ signal GM12878 NFATC3 ENCSR437GBJ signal Experimental 
wgEncodeReg4TfChip_ENCFF340KVJ ENCSR437GBJ GM12878 NFATC3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF077WIM ENCSR436PIH signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF483 ZNF483 ENCSR436PIH signal Experimental 
wgEncodeReg4TfChip_ENCFF464ZKH ENCSR436PIH HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF483 ZNF483 peaks Experimental 
wgEncodeReg4TfChip_ENCFF429AXS ENCSR435OQD signal MCF-7 ZFX ENCSR435OQD signal Experimental 
wgEncodeReg4TfChip_ENCFF009NAJ ENCSR435OQD MCF-7 ZFX peaks Experimental 
wgEncodeReg4TfChip_ENCFF665DQA ENCSR435ARI signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens FOXM1 FOXM1 ENCSR435ARI signal Experimental 
wgEncodeReg4TfChip_ENCFF570CKY ENCSR435ARI HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens FOXM1 FOXM1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF741KAL ENCSR434ZNS signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens WIZ WIZ ENCSR434ZNS signal Experimental 
wgEncodeReg4TfChip_ENCFF559CYZ ENCSR434ZNS HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens WIZ WIZ peaks Experimental 
wgEncodeReg4TfChip_ENCFF670BZH ENCSR434XLP signal tibial nerve tissue male adult (37 years) CTCF ENCSR434XLP signal Experimental 
wgEncodeReg4TfChip_ENCFF857SLT ENCSR434XLP tibial nerve tissue male adult (37 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF454HHU ENCSR432QMW signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF335 ZNF335 ENCSR432QMW signal Experimental 
wgEncodeReg4TfChip_ENCFF539IIQ ENCSR432QMW HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF335 ZNF335 peaks Experimental 
wgEncodeReg4TfChip_ENCFF693TUJ ENCSR432GAO signal thyroid gland tissue female adult (51 years) POLR2A ENCSR432GAO signal Experimental 
wgEncodeReg4TfChip_ENCFF979LRR ENCSR432GAO thyroid gland tissue female adult (51 years) POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF066QHQ ENCSR431XGJ signal K562 PYGO2 ENCSR431XGJ signal Experimental 
wgEncodeReg4TfChip_ENCFF414HHT ENCSR431XGJ K562 PYGO2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF312SND ENCSR431TLD signal MCF-7 SMARCE1 ENCSR431TLD signal Experimental 
wgEncodeReg4TfChip_ENCFF890MHF ENCSR431TLD MCF-7 SMARCE1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF949SGB ENCSR431LRW signal A549 JUNB ENCSR431LRW signal Experimental 
wgEncodeReg4TfChip_ENCFF251BPG ENCSR431LRW A549 JUNB peaks Experimental 
wgEncodeReg4TfChip_ENCFF711QFA ENCSR431FOF signal HepG2 CHD4 ENCSR431FOF signal Experimental 
wgEncodeReg4TfChip_ENCFF615GUT ENCSR431FOF HepG2 CHD4 peaks Experimental 
wgEncodeReg4TfChip_ENCFF611UNB ENCSR431EHE signal sigmoid colon tissue male adult (37 years) POLR2A ENCSR431EHE signal Experimental 
wgEncodeReg4TfChip_ENCFF661AMI ENCSR431EHE sigmoid colon tissue male adult (37 years) POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF650WNL ENCSR430YRJ signal KMS-11 CTCF ENCSR430YRJ signal Experimental 
wgEncodeReg4TfChip_ENCFF853JKX ENCSR430YRJ KMS-11 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF713AVR ENCSR430JGJ signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens THRB THRB ENCSR430JGJ signal Experimental 
wgEncodeReg4TfChip_ENCFF476INC ENCSR430JGJ HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens THRB THRB peaks Experimental 
wgEncodeReg4TfChip_ENCFF499TQE ENCSR429XTR signal K562 TARDBP ENCSR429XTR signal Experimental 
wgEncodeReg4TfChip_ENCFF059WCS ENCSR429XTR K562 TARDBP peaks Experimental 
wgEncodeReg4TfChip_ENCFF762JVU ENCSR429QPP signal K562 FOXM1 ENCSR429QPP signal Experimental 
wgEncodeReg4TfChip_ENCFF255RHV ENCSR429QPP K562 FOXM1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF540GPN ENCSR429JTR signal transverse colon tissue male adult (37 years) EP300 ENCSR429JTR signal Experimental 
wgEncodeReg4TfChip_ENCFF258CAS ENCSR429JTR transverse colon tissue male adult (37 years) EP300 peaks Experimental 
wgEncodeReg4TfChip_ENCFF599UAF ENCSR428LOB signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZZZ3 ZZZ3 ENCSR428LOB signal Experimental 
wgEncodeReg4TfChip_ENCFF784AAE ENCSR428LOB HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZZZ3 ZZZ3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF055HAN ENCSR428BKN signal gastrocnemius medialis tissue female adult (53 years) CTCF ENCSR428BKN signal Experimental 
wgEncodeReg4TfChip_ENCFF410RHW ENCSR428BKN gastrocnemius medialis tissue female adult (53 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF594FWL ENCSR427WZJ signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF143 ZNF143 ENCSR427WZJ signal Experimental 
wgEncodeReg4TfChip_ENCFF554TVF ENCSR427WZJ K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF143 ZNF143 peaks Experimental 
wgEncodeReg4TfChip_ENCFF405OYO ENCSR427BBI signal MCF-7 MLLT1 ENCSR427BBI signal Experimental 
wgEncodeReg4TfChip_ENCFF198JJP ENCSR427BBI MCF-7 MLLT1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF085LMT ENCSR426URK signal K562 AFF1 ENCSR426URK signal Experimental 
wgEncodeReg4TfChip_ENCFF583EEH ENCSR426URK K562 AFF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF786KED ENCSR426PTT signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens FOXO4 FOXO4 ENCSR426PTT signal Experimental 
wgEncodeReg4TfChip_ENCFF296NLF ENCSR426PTT K562 genetically modified (insertion) using CRISPR targeting H. sapiens FOXO4 FOXO4 peaks Experimental 
wgEncodeReg4TfChip_ENCFF313DTO ENCSR426MDV signal K562 MIER1 ENCSR426MDV signal Experimental 
wgEncodeReg4TfChip_ENCFF584AYC ENCSR426MDV K562 MIER1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF111MOL ENCSR423ZUM signal with mild cognitive impairment; middle frontal area 46 tissue female adult (90 or above years) CTCF ENCSR423ZUM signal Experimental 
wgEncodeReg4TfChip_ENCFF595WAL ENCSR423ZUM with mild cognitive impairment; middle frontal area 46 tissue female adult (90 or above years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF384CPN ENCSR423RTK signal MCF-7 GATA3 ENCSR423RTK signal Experimental 
wgEncodeReg4TfChip_ENCFF352QVM ENCSR423RTK MCF-7 GATA3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF065GAN ENCSR423MQG signal brain organoid male adult (53 years) CTCF ENCSR423MQG signal Experimental 
wgEncodeReg4TfChip_ENCFF099ASU ENCSR423MQG brain organoid male adult (53 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF449EAD ENCSR423FCW signal K562 RBM14 ENCSR423FCW signal Experimental 
wgEncodeReg4TfChip_ENCFF118FCO ENCSR423FCW K562 RBM14 peaks Experimental 
wgEncodeReg4TfChip_ENCFF746KEC ENCSR422ZAO signal SK-N-SH IRF3 ENCSR422ZAO signal Experimental 
wgEncodeReg4TfChip_ENCFF921DIM ENCSR422ZAO SK-N-SH IRF3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF535DQL ENCSR422VAG signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZSCAN29 ZSCAN29 ENCSR422VAG signal Experimental 
wgEncodeReg4TfChip_ENCFF212SBM ENCSR422VAG HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZSCAN29 ZSCAN29 peaks Experimental 
wgEncodeReg4TfChip_ENCFF563QFI ENCSR421DAO signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZBTB33 ZBTB33 ENCSR421DAO signal Experimental 
wgEncodeReg4TfChip_ENCFF778UKV ENCSR421DAO HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZBTB33 ZBTB33 peaks Experimental 
wgEncodeReg4TfChip_ENCFF984XAZ ENCSR419VVI signal A549 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF624 ZNF624 ENCSR419VVI signal Experimental 
wgEncodeReg4TfChip_ENCFF802OXN ENCSR419VVI A549 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF624 ZNF624 peaks Experimental 
wgEncodeReg4TfChip_ENCFF713BHQ ENCSR419ODQ signal MCF-7 ZNF507 ENCSR419ODQ signal Experimental 
wgEncodeReg4TfChip_ENCFF080XWY ENCSR419ODQ MCF-7 ZNF507 peaks Experimental 
wgEncodeReg4TfChip_ENCFF072IMY ENCSR419KSZ signal HepG2 NCOR1 ENCSR419KSZ signal Experimental 
wgEncodeReg4TfChip_ENCFF685NAH ENCSR419KSZ HepG2 NCOR1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF024ZVX ENCSR419CNA signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZC3H4 ZC3H4 ENCSR419CNA signal Experimental 
wgEncodeReg4TfChip_ENCFF343JOP ENCSR419CNA K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZC3H4 ZC3H4 peaks Experimental 
wgEncodeReg4TfChip_ENCFF758HAD ENCSR419ANE signal Peyer's patch tissue male adult (37 years) CTCF ENCSR419ANE signal Experimental 
wgEncodeReg4TfChip_ENCFF701KWW ENCSR419ANE Peyer's patch tissue male adult (37 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF424JXD ENCSR418RRF signal H1 KDM1A ENCSR418RRF signal Experimental 
wgEncodeReg4TfChip_ENCFF696SGD ENCSR418RRF H1 KDM1A peaks Experimental 
wgEncodeReg4TfChip_ENCFF892LEJ ENCSR418MKG signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF692 ZNF692 ENCSR418MKG signal Experimental 
wgEncodeReg4TfChip_ENCFF040AZE ENCSR418MKG HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF692 ZNF692 peaks Experimental 
wgEncodeReg4TfChip_ENCFF933MVK ENCSR417VWF signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZEB2 ZEB2 ENCSR417VWF signal Experimental 
wgEncodeReg4TfChip_ENCFF847JIE ENCSR417VWF HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZEB2 ZEB2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF456OBL ENCSR417EWD signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens FUBP3 FUBP3 ENCSR417EWD signal Experimental 
wgEncodeReg4TfChip_ENCFF281RQN ENCSR417EWD HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens FUBP3 FUBP3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF751PZT ENCSR416QLJ signal K562 stably expressing CEBPB CEBPB ENCSR416QLJ signal Experimental 
wgEncodeReg4TfChip_ENCFF584CTB ENCSR416QLJ K562 stably expressing CEBPB CEBPB peaks Experimental 
wgEncodeReg4TfChip_ENCFF006APV ENCSR416HDG signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens RXRA RXRA ENCSR416HDG signal Experimental 
wgEncodeReg4TfChip_ENCFF763IEA ENCSR416HDG HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens RXRA RXRA peaks Experimental 
wgEncodeReg4TfChip_ENCFF758RLK ENCSR415TXN signal K562 NONO ENCSR415TXN signal Experimental 
wgEncodeReg4TfChip_ENCFF782TAA ENCSR415TXN K562 NONO peaks Experimental 
wgEncodeReg4TfChip_ENCFF376WFQ ENCSR415NNQ signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens THAP12 THAP12 ENCSR415NNQ signal Experimental 
wgEncodeReg4TfChip_ENCFF453OQF ENCSR415NNQ K562 genetically modified (insertion) using CRISPR targeting H. sapiens THAP12 THAP12 peaks Experimental 
wgEncodeReg4TfChip_ENCFF263FLJ ENCSR415MOW signal right lobe of liver tissue female adult (53 years) POLR2A ENCSR415MOW signal Experimental 
wgEncodeReg4TfChip_ENCFF026NCK ENCSR415MOW right lobe of liver tissue female adult (53 years) POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF377BFH ENCSR415AEB signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF48 ZNF48 ENCSR415AEB signal Experimental 
wgEncodeReg4TfChip_ENCFF362CDQ ENCSR415AEB HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF48 ZNF48 peaks Experimental 
wgEncodeReg4TfChip_ENCFF654QOE ENCSR414TYY signal K562 RUNX1 ENCSR414TYY signal Experimental 
wgEncodeReg4TfChip_ENCFF738EUI ENCSR414TYY K562 RUNX1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF465WJS ENCSR414TPL signal gastroesophageal sphincter tissue male adult (37 years) POLR2A ENCSR414TPL signal Experimental 
wgEncodeReg4TfChip_ENCFF043KAM ENCSR414TPL gastroesophageal sphincter tissue male adult (37 years) POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF912MTT ENCSR414SWG signal gastrocnemius medialis tissue female adult (51 years) POLR2A ENCSR414SWG signal Experimental 
wgEncodeReg4TfChip_ENCFF145VIB ENCSR414SWG gastrocnemius medialis tissue female adult (51 years) POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF124JPD ENCSR413CVQ signal WTC11 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF423 ZNF423 ENCSR413CVQ signal Experimental 
wgEncodeReg4TfChip_ENCFF574PBR ENCSR413CVQ WTC11 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF423 ZNF423 peaks Experimental 
wgEncodeReg4TfChip_ENCFF871HCD ENCSR413AJG signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens FOXJ3 FOXJ3 ENCSR413AJG signal Experimental 
wgEncodeReg4TfChip_ENCFF430OSX ENCSR413AJG HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens FOXJ3 FOXJ3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF808SMN ENCSR412ZDC signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens AHR AHR ENCSR412ZDC signal Experimental 
wgEncodeReg4TfChip_ENCFF889AMU ENCSR412ZDC HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens AHR AHR peaks Experimental 
wgEncodeReg4TfChip_ENCFF843PHT ENCSR412YGM signal GM12878 ZSCAN29 ENCSR412YGM signal Experimental 
wgEncodeReg4TfChip_ENCFF983OKU ENCSR412YGM GM12878 ZSCAN29 peaks Experimental 
wgEncodeReg4TfChip_ENCFF498VGK ENCSR412QGD signal adrenal gland tissue female adult (51 years) POLR2A ENCSR412QGD signal Experimental 
wgEncodeReg4TfChip_ENCFF843OBJ ENCSR412QGD adrenal gland tissue female adult (51 years) POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF531XDV ENCSR412QBS signal GM12878 TARDBP ENCSR412QBS signal Experimental 
wgEncodeReg4TfChip_ENCFF866POT ENCSR412QBS GM12878 TARDBP peaks Experimental 
wgEncodeReg4TfChip_ENCFF219FGQ ENCSR412CTM signal K562 SUZ12 ENCSR412CTM signal Experimental 
wgEncodeReg4TfChip_ENCFF944TWT ENCSR412CTM K562 SUZ12 peaks Experimental 
wgEncodeReg4TfChip_ENCFF687OPZ ENCSR411UYA signal K562 MTA2 ENCSR411UYA signal Experimental 
wgEncodeReg4TfChip_ENCFF441KCP ENCSR411UYA K562 MTA2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF225OTG ENCSR410FEH signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens TBX2 TBX2 ENCSR410FEH signal Experimental 
wgEncodeReg4TfChip_ENCFF811TLA ENCSR410FEH HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens TBX2 TBX2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF892HGA ENCSR410DWC signal K562 stably expressing PYGO2 PYGO2 ENCSR410DWC signal Experimental 
wgEncodeReg4TfChip_ENCFF458IIA ENCSR410DWC K562 stably expressing PYGO2 PYGO2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF323OOF ENCSR409PMR signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZBED4 ZBED4 ENCSR409PMR signal Experimental 
wgEncodeReg4TfChip_ENCFF157CDZ ENCSR409PMR HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZBED4 ZBED4 peaks Experimental 
wgEncodeReg4TfChip_ENCFF846NEP ENCSR408ZEE signal adrenal gland tissue female adult (51 years) CTCF ENCSR408ZEE signal Experimental 
wgEncodeReg4TfChip_ENCFF723HUU ENCSR408ZEE adrenal gland tissue female adult (51 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF893BCC ENCSR408XTO signal body of pancreas tissue female adult (51 years) CTCF ENCSR408XTO signal Experimental 
wgEncodeReg4TfChip_ENCFF875SAZ ENCSR408XTO body of pancreas tissue female adult (51 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF355PER ENCSR408JQO signal GM12878 IRF3 ENCSR408JQO signal Experimental 
wgEncodeReg4TfChip_ENCFF475ZIG ENCSR408JQO GM12878 IRF3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF594WXP ENCSR407BPU signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF609 ZNF609 ENCSR407BPU signal Experimental 
wgEncodeReg4TfChip_ENCFF900FRP ENCSR407BPU HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF609 ZNF609 peaks Experimental 
wgEncodeReg4TfChip_ENCFF931PNP ENCSR407BEZ signal HepG2 ZHX2 ENCSR407BEZ signal Experimental 
wgEncodeReg4TfChip_ENCFF878CNQ ENCSR407BEZ HepG2 ZHX2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF678MXF ENCSR404VWY signal prostate gland tissue male adult (37 years) POLR2AphosphoS5 ENCSR404VWY signal Experimental 
wgEncodeReg4TfChip_ENCFF881OMH ENCSR404VWY prostate gland tissue male adult (37 years) POLR2AphosphoS5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF536OEA ENCSR404BPV signal neural cell originated from H1 SMC3 ENCSR404BPV signal Experimental 
wgEncodeReg4TfChip_ENCFF795YGY ENCSR404BPV neural cell originated from H1 SMC3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF686LQI ENCSR403USE signal sigmoid colon tissue female adult (53 years) POLR2AphosphoS5 ENCSR403USE signal Experimental 
wgEncodeReg4TfChip_ENCFF101ILL ENCSR403USE sigmoid colon tissue female adult (53 years) POLR2AphosphoS5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF183LVZ ENCSR403MJY signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF281 ZNF281 ENCSR403MJY signal Experimental 
wgEncodeReg4TfChip_ENCFF585QNU ENCSR403MJY HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF281 ZNF281 peaks Experimental 
wgEncodeReg4TfChip_ENCFF795MFC ENCSR402ZCY signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ATF3 ATF3 ENCSR402ZCY signal Experimental 
wgEncodeReg4TfChip_ENCFF832LTU ENCSR402ZCY HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ATF3 ATF3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF933MBF ENCSR402XII signal K562 CSDE1 ENCSR402XII signal Experimental 
wgEncodeReg4TfChip_ENCFF313FYC ENCSR402XII K562 CSDE1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF560VTI ENCSR402OYZ signal A549 genetically modified (insertion) using CRISPR targeting H. sapiens HOXA7 HOXA7 ENCSR402OYZ signal Experimental 
wgEncodeReg4TfChip_ENCFF746ZBJ ENCSR402OYZ A549 genetically modified (insertion) using CRISPR targeting H. sapiens HOXA7 HOXA7 peaks Experimental 
wgEncodeReg4TfChip_ENCFF901XZY ENCSR402JAC signal MCF-7 ZNF574 ENCSR402JAC signal Experimental 
wgEncodeReg4TfChip_ENCFF293CGZ ENCSR402JAC MCF-7 ZNF574 peaks Experimental 
wgEncodeReg4TfChip_ENCFF838OJW ENCSR402IDP signal MM.1S CTCF ENCSR402IDP signal Experimental 
wgEncodeReg4TfChip_ENCFF869JMQ ENCSR402IDP MM.1S CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF938CPV ENCSR401VBM signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZHX2 ZHX2 ENCSR401VBM signal Experimental 
wgEncodeReg4TfChip_ENCFF614TEV ENCSR401VBM HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZHX2 ZHX2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF455WXA ENCSR401ORC signal vagina tissue female adult (53 years) POLR2A ENCSR401ORC signal Experimental 
wgEncodeReg4TfChip_ENCFF216BYP ENCSR401ORC vagina tissue female adult (53 years) POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF760IZU ENCSR401KRN signal right atrium auricular region tissue female adult (53 years) CTCF ENCSR401KRN signal Experimental 
wgEncodeReg4TfChip_ENCFF471FFM ENCSR401KRN right atrium auricular region tissue female adult (53 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF854QDY ENCSR400WEK signal breast epithelium tissue female adult (51 years) POLR2AphosphoS5 ENCSR400WEK signal Experimental 
wgEncodeReg4TfChip_ENCFF045XXN ENCSR400WEK breast epithelium tissue female adult (51 years) POLR2AphosphoS5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF562QLV ENCSR400JHG signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF703 ZNF703 ENCSR400JHG signal Experimental 
wgEncodeReg4TfChip_ENCFF597PHF ENCSR400JHG HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF703 ZNF703 peaks Experimental 
wgEncodeReg4TfChip_ENCFF828GWR ENCSR400FSM signal K562 stably expressing POLR2H POLR2H ENCSR400FSM signal Experimental 
wgEncodeReg4TfChip_ENCFF377NHG ENCSR400FSM K562 stably expressing POLR2H POLR2H peaks Experimental 
wgEncodeReg4TfChip_ENCFF731GRK ENCSR398TMP signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens MYNN MYNN ENCSR398TMP signal Experimental 
wgEncodeReg4TfChip_ENCFF076KPB ENCSR398TMP HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens MYNN MYNN peaks Experimental 
wgEncodeReg4TfChip_ENCFF976GAM ENCSR398RET signal endodermal cell CTCF ENCSR398RET signal Experimental 
wgEncodeReg4TfChip_ENCFF471YCZ ENCSR398RET endodermal cell CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF277FMH ENCSR397DQC signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens KLF16 KLF16 ENCSR397DQC signal Experimental 
wgEncodeReg4TfChip_ENCFF558HSJ ENCSR397DQC HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens KLF16 KLF16 peaks Experimental 
wgEncodeReg4TfChip_ENCFF369FAQ ENCSR396XDF signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZBTB24 ZBTB24 ENCSR396XDF signal Experimental 
wgEncodeReg4TfChip_ENCFF390FEL ENCSR396XDF HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZBTB24 ZBTB24 peaks Experimental 
wgEncodeReg4TfChip_ENCFF761GWE ENCSR396SOH signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF792 ZNF792 ENCSR396SOH signal Experimental 
wgEncodeReg4TfChip_ENCFF825WPU ENCSR396SOH HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF792 ZNF792 peaks Experimental 
wgEncodeReg4TfChip_ENCFF977UIV ENCSR396QWK signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens MBD1 MBD1 ENCSR396QWK signal Experimental 
wgEncodeReg4TfChip_ENCFF348VDD ENCSR396QWK HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens MBD1 MBD1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF944FDJ ENCSR395MHA signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens BRD4 BRD4 ENCSR395MHA signal Experimental 
wgEncodeReg4TfChip_ENCFF607HXA ENCSR395MHA HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens BRD4 BRD4 peaks Experimental 
wgEncodeReg4TfChip_ENCFF053QLR ENCSR395HWC signal K562 IKZF1 ENCSR395HWC signal Experimental 
wgEncodeReg4TfChip_ENCFF348IBL ENCSR395HWC K562 IKZF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF685VPJ ENCSR392SFJ signal uterus tissue female adult (53 years) CTCF ENCSR392SFJ signal Experimental 
wgEncodeReg4TfChip_ENCFF826JTX ENCSR392SFJ uterus tissue female adult (53 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF715AGA ENCSR391ZKN signal Peyer's patch tissue female adult (51 years) CTCF ENCSR391ZKN signal Experimental 
wgEncodeReg4TfChip_ENCFF849HUG ENCSR391ZKN Peyer's patch tissue female adult (51 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF020TLN ENCSR391KQC signal MCF-7 MTA3 ENCSR391KQC signal Experimental 
wgEncodeReg4TfChip_ENCFF355KAI ENCSR391KQC MCF-7 MTA3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF422YPM ENCSR391JII signal MCF-7 RCOR1 ENCSR391JII signal Experimental 
wgEncodeReg4TfChip_ENCFF833PNP ENCSR391JII MCF-7 RCOR1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF611RGV ENCSR390VGH signal K562 MNT ENCSR390VGH signal Experimental 
wgEncodeReg4TfChip_ENCFF820IGH ENCSR390VGH K562 MNT peaks Experimental 
wgEncodeReg4TfChip_ENCFF808GHX ENCSR389PWB signal K562 ZBTB5 ENCSR389PWB signal Experimental 
wgEncodeReg4TfChip_ENCFF683TPZ ENCSR389PWB K562 ZBTB5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF334LHK ENCSR388ZRV signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF311 ZNF311 ENCSR388ZRV signal Experimental 
wgEncodeReg4TfChip_ENCFF986QSP ENCSR388ZRV K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF311 ZNF311 peaks Experimental 
wgEncodeReg4TfChip_ENCFF806LCJ ENCSR388QZF signal K562 POLR2A ENCSR388QZF signal Experimental 
wgEncodeReg4TfChip_ENCFF215CWW ENCSR388QZF K562 POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF633KJU ENCSR387UWP signal K562 HDAC1 ENCSR387UWP signal Experimental 
wgEncodeReg4TfChip_ENCFF968WBH ENCSR387UWP K562 HDAC1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF247SAZ ENCSR387TUH signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens EEA1 EEA1 ENCSR387TUH signal Experimental 
wgEncodeReg4TfChip_ENCFF958VUU ENCSR387TUH HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens EEA1 EEA1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF981JSV ENCSR387SYS signal K562 DEAF1 ENCSR387SYS signal Experimental 
wgEncodeReg4TfChip_ENCFF251RVO ENCSR387SYS K562 DEAF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF099LLQ ENCSR387QUV signal GM12878 RELB ENCSR387QUV signal Experimental 
wgEncodeReg4TfChip_ENCFF217ADF ENCSR387QUV GM12878 RELB peaks Experimental 
wgEncodeReg4TfChip_ENCFF911YHV ENCSR387JKT signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens KDM3A KDM3A ENCSR387JKT signal Experimental 
wgEncodeReg4TfChip_ENCFF077DXQ ENCSR387JKT HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens KDM3A KDM3A peaks Experimental 
wgEncodeReg4TfChip_ENCFF643MLR ENCSR387BVC signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens DDIT3 DDIT3 ENCSR387BVC signal Experimental 
wgEncodeReg4TfChip_ENCFF341NJI ENCSR387BVC K562 genetically modified (insertion) using CRISPR targeting H. sapiens DDIT3 DDIT3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF320GQX ENCSR386YIH signal liver tissue female child (4 years) SP1 ENCSR386YIH signal Experimental 
wgEncodeReg4TfChip_ENCFF769YSM ENCSR386YIH liver tissue female child (4 years) SP1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF961AWI ENCSR386UBO signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ARID4A ARID4A ENCSR386UBO signal Experimental 
wgEncodeReg4TfChip_ENCFF142DIE ENCSR386UBO HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ARID4A ARID4A peaks Experimental 
wgEncodeReg4TfChip_ENCFF987SVV ENCSR385IUC signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens TBX18 TBX18 ENCSR385IUC signal Experimental 
wgEncodeReg4TfChip_ENCFF473CJK ENCSR385IUC K562 genetically modified (insertion) using CRISPR targeting H. sapiens TBX18 TBX18 peaks Experimental 
wgEncodeReg4TfChip_ENCFF578KUT ENCSR385AHH signal K562 ZNF24 ENCSR385AHH signal Experimental 
wgEncodeReg4TfChip_ENCFF781QQQ ENCSR385AHH K562 ZNF24 peaks Experimental 
wgEncodeReg4TfChip_ENCFF730RWY ENCSR384SQB signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF25 ZNF25 ENCSR384SQB signal Experimental 
wgEncodeReg4TfChip_ENCFF254ILB ENCSR384SQB HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF25 ZNF25 peaks Experimental 
wgEncodeReg4TfChip_ENCFF731WMD ENCSR384LYW signal hepatocyte originated from H9 EZH2 ENCSR384LYW signal Experimental 
wgEncodeReg4TfChip_ENCFF552DZB ENCSR384LYW hepatocyte originated from H9 EZH2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF695ZSP ENCSR382XLA signal HepG2 ZFP36 ENCSR382XLA signal Experimental 
wgEncodeReg4TfChip_ENCFF486SQU ENCSR382XLA HepG2 ZFP36 peaks Experimental 
wgEncodeReg4TfChip_ENCFF123KER ENCSR382WLL signal MCF-7 ELK1 ENCSR382WLL signal Experimental 
wgEncodeReg4TfChip_ENCFF013WSV ENCSR382WLL MCF-7 ELK1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF890BML ENCSR382PVA signal HepG2 GTF2F1 ENCSR382PVA signal Experimental 
wgEncodeReg4TfChip_ENCFF918PMU ENCSR382PVA HepG2 GTF2F1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF449HXE ENCSR382MOM signal with nonobstructive coronary artery disease; liver tissue male adult (32 years) YY1 ENCSR382MOM signal Experimental 
wgEncodeReg4TfChip_ENCFF400MBC ENCSR382MOM with nonobstructive coronary artery disease; liver tissue male adult (32 years) YY1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF319PGX ENCSR382GSF signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens INSM2 INSM2 ENCSR382GSF signal Experimental 
wgEncodeReg4TfChip_ENCFF008ZWC ENCSR382GSF HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens INSM2 INSM2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF452QDE ENCSR382AIB signal K562 stably expressing DDX20 DDX20 ENCSR382AIB signal Experimental 
wgEncodeReg4TfChip_ENCFF373BEC ENCSR382AIB K562 stably expressing DDX20 DDX20 peaks Experimental 
wgEncodeReg4TfChip_ENCFF391GVN ENCSR381VYR signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZFP69B ZFP69B ENCSR381VYR signal Experimental 
wgEncodeReg4TfChip_ENCFF942LFP ENCSR381VYR HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZFP69B ZFP69B peaks Experimental 
wgEncodeReg4TfChip_ENCFF546ZNQ ENCSR380WJL signal colonic mucosa tissue female adult (41 years) CTCF ENCSR380WJL signal Experimental 
wgEncodeReg4TfChip_ENCFF319RUN ENCSR380WJL colonic mucosa tissue female adult (41 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF394BNS ENCSR378KET signal middle frontal area 46 tissue male adult (83 years) CTCF ENCSR378KET signal Experimental 
wgEncodeReg4TfChip_ENCFF041CKA ENCSR378KET middle frontal area 46 tissue male adult (83 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF888DOQ ENCSR378BVM signal with mild cognitive impairment; middle frontal area 46 tissue female adult (87 years) CTCF ENCSR378BVM signal Experimental 
wgEncodeReg4TfChip_ENCFF696ASB ENCSR378BVM with mild cognitive impairment; middle frontal area 46 tissue female adult (87 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF436CSN ENCSR377BLZ signal K562 GTF2F1 ENCSR377BLZ signal Experimental 
wgEncodeReg4TfChip_ENCFF940JZP ENCSR377BLZ K562 GTF2F1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF295IHA ENCSR376XAV signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens SMAD3 SMAD3 ENCSR376XAV signal Experimental 
wgEncodeReg4TfChip_ENCFF885DQE ENCSR376XAV K562 genetically modified (insertion) using CRISPR targeting H. sapiens SMAD3 SMAD3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF102RGH ENCSR376WCJ signal K562 IRF2 ENCSR376WCJ signal Experimental 
wgEncodeReg4TfChip_ENCFF248LJZ ENCSR376WCJ K562 IRF2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF018GMI ENCSR376UMR signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF84 ZNF84 ENCSR376UMR signal Experimental 
wgEncodeReg4TfChip_ENCFF365MNT ENCSR376UMR K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF84 ZNF84 peaks Experimental 
wgEncodeReg4TfChip_ENCFF094FEC ENCSR376RCX signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens GMEB1 GMEB1 ENCSR376RCX signal Experimental 
wgEncodeReg4TfChip_ENCFF679VBB ENCSR376RCX K562 genetically modified (insertion) using CRISPR targeting H. sapiens GMEB1 GMEB1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF388YHU ENCSR376FMN signal HepG2 EHMT2 ENCSR376FMN signal Experimental 
wgEncodeReg4TfChip_ENCFF004KYI ENCSR376FMN HepG2 EHMT2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF430LIA ENCSR376EOW signal heart right ventricle tissue male adult (66 years) CTCF ENCSR376EOW signal Experimental 
wgEncodeReg4TfChip_ENCFF725NNJ ENCSR376EOW heart right ventricle tissue male adult (66 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF945PHV ENCSR375VXU signal Peyer's patch tissue female adult (53 years) CTCF ENCSR375VXU signal Experimental 
wgEncodeReg4TfChip_ENCFF746TCR ENCSR375VXU Peyer's patch tissue female adult (53 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF280OBE ENCSR374PKX signal middle frontal area 46 tissue male adult (83 years) CTCF ENCSR374PKX signal Experimental 
wgEncodeReg4TfChip_ENCFF046GNG ENCSR374PKX middle frontal area 46 tissue male adult (83 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF379YZX ENCSR374MAS signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens PITX1 PITX1 ENCSR374MAS signal Experimental 
wgEncodeReg4TfChip_ENCFF468QTQ ENCSR374MAS HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens PITX1 PITX1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF869RJH ENCSR372JXR signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF511 ZNF511 ENCSR372JXR signal Experimental 
wgEncodeReg4TfChip_ENCFF579NKA ENCSR372JXR HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF511 ZNF511 peaks Experimental 
wgEncodeReg4TfChip_ENCFF816YAI ENCSR372JWF signal middle frontal area 46 tissue male adult (71 years) CTCF ENCSR372JWF signal Experimental 
wgEncodeReg4TfChip_ENCFF245PVD ENCSR372JWF middle frontal area 46 tissue male adult (71 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF771TRB ENCSR372GIN signal GM12878 CBX5 ENCSR372GIN signal Experimental 
wgEncodeReg4TfChip_ENCFF542UDC ENCSR372GIN GM12878 CBX5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF242FVI ENCSR370NFS signal K562 ZNF280A ENCSR370NFS signal Experimental 
wgEncodeReg4TfChip_ENCFF706EWX ENCSR370NFS K562 ZNF280A peaks Experimental 
wgEncodeReg4TfChip_ENCFF832YNR ENCSR369YUK signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens FOXP1 FOXP1 ENCSR369YUK signal Experimental 
wgEncodeReg4TfChip_ENCFF823ERM ENCSR369YUK HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens FOXP1 FOXP1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF525OOB ENCSR369TCR signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF331 ZNF331 ENCSR369TCR signal Experimental 
wgEncodeReg4TfChip_ENCFF842SZN ENCSR369TCR HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF331 ZNF331 peaks Experimental 
wgEncodeReg4TfChip_ENCFF326PAG ENCSR369RRE signal with Alzheimer's disease; middle frontal area 46 tissue female adult (74 years) CTCF ENCSR369RRE signal Experimental 
wgEncodeReg4TfChip_ENCFF433UFM ENCSR369RRE with Alzheimer's disease; middle frontal area 46 tissue female adult (74 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF779AEM ENCSR369NGL signal GM23338 originated from GM23248 POLR2AphosphoS5 ENCSR369NGL signal Experimental 
wgEncodeReg4TfChip_ENCFF450WCS ENCSR369NGL GM23338 originated from GM23248 POLR2AphosphoS5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF665PFN ENCSR367UUC signal gastroesophageal sphincter tissue female adult (51 years) POLR2A ENCSR367UUC signal Experimental 
wgEncodeReg4TfChip_ENCFF826EZZ ENCSR367UUC gastroesophageal sphincter tissue female adult (51 years) POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF837TKI ENCSR367KYL signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZHX3 ZHX3 ENCSR367KYL signal Experimental 
wgEncodeReg4TfChip_ENCFF631YWI ENCSR367KYL HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZHX3 ZHX3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF801DHQ ENCSR365YCX signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens RNF219 RNF219 ENCSR365YCX signal Experimental 
wgEncodeReg4TfChip_ENCFF710YJO ENCSR365YCX HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens RNF219 RNF219 peaks Experimental 
wgEncodeReg4TfChip_ENCFF562PMZ ENCSR365GRX signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZFP37 ZFP37 ENCSR365GRX signal Experimental 
wgEncodeReg4TfChip_ENCFF968PWB ENCSR365GRX HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZFP37 ZFP37 peaks Experimental 
wgEncodeReg4TfChip_ENCFF195BNN ENCSR363XHT signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens HES4 HES4 ENCSR363XHT signal Experimental 
wgEncodeReg4TfChip_ENCFF200ZII ENCSR363XHT HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens HES4 HES4 peaks Experimental 
wgEncodeReg4TfChip_ENCFF158QII ENCSR363XBR signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF488 ZNF488 ENCSR363XBR signal Experimental 
wgEncodeReg4TfChip_ENCFF780TIG ENCSR363XBR HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF488 ZNF488 peaks Experimental 
wgEncodeReg4TfChip_ENCFF118BGF ENCSR363ASY signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF629 ZNF629 ENCSR363ASY signal Experimental 
wgEncodeReg4TfChip_ENCFF490FFQ ENCSR363ASY HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF629 ZNF629 peaks Experimental 
wgEncodeReg4TfChip_ENCFF768CSJ ENCSR362NWP signal HepG2 ZNF24 ENCSR362NWP signal Experimental 
wgEncodeReg4TfChip_ENCFF086UMQ ENCSR362NWP HepG2 ZNF24 peaks Experimental 
wgEncodeReg4TfChip_ENCFF750JYD ENCSR362CPB signal HepG2 HDAC1 ENCSR362CPB signal Experimental 
wgEncodeReg4TfChip_ENCFF750ZWM ENCSR362CPB HepG2 HDAC1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF919OEF ENCSR361KVZ signal stomach tissue female adult (51 years) CTCF ENCSR361KVZ signal Experimental 
wgEncodeReg4TfChip_ENCFF767CVC ENCSR361KVZ stomach tissue female adult (51 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF838MOX ENCSR360JOC signal MCF-7 CHD1 ENCSR360JOC signal Experimental 
wgEncodeReg4TfChip_ENCFF937PTG ENCSR360JOC MCF-7 CHD1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF557GFQ ENCSR360HRA signal K562 KDM1A ENCSR360HRA signal Experimental 
wgEncodeReg4TfChip_ENCFF133OLU ENCSR360HRA K562 KDM1A peaks Experimental 
wgEncodeReg4TfChip_ENCFF013TEG ENCSR360BLQ signal esophagus muscularis mucosa tissue male adult (37 years) EP300 ENCSR360BLQ signal Experimental 
wgEncodeReg4TfChip_ENCFF406RGZ ENCSR360BLQ esophagus muscularis mucosa tissue male adult (37 years) EP300 peaks Experimental 
wgEncodeReg4TfChip_ENCFF391RIX ENCSR359TWG signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens HOXD1 HOXD1 ENCSR359TWG signal Experimental 
wgEncodeReg4TfChip_ENCFF462DCD ENCSR359TWG HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens HOXD1 HOXD1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF594UNZ ENCSR359NFW signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens USF2 USF2 ENCSR359NFW signal Experimental 
wgEncodeReg4TfChip_ENCFF306QPU ENCSR359NFW K562 genetically modified (insertion) using CRISPR targeting H. sapiens USF2 USF2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF756ESH ENCSR359LOD signal PC-3 CTCF ENCSR359LOD signal Experimental 
wgEncodeReg4TfChip_ENCFF487TUI ENCSR359LOD PC-3 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF765AQE ENCSR357YPP signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF124 ZNF124 ENCSR357YPP signal Experimental 
wgEncodeReg4TfChip_ENCFF764EFJ ENCSR357YPP HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF124 ZNF124 peaks Experimental 
wgEncodeReg4TfChip_ENCFF257GZJ ENCSR357QJR signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZSCAN5A ZSCAN5A ENCSR357QJR signal Experimental 
wgEncodeReg4TfChip_ENCFF610EME ENCSR357QJR HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZSCAN5A ZSCAN5A peaks Experimental 
wgEncodeReg4TfChip_ENCFF632OSR ENCSR356ECR signal HepG2 RBM22 ENCSR356ECR signal Experimental 
wgEncodeReg4TfChip_ENCFF561IAJ ENCSR356ECR HepG2 RBM22 peaks Experimental 
wgEncodeReg4TfChip_ENCFF843XSG ENCSR355PMV signal heart left ventricle tissue male adult (40 years) CTCF ENCSR355PMV signal Experimental 
wgEncodeReg4TfChip_ENCFF505HGD ENCSR355PMV heart left ventricle tissue male adult (40 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF643VTS ENCSR355ALW signal gastrocnemius medialis tissue female adult (51 years) CTCF ENCSR355ALW signal Experimental 
wgEncodeReg4TfChip_ENCFF452YOY ENCSR355ALW gastrocnemius medialis tissue female adult (51 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF639TFO ENCSR354FPG signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens STAT5B STAT5B ENCSR354FPG signal Experimental 
wgEncodeReg4TfChip_ENCFF116OUV ENCSR354FPG HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens STAT5B STAT5B peaks Experimental 
wgEncodeReg4TfChip_ENCFF719FMY ENCSR353HEP signal K562 TARDBP ENCSR353HEP signal Experimental 
wgEncodeReg4TfChip_ENCFF623QJS ENCSR353HEP K562 TARDBP peaks Experimental 
wgEncodeReg4TfChip_ENCFF398DDY ENCSR353DFU signal esophagus muscularis mucosa tissue female adult (51 years) CTCF ENCSR353DFU signal Experimental 
wgEncodeReg4TfChip_ENCFF544GAS ENCSR353DFU esophagus muscularis mucosa tissue female adult (51 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF859ZKV ENCSR352QSB signal liver tissue female child (4 years) RXRA ENCSR352QSB signal Experimental 
wgEncodeReg4TfChip_ENCFF077DAP ENCSR352QSB liver tissue female child (4 years) RXRA peaks Experimental 
wgEncodeReg4TfChip_ENCFF868RTI ENCSR352BJL signal K562 ZNF318 ENCSR352BJL signal Experimental 
wgEncodeReg4TfChip_ENCFF592QGS ENCSR352BJL K562 ZNF318 peaks Experimental 
wgEncodeReg4TfChip_ENCFF924IJQ ENCSR351SWL signal middle frontal area 46 tissue female adult (79 years) CTCF ENCSR351SWL signal Experimental 
wgEncodeReg4TfChip_ENCFF394MUG ENCSR351SWL middle frontal area 46 tissue female adult (79 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF671NEU ENCSR351NON signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF629 ZNF629 ENCSR351NON signal Experimental 
wgEncodeReg4TfChip_ENCFF096ELQ ENCSR351NON HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF629 ZNF629 peaks Experimental 
wgEncodeReg4TfChip_ENCFF690SBF ENCSR350XWY signal K562 C11orf30 ENCSR350XWY signal Experimental 
wgEncodeReg4TfChip_ENCFF511ZZZ ENCSR350XWY K562 C11orf30 peaks Experimental 
wgEncodeReg4TfChip_ENCFF525GJZ ENCSR350PUV signal spleen tissue female adult (51 years) POLR2AphosphoS5 ENCSR350PUV signal Experimental 
wgEncodeReg4TfChip_ENCFF446ZGT ENCSR350PUV spleen tissue female adult (51 years) POLR2AphosphoS5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF589SES ENCSR350ORK signal liver tissue female child (4 years) GABPA ENCSR350ORK signal Experimental 
wgEncodeReg4TfChip_ENCFF027VSJ ENCSR350ORK liver tissue female child (4 years) GABPA peaks Experimental 
wgEncodeReg4TfChip_ENCFF797NQV ENCSR350NBQ signal heart left ventricle tissue male adult (54 years) CTCF ENCSR350NBQ signal Experimental 
wgEncodeReg4TfChip_ENCFF244ZHV ENCSR350NBQ heart left ventricle tissue male adult (54 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF323ZHL ENCSR349TZO signal K562 NCOA2 ENCSR349TZO signal Experimental 
wgEncodeReg4TfChip_ENCFF365JLH ENCSR349TZO K562 NCOA2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF857OAI ENCSR348JOJ signal MCF-7 MTA1 ENCSR348JOJ signal Experimental 
wgEncodeReg4TfChip_ENCFF365KTT ENCSR348JOJ MCF-7 MTA1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF818NCB ENCSR348AGV signal HEK293 SETDB1 ENCSR348AGV signal Experimental 
wgEncodeReg4TfChip_ENCFF676PLV ENCSR348AGV HEK293 SETDB1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF805VXG ENCSR347PUQ signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZXDC ZXDC ENCSR347PUQ signal Experimental 
wgEncodeReg4TfChip_ENCFF164JES ENCSR347PUQ HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZXDC ZXDC peaks Experimental 
wgEncodeReg4TfChip_ENCFF420SKF ENCSR347NOB signal GM12878 CEBPZ ENCSR347NOB signal Experimental 
wgEncodeReg4TfChip_ENCFF932XBQ ENCSR347NOB GM12878 CEBPZ peaks Experimental 
wgEncodeReg4TfChip_ENCFF983GHV ENCSR347HAM signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF221 ZNF221 ENCSR347HAM signal Experimental 
wgEncodeReg4TfChip_ENCFF374BUN ENCSR347HAM HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF221 ZNF221 peaks Experimental 
wgEncodeReg4TfChip_ENCFF798KNW ENCSR346BOD signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens TCF7L2 TCF7L2 ENCSR346BOD signal Experimental 
wgEncodeReg4TfChip_ENCFF510OLG ENCSR346BOD HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens TCF7L2 TCF7L2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF204GJZ ENCSR345YWJ signal liver tissue female child (4 years) ZBTB33 ENCSR345YWJ signal Experimental 
wgEncodeReg4TfChip_ENCFF542CIC ENCSR345YWJ liver tissue female child (4 years) ZBTB33 peaks Experimental 
wgEncodeReg4TfChip_ENCFF051SNX ENCSR344SBD signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF596 ZNF596 ENCSR344SBD signal Experimental 
wgEncodeReg4TfChip_ENCFF854MGB ENCSR344SBD HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF596 ZNF596 peaks Experimental 
wgEncodeReg4TfChip_ENCFF133FPU ENCSR343RJR signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens BRCA1 BRCA1 ENCSR343RJR signal Experimental 
wgEncodeReg4TfChip_ENCFF585LUC ENCSR343RJR HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens BRCA1 BRCA1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF688NHG ENCSR343RJH signal spleen tissue male adult (37 years) CTCF ENCSR343RJH signal Experimental 
wgEncodeReg4TfChip_ENCFF369KXU ENCSR343RJH spleen tissue male adult (37 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF592ZQX ENCSR343IFJ signal K562 CC2D1A ENCSR343IFJ signal Experimental 
wgEncodeReg4TfChip_ENCFF567XUT ENCSR343IFJ K562 CC2D1A peaks Experimental 
wgEncodeReg4TfChip_ENCFF757PUB ENCSR343ELW signal K562 LEF1 ENCSR343ELW signal Experimental 
wgEncodeReg4TfChip_ENCFF198WCP ENCSR343ELW K562 LEF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF605HHD ENCSR342THD signal GM12878 BCLAF1 ENCSR342THD signal Experimental 
wgEncodeReg4TfChip_ENCFF655JCD ENCSR342THD GM12878 BCLAF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF600DXR ENCSR341VYI signal hepatocyte originated from H9 EZH2phosphoT487 ENCSR341VYI signal Experimental 
wgEncodeReg4TfChip_ENCFF118DKH ENCSR341VYI hepatocyte originated from H9 EZH2phosphoT487 peaks Experimental 
wgEncodeReg4TfChip_ENCFF511BID ENCSR340BXT signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens KAT7 KAT7 ENCSR340BXT signal Experimental 
wgEncodeReg4TfChip_ENCFF613PTN ENCSR340BXT HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens KAT7 KAT7 peaks Experimental 
wgEncodeReg4TfChip_ENCFF830QBU ENCSR339JTP signal HepG2 RBM39 ENCSR339JTP signal Experimental 
wgEncodeReg4TfChip_ENCFF801JUH ENCSR339JTP HepG2 RBM39 peaks Experimental 
wgEncodeReg4TfChip_ENCFF885IVJ ENCSR338MMB signal with nonobstructive coronary artery disease; liver tissue male adult (32 years) NR2F2 ENCSR338MMB signal Experimental 
wgEncodeReg4TfChip_ENCFF427MRU ENCSR338MMB with nonobstructive coronary artery disease; liver tissue male adult (32 years) NR2F2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF068EJE ENCSR338DUC signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens RAD21 RAD21 ENCSR338DUC signal Experimental 
wgEncodeReg4TfChip_ENCFF916QGM ENCSR338DUC HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens RAD21 RAD21 peaks Experimental 
wgEncodeReg4TfChip_ENCFF498VXM ENCSR338DGO signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens SCRT2 SCRT2 ENCSR338DGO signal Experimental 
wgEncodeReg4TfChip_ENCFF711QQB ENCSR338DGO HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens SCRT2 SCRT2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF429WTD ENCSR337NWW HepG2 HDAC2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF555KGL ENCSR336YRS signal heart left ventricle tissue female adult (53 years) POLR2A ENCSR336YRS signal Experimental 
wgEncodeReg4TfChip_ENCFF591JWH ENCSR336YRS heart left ventricle tissue female adult (53 years) POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF289MJC ENCSR336PTS signal parathyroid adenoma tissue male adult (65 years) CTCF ENCSR336PTS signal Experimental 
wgEncodeReg4TfChip_ENCFF173NJK ENCSR336PTS parathyroid adenoma tissue male adult (65 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF449BPO ENCSR336DXE signal K562 SKIL ENCSR336DXE signal Experimental 
wgEncodeReg4TfChip_ENCFF560QSF ENCSR336DXE K562 SKIL peaks Experimental 
wgEncodeReg4TfChip_ENCFF166JMP ENCSR334UWP signal GM23338 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF462 ZNF462 ENCSR334UWP signal Experimental 
wgEncodeReg4TfChip_ENCFF896CCA ENCSR334UWP GM23338 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF462 ZNF462 peaks Experimental 
wgEncodeReg4TfChip_ENCFF554FTX ENCSR332WTG signal middle frontal area 46 tissue female adult (90 or above years) CTCF ENCSR332WTG signal Experimental 
wgEncodeReg4TfChip_ENCFF311KBD ENCSR332WTG middle frontal area 46 tissue female adult (90 or above years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF116UVP ENCSR332EYT signal GM12878 STAT1 ENCSR332EYT signal Experimental 
wgEncodeReg4TfChip_ENCFF655XMZ ENCSR332EYT GM12878 STAT1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF848MFJ ENCSR331ORD signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens CREB1 CREB1 ENCSR331ORD signal Experimental 
wgEncodeReg4TfChip_ENCFF576ERP ENCSR331ORD HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens CREB1 CREB1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF452ZPE ENCSR331OGX signal thyroid gland tissue female adult (53 years) CTCF ENCSR331OGX signal Experimental 
wgEncodeReg4TfChip_ENCFF905YHF ENCSR331OGX thyroid gland tissue female adult (53 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF959CKU ENCSR331HPA signal GM12878 GABPA ENCSR331HPA signal Experimental 
wgEncodeReg4TfChip_ENCFF872TWR ENCSR331HPA GM12878 GABPA peaks Experimental 
wgEncodeReg4TfChip_ENCFF625DNM ENCSR331GDC signal K562 ZBTB11 ENCSR331GDC signal Experimental 
wgEncodeReg4TfChip_ENCFF648EZG ENCSR331GDC K562 ZBTB11 peaks Experimental 
wgEncodeReg4TfChip_ENCFF323QAI ENCSR331BDJ signal K562 NKRF ENCSR331BDJ signal Experimental 
wgEncodeReg4TfChip_ENCFF815TQL ENCSR331BDJ K562 NKRF peaks Experimental 
wgEncodeReg4TfChip_ENCFF163XTE ENCSR330ADN signal MCF-7 DDX20 ENCSR330ADN signal Experimental 
wgEncodeReg4TfChip_ENCFF142TOQ ENCSR330ADN MCF-7 DDX20 peaks Experimental 
wgEncodeReg4TfChip_ENCFF450HJC ENCSR329KRE signal middle frontal area 46 tissue female adult (89 years) CTCF ENCSR329KRE signal Experimental 
wgEncodeReg4TfChip_ENCFF267VHH ENCSR329KRE middle frontal area 46 tissue female adult (89 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF195VEO ENCSR328SUD signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF335 ZNF335 ENCSR328SUD signal Experimental 
wgEncodeReg4TfChip_ENCFF784SLD ENCSR328SUD HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF335 ZNF335 peaks Experimental 
wgEncodeReg4TfChip_ENCFF825ZDL ENCSR327RFM signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens PAF1 PAF1 ENCSR327RFM signal Experimental 
wgEncodeReg4TfChip_ENCFF949UAN ENCSR327RFM HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens PAF1 PAF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF434ZMN ENCSR326AQV signal A549 genetically modified (insertion) using CRISPR targeting H. sapiens FOXS1 FOXS1 ENCSR326AQV signal Experimental 
wgEncodeReg4TfChip_ENCFF870VDS ENCSR326AQV A549 genetically modified (insertion) using CRISPR targeting H. sapiens FOXS1 FOXS1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF752BOF ENCSR325VYA signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF557 ZNF557 ENCSR325VYA signal Experimental 
wgEncodeReg4TfChip_ENCFF590SZW ENCSR325VYA HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF557 ZNF557 peaks Experimental 
wgEncodeReg4TfChip_ENCFF331WPU ENCSR325RLL signal K562 POLR2B ENCSR325RLL signal Experimental 
wgEncodeReg4TfChip_ENCFF513ENO ENCSR325RLL K562 POLR2B peaks Experimental 
wgEncodeReg4TfChip_ENCFF939IHV ENCSR325QLX signal SK-N-SH genetically modified (insertion) using CRISPR targeting H. sapiens ZNF8 treated with 6 μM all-trans-retinoic acid for 48 hours ZNF8 ENCSR325QLX signal Experimental 
wgEncodeReg4TfChip_ENCFF131SMT ENCSR325QLX SK-N-SH genetically modified (insertion) using CRISPR targeting H. sapiens ZNF8 treated with 6 μM all-trans-retinoic acid for 48 hours ZNF8 peaks Experimental 
wgEncodeReg4TfChip_ENCFF169JJZ ENCSR324RCI signal liver tissue female child (4 years) FOXA1 ENCSR324RCI signal Experimental 
wgEncodeReg4TfChip_ENCFF537QZV ENCSR324RCI liver tissue female child (4 years) FOXA1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF612QEP ENCSR324LTM signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens OSR2 OSR2 ENCSR324LTM signal Experimental 
wgEncodeReg4TfChip_ENCFF875BDB ENCSR324LTM HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens OSR2 OSR2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF257ODJ ENCSR323ZAP signal heart right ventricle tissue female adult (56 years) CTCF ENCSR323ZAP signal Experimental 
wgEncodeReg4TfChip_ENCFF767XJQ ENCSR323ZAP heart right ventricle tissue female adult (56 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF085VRT ENCSR322ULL signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZBTB7B ZBTB7B ENCSR322ULL signal Experimental 
wgEncodeReg4TfChip_ENCFF763OCV ENCSR322ULL HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZBTB7B ZBTB7B peaks Experimental 
wgEncodeReg4TfChip_ENCFF091IEW ENCSR322JEO signal sigmoid colon tissue female adult (53 years) POLR2A ENCSR322JEO signal Experimental 
wgEncodeReg4TfChip_ENCFF302JAZ ENCSR322JEO sigmoid colon tissue female adult (53 years) POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF191SLC ENCSR322CFO signal K562 ZEB2 ENCSR322CFO signal Experimental 
wgEncodeReg4TfChip_ENCFF975RXS ENCSR322CFO K562 ZEB2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF409LJA ENCSR321VGW signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ELF1 ELF1 ENCSR321VGW signal Experimental 
wgEncodeReg4TfChip_ENCFF367ZWV ENCSR321VGW HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ELF1 ELF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF774JXC ENCSR321OAA signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens FOXO1 FOXO1 ENCSR321OAA signal Experimental 
wgEncodeReg4TfChip_ENCFF088FIR ENCSR321OAA HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens FOXO1 FOXO1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF834NQD ENCSR321MSF signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZBTB21 ZBTB21 ENCSR321MSF signal Experimental 
wgEncodeReg4TfChip_ENCFF509WYZ ENCSR321MSF HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZBTB21 ZBTB21 peaks Experimental 
wgEncodeReg4TfChip_ENCFF670HVB ENCSR318LVG signal MCF-7 ZBTB40 ENCSR318LVG signal Experimental 
wgEncodeReg4TfChip_ENCFF044DWL ENCSR318LVG MCF-7 ZBTB40 peaks Experimental 
wgEncodeReg4TfChip_ENCFF371KXS ENCSR315VYZ signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens PHF21A PHF21A ENCSR315VYZ signal Experimental 
wgEncodeReg4TfChip_ENCFF525EUW ENCSR315VYZ HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens PHF21A PHF21A peaks Experimental 
wgEncodeReg4TfChip_ENCFF122VBA ENCSR315NNL signal K562 CHAMP1 ENCSR315NNL signal Experimental 
wgEncodeReg4TfChip_ENCFF429USX ENCSR315NNL K562 CHAMP1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF857BSR ENCSR315NAC signal LNCAP CTCF ENCSR315NAC signal Experimental 
wgEncodeReg4TfChip_ENCFF223HIG ENCSR315NAC LNCAP CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF502QWU ENCSR315JJE signal HepG2 HNRNPL ENCSR315JJE signal Experimental 
wgEncodeReg4TfChip_ENCFF671UYF ENCSR315JJE HepG2 HNRNPL peaks Experimental 
wgEncodeReg4TfChip_ENCFF987AAS ENCSR314BBS signal K562 stably expressing PTTG1 PTTG1 ENCSR314BBS signal Experimental 
wgEncodeReg4TfChip_ENCFF017KRM ENCSR314BBS K562 stably expressing PTTG1 PTTG1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF018EUF ENCSR313VZG signal HepG2 FIP1L1 ENCSR313VZG signal Experimental 
wgEncodeReg4TfChip_ENCFF015CFL ENCSR313VZG HepG2 FIP1L1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF021QSO ENCSR313MMD signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF263 ZNF263 ENCSR313MMD signal Experimental 
wgEncodeReg4TfChip_ENCFF626SSV ENCSR313MMD HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF263 ZNF263 peaks Experimental 
wgEncodeReg4TfChip_ENCFF914KXT ENCSR313BMV signal sigmoid colon tissue female adult (53 years) EP300 ENCSR313BMV signal Experimental 
wgEncodeReg4TfChip_ENCFF890VSY ENCSR313BMV sigmoid colon tissue female adult (53 years) EP300 peaks Experimental 
wgEncodeReg4TfChip_ENCFF053GNQ ENCSR310OZS signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens NR5A1 NR5A1 ENCSR310OZS signal Experimental 
wgEncodeReg4TfChip_ENCFF970YZO ENCSR310OZS HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens NR5A1 NR5A1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF691RDY ENCSR310NYI signal with nonobstructive coronary artery disease; liver tissue male adult (32 years) FOXA2 ENCSR310NYI signal Experimental 
wgEncodeReg4TfChip_ENCFF877SFI ENCSR310NYI with nonobstructive coronary artery disease; liver tissue male adult (32 years) FOXA2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF739KGP ENCSR307PFP signal body of pancreas tissue male adult (37 years) CTCF ENCSR307PFP signal Experimental 
wgEncodeReg4TfChip_ENCFF438KTE ENCSR307PFP body of pancreas tissue male adult (37 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF636THM ENCSR307CKC signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF680 ZNF680 ENCSR307CKC signal Experimental 
wgEncodeReg4TfChip_ENCFF418WHE ENCSR307CKC HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF680 ZNF680 peaks Experimental 
wgEncodeReg4TfChip_ENCFF358KYT ENCSR306HAG signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens SNAPC4 SNAPC4 ENCSR306HAG signal Experimental 
wgEncodeReg4TfChip_ENCFF536CFY ENCSR306HAG HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens SNAPC4 SNAPC4 peaks Experimental 
wgEncodeReg4TfChip_ENCFF249SYO ENCSR304XUZ signal breast epithelium tissue female adult (53 years) CTCF ENCSR304XUZ signal Experimental 
wgEncodeReg4TfChip_ENCFF277RMX ENCSR304XUZ breast epithelium tissue female adult (53 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF949VUG ENCSR304NTV signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens BCL3 BCL3 ENCSR304NTV signal Experimental 
wgEncodeReg4TfChip_ENCFF641LQV ENCSR304NTV HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens BCL3 BCL3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF176MCK ENCSR304IVU signal breast epithelium tissue female adult (51 years) POLR2A ENCSR304IVU signal Experimental 
wgEncodeReg4TfChip_ENCFF955FMX ENCSR304IVU breast epithelium tissue female adult (51 years) POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF135XNC ENCSR304AMN signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens IKZF3 IKZF3 ENCSR304AMN signal Experimental 
wgEncodeReg4TfChip_ENCFF518OXG ENCSR304AMN HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens IKZF3 IKZF3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF388NXU ENCSR303GFI signal RWPE1 CTCF ENCSR303GFI signal Experimental 
wgEncodeReg4TfChip_ENCFF200GQF ENCSR303GFI RWPE1 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF107YCQ ENCSR302AWT signal K562 FOXK2 ENCSR302AWT signal Experimental 
wgEncodeReg4TfChip_ENCFF245WKP ENCSR302AWT K562 FOXK2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF303MTI ENCSR300WOR signal with Alzheimer's disease: Cognitive impairment; middle frontal area 46 tissue female adult (90 or above years) CTCF ENCSR300WOR signal Experimental 
wgEncodeReg4TfChip_ENCFF749FBO ENCSR300WOR with Alzheimer's disease: Cognitive impairment; middle frontal area 46 tissue female adult (90 or above years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF897TLT ENCSR300DWM signal osteocyte CTCF ENCSR300DWM signal Experimental 
wgEncodeReg4TfChip_ENCFF929FPD ENCSR300DWM osteocyte CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF865DIX ENCSR299CAV signal breast epithelium tissue female adult (53 years) POLR2A ENCSR299CAV signal Experimental 
wgEncodeReg4TfChip_ENCFF110TAD ENCSR299CAV breast epithelium tissue female adult (53 years) POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF378JMP ENCSR298ZPF signal gastroesophageal sphincter tissue female adult (51 years) CTCF ENCSR298ZPF signal Experimental 
wgEncodeReg4TfChip_ENCFF607YRA ENCSR298ZPF gastroesophageal sphincter tissue female adult (51 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF121JMZ ENCSR298QUH signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens MZF1 MZF1 ENCSR298QUH signal Experimental 
wgEncodeReg4TfChip_ENCFF683ZWN ENCSR298QUH HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens MZF1 MZF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF139XJA ENCSR298JCG signal K562 NCOR1 ENCSR298JCG signal Experimental 
wgEncodeReg4TfChip_ENCFF359DNT ENCSR298JCG K562 NCOR1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF394IAH ENCSR298DSB signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF180 ZNF180 ENCSR298DSB signal Experimental 
wgEncodeReg4TfChip_ENCFF263XZK ENCSR298DSB HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF180 ZNF180 peaks Experimental 
wgEncodeReg4TfChip_ENCFF039RVF ENCSR297GII signal liver tissue female child (4 years) HNF4G ENCSR297GII signal Experimental 
wgEncodeReg4TfChip_ENCFF170YNZ ENCSR297GII liver tissue female child (4 years) HNF4G peaks Experimental 
wgEncodeReg4TfChip_ENCFF955XUI ENCSR297CGF signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens KLF6 KLF6 ENCSR297CGF signal Experimental 
wgEncodeReg4TfChip_ENCFF948QSP ENCSR297CGF K562 genetically modified (insertion) using CRISPR targeting H. sapiens KLF6 KLF6 peaks Experimental 
wgEncodeReg4TfChip_ENCFF915AST ENCSR296JFK signal heart left ventricle tissue male adult (43 years) CTCF ENCSR296JFK signal Experimental 
wgEncodeReg4TfChip_ENCFF354HOQ ENCSR296JFK heart left ventricle tissue male adult (43 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF421SQZ ENCSR295BIP signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF777 ZNF777 ENCSR295BIP signal Experimental 
wgEncodeReg4TfChip_ENCFF569SYP ENCSR295BIP HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF777 ZNF777 peaks Experimental 
wgEncodeReg4TfChip_ENCFF751STB ENCSR294JWV signal A549 ZFP36 ENCSR294JWV signal Experimental 
wgEncodeReg4TfChip_ENCFF505LUC ENCSR294JWV A549 ZFP36 peaks Experimental 
wgEncodeReg4TfChip_ENCFF754MQM ENCSR293QAR signal GM12878 MTA2 ENCSR293QAR signal Experimental 
wgEncodeReg4TfChip_ENCFF615CWQ ENCSR293QAR GM12878 MTA2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF905CBB ENCSR291MJH signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens MEF2A MEF2A ENCSR291MJH signal Experimental 
wgEncodeReg4TfChip_ENCFF614TXG ENCSR291MJH HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens MEF2A MEF2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF961RMR ENCSR290ZOS signal liver tissue female child (4 years) EGR1 ENCSR290ZOS signal Experimental 
wgEncodeReg4TfChip_ENCFF911LGW ENCSR290ZOS liver tissue female child (4 years) EGR1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF214VQU ENCSR290SSQ signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens MAZ MAZ ENCSR290SSQ signal Experimental 
wgEncodeReg4TfChip_ENCFF994GSG ENCSR290SSQ HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens MAZ MAZ peaks Experimental 
wgEncodeReg4TfChip_ENCFF739DOF ENCSR290QBB signal upper lobe of left lung tissue male adult (54 years) EP300 ENCSR290QBB signal Experimental 
wgEncodeReg4TfChip_ENCFF306FRW ENCSR290QBB upper lobe of left lung tissue male adult (54 years) EP300 peaks Experimental 
wgEncodeReg4TfChip_ENCFF624HFG ENCSR290MUH signal K562 stably expressing GABPA GABPA ENCSR290MUH signal Experimental 
wgEncodeReg4TfChip_ENCFF139LXS ENCSR290MUH K562 stably expressing GABPA GABPA peaks Experimental 
wgEncodeReg4TfChip_ENCFF712DLN ENCSR289VTP signal spleen tissue female adult (53 years) POLR2A ENCSR289VTP signal Experimental 
wgEncodeReg4TfChip_ENCFF731LLC ENCSR289VTP spleen tissue female adult (53 years) POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF871EDG ENCSR289PSX signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens PRDM10 PRDM10 ENCSR289PSX signal Experimental 
wgEncodeReg4TfChip_ENCFF324FNA ENCSR289PSX HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens PRDM10 PRDM10 peaks Experimental 
wgEncodeReg4TfChip_ENCFF761SOL ENCSR288NNJ signal WTC11 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF416 ZNF416 ENCSR288NNJ signal Experimental 
wgEncodeReg4TfChip_ENCFF407TAZ ENCSR288NNJ WTC11 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF416 ZNF416 peaks Experimental 
wgEncodeReg4TfChip_ENCFF689OKC ENCSR288MOZ signal K562 LARP7 ENCSR288MOZ signal Experimental 
wgEncodeReg4TfChip_ENCFF550RPP ENCSR288MOZ K562 LARP7 peaks Experimental 
wgEncodeReg4TfChip_ENCFF116ZNK ENCSR288IJC signal MCF-7 MAZ ENCSR288IJC signal Experimental 
wgEncodeReg4TfChip_ENCFF913ACQ ENCSR288IJC MCF-7 MAZ peaks Experimental 
wgEncodeReg4TfChip_ENCFF137TFR ENCSR286PCG signal K562 ZBED1 ENCSR286PCG signal Experimental 
wgEncodeReg4TfChip_ENCFF886JDF ENCSR286PCG K562 ZBED1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF392NHD ENCSR286LPH signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF615 ZNF615 ENCSR286LPH signal Experimental 
wgEncodeReg4TfChip_ENCFF440YLL ENCSR286LPH HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF615 ZNF615 peaks Experimental 
wgEncodeReg4TfChip_ENCFF923SQO ENCSR283ZRI signal K562 POLR2G ENCSR283ZRI signal Experimental 
wgEncodeReg4TfChip_ENCFF047BLG ENCSR283ZRI K562 POLR2G peaks Experimental 
wgEncodeReg4TfChip_ENCFF171WDP ENCSR283MWQ signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF133 ZNF133 ENCSR283MWQ signal Experimental 
wgEncodeReg4TfChip_ENCFF844RST ENCSR283MWQ HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF133 ZNF133 peaks Experimental 
wgEncodeReg4TfChip_ENCFF388TYS ENCSR283DOU signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF660 ZNF660 ENCSR283DOU signal Experimental 
wgEncodeReg4TfChip_ENCFF282RUS ENCSR283DOU HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF660 ZNF660 peaks Experimental 
wgEncodeReg4TfChip_ENCFF481STJ ENCSR282NLQ signal SK-N-SH genetically modified (insertion) using CRISPR targeting H. sapiens TSHZ2 treated with 6 μM all-trans-retinoic acid for 48 hours TSHZ2 ENCSR282NLQ signal Experimental 
wgEncodeReg4TfChip_ENCFF182EBB ENCSR282NLQ SK-N-SH genetically modified (insertion) using CRISPR targeting H. sapiens TSHZ2 treated with 6 μM all-trans-retinoic acid for 48 hours TSHZ2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF656XZC ENCSR281VWZ signal WTC11 genetically modified (insertion) using CRISPR targeting H. sapiens GTF2I GTF2I ENCSR281VWZ signal Experimental 
wgEncodeReg4TfChip_ENCFF255XXZ ENCSR281VWZ WTC11 genetically modified (insertion) using CRISPR targeting H. sapiens GTF2I GTF2I peaks Experimental 
wgEncodeReg4TfChip_ENCFF354HCN ENCSR280SCF signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens KDM4B KDM4B ENCSR280SCF signal Experimental 
wgEncodeReg4TfChip_ENCFF455PLI ENCSR280SCF HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens KDM4B KDM4B peaks Experimental 
wgEncodeReg4TfChip_ENCFF379DQR ENCSR279NEA signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens AKAP8 AKAP8 ENCSR279NEA signal Experimental 
wgEncodeReg4TfChip_ENCFF478OVI ENCSR279NEA HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens AKAP8 AKAP8 peaks Experimental 
wgEncodeReg4TfChip_ENCFF249UAQ ENCSR279KDC signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF677 ZNF677 ENCSR279KDC signal Experimental 
wgEncodeReg4TfChip_ENCFF220HCQ ENCSR279KDC HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF677 ZNF677 peaks Experimental 
wgEncodeReg4TfChip_ENCFF995DXI ENCSR278SQL signal GM12878 NBN ENCSR278SQL signal Experimental 
wgEncodeReg4TfChip_ENCFF213ZNN ENCSR278SQL GM12878 NBN peaks Experimental 
wgEncodeReg4TfChip_ENCFF277UWB ENCSR277VXX signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF608 ZNF608 ENCSR277VXX signal Experimental 
wgEncodeReg4TfChip_ENCFF713QUJ ENCSR277VXX HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF608 ZNF608 peaks Experimental 
wgEncodeReg4TfChip_ENCFF530HFJ ENCSR277OOQ signal A549 ZC3H11A ENCSR277OOQ signal Experimental 
wgEncodeReg4TfChip_ENCFF640AQE ENCSR277OOQ A549 ZC3H11A peaks Experimental 
wgEncodeReg4TfChip_ENCFF753YBQ ENCSR277DMR signal K562 stably expressing ETV1 ETV1 ENCSR277DMR signal Experimental 
wgEncodeReg4TfChip_ENCFF389WTI ENCSR277DMR K562 stably expressing ETV1 ETV1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF831RLV ENCSR277BXW signal MCF-7 ZBTB7B ENCSR277BXW signal Experimental 
wgEncodeReg4TfChip_ENCFF361BGF ENCSR277BXW MCF-7 ZBTB7B peaks Experimental 
wgEncodeReg4TfChip_ENCFF692PLM ENCSR274SLQ signal SK-N-SH CHD2 ENCSR274SLQ signal Experimental 
wgEncodeReg4TfChip_ENCFF669KMB ENCSR274SLQ SK-N-SH CHD2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF831EQL ENCSR272TOJ signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens DLX6 DLX6 ENCSR272TOJ signal Experimental 
wgEncodeReg4TfChip_ENCFF371CVH ENCSR272TOJ HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens DLX6 DLX6 peaks Experimental 
wgEncodeReg4TfChip_ENCFF534HXX ENCSR272JAT signal K562 CBX5 ENCSR272JAT signal Experimental 
wgEncodeReg4TfChip_ENCFF188CYP ENCSR272JAT K562 CBX5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF760WAX ENCSR271XMW signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens EP300 EP300 ENCSR271XMW signal Experimental 
wgEncodeReg4TfChip_ENCFF076TMZ ENCSR271XMW HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens EP300 EP300 peaks Experimental 
wgEncodeReg4TfChip_ENCFF258OMT ENCSR270KFY signal with Cognitive impairment; middle frontal area 46 tissue female adult (90 or above years) CTCF ENCSR270KFY signal Experimental 
wgEncodeReg4TfChip_ENCFF235CPK ENCSR270KFY with Cognitive impairment; middle frontal area 46 tissue female adult (90 or above years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF464QQK ENCSR269TNX signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens GABPA GABPA ENCSR269TNX signal Experimental 
wgEncodeReg4TfChip_ENCFF180FFY ENCSR269TNX HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens GABPA GABPA peaks Experimental 
wgEncodeReg4TfChip_ENCFF419UEZ ENCSR269MEF signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZBTB44 ZBTB44 ENCSR269MEF signal Experimental 
wgEncodeReg4TfChip_ENCFF033EIH ENCSR269MEF HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZBTB44 ZBTB44 peaks Experimental 
wgEncodeReg4TfChip_ENCFF984TJX ENCSR269DQN signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens MED13 MED13 ENCSR269DQN signal Experimental 
wgEncodeReg4TfChip_ENCFF143ZBX ENCSR269DQN HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens MED13 MED13 peaks Experimental 
wgEncodeReg4TfChip_ENCFF813MZE ENCSR268XPQ signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens TCF12 TCF12 ENCSR268XPQ signal Experimental 
wgEncodeReg4TfChip_ENCFF802XCI ENCSR268XPQ HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens TCF12 TCF12 peaks Experimental 
wgEncodeReg4TfChip_ENCFF201YMB ENCSR268QIQ signal K562 SRSF3 ENCSR268QIQ signal Experimental 
wgEncodeReg4TfChip_ENCFF031SIK ENCSR268QIQ K562 SRSF3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF811AXA ENCSR267NVP signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ESRRA ESRRA ENCSR267NVP signal Experimental 
wgEncodeReg4TfChip_ENCFF033DVS ENCSR267NVP HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ESRRA ESRRA peaks Experimental 
wgEncodeReg4TfChip_ENCFF642LBY ENCSR267DFA signal HepG2 FOXA1 ENCSR267DFA signal Experimental 
wgEncodeReg4TfChip_ENCFF600IFL ENCSR267DFA HepG2 FOXA1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF947KDR ENCSR266ZUX signal nephron organoid female embryo (5 days): 35 days post differentiation CTCF ENCSR266ZUX signal Experimental 
wgEncodeReg4TfChip_ENCFF411ACD ENCSR266ZUX nephron organoid female embryo (5 days): 35 days post differentiation CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF386LSE ENCSR266XFE signal spleen tissue male adult (54 years) POLR2A ENCSR266XFE signal Experimental 
wgEncodeReg4TfChip_ENCFF028DPU ENCSR266XFE spleen tissue male adult (54 years) POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF078VHA ENCSR266UTR signal esophagus squamous epithelium tissue female adult (51 years) CTCF ENCSR266UTR signal Experimental 
wgEncodeReg4TfChip_ENCFF884RED ENCSR266UTR esophagus squamous epithelium tissue female adult (51 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF673CRJ ENCSR266HHO signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZFX ZFX ENCSR266HHO signal Experimental 
wgEncodeReg4TfChip_ENCFF016NZF ENCSR266HHO HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZFX ZFX peaks Experimental 
wgEncodeReg4TfChip_ENCFF161AWO ENCSR266CJT signal spleen tissue female adult (59 years) CTCF ENCSR266CJT signal Experimental 
wgEncodeReg4TfChip_ENCFF825QXK ENCSR266CJT spleen tissue female adult (59 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF543VDM ENCSR265WJC signal MCF-7 stably expressing KLF4 KLF4 ENCSR265WJC signal Experimental 
wgEncodeReg4TfChip_ENCFF948KTQ ENCSR265WJC MCF-7 stably expressing KLF4 KLF4 peaks Experimental 
wgEncodeReg4TfChip_ENCFF078UTK ENCSR265PFQ signal body of pancreas tissue male adult (54 years) CTCF ENCSR265PFQ signal Experimental 
wgEncodeReg4TfChip_ENCFF269EDN ENCSR265PFQ body of pancreas tissue male adult (54 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF328ACZ ENCSR265ARE signal VCaP CTCF ENCSR265ARE signal Experimental 
wgEncodeReg4TfChip_ENCFF858YQT ENCSR265ARE VCaP CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF245BVG ENCSR264SRY signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF512 ZNF512 ENCSR264SRY signal Experimental 
wgEncodeReg4TfChip_ENCFF113IGR ENCSR264SRY HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF512 ZNF512 peaks Experimental 
wgEncodeReg4TfChip_ENCFF907QXU ENCSR264RJX signal GM23338 originated from GM23248 POU5F1 ENCSR264RJX signal Experimental 
wgEncodeReg4TfChip_ENCFF333SNB ENCSR264RJX GM23338 originated from GM23248 POU5F1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF845ACQ ENCSR264LQX signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF383 ZNF383 ENCSR264LQX signal Experimental 
wgEncodeReg4TfChip_ENCFF358SRK ENCSR264LQX HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF383 ZNF383 peaks Experimental 
wgEncodeReg4TfChip_ENCFF937DKK ENCSR263XFO signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF83 ZNF83 ENCSR263XFO signal Experimental 
wgEncodeReg4TfChip_ENCFF450KKE ENCSR263XFO HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF83 ZNF83 peaks Experimental 
wgEncodeReg4TfChip_ENCFF376QKW ENCSR263DFP signal K562 stably expressing PBX2 PBX2 ENCSR263DFP signal Experimental 
wgEncodeReg4TfChip_ENCFF286KMN ENCSR263DFP K562 stably expressing PBX2 PBX2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF475BOH ENCSR261VAS signal smooth muscle cell originated from H9 CTCF ENCSR261VAS signal Experimental 
wgEncodeReg4TfChip_ENCFF656FBT ENCSR261VAS smooth muscle cell originated from H9 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF461DYQ ENCSR261UIH signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF460 ZNF460 ENCSR261UIH signal Experimental 
wgEncodeReg4TfChip_ENCFF007NNM ENCSR261UIH HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF460 ZNF460 peaks Experimental 
wgEncodeReg4TfChip_ENCFF106ZNK ENCSR261EDU signal HepG2 MNT ENCSR261EDU signal Experimental 
wgEncodeReg4TfChip_ENCFF701PYP ENCSR261EDU HepG2 MNT peaks Experimental 
wgEncodeReg4TfChip_ENCFF871FNK ENCSR260UJI signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens MBD1 MBD1 ENCSR260UJI signal Experimental 
wgEncodeReg4TfChip_ENCFF588NNG ENCSR260UJI HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens MBD1 MBD1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF702NHJ ENCSR260GQA signal WTC11 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF671 ZNF671 ENCSR260GQA signal Experimental 
wgEncodeReg4TfChip_ENCFF053HBV ENCSR260GQA WTC11 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF671 ZNF671 peaks Experimental 
wgEncodeReg4TfChip_ENCFF900FBY ENCSR260FAS signal neural progenitor cell CTCF ENCSR260FAS signal Experimental 
wgEncodeReg4TfChip_ENCFF581WPG ENCSR260FAS neural progenitor cell CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF302UYV ENCSR259PNW signal with Alzheimer's disease; middle frontal area 46 tissue female adult (88 years) CTCF ENCSR259PNW signal Experimental 
wgEncodeReg4TfChip_ENCFF476NBQ ENCSR259PNW with Alzheimer's disease; middle frontal area 46 tissue female adult (88 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF366DIX ENCSR257XVY signal K562 stably expressing ZNF83 ZNF83 ENCSR257XVY signal Experimental 
wgEncodeReg4TfChip_ENCFF340RTV ENCSR257XVY K562 stably expressing ZNF83 ZNF83 peaks Experimental 
wgEncodeReg4TfChip_ENCFF367AGS ENCSR257RKC signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens GATA2 GATA2 ENCSR257RKC signal Experimental 
wgEncodeReg4TfChip_ENCFF088XQT ENCSR257RKC K562 genetically modified (insertion) using CRISPR targeting H. sapiens GATA2 GATA2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF822VPQ ENCSR257AFV signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF76 ZNF76 ENCSR257AFV signal Experimental 
wgEncodeReg4TfChip_ENCFF267KQX ENCSR257AFV K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF76 ZNF76 peaks Experimental 
wgEncodeReg4TfChip_ENCFF002ZEZ ENCSR255SQR signal left lung tissue male adult (40 years) CTCF ENCSR255SQR signal Experimental 
wgEncodeReg4TfChip_ENCFF620MAT ENCSR255SQR left lung tissue male adult (40 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF725LBV ENCSR254YRM signal liver tissue female child (6 years) and with nonobstructive coronary artery disease; liver tissue male adult (32 years) CTCF ENCSR254YRM signal Experimental 
wgEncodeReg4TfChip_ENCFF895ERR ENCSR254YRM liver tissue female child (6 years) and with nonobstructive coronary artery disease; liver tissue male adult (32 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF095RQV ENCSR253OON signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ATF1 ATF1 ENCSR253OON signal Experimental 
wgEncodeReg4TfChip_ENCFF239LTQ ENCSR253OON HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ATF1 ATF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF767GOH ENCSR253HUM signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF576 ZNF576 ENCSR253HUM signal Experimental 
wgEncodeReg4TfChip_ENCFF157BAG ENCSR253HUM HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF576 ZNF576 peaks Experimental 
wgEncodeReg4TfChip_ENCFF212YPB ENCSR253CKN signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZSCAN21 ZSCAN21 ENCSR253CKN signal Experimental 
wgEncodeReg4TfChip_ENCFF582WUP ENCSR253CKN HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZSCAN21 ZSCAN21 peaks Experimental 
wgEncodeReg4TfChip_ENCFF232BMJ ENCSR253ALG signal pancreas tissue female adult (61 years) CTCF ENCSR253ALG signal Experimental 
wgEncodeReg4TfChip_ENCFF372XNU ENCSR253ALG pancreas tissue female adult (61 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF881OCE ENCSR252XWG signal lower leg skin tissue male adult (54 years) CTCF ENCSR252XWG signal Experimental 
wgEncodeReg4TfChip_ENCFF055ALO ENCSR252XWG lower leg skin tissue male adult (54 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF491FMJ ENCSR252QYR signal hepatocyte originated from H9 CTCF ENCSR252QYR signal Experimental 
wgEncodeReg4TfChip_ENCFF263BLJ ENCSR252QYR hepatocyte originated from H9 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF200LWX ENCSR251XFX signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens DMTF1 DMTF1 ENCSR251XFX signal Experimental 
wgEncodeReg4TfChip_ENCFF032QET ENCSR251XFX HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens DMTF1 DMTF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF165TMM ENCSR251OVJ signal GM12878 SMAD5 ENCSR251OVJ signal Experimental 
wgEncodeReg4TfChip_ENCFF178LKN ENCSR251OVJ GM12878 SMAD5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF417AGZ ENCSR251BHU signal middle frontal area 46 tissue female adult (82 years) CTCF ENCSR251BHU signal Experimental 
wgEncodeReg4TfChip_ENCFF896AZK ENCSR251BHU middle frontal area 46 tissue female adult (82 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF309YZR ENCSR250WFW signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens RREB1 RREB1 ENCSR250WFW signal Experimental 
wgEncodeReg4TfChip_ENCFF796IEO ENCSR250WFW K562 genetically modified (insertion) using CRISPR targeting H. sapiens RREB1 RREB1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF087ICF ENCSR249EYB signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens FOSL2 FOSL2 ENCSR249EYB signal Experimental 
wgEncodeReg4TfChip_ENCFF548CXY ENCSR249EYB HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens FOSL2 FOSL2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF509TWP ENCSR249BHQ signal K562 ZNF592 ENCSR249BHQ signal Experimental 
wgEncodeReg4TfChip_ENCFF547OSS ENCSR249BHQ K562 ZNF592 peaks Experimental 
wgEncodeReg4TfChip_ENCFF946BXY ENCSR248WAU signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF772 ZNF772 ENCSR248WAU signal Experimental 
wgEncodeReg4TfChip_ENCFF728OGE ENCSR248WAU HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF772 ZNF772 peaks Experimental 
wgEncodeReg4TfChip_ENCFF601ECV ENCSR248BVU signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF264 ZNF264 ENCSR248BVU signal Experimental 
wgEncodeReg4TfChip_ENCFF453WJV ENCSR248BVU HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF264 ZNF264 peaks Experimental 
wgEncodeReg4TfChip_ENCFF073QXY ENCSR247XFV signal HepG2 CCAR2 ENCSR247XFV signal Experimental 
wgEncodeReg4TfChip_ENCFF338DEV ENCSR247XFV HepG2 CCAR2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF623DDK ENCSR244ZAO signal sigmoid colon tissue female adult (51 years) EP300 ENCSR244ZAO signal Experimental 
wgEncodeReg4TfChip_ENCFF953ZIP ENCSR244ZAO sigmoid colon tissue female adult (51 years) EP300 peaks Experimental 
wgEncodeReg4TfChip_ENCFF072ETP ENCSR244KEW signal with mild cognitive impairment; middle frontal area 46 tissue female adult (88 years) CTCF ENCSR244KEW signal Experimental 
wgEncodeReg4TfChip_ENCFF354RKX ENCSR244KEW with mild cognitive impairment; middle frontal area 46 tissue female adult (88 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF830NAH ENCSR243LNQ signal HepG2 PRPF4 ENCSR243LNQ signal Experimental 
wgEncodeReg4TfChip_ENCFF645WCL ENCSR243LNQ HepG2 PRPF4 peaks Experimental 
wgEncodeReg4TfChip_ENCFF936QRH ENCSR243INX signal PC-9 CTCF ENCSR243INX signal Experimental 
wgEncodeReg4TfChip_ENCFF539ULB ENCSR243INX PC-9 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF141VSH ENCSR243BPI signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF219 ZNF219 ENCSR243BPI signal Experimental 
wgEncodeReg4TfChip_ENCFF266JIR ENCSR243BPI HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF219 ZNF219 peaks Experimental 
wgEncodeReg4TfChip_ENCFF788XXM ENCSR242BGR signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF770 ZNF770 ENCSR242BGR signal Experimental 
wgEncodeReg4TfChip_ENCFF468FCG ENCSR242BGR HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF770 ZNF770 peaks Experimental 
wgEncodeReg4TfChip_ENCFF003ZRP ENCSR241LIH signal K562 AFF1 ENCSR241LIH signal Experimental 
wgEncodeReg4TfChip_ENCFF096RYC ENCSR241LIH K562 AFF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF825ECI ENCSR240PRQ signal HCT116 CTCF ENCSR240PRQ signal Experimental 
wgEncodeReg4TfChip_ENCFF003KHP ENCSR240PRQ HCT116 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF759GQV ENCSR239ZLZ signal K562 stably expressing FOSL1 FOSL1 ENCSR239ZLZ signal Experimental 
wgEncodeReg4TfChip_ENCFF455MKD ENCSR239ZLZ K562 stably expressing FOSL1 FOSL1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF764XDE ENCSR238QRG signal HepG2 TBX3 ENCSR238QRG signal Experimental 
wgEncodeReg4TfChip_ENCFF178RIL ENCSR238QRG HepG2 TBX3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF827ORL ENCSR237VLT signal K562 ZBTB40 ENCSR237VLT signal Experimental 
wgEncodeReg4TfChip_ENCFF521DSV ENCSR237VLT K562 ZBTB40 peaks Experimental 
wgEncodeReg4TfChip_ENCFF678YHO ENCSR237TFX signal HEK293T CTBP1 ENCSR237TFX signal Experimental 
wgEncodeReg4TfChip_ENCFF003PDY ENCSR237TFX HEK293T CTBP1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF796CNP ENCSR237BTA signal with Alzheimer's disease; middle frontal area 46 tissue female adult (81 years) CTCF ENCSR237BTA signal Experimental 
wgEncodeReg4TfChip_ENCFF677SUG ENCSR237BTA with Alzheimer's disease; middle frontal area 46 tissue female adult (81 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF686TFX ENCSR236YGF signal transverse colon tissue female adult (53 years) CTCF ENCSR236YGF signal Experimental 
wgEncodeReg4TfChip_ENCFF454PBI ENCSR236YGF transverse colon tissue female adult (53 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF568GYV ENCSR235PYI signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF41 ZNF41 ENCSR235PYI signal Experimental 
wgEncodeReg4TfChip_ENCFF693FMG ENCSR235PYI K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF41 ZNF41 peaks Experimental 
wgEncodeReg4TfChip_ENCFF591VTT ENCSR235OVI signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens NFKBIZ NFKBIZ ENCSR235OVI signal Experimental 
wgEncodeReg4TfChip_ENCFF216AUS ENCSR235OVI HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens NFKBIZ NFKBIZ peaks Experimental 
wgEncodeReg4TfChip_ENCFF533KYL ENCSR234VCE signal MCF-7 DPF2 ENCSR234VCE signal Experimental 
wgEncodeReg4TfChip_ENCFF712EXQ ENCSR234VCE MCF-7 DPF2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF705PKJ ENCSR234HEM signal spleen tissue male adult (37 years) CTCF ENCSR234HEM signal Experimental 
wgEncodeReg4TfChip_ENCFF282UAO ENCSR234HEM spleen tissue male adult (37 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF704GHZ ENCSR233FJO signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF280D ZNF280D ENCSR233FJO signal Experimental 
wgEncodeReg4TfChip_ENCFF203BIA ENCSR233FJO HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF280D ZNF280D peaks Experimental 
wgEncodeReg4TfChip_ENCFF824QYA ENCSR233FAG signal HEK293T PKNOX1 ENCSR233FAG signal Experimental 
wgEncodeReg4TfChip_ENCFF174WDB ENCSR233FAG HEK293T PKNOX1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF872ERK ENCSR232OFD signal right atrium auricular region tissue female adult (51 years) CTCF ENCSR232OFD signal Experimental 
wgEncodeReg4TfChip_ENCFF037FCW ENCSR232OFD right atrium auricular region tissue female adult (51 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF297RQV ENCSR232LLP signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens FOXP4 FOXP4 ENCSR232LLP signal Experimental 
wgEncodeReg4TfChip_ENCFF462ULY ENCSR232LLP HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens FOXP4 FOXP4 peaks Experimental 
wgEncodeReg4TfChip_ENCFF738RLM ENCSR232AAR signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZBTB42 ZBTB42 ENCSR232AAR signal Experimental 
wgEncodeReg4TfChip_ENCFF153JWK ENCSR232AAR HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZBTB42 ZBTB42 peaks Experimental 
wgEncodeReg4TfChip_ENCFF094SFJ ENCSR231ZVN signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens FOXA3 FOXA3 ENCSR231ZVN signal Experimental 
wgEncodeReg4TfChip_ENCFF781VSC ENCSR231ZVN K562 genetically modified (insertion) using CRISPR targeting H. sapiens FOXA3 FOXA3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF528IZW ENCSR231YFE signal MCF-7 ZBTB33 ENCSR231YFE signal Experimental 
wgEncodeReg4TfChip_ENCFF622BUU ENCSR231YFE MCF-7 ZBTB33 peaks Experimental 
wgEncodeReg4TfChip_ENCFF553LQP ENCSR231PDA signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF319 ZNF319 ENCSR231PDA signal Experimental 
wgEncodeReg4TfChip_ENCFF561ZSB ENCSR231PDA K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF319 ZNF319 peaks Experimental 
wgEncodeReg4TfChip_ENCFF088OAW ENCSR230ZWH signal liver tissue female child (4 years) RAD21 ENCSR230ZWH signal Experimental 
wgEncodeReg4TfChip_ENCFF522JHE ENCSR230ZWH liver tissue female child (4 years) RAD21 peaks Experimental 
wgEncodeReg4TfChip_ENCFF800TZW ENCSR230RQK signal with Alzheimer's disease; middle frontal area 46 tissue female adult (90 or above years) CTCF ENCSR230RQK signal Experimental 
wgEncodeReg4TfChip_ENCFF230SFD ENCSR230RQK with Alzheimer's disease; middle frontal area 46 tissue female adult (90 or above years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF628FPX ENCSR230PTV signal K562 ZBTB2 ENCSR230PTV signal Experimental 
wgEncodeReg4TfChip_ENCFF290ESQ ENCSR230PTV K562 ZBTB2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF040LZA ENCSR230ORT signal prostate gland tissue male adult (54 years) CTCF ENCSR230ORT signal Experimental 
wgEncodeReg4TfChip_ENCFF462RCQ ENCSR230ORT prostate gland tissue male adult (54 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF484QFY ENCSR229DYF signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZBTB26 ZBTB26 ENCSR229DYF signal Experimental 
wgEncodeReg4TfChip_ENCFF752POA ENCSR229DYF HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZBTB26 ZBTB26 peaks Experimental 
wgEncodeReg4TfChip_ENCFF362LFW ENCSR228ZYW signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens STAT6 STAT6 ENCSR228ZYW signal Experimental 
wgEncodeReg4TfChip_ENCFF370LZV ENCSR228ZYW HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens STAT6 STAT6 peaks Experimental 
wgEncodeReg4TfChip_ENCFF069LRH ENCSR228ELU signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens TEAD1 TEAD1 ENCSR228ELU signal Experimental 
wgEncodeReg4TfChip_ENCFF254RJL ENCSR228ELU K562 genetically modified (insertion) using CRISPR targeting H. sapiens TEAD1 TEAD1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF896UJA ENCSR227PHM signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF501 ZNF501 ENCSR227PHM signal Experimental 
wgEncodeReg4TfChip_ENCFF879XZR ENCSR227PHM HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF501 ZNF501 peaks Experimental 
wgEncodeReg4TfChip_ENCFF457GPL ENCSR227MRE signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens KDM5B KDM5B ENCSR227MRE signal Experimental 
wgEncodeReg4TfChip_ENCFF706LUI ENCSR227MRE HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens KDM5B KDM5B peaks Experimental 
wgEncodeReg4TfChip_ENCFF960JLO ENCSR226QQM signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens NFIA NFIA ENCSR226QQM signal Experimental 
wgEncodeReg4TfChip_ENCFF815HWK ENCSR226QQM HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens NFIA NFIA peaks Experimental 
wgEncodeReg4TfChip_ENCFF926DVG ENCSR226NRS signal SK-N-SH genetically modified (insertion) using CRISPR targeting H. sapiens TOX2 treated with 6 μM all-trans-retinoic acid for 48 hours TOX2 ENCSR226NRS signal Experimental 
wgEncodeReg4TfChip_ENCFF415OYE ENCSR226NRS SK-N-SH genetically modified (insertion) using CRISPR targeting H. sapiens TOX2 treated with 6 μM all-trans-retinoic acid for 48 hours TOX2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF353GMS ENCSR225YGX signal spleen tissue male adult (54 years) CTCF ENCSR225YGX signal Experimental 
wgEncodeReg4TfChip_ENCFF326DUY ENCSR225YGX spleen tissue male adult (54 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF500DLZ ENCSR225SLE signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF569 ZNF569 ENCSR225SLE signal Experimental 
wgEncodeReg4TfChip_ENCFF594IPO ENCSR225SLE HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF569 ZNF569 peaks Experimental 
wgEncodeReg4TfChip_ENCFF501ILD ENCSR225OKX signal omental fat pad tissue female adult (51 years) CTCF ENCSR225OKX signal Experimental 
wgEncodeReg4TfChip_ENCFF461YDT ENCSR225OKX omental fat pad tissue female adult (51 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF192VBR ENCSR225KOS signal brain organoid female embryo (5 days): 180 days post differentiation CTCF ENCSR225KOS signal Experimental 
wgEncodeReg4TfChip_ENCFF163BBN ENCSR225KOS brain organoid female embryo (5 days): 180 days post differentiation CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF543MYI ENCSR224WWI signal upper lobe of left lung tissue female adult (53 years) CTCF ENCSR224WWI signal Experimental 
wgEncodeReg4TfChip_ENCFF169WSU ENCSR224WWI upper lobe of left lung tissue female adult (53 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF895UYP ENCSR224QDY signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF121 ZNF121 ENCSR224QDY signal Experimental 
wgEncodeReg4TfChip_ENCFF839FUF ENCSR224QDY HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF121 ZNF121 peaks Experimental 
wgEncodeReg4TfChip_ENCFF791UNN ENCSR224NQI signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF414 ZNF414 ENCSR224NQI signal Experimental 
wgEncodeReg4TfChip_ENCFF809EHH ENCSR224NQI HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF414 ZNF414 peaks Experimental 
wgEncodeReg4TfChip_ENCFF209FXA ENCSR224NFP signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF426 ZNF426 ENCSR224NFP signal Experimental 
wgEncodeReg4TfChip_ENCFF957XYN ENCSR224NFP HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF426 ZNF426 peaks Experimental 
wgEncodeReg4TfChip_ENCFF121WIY ENCSR223TAV signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens PRDM10 PRDM10 ENCSR223TAV signal Experimental 
wgEncodeReg4TfChip_ENCFF145WQQ ENCSR223TAV HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens PRDM10 PRDM10 peaks Experimental 
wgEncodeReg4TfChip_ENCFF985EXZ ENCSR222SQE signal sigmoid colon tissue male adult (54 years) CTCF ENCSR222SQE signal Experimental 
wgEncodeReg4TfChip_ENCFF086DZH ENCSR222SQE sigmoid colon tissue male adult (54 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF198XRJ ENCSR221GAN signal K562 MBD2 ENCSR221GAN signal Experimental 
wgEncodeReg4TfChip_ENCFF217VLV ENCSR221GAN K562 MBD2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF106XAK ENCSR220YXI signal K562 PRPF4 ENCSR220YXI signal Experimental 
wgEncodeReg4TfChip_ENCFF046WLD ENCSR220YXI K562 PRPF4 peaks Experimental 
wgEncodeReg4TfChip_ENCFF314EYW ENCSR220AQM signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens GTF3A GTF3A ENCSR220AQM signal Experimental 
wgEncodeReg4TfChip_ENCFF268DGX ENCSR220AQM HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens GTF3A GTF3A peaks Experimental 
wgEncodeReg4TfChip_ENCFF440CFP ENCSR219NRT signal HepG2 GTF2F1 ENCSR219NRT signal Experimental 
wgEncodeReg4TfChip_ENCFF486CCX ENCSR219NRT HepG2 GTF2F1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF409EXM ENCSR219MKK signal HeLa-S3 DEK ENCSR219MKK signal Experimental 
wgEncodeReg4TfChip_ENCFF948XBE ENCSR219MKK HeLa-S3 DEK peaks Experimental 
wgEncodeReg4TfChip_ENCFF354KQM ENCSR219GUP signal SK-N-SH genetically modified (insertion) using CRISPR targeting H. sapiens ZC3H10 treated with 6 μM all-trans-retinoic acid for 48 hours ZC3H10 ENCSR219GUP signal Experimental 
wgEncodeReg4TfChip_ENCFF465WAR ENCSR219GUP SK-N-SH genetically modified (insertion) using CRISPR targeting H. sapiens ZC3H10 treated with 6 μM all-trans-retinoic acid for 48 hours ZC3H10 peaks Experimental 
wgEncodeReg4TfChip_ENCFF949ZMY ENCSR219BXP signal K562 DPF2 ENCSR219BXP signal Experimental 
wgEncodeReg4TfChip_ENCFF739JDE ENCSR219BXP K562 DPF2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF943TBI ENCSR218QFN signal PC-3 EZH2 ENCSR218QFN signal Experimental 
wgEncodeReg4TfChip_ENCFF855OUB ENCSR218QFN PC-3 EZH2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF192FOK ENCSR218MVT signal neural crest cell CTCF ENCSR218MVT signal Experimental 
wgEncodeReg4TfChip_ENCFF182LWK ENCSR218MVT neural crest cell CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF625XHP ENCSR218GSN signal HEK293T ZFX ENCSR218GSN signal Experimental 
wgEncodeReg4TfChip_ENCFF402JZW ENCSR218GSN HEK293T ZFX peaks Experimental 
wgEncodeReg4TfChip_ENCFF923CEX ENCSR217WRC signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens TSHZ1 TSHZ1 ENCSR217WRC signal Experimental 
wgEncodeReg4TfChip_ENCFF893BGV ENCSR217WRC HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens TSHZ1 TSHZ1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF084DXP ENCSR217KAL signal esophagus muscularis mucosa tissue male adult (37 years) POLR2AphosphoS5 ENCSR217KAL signal Experimental 
wgEncodeReg4TfChip_ENCFF432ZCY ENCSR217KAL esophagus muscularis mucosa tissue male adult (37 years) POLR2AphosphoS5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF599ESN ENCSR217HTK signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ATF2 ATF2 ENCSR217HTK signal Experimental 
wgEncodeReg4TfChip_ENCFF194VKZ ENCSR217HTK HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ATF2 ATF2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF817POK ENCSR214ZAV signal GM23338 genetically modified (insertion) using CRISPR targeting H. sapiens CREB1 CREB1 ENCSR214ZAV signal Experimental 
wgEncodeReg4TfChip_ENCFF432ZEW ENCSR214ZAV GM23338 genetically modified (insertion) using CRISPR targeting H. sapiens CREB1 CREB1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF855CVL ENCSR214EKV signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF281 ZNF281 ENCSR214EKV signal Experimental 
wgEncodeReg4TfChip_ENCFF594VNM ENCSR214EKV K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF281 ZNF281 peaks Experimental 
wgEncodeReg4TfChip_ENCFF297KHP ENCSR213VUI signal K562 TRIM25 ENCSR213VUI signal Experimental 
wgEncodeReg4TfChip_ENCFF376TLP ENCSR213VUI K562 TRIM25 peaks Experimental 
wgEncodeReg4TfChip_ENCFF989PVS ENCSR213QOZ signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens SMAD1 SMAD1 ENCSR213QOZ signal Experimental 
wgEncodeReg4TfChip_ENCFF892OZT ENCSR213QOZ HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens SMAD1 SMAD1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF384ECB ENCSR213HBY signal K562 TOE1 ENCSR213HBY signal Experimental 
wgEncodeReg4TfChip_ENCFF728FRA ENCSR213HBY K562 TOE1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF292AVI ENCSR212YKD signal GM12878 SKIL ENCSR212YKD signal Experimental 
wgEncodeReg4TfChip_ENCFF171OVM ENCSR212YKD GM12878 SKIL peaks Experimental 
wgEncodeReg4TfChip_ENCFF255UHV ENCSR211PZO signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens GLI4 GLI4 ENCSR211PZO signal Experimental 
wgEncodeReg4TfChip_ENCFF606COZ ENCSR211PZO HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens GLI4 GLI4 peaks Experimental 
wgEncodeReg4TfChip_ENCFF577YFV ENCSR211LTF signal K562 EGR1 ENCSR211LTF signal Experimental 
wgEncodeReg4TfChip_ENCFF113OPQ ENCSR211LTF K562 EGR1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF072CVF ENCSR211GNP signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZSCAN4 ZSCAN4 ENCSR211GNP signal Experimental 
wgEncodeReg4TfChip_ENCFF381BKT ENCSR211GNP HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZSCAN4 ZSCAN4 peaks Experimental 
wgEncodeReg4TfChip_ENCFF409LLA ENCSR211AFA signal with mild cognitive impairment; middle frontal area 46 tissue female adult (90 or above years) CTCF ENCSR211AFA signal Experimental 
wgEncodeReg4TfChip_ENCFF767LNC ENCSR211AFA with mild cognitive impairment; middle frontal area 46 tissue female adult (90 or above years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF184JBV ENCSR210MET signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF391 ZNF391 ENCSR210MET signal Experimental 
wgEncodeReg4TfChip_ENCFF835SNY ENCSR210MET HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF391 ZNF391 peaks Experimental 
wgEncodeReg4TfChip_ENCFF966EPW ENCSR210HBN signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens IKZF5 IKZF5 ENCSR210HBN signal Experimental 
wgEncodeReg4TfChip_ENCFF641EBK ENCSR210HBN HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens IKZF5 IKZF5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF331MYM ENCSR207WFD signal A549 genetically modified (insertion) using CRISPR targeting H. sapiens HMGA2 HMGA2 ENCSR207WFD signal Experimental 
wgEncodeReg4TfChip_ENCFF624CAQ ENCSR207WFD A549 genetically modified (insertion) using CRISPR targeting H. sapiens HMGA2 HMGA2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF758XVK ENCSR207PFI signal GM12878 ZBED1 ENCSR207PFI signal Experimental 
wgEncodeReg4TfChip_ENCFF007OSW ENCSR207PFI GM12878 ZBED1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF459BRB ENCSR207GYC signal SK-N-SH genetically modified (insertion) using CRISPR targeting H. sapiens ZNF70 treated with 6 μM all-trans-retinoic acid for 48 hours ZNF70 ENCSR207GYC signal Experimental 
wgEncodeReg4TfChip_ENCFF833ACX ENCSR207GYC SK-N-SH genetically modified (insertion) using CRISPR targeting H. sapiens ZNF70 treated with 6 μM all-trans-retinoic acid for 48 hours ZNF70 peaks Experimental 
wgEncodeReg4TfChip_ENCFF733RSG ENCSR206ETG signal gastroesophageal sphincter tissue female adult (53 years) CTCF ENCSR206ETG signal Experimental 
wgEncodeReg4TfChip_ENCFF546QIK ENCSR206ETG gastroesophageal sphincter tissue female adult (53 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF902KCU ENCSR206BVQ signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF786 ZNF786 ENCSR206BVQ signal Experimental 
wgEncodeReg4TfChip_ENCFF672KVS ENCSR206BVQ HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF786 ZNF786 peaks Experimental 
wgEncodeReg4TfChip_ENCFF611FLJ ENCSR205FOW signal liver tissue female child (4 years) ATF3 ENCSR205FOW signal Experimental 
wgEncodeReg4TfChip_ENCFF867MFZ ENCSR205FOW liver tissue female child (4 years) ATF3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF560NMI ENCSR204ALX signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF431 ZNF431 ENCSR204ALX signal Experimental 
wgEncodeReg4TfChip_ENCFF737MDY ENCSR204ALX HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF431 ZNF431 peaks Experimental 
wgEncodeReg4TfChip_ENCFF004ITE ENCSR203QEB signal Panc1 CTCF ENCSR203QEB signal Experimental 
wgEncodeReg4TfChip_ENCFF056JQX ENCSR203QEB Panc1 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF507QQP ENCSR201NQZ signal K562 CTBP1 ENCSR201NQZ signal Experimental 
wgEncodeReg4TfChip_ENCFF403WPG ENCSR201NQZ K562 CTBP1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF625JWJ ENCSR201GGK signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens NFIL3 NFIL3 ENCSR201GGK signal Experimental 
wgEncodeReg4TfChip_ENCFF686VLI ENCSR201GGK HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens NFIL3 NFIL3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF989CXT ENCSR200JYP signal K562 ZNF316 ENCSR200JYP signal Experimental 
wgEncodeReg4TfChip_ENCFF281INV ENCSR200JYP K562 ZNF316 peaks Experimental 
wgEncodeReg4TfChip_ENCFF231WWY ENCSR199WXF signal GM12878 EED ENCSR199WXF signal Experimental 
wgEncodeReg4TfChip_ENCFF266FYW ENCSR199WXF GM12878 EED peaks Experimental 
wgEncodeReg4TfChip_ENCFF763TCD ENCSR198ZYJ signal neural cell originated from H1 RAD21 ENCSR198ZYJ signal Experimental 
wgEncodeReg4TfChip_ENCFF564MOT ENCSR198ZYJ neural cell originated from H1 RAD21 peaks Experimental 
wgEncodeReg4TfChip_ENCFF931TIH ENCSR198RHC signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF782 ZNF782 ENCSR198RHC signal Experimental 
wgEncodeReg4TfChip_ENCFF449SAF ENCSR198RHC HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF782 ZNF782 peaks Experimental 
wgEncodeReg4TfChip_ENCFF991KIG ENCSR198BHH signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF550 ZNF550 ENCSR198BHH signal Experimental 
wgEncodeReg4TfChip_ENCFF175OGG ENCSR198BHH HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF550 ZNF550 peaks Experimental 
wgEncodeReg4TfChip_ENCFF392PIY ENCSR197WGI signal IMR-90 NFE2L2 ENCSR197WGI signal Experimental 
wgEncodeReg4TfChip_ENCFF059WEE ENCSR197WGI IMR-90 NFE2L2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF513GWQ ENCSR197DJH signal MCF-7 SREBF1 ENCSR197DJH signal Experimental 
wgEncodeReg4TfChip_ENCFF254QOR ENCSR197DJH MCF-7 SREBF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF682FBH ENCSR197ALX K562 HDGF peaks Experimental 
wgEncodeReg4TfChip_ENCFF354RCZ ENCSR196HOM signal epithelial cell of prostate male CTCF ENCSR196HOM signal Experimental 
wgEncodeReg4TfChip_ENCFF086GTI ENCSR196HOM epithelial cell of prostate male CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF809ERV ENCSR196HGZ signal liver tissue female child (4 years) JUND ENCSR196HGZ signal Experimental 
wgEncodeReg4TfChip_ENCFF557PGE ENCSR196HGZ liver tissue female child (4 years) JUND peaks Experimental 
wgEncodeReg4TfChip_ENCFF113ACP ENCSR196FSX signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZFP82 ZFP82 ENCSR196FSX signal Experimental 
wgEncodeReg4TfChip_ENCFF665HBX ENCSR196FSX HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZFP82 ZFP82 peaks Experimental 
wgEncodeReg4TfChip_ENCFF919TET ENCSR195QFV signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF3 ZNF3 ENCSR195QFV signal Experimental 
wgEncodeReg4TfChip_ENCFF540WBG ENCSR195QFV K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF3 ZNF3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF812ODW ENCSR195POA signal lower lobe of left lung tissue male adult (60 years) CTCF ENCSR195POA signal Experimental 
wgEncodeReg4TfChip_ENCFF906NCV ENCSR195POA lower lobe of left lung tissue male adult (60 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF923LDW ENCSR194WQV signal nephron organoid female embryo (5 days): 49 days post differentiation CTCF ENCSR194WQV signal Experimental 
wgEncodeReg4TfChip_ENCFF972IQB ENCSR194WQV nephron organoid female embryo (5 days): 49 days post differentiation CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF119IFW ENCSR194NVP signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens MTF1 MTF1 ENCSR194NVP signal Experimental 
wgEncodeReg4TfChip_ENCFF957BIY ENCSR194NVP HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens MTF1 MTF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF766UON ENCSR194IJN signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF766 ZNF766 ENCSR194IJN signal Experimental 
wgEncodeReg4TfChip_ENCFF348LDO ENCSR194IJN K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF766 ZNF766 peaks Experimental 
wgEncodeReg4TfChip_ENCFF714UYV ENCSR193ZLW signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens THAP7 THAP7 ENCSR193ZLW signal Experimental 
wgEncodeReg4TfChip_ENCFF018XUY ENCSR193ZLW K562 genetically modified (insertion) using CRISPR targeting H. sapiens THAP7 THAP7 peaks Experimental 
wgEncodeReg4TfChip_ENCFF959BTR ENCSR193NSH signal A549 RAD21 ENCSR193NSH signal Experimental 
wgEncodeReg4TfChip_ENCFF264AHX ENCSR193NSH A549 RAD21 peaks Experimental 
wgEncodeReg4TfChip_ENCFF122RAF ENCSR193ADW signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens SETDB1 SETDB1 ENCSR193ADW signal Experimental 
wgEncodeReg4TfChip_ENCFF878HLP ENCSR193ADW HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens SETDB1 SETDB1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF737UUH ENCSR192SKV signal A549 genetically modified (insertion) using CRISPR targeting H. sapiens HMGXB4 HMGXB4 ENCSR192SKV signal Experimental 
wgEncodeReg4TfChip_ENCFF261MIW ENCSR192SKV A549 genetically modified (insertion) using CRISPR targeting H. sapiens HMGXB4 HMGXB4 peaks Experimental 
wgEncodeReg4TfChip_ENCFF454QIB ENCSR192PBJ signal A549 JUN ENCSR192PBJ signal Experimental 
wgEncodeReg4TfChip_ENCFF846DUV ENCSR192PBJ A549 JUN peaks Experimental 
wgEncodeReg4TfChip_ENCFF759BRU ENCSR192AFN signal GM12878 PAX8 ENCSR192AFN signal Experimental 
wgEncodeReg4TfChip_ENCFF033MGF ENCSR192AFN GM12878 PAX8 peaks Experimental 
wgEncodeReg4TfChip_ENCFF479SCT ENCSR191TLD signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens PHF5A PHF5A ENCSR191TLD signal Experimental 
wgEncodeReg4TfChip_ENCFF054OSA ENCSR191TLD HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens PHF5A PHF5A peaks Experimental 
wgEncodeReg4TfChip_ENCFF585LXB ENCSR190GIW signal A549 genetically modified (insertion) using CRISPR targeting H. sapiens NR5A2 NR5A2 ENCSR190GIW signal Experimental 
wgEncodeReg4TfChip_ENCFF834RVE ENCSR190GIW A549 genetically modified (insertion) using CRISPR targeting H. sapiens NR5A2 NR5A2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF044ORH ENCSR190BZA signal chondrocyte CTCF ENCSR190BZA signal Experimental 
wgEncodeReg4TfChip_ENCFF134ORZ ENCSR190BZA chondrocyte CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF421NUI ENCSR189YYK signal GM12878 ZBTB40 ENCSR189YYK signal Experimental 
wgEncodeReg4TfChip_ENCFF346DYM ENCSR189YYK GM12878 ZBTB40 peaks Experimental 
wgEncodeReg4TfChip_ENCFF710TIG ENCSR189YMA signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens VEZF1 VEZF1 ENCSR189YMA signal Experimental 
wgEncodeReg4TfChip_ENCFF053XDV ENCSR189YMA K562 genetically modified (insertion) using CRISPR targeting H. sapiens VEZF1 VEZF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF978FPE ENCSR189VXS signal K562 GTF2F1 ENCSR189VXS signal Experimental 
wgEncodeReg4TfChip_ENCFF485ALN ENCSR189VXS K562 GTF2F1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF276RGD ENCSR189TRZ signal K562 TCF12 ENCSR189TRZ signal Experimental 
wgEncodeReg4TfChip_ENCFF909RDY ENCSR189TRZ K562 TCF12 peaks Experimental 
wgEncodeReg4TfChip_ENCFF796PZW ENCSR188XCX signal adrenal gland tissue female adult (41 years) CTCF ENCSR188XCX signal Experimental 
wgEncodeReg4TfChip_ENCFF257AUK ENCSR188XCX adrenal gland tissue female adult (41 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF269OSH ENCSR188EMJ signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens SNAI1 SNAI1 ENCSR188EMJ signal Experimental 
wgEncodeReg4TfChip_ENCFF017SIW ENCSR188EMJ HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens SNAI1 SNAI1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF517ABA ENCSR186NVR signal gastroesophageal sphincter tissue male adult (37 years) CTCF ENCSR186NVR signal Experimental 
wgEncodeReg4TfChip_ENCFF918KPI ENCSR186NVR gastroesophageal sphincter tissue male adult (37 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF767DAS ENCSR185QFX signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF549 ZNF549 ENCSR185QFX signal Experimental 
wgEncodeReg4TfChip_ENCFF565EYY ENCSR185QFX HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF549 ZNF549 peaks Experimental 
wgEncodeReg4TfChip_ENCFF798CWR ENCSR185FOY signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF341 ZNF341 ENCSR185FOY signal Experimental 
wgEncodeReg4TfChip_ENCFF944VMC ENCSR185FOY HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF341 ZNF341 peaks Experimental 
wgEncodeReg4TfChip_ENCFF807KJZ ENCSR185CCV signal stomach tissue female adult (53 years) CTCF ENCSR185CCV signal Experimental 
wgEncodeReg4TfChip_ENCFF918GTC ENCSR185CCV stomach tissue female adult (53 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF469USB ENCSR185AYQ signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens DR1 DR1 ENCSR185AYQ signal Experimental 
wgEncodeReg4TfChip_ENCFF818WYO ENCSR185AYQ HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens DR1 DR1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF489IGB ENCSR184SVO signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZBTB26 ZBTB26 ENCSR184SVO signal Experimental 
wgEncodeReg4TfChip_ENCFF492SAJ ENCSR184SVO HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZBTB26 ZBTB26 peaks Experimental 
wgEncodeReg4TfChip_ENCFF710BEC ENCSR184MFH signal HeLa-S3 ZFP36 ENCSR184MFH signal Experimental 
wgEncodeReg4TfChip_ENCFF281CEA ENCSR184MFH HeLa-S3 ZFP36 peaks Experimental 
wgEncodeReg4TfChip_ENCFF680RHF ENCSR183AXJ signal HepG2 HNRNPUL1 ENCSR183AXJ signal Experimental 
wgEncodeReg4TfChip_ENCFF066YCU ENCSR183AXJ HepG2 HNRNPUL1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF249CBL ENCSR182QWU signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF3 ZNF3 ENCSR182QWU signal Experimental 
wgEncodeReg4TfChip_ENCFF299MFD ENCSR182QWU HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF3 ZNF3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF539HHR ENCSR181ABP signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF768 ZNF768 ENCSR181ABP signal Experimental 
wgEncodeReg4TfChip_ENCFF388QCK ENCSR181ABP HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF768 ZNF768 peaks Experimental 
wgEncodeReg4TfChip_ENCFF456PXR ENCSR180MUU signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens RREB1 RREB1 ENCSR180MUU signal Experimental 
wgEncodeReg4TfChip_ENCFF986CSN ENCSR180MUU HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens RREB1 RREB1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF046LPW ENCSR179SAO signal A673 EZH2 ENCSR179SAO signal Experimental 
wgEncodeReg4TfChip_ENCFF955JRZ ENCSR179SAO A673 EZH2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF264YJM ENCSR178NTX signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens CUX1 CUX1 ENCSR178NTX signal Experimental 
wgEncodeReg4TfChip_ENCFF902MYN ENCSR178NTX K562 genetically modified (insertion) using CRISPR targeting H. sapiens CUX1 CUX1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF002KIE ENCSR178DEG signal K562 stably expressing NR2C1 NR2C1 ENCSR178DEG signal Experimental 
wgEncodeReg4TfChip_ENCFF568JLK ENCSR178DEG K562 stably expressing NR2C1 NR2C1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF031VIJ ENCSR177XCS signal K562 BRD9 ENCSR177XCS signal Experimental 
wgEncodeReg4TfChip_ENCFF480JXZ ENCSR177XCS K562 BRD9 peaks Experimental 
wgEncodeReg4TfChip_ENCFF931IBK ENCSR177VFS signal GM12878 MEF2B ENCSR177VFS signal Experimental 
wgEncodeReg4TfChip_ENCFF427QAI ENCSR177VFS GM12878 MEF2B peaks Experimental 
wgEncodeReg4TfChip_ENCFF714YZY ENCSR177DNR signal K562 FIP1L1 ENCSR177DNR signal Experimental 
wgEncodeReg4TfChip_ENCFF363ZMN ENCSR177DNR K562 FIP1L1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF213CMB ENCSR176EXN signal MCF-7 JUN ENCSR176EXN signal Experimental 
wgEncodeReg4TfChip_ENCFF242UOB ENCSR176EXN MCF-7 JUN peaks Experimental 
wgEncodeReg4TfChip_ENCFF872JMF ENCSR175SZH signal K562 ZSCAN29 ENCSR175SZH signal Experimental 
wgEncodeReg4TfChip_ENCFF797SOU ENCSR175SZH K562 ZSCAN29 peaks Experimental 
wgEncodeReg4TfChip_ENCFF341RAH ENCSR175FLL signal coronary artery tissue female adult (53 years) CTCF ENCSR175FLL signal Experimental 
wgEncodeReg4TfChip_ENCFF483TFF ENCSR175FLL coronary artery tissue female adult (53 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF090ZAX ENCSR175EOM signal K562 EHMT2 ENCSR175EOM signal Experimental 
wgEncodeReg4TfChip_ENCFF053BWO ENCSR175EOM K562 EHMT2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF311YSI ENCSR175BVD signal lower leg skin tissue male adult (37 years) POLR2A ENCSR175BVD signal Experimental 
wgEncodeReg4TfChip_ENCFF058ULB ENCSR175BVD lower leg skin tissue male adult (37 years) POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF407DIL ENCSR174GOO signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens HMGXB4 HMGXB4 ENCSR174GOO signal Experimental 
wgEncodeReg4TfChip_ENCFF179TAD ENCSR174GOO HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens HMGXB4 HMGXB4 peaks Experimental 
wgEncodeReg4TfChip_ENCFF574SCI ENCSR173ZVL signal GM12878 ZNF592 ENCSR173ZVL signal Experimental 
wgEncodeReg4TfChip_ENCFF818ABS ENCSR173ZVL GM12878 ZNF592 peaks Experimental 
wgEncodeReg4TfChip_ENCFF326JKI ENCSR173USN signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZBTB43 ZBTB43 ENCSR173USN signal Experimental 
wgEncodeReg4TfChip_ENCFF487RQI ENCSR173USN HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZBTB43 ZBTB43 peaks Experimental 
wgEncodeReg4TfChip_ENCFF004GTR ENCSR173NAL signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF598 ZNF598 ENCSR173NAL signal Experimental 
wgEncodeReg4TfChip_ENCFF356UIO ENCSR173NAL HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF598 ZNF598 peaks Experimental 
wgEncodeReg4TfChip_ENCFF489DAX ENCSR173CTF signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF580 ZNF580 ENCSR173CTF signal Experimental 
wgEncodeReg4TfChip_ENCFF943KSI ENCSR173CTF HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF580 ZNF580 peaks Experimental 
wgEncodeReg4TfChip_ENCFF899XIQ ENCSR173AIR signal stomach tissue female adult (51 years) CTCF ENCSR173AIR signal Experimental 
wgEncodeReg4TfChip_ENCFF370OWL ENCSR173AIR stomach tissue female adult (51 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF108DNB ENCSR172XJS signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF165 ZNF165 ENCSR172XJS signal Experimental 
wgEncodeReg4TfChip_ENCFF039BMN ENCSR172XJS K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF165 ZNF165 peaks Experimental 
wgEncodeReg4TfChip_ENCFF402KJP ENCSR172OSX signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZBTB12 ZBTB12 ENCSR172OSX signal Experimental 
wgEncodeReg4TfChip_ENCFF933CVM ENCSR172OSX K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZBTB12 ZBTB12 peaks Experimental 
wgEncodeReg4TfChip_ENCFF577TLG ENCSR171TDM signal A549 genetically modified (insertion) using CRISPR targeting H. sapiens EHF EHF ENCSR171TDM signal Experimental 
wgEncodeReg4TfChip_ENCFF352AOI ENCSR171TDM A549 genetically modified (insertion) using CRISPR targeting H. sapiens EHF EHF peaks Experimental 
wgEncodeReg4TfChip_ENCFF618HPY ENCSR171KUL signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF513 ZNF513 ENCSR171KUL signal Experimental 
wgEncodeReg4TfChip_ENCFF470YPH ENCSR171KUL HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF513 ZNF513 peaks Experimental 
wgEncodeReg4TfChip_ENCFF315IGY ENCSR171FUX signal HepG2 FOXK2 ENCSR171FUX signal Experimental 
wgEncodeReg4TfChip_ENCFF068YAS ENCSR171FUX HepG2 FOXK2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF979YTG ENCSR171CAY signal K562 E2F7 ENCSR171CAY signal Experimental 
wgEncodeReg4TfChip_ENCFF212JSU ENCSR171CAY K562 E2F7 peaks Experimental 
wgEncodeReg4TfChip_ENCFF553KCM ENCSR171BKT signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF674 ZNF674 ENCSR171BKT signal Experimental 
wgEncodeReg4TfChip_ENCFF681YNN ENCSR171BKT HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF674 ZNF674 peaks Experimental 
wgEncodeReg4TfChip_ENCFF543LPM ENCSR170NMC signal transverse colon tissue female adult (51 years) POLR2AphosphoS5 ENCSR170NMC signal Experimental 
wgEncodeReg4TfChip_ENCFF840PXT ENCSR170NMC transverse colon tissue female adult (51 years) POLR2AphosphoS5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF902EPM ENCSR170AMG signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens FOXC1 FOXC1 ENCSR170AMG signal Experimental 
wgEncodeReg4TfChip_ENCFF882ISP ENCSR170AMG HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens FOXC1 FOXC1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF277SAB ENCSR169JRW signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZSCAN20 ZSCAN20 ENCSR169JRW signal Experimental 
wgEncodeReg4TfChip_ENCFF159KVX ENCSR169JRW HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZSCAN20 ZSCAN20 peaks Experimental 
wgEncodeReg4TfChip_ENCFF067EQX ENCSR168SMX signal liver tissue female child (4 years) NR2F2 ENCSR168SMX signal Experimental 
wgEncodeReg4TfChip_ENCFF565JGD ENCSR168SMX liver tissue female child (4 years) NR2F2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF741DPN ENCSR168KQC signal middle frontal area 46 tissue female adult (84 years) CTCF ENCSR168KQC signal Experimental 
wgEncodeReg4TfChip_ENCFF377YBQ ENCSR168KQC middle frontal area 46 tissue female adult (84 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF633BYS ENCSR168DYA signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens MAX MAX ENCSR168DYA signal Experimental 
wgEncodeReg4TfChip_ENCFF507HCX ENCSR168DYA HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens MAX MAX peaks Experimental 
wgEncodeReg4TfChip_ENCFF428DEK ENCSR168CEE signal K562 NCOA6 ENCSR168CEE signal Experimental 
wgEncodeReg4TfChip_ENCFF471USR ENCSR168CEE K562 NCOA6 peaks Experimental 
wgEncodeReg4TfChip_ENCFF536PPX ENCSR168AUX signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens AHDC1 AHDC1 ENCSR168AUX signal Experimental 
wgEncodeReg4TfChip_ENCFF069FSH ENCSR168AUX HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens AHDC1 AHDC1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF338UCS ENCSR167MTG signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens STAG1 STAG1 ENCSR167MTG signal Experimental 
wgEncodeReg4TfChip_ENCFF843EBZ ENCSR167MTG HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens STAG1 STAG1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF364MPH ENCSR167KBO signal K562 ZNF316 ENCSR167KBO signal Experimental 
wgEncodeReg4TfChip_ENCFF838QCD ENCSR167KBO K562 ZNF316 peaks Experimental 
wgEncodeReg4TfChip_ENCFF625IEL ENCSR167JBG signal K562 stably expressing DIDO1 DIDO1 ENCSR167JBG signal Experimental 
wgEncodeReg4TfChip_ENCFF284OXF ENCSR167JBG K562 stably expressing DIDO1 DIDO1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF277OWZ ENCSR165YVX signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens MXD1 MXD1 ENCSR165YVX signal Experimental 
wgEncodeReg4TfChip_ENCFF717MYN ENCSR165YVX HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens MXD1 MXD1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF166NEA ENCSR164YJZ signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens NFKB2 NFKB2 ENCSR164YJZ signal Experimental 
wgEncodeReg4TfChip_ENCFF165NTY ENCSR164YJZ HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens NFKB2 NFKB2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF330STE ENCSR164RIC signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF444 ZNF444 ENCSR164RIC signal Experimental 
wgEncodeReg4TfChip_ENCFF329VCH ENCSR164RIC K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF444 ZNF444 peaks Experimental 
wgEncodeReg4TfChip_ENCFF406SZM ENCSR163ULN signal HFFc6 CTCF ENCSR163ULN signal Experimental 
wgEncodeReg4TfChip_ENCFF005CJI ENCSR163ULN HFFc6 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF323CCB ENCSR163RYW signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF189 ZNF189 ENCSR163RYW signal Experimental 
wgEncodeReg4TfChip_ENCFF638TIB ENCSR163RYW HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF189 ZNF189 peaks Experimental 
wgEncodeReg4TfChip_ENCFF454IIJ ENCSR163IUV signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens MAZ MAZ ENCSR163IUV signal Experimental 
wgEncodeReg4TfChip_ENCFF809XHP ENCSR163IUV K562 genetically modified (insertion) using CRISPR targeting H. sapiens MAZ MAZ peaks Experimental 
wgEncodeReg4TfChip_ENCFF275EAX ENCSR162IEM signal K562 MYBL2 ENCSR162IEM signal Experimental 
wgEncodeReg4TfChip_ENCFF299JBQ ENCSR162IEM K562 MYBL2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF126OLZ ENCSR161CZA signal A549 genetically modified (insertion) using CRISPR targeting H. sapiens ATOH8 ATOH8 ENCSR161CZA signal Experimental 
wgEncodeReg4TfChip_ENCFF772HNB ENCSR161CZA A549 genetically modified (insertion) using CRISPR targeting H. sapiens ATOH8 ATOH8 peaks Experimental 
wgEncodeReg4TfChip_ENCFF918XRD ENCSR160ZLP signal H1 KDM5A ENCSR160ZLP signal Experimental 
wgEncodeReg4TfChip_ENCFF987NIN ENCSR160ZLP H1 KDM5A peaks Experimental 
wgEncodeReg4TfChip_ENCFF759EVQ ENCSR160QYK signal K562 GATAD2A ENCSR160QYK signal Experimental 
wgEncodeReg4TfChip_ENCFF071LJW ENCSR160QYK K562 GATAD2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF889LBD ENCSR159RBE signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens GLYR1 GLYR1 ENCSR159RBE signal Experimental 
wgEncodeReg4TfChip_ENCFF114PDZ ENCSR159RBE HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens GLYR1 GLYR1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF911VQF ENCSR159OCC signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens ATF1 ATF1 ENCSR159OCC signal Experimental 
wgEncodeReg4TfChip_ENCFF282LOA ENCSR159OCC K562 genetically modified (insertion) using CRISPR targeting H. sapiens ATF1 ATF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF419WYD ENCSR159GFL signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF518A ZNF518A ENCSR159GFL signal Experimental 
wgEncodeReg4TfChip_ENCFF892ULS ENCSR159GFL HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF518A ZNF518A peaks Experimental 
wgEncodeReg4TfChip_ENCFF861RJN ENCSR159DQO signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ERF ERF ENCSR159DQO signal Experimental 
wgEncodeReg4TfChip_ENCFF647PIT ENCSR159DQO HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ERF ERF peaks Experimental 
wgEncodeReg4TfChip_ENCFF365AMU ENCSR159BTO signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZKSCAN5 ZKSCAN5 ENCSR159BTO signal Experimental 
wgEncodeReg4TfChip_ENCFF579HCQ ENCSR159BTO HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZKSCAN5 ZKSCAN5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF403PIA ENCSR158RYZ signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZBTB40 ZBTB40 ENCSR158RYZ signal Experimental 
wgEncodeReg4TfChip_ENCFF337GJB ENCSR158RYZ K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZBTB40 ZBTB40 peaks Experimental 
wgEncodeReg4TfChip_ENCFF779LQX ENCSR158LJN signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens MAX MAX ENCSR158LJN signal Experimental 
wgEncodeReg4TfChip_ENCFF398VJM ENCSR158LJN K562 genetically modified (insertion) using CRISPR targeting H. sapiens MAX MAX peaks Experimental 
wgEncodeReg4TfChip_ENCFF699ZXR ENCSR157TCS signal K562 SMARCE1 ENCSR157TCS signal Experimental 
wgEncodeReg4TfChip_ENCFF690CFF ENCSR157TCS K562 SMARCE1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF971HGW ENCSR157CEN signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF205 ZNF205 ENCSR157CEN signal Experimental 
wgEncodeReg4TfChip_ENCFF931LZG ENCSR157CEN HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF205 ZNF205 peaks Experimental 
wgEncodeReg4TfChip_ENCFF653IOV ENCSR157CAU signal HepG2 ZKSCAN1 ENCSR157CAU signal Experimental 
wgEncodeReg4TfChip_ENCFF578KDY ENCSR157CAU HepG2 ZKSCAN1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF476VVV ENCSR156UQO signal esophagus squamous epithelium tissue male adult (37 years) POLR2A ENCSR156UQO signal Experimental 
wgEncodeReg4TfChip_ENCFF297FPP ENCSR156UQO esophagus squamous epithelium tissue male adult (37 years) POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF296LMJ ENCSR156CWW signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens DNMT3B DNMT3B ENCSR156CWW signal Experimental 
wgEncodeReg4TfChip_ENCFF341GEA ENCSR156CWW HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens DNMT3B DNMT3B peaks Experimental 
wgEncodeReg4TfChip_ENCFF423VMC ENCSR156APP signal HepG2 PTBP1 ENCSR156APP signal Experimental 
wgEncodeReg4TfChip_ENCFF046OVF ENCSR156APP HepG2 PTBP1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF731QHL ENCSR155VDK signal MCF-7 ZBTB11 ENCSR155VDK signal Experimental 
wgEncodeReg4TfChip_ENCFF930FLM ENCSR155VDK MCF-7 ZBTB11 peaks Experimental 
wgEncodeReg4TfChip_ENCFF466GVY ENCSR155KHM signal K562 ARNT ENCSR155KHM signal Experimental 
wgEncodeReg4TfChip_ENCFF291CXK ENCSR155KHM K562 ARNT peaks Experimental 
wgEncodeReg4TfChip_ENCFF749NGH ENCSR154YWK signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF558 ZNF558 ENCSR154YWK signal Experimental 
wgEncodeReg4TfChip_ENCFF210VCS ENCSR154YWK HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF558 ZNF558 peaks Experimental 
wgEncodeReg4TfChip_ENCFF238AXS ENCSR154GUK signal tibial nerve tissue female adult (51 years) POLR2A ENCSR154GUK signal Experimental 
wgEncodeReg4TfChip_ENCFF983HAU ENCSR154GUK tibial nerve tissue female adult (51 years) POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF032KSP ENCSR153HNT signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens STAG1 STAG1 ENCSR153HNT signal Experimental 
wgEncodeReg4TfChip_ENCFF674HJF ENCSR153HNT K562 genetically modified (insertion) using CRISPR targeting H. sapiens STAG1 STAG1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF097LEQ ENCSR151NQL signal HepG2 AGO2 ENCSR151NQL signal Experimental 
wgEncodeReg4TfChip_ENCFF252VFI ENCSR151NQL HepG2 AGO2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF820QVO ENCSR150EFU signal A549 SMC3 ENCSR150EFU signal Experimental 
wgEncodeReg4TfChip_ENCFF079FKB ENCSR150EFU A549 SMC3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF059LOW ENCSR149ZBI signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF584 ZNF584 ENCSR149ZBI signal Experimental 
wgEncodeReg4TfChip_ENCFF771INO ENCSR149ZBI K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF584 ZNF584 peaks Experimental 
wgEncodeReg4TfChip_ENCFF045SLO ENCSR147PYL signal esophagus squamous epithelium tissue female adult (53 years) POLR2A ENCSR147PYL signal Experimental 
wgEncodeReg4TfChip_ENCFF708IOX ENCSR147PYL esophagus squamous epithelium tissue female adult (53 years) POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF283BBC ENCSR146NLL signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens REPIN1 REPIN1 ENCSR146NLL signal Experimental 
wgEncodeReg4TfChip_ENCFF457XPY ENCSR146NLL HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens REPIN1 REPIN1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF561IIV ENCSR146BGM signal gastroesophageal sphincter tissue female adult (51 years) CTCF ENCSR146BGM signal Experimental 
wgEncodeReg4TfChip_ENCFF125ESZ ENCSR146BGM gastroesophageal sphincter tissue female adult (51 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF378BJI ENCSR145XQO signal GM12878 HDGF ENCSR145XQO signal Experimental 
wgEncodeReg4TfChip_ENCFF653WYI ENCSR145XQO GM12878 HDGF peaks Experimental 
wgEncodeReg4TfChip_ENCFF891VJC ENCSR145TSJ signal K562 ATF4 ENCSR145TSJ signal Experimental 
wgEncodeReg4TfChip_ENCFF674KTF ENCSR145TSJ K562 ATF4 peaks Experimental 
wgEncodeReg4TfChip_ENCFF835QNV ENCSR145QNL signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens USF2 USF2 ENCSR145QNL signal Experimental 
wgEncodeReg4TfChip_ENCFF433IUE ENCSR145QNL HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens USF2 USF2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF841RLM ENCSR145HBC signal thyroid gland tissue female adult (51 years) CTCF ENCSR145HBC signal Experimental 
wgEncodeReg4TfChip_ENCFF196PRN ENCSR145HBC thyroid gland tissue female adult (51 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF030PTI ENCSR145CXH signal HepG2 TARDBP ENCSR145CXH signal Experimental 
wgEncodeReg4TfChip_ENCFF132LKJ ENCSR145CXH HepG2 TARDBP peaks Experimental 
wgEncodeReg4TfChip_ENCFF941CIH ENCSR144NTH signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens RBAK RBAK ENCSR144NTH signal Experimental 
wgEncodeReg4TfChip_ENCFF712MSJ ENCSR144NTH HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens RBAK RBAK peaks Experimental 
wgEncodeReg4TfChip_ENCFF555WZA ENCSR143CEO signal K562 ZC3H8 ENCSR143CEO signal Experimental 
wgEncodeReg4TfChip_ENCFF462ENR ENCSR143CEO K562 ZC3H8 peaks Experimental 
wgEncodeReg4TfChip_ENCFF849PFU ENCSR142SQX signal uterus tissue female adult (53 years) POLR2A ENCSR142SQX signal Experimental 
wgEncodeReg4TfChip_ENCFF208ADI ENCSR142SQX uterus tissue female adult (53 years) POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF014DLQ ENCSR142IGM signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens CEBPA CEBPA ENCSR142IGM signal Experimental 
wgEncodeReg4TfChip_ENCFF175DFS ENCSR142IGM HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens CEBPA CEBPA peaks Experimental 
wgEncodeReg4TfChip_ENCFF511YMM ENCSR141PZA signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens SP3 SP3 ENCSR141PZA signal Experimental 
wgEncodeReg4TfChip_ENCFF087XLA ENCSR141PZA HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens SP3 SP3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF969RID ENCSR141ELR signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF778 ZNF778 ENCSR141ELR signal Experimental 
wgEncodeReg4TfChip_ENCFF967DPC ENCSR141ELR HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF778 ZNF778 peaks Experimental 
wgEncodeReg4TfChip_ENCFF896JUM ENCSR140DSL signal HeLa-S3 MAFF ENCSR140DSL signal Experimental 
wgEncodeReg4TfChip_ENCFF783SBT ENCSR140DSL HeLa-S3 MAFF peaks Experimental 
wgEncodeReg4TfChip_ENCFF571MUD ENCSR138YYY signal K562 GABPB1 ENCSR138YYY signal Experimental 
wgEncodeReg4TfChip_ENCFF015GDS ENCSR138YYY K562 GABPB1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF063UTI ENCSR138FUZ signal K562 RNF2 ENCSR138FUZ signal Experimental 
wgEncodeReg4TfChip_ENCFF130DMJ ENCSR138FUZ K562 RNF2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF286HLX ENCSR137ZMQ signal K562 REST ENCSR137ZMQ signal Experimental 
wgEncodeReg4TfChip_ENCFF688UKW ENCSR137ZMQ K562 REST peaks Experimental 
wgEncodeReg4TfChip_ENCFF780VCE ENCSR136OFY signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens NR2F1 NR2F1 ENCSR136OFY signal Experimental 
wgEncodeReg4TfChip_ENCFF518ZRY ENCSR136OFY HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens NR2F1 NR2F1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF816RHK ENCSR135ANT signal MCF-7 NRF1 ENCSR135ANT signal Experimental 
wgEncodeReg4TfChip_ENCFF148IMD ENCSR135ANT MCF-7 NRF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF398RSV ENCSR134QIE signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZFP3 ZFP3 ENCSR134QIE signal Experimental 
wgEncodeReg4TfChip_ENCFF345CRU ENCSR134QIE HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZFP3 ZFP3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF033FEG ENCSR133AFF signal lower lobe of left lung tissue female adult (59 years) CTCF ENCSR133AFF signal Experimental 
wgEncodeReg4TfChip_ENCFF150FXW ENCSR133AFF lower lobe of left lung tissue female adult (59 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF031XGK ENCSR132XRW signal transverse colon tissue male adult (54 years) POLR2A ENCSR132XRW signal Experimental 
wgEncodeReg4TfChip_ENCFF098HBD ENCSR132XRW transverse colon tissue male adult (54 years) POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF548EWP ENCSR131FFJ signal GM23248 EZH2 ENCSR131FFJ signal Experimental 
wgEncodeReg4TfChip_ENCFF404ZHM ENCSR131FFJ GM23248 EZH2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF526IFY ENCSR130ZAR signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF691 ZNF691 ENCSR130ZAR signal Experimental 
wgEncodeReg4TfChip_ENCFF427OHT ENCSR130ZAR HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF691 ZNF691 peaks Experimental 
wgEncodeReg4TfChip_ENCFF848CIY ENCSR130VQL signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens PPARG PPARG ENCSR130VQL signal Experimental 
wgEncodeReg4TfChip_ENCFF329FBJ ENCSR130VQL HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens PPARG PPARG peaks Experimental 
wgEncodeReg4TfChip_ENCFF669DYX ENCSR130PDE signal K562 stably expressing NR4A1 NR4A1 ENCSR130PDE signal Experimental 
wgEncodeReg4TfChip_ENCFF998LHF ENCSR130PDE K562 stably expressing NR4A1 NR4A1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF630IVP ENCSR130NZQ signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens PRDM4 PRDM4 ENCSR130NZQ signal Experimental 
wgEncodeReg4TfChip_ENCFF236NMN ENCSR130NZQ HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens PRDM4 PRDM4 peaks Experimental 
wgEncodeReg4TfChip_ENCFF187FJQ ENCSR127XTZ signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens HNF1B HNF1B ENCSR127XTZ signal Experimental 
wgEncodeReg4TfChip_ENCFF928THX ENCSR127XTZ HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens HNF1B HNF1B peaks Experimental 
wgEncodeReg4TfChip_ENCFF590EIX ENCSR127NBZ signal WTC11 genetically modified (insertion) using CRISPR targeting H. sapiens ERG ERG ENCSR127NBZ signal Experimental 
wgEncodeReg4TfChip_ENCFF011YUL ENCSR127NBZ WTC11 genetically modified (insertion) using CRISPR targeting H. sapiens ERG ERG peaks Experimental 
wgEncodeReg4TfChip_ENCFF075NSV ENCSR127IHN signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF737 ZNF737 ENCSR127IHN signal Experimental 
wgEncodeReg4TfChip_ENCFF660NHX ENCSR127IHN HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF737 ZNF737 peaks Experimental 
wgEncodeReg4TfChip_ENCFF795BHZ ENCSR126YEB signal MCF-7 FOXA1 ENCSR126YEB signal Experimental 
wgEncodeReg4TfChip_ENCFF465LTH ENCSR126YEB MCF-7 FOXA1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF275ILT ENCSR126FZN signal K562 stably expressing CAVIN1 PTRF ENCSR126FZN signal Experimental 
wgEncodeReg4TfChip_ENCFF731YBD ENCSR126FZN K562 stably expressing CAVIN1 PTRF peaks Experimental 
wgEncodeReg4TfChip_ENCFF254LRW ENCSR125ZYC signal MCF-7 stably expressing KLF9 KLF9 ENCSR125ZYC signal Experimental 
wgEncodeReg4TfChip_ENCFF618FCM ENCSR125ZYC MCF-7 stably expressing KLF9 KLF9 peaks Experimental 
wgEncodeReg4TfChip_ENCFF155NWG ENCSR125ULS signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF561 ZNF561 ENCSR125ULS signal Experimental 
wgEncodeReg4TfChip_ENCFF399XKF ENCSR125ULS HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF561 ZNF561 peaks Experimental 
wgEncodeReg4TfChip_ENCFF208TJQ ENCSR125RFR signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens ATF6 ATF6 ENCSR125RFR signal Experimental 
wgEncodeReg4TfChip_ENCFF032AOW ENCSR125RFR K562 genetically modified (insertion) using CRISPR targeting H. sapiens ATF6 ATF6 peaks Experimental 
wgEncodeReg4TfChip_ENCFF700SCP ENCSR125NBL signal neural progenitor cell originated from H9 CTCF ENCSR125NBL signal Experimental 
wgEncodeReg4TfChip_ENCFF420RBO ENCSR125NBL neural progenitor cell originated from H9 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF526OYE ENCSR125DNC signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF394 ZNF394 ENCSR125DNC signal Experimental 
wgEncodeReg4TfChip_ENCFF236OPX ENCSR125DNC HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF394 ZNF394 peaks Experimental 
wgEncodeReg4TfChip_ENCFF350HLL ENCSR125DKL signal SU-DHL-6 CTCF ENCSR125DKL signal Experimental 
wgEncodeReg4TfChip_ENCFF116KKR ENCSR125DKL SU-DHL-6 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF254PTL ENCSR125DAD signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens MLX MLX ENCSR125DAD signal Experimental 
wgEncodeReg4TfChip_ENCFF652PXN ENCSR125DAD HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens MLX MLX peaks Experimental 
wgEncodeReg4TfChip_ENCFF782KXB ENCSR124BJR signal K562 ETV6 ENCSR124BJR signal Experimental 
wgEncodeReg4TfChip_ENCFF337WJB ENCSR124BJR K562 ETV6 peaks Experimental 
wgEncodeReg4TfChip_ENCFF833TMH ENCSR124APT signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens NFYA NFYA ENCSR124APT signal Experimental 
wgEncodeReg4TfChip_ENCFF883OMO ENCSR124APT HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens NFYA NFYA peaks Experimental 
wgEncodeReg4TfChip_ENCFF375RBX ENCSR124AIG signal IMR-90 FOS ENCSR124AIG signal Experimental 
wgEncodeReg4TfChip_ENCFF179EDA ENCSR124AIG IMR-90 FOS peaks Experimental 
wgEncodeReg4TfChip_ENCFF735LWX ENCSR123GPC signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens THAP9 THAP9 ENCSR123GPC signal Experimental 
wgEncodeReg4TfChip_ENCFF687WSR ENCSR123GPC HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens THAP9 THAP9 peaks Experimental 
wgEncodeReg4TfChip_ENCFF755XCI ENCSR122LGV signal prostate gland tissue male adult (54 years) POLR2A ENCSR122LGV signal Experimental 
wgEncodeReg4TfChip_ENCFF882MXU ENCSR122LGV prostate gland tissue male adult (54 years) POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF355WXU ENCSR122EYE signal stomach tissue male adult (54 years) POLR2A ENCSR122EYE signal Experimental 
wgEncodeReg4TfChip_ENCFF719RDO ENCSR122EYE stomach tissue male adult (54 years) POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF717QHM ENCSR121PFY signal K562 CDC5L ENCSR121PFY signal Experimental 
wgEncodeReg4TfChip_ENCFF644OMA ENCSR121PFY K562 CDC5L peaks Experimental 
wgEncodeReg4TfChip_ENCFF905BYK ENCSR120MPG signal K562 PRDM10 ENCSR120MPG signal Experimental 
wgEncodeReg4TfChip_ENCFF740YLK ENCSR120MPG K562 PRDM10 peaks Experimental 
wgEncodeReg4TfChip_ENCFF314SJU ENCSR119VCX signal K562 PHF21A ENCSR119VCX signal Experimental 
wgEncodeReg4TfChip_ENCFF088QME ENCSR119VCX K562 PHF21A peaks Experimental 
wgEncodeReg4TfChip_ENCFF313JGL ENCSR119OFH signal MCF-7 genetically modified (insertion) using CRISPR targeting H. sapiens BRCA2 BRCA2 ENCSR119OFH signal Experimental 
wgEncodeReg4TfChip_ENCFF531NNL ENCSR119OFH MCF-7 genetically modified (insertion) using CRISPR targeting H. sapiens BRCA2 BRCA2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF404IDC ENCSR119FAD signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens DEAF1 DEAF1 ENCSR119FAD signal Experimental 
wgEncodeReg4TfChip_ENCFF944USZ ENCSR119FAD K562 genetically modified (insertion) using CRISPR targeting H. sapiens DEAF1 DEAF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF308MWX ENCSR118LGS signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens TSC22D2 TSC22D2 ENCSR118LGS signal Experimental 
wgEncodeReg4TfChip_ENCFF869LPB ENCSR118LGS HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens TSC22D2 TSC22D2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF416MDO ENCSR117WTM signal K562 stably expressing ZNF24 ZNF24 ENCSR117WTM signal Experimental 
wgEncodeReg4TfChip_ENCFF497GLV ENCSR117WTM K562 stably expressing ZNF24 ZNF24 peaks Experimental 
wgEncodeReg4TfChip_ENCFF274XTP ENCSR117KWH signal GM12878 ZNF207 ENCSR117KWH signal Experimental 
wgEncodeReg4TfChip_ENCFF153KBD ENCSR117KWH GM12878 ZNF207 peaks Experimental 
wgEncodeReg4TfChip_ENCFF954DUD ENCSR117CHD signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens HOMEZ HOMEZ ENCSR117CHD signal Experimental 
wgEncodeReg4TfChip_ENCFF800ZQH ENCSR117CHD HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens HOMEZ HOMEZ peaks Experimental 
wgEncodeReg4TfChip_ENCFF427RJX ENCSR116NDV signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens CBFB CBFB ENCSR116NDV signal Experimental 
wgEncodeReg4TfChip_ENCFF145YWG ENCSR116NDV K562 genetically modified (insertion) using CRISPR targeting H. sapiens CBFB CBFB peaks Experimental 
wgEncodeReg4TfChip_ENCFF695DLR ENCSR115SMW signal K562 PKNOX1 ENCSR115SMW signal Experimental 
wgEncodeReg4TfChip_ENCFF236IUS ENCSR115SMW K562 PKNOX1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF063VAP ENCSR115PIK signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens MIER2 MIER2 ENCSR115PIK signal Experimental 
wgEncodeReg4TfChip_ENCFF997QIX ENCSR115PIK HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens MIER2 MIER2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF227BAG ENCSR115BLD signal HepG2 KDM1A ENCSR115BLD signal Experimental 
wgEncodeReg4TfChip_ENCFF240UWG ENCSR115BLD HepG2 KDM1A peaks Experimental 
wgEncodeReg4TfChip_ENCFF838IQI ENCSR115BBC signal K562 ASH1L ENCSR115BBC signal Experimental 
wgEncodeReg4TfChip_ENCFF808EMX ENCSR115BBC K562 ASH1L peaks Experimental 
wgEncodeReg4TfChip_ENCFF726LEK ENCSR113LAS signal K562 MTA2 ENCSR113LAS signal Experimental 
wgEncodeReg4TfChip_ENCFF880VZB ENCSR113LAS K562 MTA2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF084CLI ENCSR113GDB signal SK-N-MC EZH2 ENCSR113GDB signal Experimental 
wgEncodeReg4TfChip_ENCFF434OHW ENCSR113GDB SK-N-MC EZH2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF297EQI ENCSR113COJ signal pancreas tissue female adult (59 years) CTCF ENCSR113COJ signal Experimental 
wgEncodeReg4TfChip_ENCFF245KEE ENCSR113COJ pancreas tissue female adult (59 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF918SIK ENCSR112XUO signal A549 genetically modified (insertion) using CRISPR targeting H. sapiens TP53 TP53 ENCSR112XUO signal Experimental 
wgEncodeReg4TfChip_ENCFF229ULU ENCSR112XUO A549 genetically modified (insertion) using CRISPR targeting H. sapiens TP53 TP53 peaks Experimental 
wgEncodeReg4TfChip_ENCFF209WQK ENCSR112RNT signal K562 HNRNPLL ENCSR112RNT signal Experimental 
wgEncodeReg4TfChip_ENCFF598PWW ENCSR112RNT K562 HNRNPLL peaks Experimental 
wgEncodeReg4TfChip_ENCFF736SVK ENCSR112ALD signal HepG2 CREB1 ENCSR112ALD signal Experimental 
wgEncodeReg4TfChip_ENCFF792THT ENCSR112ALD HepG2 CREB1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF698JAG ENCSR110BYN signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF33A ZNF33A ENCSR110BYN signal Experimental 
wgEncodeReg4TfChip_ENCFF825TSJ ENCSR110BYN HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF33A ZNF33A peaks Experimental 
wgEncodeReg4TfChip_ENCFF116CGU ENCSR109YGM signal K562 CREB3L1 ENCSR109YGM signal Experimental 
wgEncodeReg4TfChip_ENCFF701TVD ENCSR109YGM K562 CREB3L1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF836SJA ENCSR109SJT signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens SMAD4 SMAD4 ENCSR109SJT signal Experimental 
wgEncodeReg4TfChip_ENCFF628RBP ENCSR109SJT K562 genetically modified (insertion) using CRISPR targeting H. sapiens SMAD4 SMAD4 peaks Experimental 
wgEncodeReg4TfChip_ENCFF092JPG ENCSR109ODF signal MCF-7 HES1 ENCSR109ODF signal Experimental 
wgEncodeReg4TfChip_ENCFF537SCW ENCSR109ODF MCF-7 HES1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF402VBA ENCSR108TYQ signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens GATAD1 GATAD1 ENCSR108TYQ signal Experimental 
wgEncodeReg4TfChip_ENCFF044OVE ENCSR108TYQ HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens GATAD1 GATAD1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF938KYA ENCSR108MKR HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens MNX1 MNX1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF168DCY ENCSR107GRP signal K562 MLLT1 ENCSR107GRP signal Experimental 
wgEncodeReg4TfChip_ENCFF074XRJ ENCSR107GRP K562 MLLT1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF690XUV ENCSR107EUS signal transverse colon tissue female adult (53 years) POLR2A ENCSR107EUS signal Experimental 
wgEncodeReg4TfChip_ENCFF964EQU ENCSR107EUS transverse colon tissue female adult (53 years) POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF304BEJ ENCSR107DKT signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens SP140L SP140L ENCSR107DKT signal Experimental 
wgEncodeReg4TfChip_ENCFF203CWF ENCSR107DKT HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens SP140L SP140L peaks Experimental 
wgEncodeReg4TfChip_ENCFF587WIH ENCSR106GVM signal SK-N-SH genetically modified (insertion) using CRISPR targeting H. sapiens SNAI2 treated with 6 μM all-trans-retinoic acid for 48 hours SNAI2 ENCSR106GVM signal Experimental 
wgEncodeReg4TfChip_ENCFF449PID ENCSR106GVM SK-N-SH genetically modified (insertion) using CRISPR targeting H. sapiens SNAI2 treated with 6 μM all-trans-retinoic acid for 48 hours SNAI2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF716BYY ENCSR106FRG signal K562 TAL1 ENCSR106FRG signal Experimental 
wgEncodeReg4TfChip_ENCFF620GMX ENCSR106FRG K562 TAL1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF852QJY ENCSR106EBH signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF366 ZNF366 ENCSR106EBH signal Experimental 
wgEncodeReg4TfChip_ENCFF799ATK ENCSR106EBH HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF366 ZNF366 peaks Experimental 
wgEncodeReg4TfChip_ENCFF211UMX ENCSR103UPR signal gastrocnemius medialis tissue female adult (53 years) POLR2A ENCSR103UPR signal Experimental 
wgEncodeReg4TfChip_ENCFF081DTE ENCSR103UPR gastrocnemius medialis tissue female adult (53 years) POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF415UKC ENCSR103SZL signal HepG2 TFAP4 ENCSR103SZL signal Experimental 
wgEncodeReg4TfChip_ENCFF030SRU ENCSR103SZL HepG2 TFAP4 peaks Experimental 
wgEncodeReg4TfChip_ENCFF868XEZ ENCSR102KIN signal K562 ZMYM3 ENCSR102KIN signal Experimental 
wgEncodeReg4TfChip_ENCFF361LXT ENCSR102KIN K562 ZMYM3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF170KVV ENCSR102CSD signal transverse colon tissue male adult (37 years) CTCF ENCSR102CSD signal Experimental 
wgEncodeReg4TfChip_ENCFF753AMV ENCSR102CSD transverse colon tissue male adult (37 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF344ZEK ENCSR101FJU signal HepG2 ZNF384 ENCSR101FJU signal Experimental 
wgEncodeReg4TfChip_ENCFF129PLC ENCSR101FJU HepG2 ZNF384 peaks Experimental 
wgEncodeReg4TfChip_ENCFF802QZE ENCSR101FJS signal HepG2 TBL1XR1 ENCSR101FJS signal Experimental 
wgEncodeReg4TfChip_ENCFF912VVO ENCSR101FJS HepG2 TBL1XR1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF457LUQ ENCSR101FJM signal HCT116 ZNF274 ENCSR101FJM signal Experimental 
wgEncodeReg4TfChip_ENCFF539DJW ENCSR101FJM HCT116 ZNF274 peaks Experimental 
wgEncodeReg4TfChip_ENCFF502JLG ENCSR100UQX signal K562 TAF9B ENCSR100UQX signal Experimental 
wgEncodeReg4TfChip_ENCFF121ZIF ENCSR100UQX K562 TAF9B peaks Experimental 
wgEncodeReg4TfChip_ENCFF936KHI ENCSR099NCH signal K562 ZNF24 ENCSR099NCH signal Experimental 
wgEncodeReg4TfChip_ENCFF615YYW ENCSR099NCH K562 ZNF24 peaks Experimental 
wgEncodeReg4TfChip_ENCFF651OZY ENCSR099MNR signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF75A ZNF75A ENCSR099MNR signal Experimental 
wgEncodeReg4TfChip_ENCFF410JIO ENCSR099MNR K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF75A ZNF75A peaks Experimental 
wgEncodeReg4TfChip_ENCFF747TZB ENCSR099FCQ signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens USF1 USF1 ENCSR099FCQ signal Experimental 
wgEncodeReg4TfChip_ENCFF201JKA ENCSR099FCQ HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens USF1 USF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF727YOU ENCSR098YLE signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens PRDM1 PRDM1 ENCSR098YLE signal Experimental 
wgEncodeReg4TfChip_ENCFF302TBP ENCSR098YLE HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens PRDM1 PRDM1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF032MRC ENCSR098XMN signal with nonobstructive coronary artery disease; liver tissue male adult (32 years) RXRA ENCSR098XMN signal Experimental 
wgEncodeReg4TfChip_ENCFF807CIA ENCSR098XMN with nonobstructive coronary artery disease; liver tissue male adult (32 years) RXRA peaks Experimental 
wgEncodeReg4TfChip_ENCFF689MCJ ENCSR097EEA signal gastroesophageal sphincter tissue female adult (53 years) POLR2A ENCSR097EEA signal Experimental 
wgEncodeReg4TfChip_ENCFF238INU ENCSR097EEA gastroesophageal sphincter tissue female adult (53 years) POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF531JMS ENCSR096OUP signal WTC11 genetically modified (insertion) using CRISPR targeting H. sapiens NFATC4 NFATC4 ENCSR096OUP signal Experimental 
wgEncodeReg4TfChip_ENCFF744MZI ENCSR096OUP WTC11 genetically modified (insertion) using CRISPR targeting H. sapiens NFATC4 NFATC4 peaks Experimental 
wgEncodeReg4TfChip_ENCFF443EDY ENCSR096KWU signal MCF-7 ZNF207 ENCSR096KWU signal Experimental 
wgEncodeReg4TfChip_ENCFF113YEY ENCSR096KWU MCF-7 ZNF207 peaks Experimental 
wgEncodeReg4TfChip_ENCFF674EPZ ENCSR096KPA signal GM23248 EZH2phosphoT487 ENCSR096KPA signal Experimental 
wgEncodeReg4TfChip_ENCFF506FWX ENCSR096KPA GM23248 EZH2phosphoT487 peaks Experimental 
wgEncodeReg4TfChip_ENCFF506TIN ENCSR096IIB signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ETV5 ETV5 ENCSR096IIB signal Experimental 
wgEncodeReg4TfChip_ENCFF456LSA ENCSR096IIB HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ETV5 ETV5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF196RXI ENCSR094ZCF signal MCF-7 stably expressing CEBPG CEBPG ENCSR094ZCF signal Experimental 
wgEncodeReg4TfChip_ENCFF155HZI ENCSR094ZCF MCF-7 stably expressing CEBPG CEBPG peaks Experimental 
wgEncodeReg4TfChip_ENCFF294XWZ ENCSR094PSL signal middle frontal area 46 tissue female adult (88 years) CTCF ENCSR094PSL signal Experimental 
wgEncodeReg4TfChip_ENCFF628TCI ENCSR094PSL middle frontal area 46 tissue female adult (88 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF024XFG ENCSR093HXE signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF16 ZNF16 ENCSR093HXE signal Experimental 
wgEncodeReg4TfChip_ENCFF231FLW ENCSR093HXE HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF16 ZNF16 peaks Experimental 
wgEncodeReg4TfChip_ENCFF132DIX ENCSR093FKD signal K562 stably expressing CREB3 CREB3 ENCSR093FKD signal Experimental 
wgEncodeReg4TfChip_ENCFF985QJI ENCSR093FKD K562 stably expressing CREB3 CREB3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF891CZD ENCSR092VKJ signal with Alzheimer's disease; middle frontal area 46 tissue female adult (90 or above years) CTCF ENCSR092VKJ signal Experimental 
wgEncodeReg4TfChip_ENCFF257LSY ENCSR092VKJ with Alzheimer's disease; middle frontal area 46 tissue female adult (90 or above years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF737TUE ENCSR092OVN signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens FOXA3 FOXA3 ENCSR092OVN signal Experimental 
wgEncodeReg4TfChip_ENCFF005KGL ENCSR092OVN HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens FOXA3 FOXA3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF143EEL ENCSR091JXL signal K562 HES1 ENCSR091JXL signal Experimental 
wgEncodeReg4TfChip_ENCFF919JVU ENCSR091JXL K562 HES1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF090IHN ENCSR091GVJ signal K562 stably expressing ATF1 ATF1 ENCSR091GVJ signal Experimental 
wgEncodeReg4TfChip_ENCFF817JQF ENCSR091GVJ K562 stably expressing ATF1 ATF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF995YVY ENCSR091CSG signal gastroesophageal sphincter tissue male adult (54 years) POLR2A ENCSR091CSG signal Experimental 
wgEncodeReg4TfChip_ENCFF461UHJ ENCSR091CSG gastroesophageal sphincter tissue male adult (54 years) POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF416XSK ENCSR091BOQ signal GM12878 SUZ12 ENCSR091BOQ signal Experimental 
wgEncodeReg4TfChip_ENCFF498QAM ENCSR091BOQ GM12878 SUZ12 peaks Experimental 
wgEncodeReg4TfChip_ENCFF480JWC ENCSR090JNM signal K562 HLTF ENCSR090JNM signal Experimental 
wgEncodeReg4TfChip_ENCFF783OCM ENCSR090JNM K562 HLTF peaks Experimental 
wgEncodeReg4TfChip_ENCFF688KIH ENCSR089NBS signal heart right ventricle tissue male adult (73 years) CTCF ENCSR089NBS signal Experimental 
wgEncodeReg4TfChip_ENCFF979TCT ENCSR089NBS heart right ventricle tissue male adult (73 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF264NFG ENCSR089DTY signal omental fat pad tissue male adult (37 years) CTCF ENCSR089DTY signal Experimental 
wgEncodeReg4TfChip_ENCFF735VKJ ENCSR089DTY omental fat pad tissue male adult (37 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF369AZW ENCSR087TYG signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens NR2F6 NR2F6 ENCSR087TYG signal Experimental 
wgEncodeReg4TfChip_ENCFF239RSE ENCSR087TYG K562 genetically modified (insertion) using CRISPR targeting H. sapiens NR2F6 NR2F6 peaks Experimental 
wgEncodeReg4TfChip_ENCFF269RRH ENCSR087NSZ signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZBTB39 ZBTB39 ENCSR087NSZ signal Experimental 
wgEncodeReg4TfChip_ENCFF875PVQ ENCSR087NSZ HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZBTB39 ZBTB39 peaks Experimental 
wgEncodeReg4TfChip_ENCFF235INF ENCSR087NSR signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens KDM1A KDM1A ENCSR087NSR signal Experimental 
wgEncodeReg4TfChip_ENCFF730KKG ENCSR087NSR HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens KDM1A KDM1A peaks Experimental 
wgEncodeReg4TfChip_ENCFF616FNR ENCSR087HFN signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF230 ZNF230 ENCSR087HFN signal Experimental 
wgEncodeReg4TfChip_ENCFF370ATB ENCSR087HFN HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF230 ZNF230 peaks Experimental 
wgEncodeReg4TfChip_ENCFF101VAI ENCSR085QEV signal K562 NBN ENCSR085QEV signal Experimental 
wgEncodeReg4TfChip_ENCFF146YTY ENCSR085QEV K562 NBN peaks Experimental 
wgEncodeReg4TfChip_ENCFF054DVL ENCSR085IXF signal with nonobstructive coronary artery disease; liver tissue male adult (32 years) SP1 ENCSR085IXF signal Experimental 
wgEncodeReg4TfChip_ENCFF597LFJ ENCSR085IXF with nonobstructive coronary artery disease; liver tissue male adult (32 years) SP1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF864TZK ENCSR085DDI signal K562 NFXL1 ENCSR085DDI signal Experimental 
wgEncodeReg4TfChip_ENCFF619QDE ENCSR085DDI K562 NFXL1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF766DBY ENCSR084RDK signal DOHH2 CTCF ENCSR084RDK signal Experimental 
wgEncodeReg4TfChip_ENCFF637WNW ENCSR084RDK DOHH2 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF081MCE ENCSR082QGT signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF784 ZNF784 ENCSR082QGT signal Experimental 
wgEncodeReg4TfChip_ENCFF265UCH ENCSR082QGT HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF784 ZNF784 peaks Experimental 
wgEncodeReg4TfChip_ENCFF628FMT ENCSR081WLS signal HepG2 RAD51 ENCSR081WLS signal Experimental 
wgEncodeReg4TfChip_ENCFF188FEZ ENCSR081WLS HepG2 RAD51 peaks Experimental 
wgEncodeReg4TfChip_ENCFF132KFG ENCSR080XEY signal liver tissue female child (4 years) FOXA2 ENCSR080XEY signal Experimental 
wgEncodeReg4TfChip_ENCFF888VJF ENCSR080XEY liver tissue female child (4 years) FOXA2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF228VTX ENCSR080UEM signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF143 ZNF143 ENCSR080UEM signal Experimental 
wgEncodeReg4TfChip_ENCFF658YIR ENCSR080UEM HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF143 ZNF143 peaks Experimental 
wgEncodeReg4TfChip_ENCFF102RYE ENCSR080CST signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF639 ZNF639 ENCSR080CST signal Experimental 
wgEncodeReg4TfChip_ENCFF971ZNH ENCSR080CST HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF639 ZNF639 peaks Experimental 
wgEncodeReg4TfChip_ENCFF500RDL ENCSR079YAP signal tibial artery tissue male adult (37 years) CTCF ENCSR079YAP signal Experimental 
wgEncodeReg4TfChip_ENCFF279CMY ENCSR079YAP tibial artery tissue male adult (37 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF243WRW ENCSR077TKJ K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF707 ZNF707 peaks Experimental 
wgEncodeReg4TfChip_ENCFF242MQX ENCSR077DKV signal K562 CREM ENCSR077DKV signal Experimental 
wgEncodeReg4TfChip_ENCFF180STA ENCSR077DKV K562 CREM peaks Experimental 
wgEncodeReg4TfChip_ENCFF306PNK ENCSR076YPO signal K562 RNF2 ENCSR076YPO signal Experimental 
wgEncodeReg4TfChip_ENCFF061ATI ENCSR076YPO K562 RNF2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF185JZD ENCSR076STQ signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZBTB44 ZBTB44 ENCSR076STQ signal Experimental 
wgEncodeReg4TfChip_ENCFF560VPN ENCSR076STQ HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZBTB44 ZBTB44 peaks Experimental 
wgEncodeReg4TfChip_ENCFF020TBH ENCSR076SHT signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens GPN1 GPN1 ENCSR076SHT signal Experimental 
wgEncodeReg4TfChip_ENCFF533NSU ENCSR076SHT HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens GPN1 GPN1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF425VIQ ENCSR076KLJ signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF276 ZNF276 ENCSR076KLJ signal Experimental 
wgEncodeReg4TfChip_ENCFF431WQQ ENCSR076KLJ HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF276 ZNF276 peaks Experimental 
wgEncodeReg4TfChip_ENCFF371NRE ENCSR076EZB signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens KLF9 KLF9 ENCSR076EZB signal Experimental 
wgEncodeReg4TfChip_ENCFF588INF ENCSR076EZB HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens KLF9 KLF9 peaks Experimental 
wgEncodeReg4TfChip_ENCFF502SOA ENCSR075PWK signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF225 ZNF225 ENCSR075PWK signal Experimental 
wgEncodeReg4TfChip_ENCFF500HTT ENCSR075PWK HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF225 ZNF225 peaks Experimental 
wgEncodeReg4TfChip_ENCFF954LGE ENCSR075HTM signal K562 HDAC2 ENCSR075HTM signal Experimental 
wgEncodeReg4TfChip_ENCFF919OMP ENCSR075HTM K562 HDAC2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF069ALI ENCSR075BAS signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF17 ZNF17 ENCSR075BAS signal Experimental 
wgEncodeReg4TfChip_ENCFF945EXF ENCSR075BAS HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF17 ZNF17 peaks Experimental 
wgEncodeReg4TfChip_ENCFF534LXF ENCSR074SFL signal esophagus muscularis mucosa tissue female adult (53 years) CTCF ENCSR074SFL signal Experimental 
wgEncodeReg4TfChip_ENCFF182PYY ENCSR074SFL esophagus muscularis mucosa tissue female adult (53 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF648LZP ENCSR073TPC signal esophagus muscularis mucosa tissue male adult (54 years) CTCF ENCSR073TPC signal Experimental 
wgEncodeReg4TfChip_ENCFF534UGM ENCSR073TPC esophagus muscularis mucosa tissue male adult (54 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF884MZR ENCSR073BPG signal with mild cognitive impairment; middle frontal area 46 tissue female adult (83 years) CTCF ENCSR073BPG signal Experimental 
wgEncodeReg4TfChip_ENCFF851XUX ENCSR073BPG with mild cognitive impairment; middle frontal area 46 tissue female adult (83 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF215LQF ENCSR072VUO signal K562 SAFB ENCSR072VUO signal Experimental 
wgEncodeReg4TfChip_ENCFF765XSF ENCSR072VUO K562 SAFB peaks Experimental 
wgEncodeReg4TfChip_ENCFF873IIC ENCSR072PWP signal GM12878 ZNF24 ENCSR072PWP signal Experimental 
wgEncodeReg4TfChip_ENCFF688STO ENCSR072PWP GM12878 ZNF24 peaks Experimental 
wgEncodeReg4TfChip_ENCFF870KNA ENCSR072LQF signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF76 ZNF76 ENCSR072LQF signal Experimental 
wgEncodeReg4TfChip_ENCFF374TCG ENCSR072LQF HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF76 ZNF76 peaks Experimental 
wgEncodeReg4TfChip_ENCFF984WTB ENCSR072GJV signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens HMG20A HMG20A ENCSR072GJV signal Experimental 
wgEncodeReg4TfChip_ENCFF599VWU ENCSR072GJV HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens HMG20A HMG20A peaks Experimental 
wgEncodeReg4TfChip_ENCFF231ZBE ENCSR072EUE signal OCI-LY1 CTCF ENCSR072EUE signal Experimental 
wgEncodeReg4TfChip_ENCFF677WBA ENCSR072EUE OCI-LY1 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF867SBT ENCSR071YVR signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens KMT2B KMT2B ENCSR071YVR signal Experimental 
wgEncodeReg4TfChip_ENCFF675TEK ENCSR071YVR HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens KMT2B KMT2B peaks Experimental 
wgEncodeReg4TfChip_ENCFF051ANG ENCSR071XWO signal gastrocnemius medialis tissue female adult (51 years) CTCF ENCSR071XWO signal Experimental 
wgEncodeReg4TfChip_ENCFF291LAG ENCSR071XWO gastrocnemius medialis tissue female adult (51 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF194ULQ ENCSR070HWF signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF768 ZNF768 ENCSR070HWF signal Experimental 
wgEncodeReg4TfChip_ENCFF579QSI ENCSR070HWF HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF768 ZNF768 peaks Experimental 
wgEncodeReg4TfChip_ENCFF752BRM ENCSR069JKP signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens TFDP2 TFDP2 ENCSR069JKP signal Experimental 
wgEncodeReg4TfChip_ENCFF794WDW ENCSR069JKP HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens TFDP2 TFDP2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF337REC ENCSR069DPL signal neural progenitor cell originated from H9 EZH2 ENCSR069DPL signal Experimental 
wgEncodeReg4TfChip_ENCFF472NFV ENCSR069DPL neural progenitor cell originated from H9 EZH2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF954YXL ENCSR068ZQR signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF777 ZNF777 ENCSR068ZQR signal Experimental 
wgEncodeReg4TfChip_ENCFF362XDA ENCSR068ZQR HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF777 ZNF777 peaks Experimental 
wgEncodeReg4TfChip_ENCFF347NAJ ENCSR068WNI signal upper lobe of left lung tissue female adult (53 years) POLR2A ENCSR068WNI signal Experimental 
wgEncodeReg4TfChip_ENCFF055IHR ENCSR068WNI upper lobe of left lung tissue female adult (53 years) POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF829QZW ENCSR068HEE signal left ventricle myocardium inferior tissue male adult (60 years) CTCF ENCSR068HEE signal Experimental 
wgEncodeReg4TfChip_ENCFF161DPW ENCSR068HEE left ventricle myocardium inferior tissue male adult (60 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF457ZFQ ENCSR068DJS signal with mild cognitive impairment; middle frontal area 46 tissue male adult (90 or above years) CTCF ENCSR068DJS signal Experimental 
wgEncodeReg4TfChip_ENCFF258PHG ENCSR068DJS with mild cognitive impairment; middle frontal area 46 tissue male adult (90 or above years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF804ZYP ENCSR067HGI signal A549 CHD2 ENCSR067HGI signal Experimental 
wgEncodeReg4TfChip_ENCFF389RCI ENCSR067HGI A549 CHD2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF087JOQ ENCSR066TET signal MCF-7 RFX1 ENCSR066TET signal Experimental 
wgEncodeReg4TfChip_ENCFF782EZS ENCSR066TET MCF-7 RFX1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF886TBW ENCSR066GBX signal right atrium auricular region tissue female adult (53 years) CTCF ENCSR066GBX signal Experimental 
wgEncodeReg4TfChip_ENCFF690LBT ENCSR066GBX right atrium auricular region tissue female adult (53 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF699ETP ENCSR066FXN signal HepG2 HNRNPH1 ENCSR066FXN signal Experimental 
wgEncodeReg4TfChip_ENCFF725CKS ENCSR066FXN HepG2 HNRNPH1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF004HMA ENCSR066EWR signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZMYM2 ZMYM2 ENCSR066EWR signal Experimental 
wgEncodeReg4TfChip_ENCFF575OMW ENCSR066EWR HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZMYM2 ZMYM2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF222ASF ENCSR066EBK signal HepG2 FOXA2 ENCSR066EBK signal Experimental 
wgEncodeReg4TfChip_ENCFF570ABM ENCSR066EBK HepG2 FOXA2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF497IHT ENCSR065XVO signal K562 CHAMP1 ENCSR065XVO signal Experimental 
wgEncodeReg4TfChip_ENCFF860ZIW ENCSR065XVO K562 CHAMP1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF469SHE ENCSR065WUF signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens KLF17 KLF17 ENCSR065WUF signal Experimental 
wgEncodeReg4TfChip_ENCFF658MHR ENCSR065WUF HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens KLF17 KLF17 peaks Experimental 
wgEncodeReg4TfChip_ENCFF575RJD ENCSR064LJN signal A549 RFX5 ENCSR064LJN signal Experimental 
wgEncodeReg4TfChip_ENCFF220PEX ENCSR064LJN A549 RFX5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF031ZFB ENCSR062QVQ signal with nonobstructive coronary artery disease; liver tissue male adult (32 years) TAF1 ENCSR062QVQ signal Experimental 
wgEncodeReg4TfChip_ENCFF972HXJ ENCSR062QVQ with nonobstructive coronary artery disease; liver tissue male adult (32 years) TAF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF968SXQ ENCSR062JAC signal with mild cognitive impairment; middle frontal area 46 tissue female adult (90 or above years) CTCF ENCSR062JAC signal Experimental 
wgEncodeReg4TfChip_ENCFF974AQC ENCSR062JAC with mild cognitive impairment; middle frontal area 46 tissue female adult (90 or above years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF360XLO ENCSR061DGF signal GM23338 originated from GM23248 NANOG ENCSR061DGF signal Experimental 
wgEncodeReg4TfChip_ENCFF065NZG ENCSR061DGF GM23338 originated from GM23248 NANOG peaks Experimental 
wgEncodeReg4TfChip_ENCFF937OHJ ENCSR059KXR signal with Alzheimer's disease: Cognitive impairment; middle frontal area 46 tissue female adult (87 years) CTCF ENCSR059KXR signal Experimental 
wgEncodeReg4TfChip_ENCFF631JNO ENCSR059KXR with Alzheimer's disease: Cognitive impairment; middle frontal area 46 tissue female adult (87 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF069QZG ENCSR055ZIA signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF570 ZNF570 ENCSR055ZIA signal Experimental 
wgEncodeReg4TfChip_ENCFF726HHS ENCSR055ZIA HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF570 ZNF570 peaks Experimental 
wgEncodeReg4TfChip_ENCFF129ACR ENCSR055WBT signal body of pancreas tissue male adult (37 years) POLR2A ENCSR055WBT signal Experimental 
wgEncodeReg4TfChip_ENCFF675RCN ENCSR055WBT body of pancreas tissue male adult (37 years) POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF619BGU ENCSR055FQB signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF217 ZNF217 ENCSR055FQB signal Experimental 
wgEncodeReg4TfChip_ENCFF455XGO ENCSR055FQB HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF217 ZNF217 peaks Experimental 
wgEncodeReg4TfChip_ENCFF833DFR ENCSR054JMQ signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens REST REST ENCSR054JMQ signal Experimental 
wgEncodeReg4TfChip_ENCFF685YZN ENCSR054JMQ K562 genetically modified (insertion) using CRISPR targeting H. sapiens REST REST peaks Experimental 
wgEncodeReg4TfChip_ENCFF081RHO ENCSR054FKH signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens RAD21 RAD21 ENCSR054FKH signal Experimental 
wgEncodeReg4TfChip_ENCFF360ZSW ENCSR054FKH HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens RAD21 RAD21 peaks Experimental 
wgEncodeReg4TfChip_ENCFF608BOH ENCSR052PTN signal K562 PCBP1 ENCSR052PTN signal Experimental 
wgEncodeReg4TfChip_ENCFF382QWQ ENCSR052PTN K562 PCBP1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF205IFB ENCSR052FXA signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF33B ZNF33B ENCSR052FXA signal Experimental 
wgEncodeReg4TfChip_ENCFF921KSE ENCSR052FXA HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF33B ZNF33B peaks Experimental 
wgEncodeReg4TfChip_ENCFF845HRN ENCSR051OUX signal K562 NFATC3 ENCSR051OUX signal Experimental 
wgEncodeReg4TfChip_ENCFF078EKB ENCSR051OUX K562 NFATC3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF414GZH ENCSR051DXE signal K562 FUS ENCSR051DXE signal Experimental 
wgEncodeReg4TfChip_ENCFF401LGY ENCSR051DXE K562 FUS peaks Experimental 
wgEncodeReg4TfChip_ENCFF487XYQ ENCSR050KWL signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZSCAN22 ZSCAN22 ENCSR050KWL signal Experimental 
wgEncodeReg4TfChip_ENCFF246MVE ENCSR050KWL HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZSCAN22 ZSCAN22 peaks Experimental 
wgEncodeReg4TfChip_ENCFF895DUK ENCSR048WVW signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF367 ZNF367 ENCSR048WVW signal Experimental 
wgEncodeReg4TfChip_ENCFF673TZW ENCSR048WVW HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF367 ZNF367 peaks Experimental 
wgEncodeReg4TfChip_ENCFF815NVB ENCSR048CVK signal A549 JUN ENCSR048CVK signal Experimental 
wgEncodeReg4TfChip_ENCFF191QZG ENCSR048CVK A549 JUN peaks Experimental 
wgEncodeReg4TfChip_ENCFF038AZR ENCSR047BUZ signal HepG2 ATF2 ENCSR047BUZ signal Experimental 
wgEncodeReg4TfChip_ENCFF955VER ENCSR047BUZ HepG2 ATF2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF477ICC ENCSR045YHA signal GM23338 originated from GM23248 EZH2 ENCSR045YHA signal Experimental 
wgEncodeReg4TfChip_ENCFF613YON ENCSR045YHA GM23338 originated from GM23248 EZH2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF453MJK ENCSR044RZF signal A549 genetically modified (insertion) using CRISPR targeting H. sapiens NR2E3 NR2E3 ENCSR044RZF signal Experimental 
wgEncodeReg4TfChip_ENCFF833WDR ENCSR044RZF A549 genetically modified (insertion) using CRISPR targeting H. sapiens NR2E3 NR2E3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF575LZV ENCSR044IXA signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF354B ZNF354B ENCSR044IXA signal Experimental 
wgEncodeReg4TfChip_ENCFF120AXZ ENCSR044IXA K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF354B ZNF354B peaks Experimental 
wgEncodeReg4TfChip_ENCFF869IZB ENCSR042TWZ signal MCF-7 SNIP1 ENCSR042TWZ signal Experimental 
wgEncodeReg4TfChip_ENCFF261BIX ENCSR042TWZ MCF-7 SNIP1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF865AXI ENCSR042GSX signal MCF-7 genetically modified (insertion) using CRISPR targeting H. sapiens SPDEF SPDEF ENCSR042GSX signal Experimental 
wgEncodeReg4TfChip_ENCFF827PZY ENCSR042GSX MCF-7 genetically modified (insertion) using CRISPR targeting H. sapiens SPDEF SPDEF peaks Experimental 
wgEncodeReg4TfChip_ENCFF838PHT ENCSR042BQZ signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens SMAD9 SMAD9 ENCSR042BQZ signal Experimental 
wgEncodeReg4TfChip_ENCFF185UOW ENCSR042BQZ HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens SMAD9 SMAD9 peaks Experimental 
wgEncodeReg4TfChip_ENCFF254PNS ENCSR041YBR signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF12 ZNF12 ENCSR041YBR signal Experimental 
wgEncodeReg4TfChip_ENCFF867LAR ENCSR041YBR K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF12 ZNF12 peaks Experimental 
wgEncodeReg4TfChip_ENCFF681ZOU ENCSR041XML signal GM12878 SRF ENCSR041XML signal Experimental 
wgEncodeReg4TfChip_ENCFF878IIX ENCSR041XML GM12878 SRF peaks Experimental 
wgEncodeReg4TfChip_ENCFF935WXE ENCSR041AXL signal K562 RFX1 ENCSR041AXL signal Experimental 
wgEncodeReg4TfChip_ENCFF809XVG ENCSR041AXL K562 RFX1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF390TCK ENCSR039CUX signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens PLSCR1 PLSCR1 ENCSR039CUX signal Experimental 
wgEncodeReg4TfChip_ENCFF693TEO ENCSR039CUX HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens PLSCR1 PLSCR1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF487ZYQ ENCSR038YKU signal stomach tissue female adult (51 years) POLR2A ENCSR038YKU signal Experimental 
wgEncodeReg4TfChip_ENCFF565IOD ENCSR038YKU stomach tissue female adult (51 years) POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF674JOF ENCSR038XIA signal MCF-7 ZNF444 ENCSR038XIA signal Experimental 
wgEncodeReg4TfChip_ENCFF602QFR ENCSR038XIA MCF-7 ZNF444 peaks Experimental 
wgEncodeReg4TfChip_ENCFF890UWL ENCSR038VWU signal mucosa of descending colon tissue male adult (40 years) CTCF ENCSR038VWU signal Experimental 
wgEncodeReg4TfChip_ENCFF478SWS ENCSR038VWU mucosa of descending colon tissue male adult (40 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF244IUS ENCSR038RXU signal MCF-7 stably expressing GABPA GABPA ENCSR038RXU signal Experimental 
wgEncodeReg4TfChip_ENCFF951HFC ENCSR038RXU MCF-7 stably expressing GABPA GABPA peaks Experimental 
wgEncodeReg4TfChip_ENCFF365WTX ENCSR038GMB signal with nonobstructive coronary artery disease; liver tissue male adult (32 years) GABPA ENCSR038GMB signal Experimental 
wgEncodeReg4TfChip_ENCFF500III ENCSR038GMB with nonobstructive coronary artery disease; liver tissue male adult (32 years) GABPA peaks Experimental 
wgEncodeReg4TfChip_ENCFF848HOS ENCSR038FOS signal suprapubic skin tissue male adult (54 years) CTCF ENCSR038FOS signal Experimental 
wgEncodeReg4TfChip_ENCFF370ILR ENCSR038FOS suprapubic skin tissue male adult (54 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF500DJF ENCSR038DJJ signal K562 SMAD1 ENCSR038DJJ signal Experimental 
wgEncodeReg4TfChip_ENCFF104YGG ENCSR038DJJ K562 SMAD1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF034PJC ENCSR037GKL signal stomach tissue male adult (54 years) CTCF ENCSR037GKL signal Experimental 
wgEncodeReg4TfChip_ENCFF185GWT ENCSR037GKL stomach tissue male adult (54 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF535WQI ENCSR036RHV signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens SAFB2 SAFB2 ENCSR036RHV signal Experimental 
wgEncodeReg4TfChip_ENCFF196QOW ENCSR036RHV HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens SAFB2 SAFB2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF838PBU ENCSR036QIR signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens E2F3 E2F3 ENCSR036QIR signal Experimental 
wgEncodeReg4TfChip_ENCFF922ILX ENCSR036QIR K562 genetically modified (insertion) using CRISPR targeting H. sapiens E2F3 E2F3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF032QWY ENCSR035OXA signal A549 CTCF ENCSR035OXA signal Experimental 
wgEncodeReg4TfChip_ENCFF669BWC ENCSR035OXA A549 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF072RST ENCSR033VAZ signal K562 TARDBP ENCSR033VAZ signal Experimental 
wgEncodeReg4TfChip_ENCFF408LBA ENCSR033VAZ K562 TARDBP peaks Experimental 
wgEncodeReg4TfChip_ENCFF034OVA ENCSR033NQK signal K562 ZNF830 ENCSR033NQK signal Experimental 
wgEncodeReg4TfChip_ENCFF900JRP ENCSR033NQK K562 ZNF830 peaks Experimental 
wgEncodeReg4TfChip_ENCFF797VBW ENCSR033NHF signal upper lobe of left lung tissue male adult (54 years) POLR2A ENCSR033NHF signal Experimental 
wgEncodeReg4TfChip_ENCFF640VPA ENCSR033NHF upper lobe of left lung tissue male adult (54 years) POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF615PBA ENCSR033KMZ signal thyroid gland tissue male adult (54 years) CTCF ENCSR033KMZ signal Experimental 
wgEncodeReg4TfChip_ENCFF300RYK ENCSR033KMZ thyroid gland tissue male adult (54 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF351MMC ENCSR033FDW signal stomach tissue male adult (37 years) POLR2AphosphoS5 ENCSR033FDW signal Experimental 
wgEncodeReg4TfChip_ENCFF820WZN ENCSR033FDW stomach tissue male adult (37 years) POLR2AphosphoS5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF326QIF ENCSR032LZZ signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF362 ZNF362 ENCSR032LZZ signal Experimental 
wgEncodeReg4TfChip_ENCFF256AZN ENCSR032LZZ HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF362 ZNF362 peaks Experimental 
wgEncodeReg4TfChip_ENCFF406KDQ ENCSR031URL signal HepG2 XRCC5 ENCSR031URL signal Experimental 
wgEncodeReg4TfChip_ENCFF680LVJ ENCSR031URL HepG2 XRCC5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF124WLE ENCSR031TFS signal K562 POLR2A ENCSR031TFS signal Experimental 
wgEncodeReg4TfChip_ENCFF836GHX ENCSR031TFS K562 POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF084YDG ENCSR031PXV signal endothelial cell CTCF ENCSR031PXV signal Experimental 
wgEncodeReg4TfChip_ENCFF663LIE ENCSR031PXV endothelial cell CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF886KGP ENCSR031KWR signal adrenal gland tissue female adult (53 years) POLR2A ENCSR031KWR signal Experimental 
wgEncodeReg4TfChip_ENCFF892SFM ENCSR031KWR adrenal gland tissue female adult (53 years) POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF126CEJ ENCSR031ING signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens KDM6A KDM6A ENCSR031ING signal Experimental 
wgEncodeReg4TfChip_ENCFF135ECT ENCSR031ING HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens KDM6A KDM6A peaks Experimental 
wgEncodeReg4TfChip_ENCFF649OQC ENCSR030TJP signal K562 DACH1 ENCSR030TJP signal Experimental 
wgEncodeReg4TfChip_ENCFF574LOW ENCSR030TJP K562 DACH1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF717IHQ ENCSR029LBT HepG2 FOXP1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF635RSI ENCSR029ARE signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF773 ZNF773 ENCSR029ARE signal Experimental 
wgEncodeReg4TfChip_ENCFF429EPY ENCSR029ARE HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF773 ZNF773 peaks Experimental 
wgEncodeReg4TfChip_ENCFF295PXU ENCSR028YEV signal spleen tissue male adult (54 years) CTCF ENCSR028YEV signal Experimental 
wgEncodeReg4TfChip_ENCFF878IYR ENCSR028YEV spleen tissue male adult (54 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF042VZA ENCSR028UIU signal K562 ATF3 ENCSR028UIU signal Experimental 
wgEncodeReg4TfChip_ENCFF604FPV ENCSR028UIU K562 ATF3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF032CLW ENCSR028EGI signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF26 ZNF26 ENCSR028EGI signal Experimental 
wgEncodeReg4TfChip_ENCFF118PNN ENCSR028EGI HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF26 ZNF26 peaks Experimental 
wgEncodeReg4TfChip_ENCFF264NUJ ENCSR027UFT signal C4-2B ZFX ENCSR027UFT signal Experimental 
wgEncodeReg4TfChip_ENCFF652WZM ENCSR027UFT C4-2B ZFX peaks Experimental 
wgEncodeReg4TfChip_ENCFF975BGM ENCSR027HML signal OCI-LY7 CTCF ENCSR027HML signal Experimental 
wgEncodeReg4TfChip_ENCFF086AXQ ENCSR027HML OCI-LY7 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF862ZOO ENCSR027FSZ signal upper lobe of left lung tissue male adult (37 years) CTCF ENCSR027FSZ signal Experimental 
wgEncodeReg4TfChip_ENCFF277NLT ENCSR027FSZ upper lobe of left lung tissue male adult (37 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF874TGD ENCSR026RAK signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens MXD1 MXD1 ENCSR026RAK signal Experimental 
wgEncodeReg4TfChip_ENCFF972ENM ENCSR026RAK K562 genetically modified (insertion) using CRISPR targeting H. sapiens MXD1 MXD1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF334KTM ENCSR026KKZ signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZBTB17 ZBTB17 ENCSR026KKZ signal Experimental 
wgEncodeReg4TfChip_ENCFF731UTU ENCSR026KKZ K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZBTB17 ZBTB17 peaks Experimental 
wgEncodeReg4TfChip_ENCFF493YKE ENCSR026GSW signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens EGR1 EGR1 ENCSR026GSW signal Experimental 
wgEncodeReg4TfChip_ENCFF674RQO ENCSR026GSW HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens EGR1 EGR1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF186NVY ENCSR025ZZA signal suprapubic skin tissue female adult (51 years) POLR2A ENCSR025ZZA signal Experimental 
wgEncodeReg4TfChip_ENCFF832BBO ENCSR025ZZA suprapubic skin tissue female adult (51 years) POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF739CET ENCSR025EXJ signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens IRF5 IRF5 ENCSR025EXJ signal Experimental 
wgEncodeReg4TfChip_ENCFF817YVE ENCSR025EXJ HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens IRF5 IRF5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF975DCO ENCSR024LKA signal K562 HDAC3 ENCSR024LKA signal Experimental 
wgEncodeReg4TfChip_ENCFF713GIR ENCSR024LKA K562 HDAC3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF895KGN ENCSR024CNP K562 EGR1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF377ABI ENCSR023OOE signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF764 ZNF764 ENCSR023OOE signal Experimental 
wgEncodeReg4TfChip_ENCFF216SAZ ENCSR023OOE K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF764 ZNF764 peaks Experimental 
wgEncodeReg4TfChip_ENCFF707WZY ENCSR023KKB signal SK-N-SH genetically modified (insertion) using CRISPR targeting H. sapiens ESRRG treated with 6 μM all-trans-retinoic acid for 48 hours ESRRG ENCSR023KKB signal Experimental 
wgEncodeReg4TfChip_ENCFF394HLU ENCSR023KKB SK-N-SH genetically modified (insertion) using CRISPR targeting H. sapiens ESRRG treated with 6 μM all-trans-retinoic acid for 48 hours ESRRG peaks Experimental 
wgEncodeReg4TfChip_ENCFF944SPS ENCSR023IPQ signal WTC11 genetically modified (insertion) using CRISPR targeting H. sapiens PRRX2 PRRX2 ENCSR023IPQ signal Experimental 
wgEncodeReg4TfChip_ENCFF107JGJ ENCSR023IPQ WTC11 genetically modified (insertion) using CRISPR targeting H. sapiens PRRX2 PRRX2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF013ASX ENCSR022IZK signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF623 ZNF623 ENCSR022IZK signal Experimental 
wgEncodeReg4TfChip_ENCFF505YHP ENCSR022IZK HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF623 ZNF623 peaks Experimental 
wgEncodeReg4TfChip_ENCFF469GXZ ENCSR021DJC signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens BCL11A BCL11A ENCSR021DJC signal Experimental 
wgEncodeReg4TfChip_ENCFF294OHB ENCSR021DJC HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens BCL11A BCL11A peaks Experimental 
wgEncodeReg4TfChip_ENCFF394TTI ENCSR020UPN signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF184 ZNF184 ENCSR020UPN signal Experimental 
wgEncodeReg4TfChip_ENCFF221CII ENCSR020UPN HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF184 ZNF184 peaks Experimental 
wgEncodeReg4TfChip_ENCFF330XNE ENCSR020CLV signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF891 ZNF891 ENCSR020CLV signal Experimental 
wgEncodeReg4TfChip_ENCFF491CCY ENCSR020CLV HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF891 ZNF891 peaks Experimental 
wgEncodeReg4TfChip_ENCFF560GNC ENCSR019WUS signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF10 ZNF10 ENCSR019WUS signal Experimental 
wgEncodeReg4TfChip_ENCFF611ZJI ENCSR019WUS HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF10 ZNF10 peaks Experimental 
wgEncodeReg4TfChip_ENCFF096BWB ENCSR019NPF signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens SP5 SP5 ENCSR019NPF signal Experimental 
wgEncodeReg4TfChip_ENCFF931FHV ENCSR019NPF HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens SP5 SP5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF391UJJ ENCSR018MSO signal K562 stably expressing ZNF148 ZNF148 ENCSR018MSO signal Experimental 
wgEncodeReg4TfChip_ENCFF352SDL ENCSR018MSO K562 stably expressing ZNF148 ZNF148 peaks Experimental 
wgEncodeReg4TfChip_ENCFF550QLC ENCSR018MQH signal MCF-7 ZNF579 ENCSR018MQH signal Experimental 
wgEncodeReg4TfChip_ENCFF550XRS ENCSR018MQH MCF-7 ZNF579 peaks Experimental 
wgEncodeReg4TfChip_ENCFF339CER ENCSR017XHZ signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF707 ZNF707 ENCSR017XHZ signal Experimental 
wgEncodeReg4TfChip_ENCFF084AUR ENCSR017XHZ HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF707 ZNF707 peaks Experimental 
wgEncodeReg4TfChip_ENCFF335WKU ENCSR017QBI signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF600 ZNF600 ENCSR017QBI signal Experimental 
wgEncodeReg4TfChip_ENCFF785JSX ENCSR017QBI HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF600 ZNF600 peaks Experimental 
wgEncodeReg4TfChip_ENCFF087UHU ENCSR017GBO signal K562 stably expressing TFDP1 TFDP1 ENCSR017GBO signal Experimental 
wgEncodeReg4TfChip_ENCFF794ZXJ ENCSR017GBO K562 stably expressing TFDP1 TFDP1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF735AMN ENCSR017CEO signal MCF-7 CUX1 ENCSR017CEO signal Experimental 
wgEncodeReg4TfChip_ENCFF779ATB ENCSR017CEO MCF-7 CUX1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF926QFA ENCSR016UEH signal GM12878 TARDBP ENCSR016UEH signal Experimental 
wgEncodeReg4TfChip_ENCFF701YIT ENCSR016UEH GM12878 TARDBP peaks Experimental 
wgEncodeReg4TfChip_ENCFF799CNB ENCSR016OHL signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF317 ZNF317 ENCSR016OHL signal Experimental 
wgEncodeReg4TfChip_ENCFF018ISP ENCSR016OHL HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF317 ZNF317 peaks Experimental 
wgEncodeReg4TfChip_ENCFF088LLC ENCSR016BMM signal liver tissue female child (4 years) TAF1 ENCSR016BMM signal Experimental 
wgEncodeReg4TfChip_ENCFF610UQP ENCSR016BMM liver tissue female child (4 years) TAF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF614JHL ENCSR015LYB signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens HIC2 HIC2 ENCSR015LYB signal Experimental 
wgEncodeReg4TfChip_ENCFF927POV ENCSR015LYB HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens HIC2 HIC2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF037PYH ENCSR014YCR GM12878 ATF7 peaks Experimental 
wgEncodeReg4TfChip_ENCFF639KRR ENCSR014RCS signal K562 HNRNPK ENCSR014RCS signal Experimental 
wgEncodeReg4TfChip_ENCFF954RNO ENCSR014RCS K562 HNRNPK peaks Experimental 
wgEncodeReg4TfChip_ENCFF673UYG ENCSR014GSQ signal adrenal gland tissue female adult (51 years) CTCF ENCSR014GSQ signal Experimental 
wgEncodeReg4TfChip_ENCFF282ZUL ENCSR014GSQ adrenal gland tissue female adult (51 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF826PYA ENCSR013RNH signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens E2F2 E2F2 ENCSR013RNH signal Experimental 
wgEncodeReg4TfChip_ENCFF629CDJ ENCSR013RNH HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens E2F2 E2F2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF140JKC ENCSR013DKM signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF530 ZNF530 ENCSR013DKM signal Experimental 
wgEncodeReg4TfChip_ENCFF351OZU ENCSR013DKM HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF530 ZNF530 peaks Experimental 
wgEncodeReg4TfChip_ENCFF443DVI ENCSR011XCI signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF585B ZNF585B ENCSR011XCI signal Experimental 
wgEncodeReg4TfChip_ENCFF657XIZ ENCSR011XCI HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF585B ZNF585B peaks Experimental 
wgEncodeReg4TfChip_ENCFF497AEJ ENCSR011PEI K562 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF175 ZNF175 peaks Experimental 
wgEncodeReg4TfChip_ENCFF540PNG ENCSR011NOZ signal K562 ZNF407 ENCSR011NOZ signal Experimental 
wgEncodeReg4TfChip_ENCFF568QZW ENCSR011NOZ K562 ZNF407 peaks Experimental 
wgEncodeReg4TfChip_ENCFF238VAI ENCSR011INW signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens PRDM15 PRDM15 ENCSR011INW signal Experimental 
wgEncodeReg4TfChip_ENCFF259LUZ ENCSR011INW HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens PRDM15 PRDM15 peaks Experimental 
wgEncodeReg4TfChip_ENCFF150SKX ENCSR011CKE signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF2 ZNF2 ENCSR011CKE signal Experimental 
wgEncodeReg4TfChip_ENCFF641ICT ENCSR011CKE HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF2 ZNF2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF163AFY ENCSR011CIR signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF614 ZNF614 ENCSR011CIR signal Experimental 
wgEncodeReg4TfChip_ENCFF677IUD ENCSR011CIR HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF614 ZNF614 peaks Experimental 
wgEncodeReg4TfChip_ENCFF290BPX ENCSR009TKN signal SK-N-SH RCOR1 ENCSR009TKN signal Experimental 
wgEncodeReg4TfChip_ENCFF518EXB ENCSR009TKN SK-N-SH RCOR1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF428HGS ENCSR009MBP signal GM12878 HSF1 ENCSR009MBP signal Experimental 
wgEncodeReg4TfChip_ENCFF845UGP ENCSR009MBP GM12878 HSF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF322LCF ENCSR009KLQ signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens KLF16 KLF16 ENCSR009KLQ signal Experimental 
wgEncodeReg4TfChip_ENCFF969FFI ENCSR009KLQ HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens KLF16 KLF16 peaks Experimental 
wgEncodeReg4TfChip_ENCFF168BYR ENCSR008LHT signal SK-N-SH genetically modified (insertion) using CRISPR targeting H. sapiens ISL1 ISL1 ENCSR008LHT signal Experimental 
wgEncodeReg4TfChip_ENCFF285GEQ ENCSR008LHT SK-N-SH genetically modified (insertion) using CRISPR targeting H. sapiens ISL1 ISL1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF232JNU ENCSR006WUS MCF-7 NEUROD1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF291YJW ENCSR006GAQ signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens KLF10 KLF10 ENCSR006GAQ signal Experimental 
wgEncodeReg4TfChip_ENCFF326EGX ENCSR006GAQ HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens KLF10 KLF10 peaks Experimental 
wgEncodeReg4TfChip_ENCFF950PMP ENCSR005WGY signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF407 ZNF407 ENCSR005WGY signal Experimental 
wgEncodeReg4TfChip_ENCFF537FDC ENCSR005WGY HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF407 ZNF407 peaks Experimental 
wgEncodeReg4TfChip_ENCFF196NSS ENCSR005NMT signal K562 stably expressing ID3 ID3 ENCSR005NMT signal Experimental 
wgEncodeReg4TfChip_ENCFF170RNI ENCSR005NMT K562 stably expressing ID3 ID3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF638KTX ENCSR005GZH signal HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens SMAD3 SMAD3 ENCSR005GZH signal Experimental 
wgEncodeReg4TfChip_ENCFF309PKF ENCSR005GZH HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens SMAD3 SMAD3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF154QQN ENCSR004PLU signal HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZBTB10 ZBTB10 ENCSR004PLU signal Experimental 
wgEncodeReg4TfChip_ENCFF679BCK ENCSR004PLU HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZBTB10 ZBTB10 peaks Experimental 
wgEncodeReg4TfChip_ENCFF273DMP ENCSR004HEA signal WTC11 genetically modified (insertion) using CRISPR targeting H. sapiens OTX2 OTX2 ENCSR004HEA signal Experimental 
wgEncodeReg4TfChip_ENCFF634NAO ENCSR004HEA WTC11 genetically modified (insertion) using CRISPR targeting H. sapiens OTX2 OTX2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF795CMH ENCSR004GKA K562 ZEB2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF890GCO ENCSR003SZZ signal esophagus squamous epithelium tissue female adult (51 years) CTCF ENCSR003SZZ signal Experimental 
wgEncodeReg4TfChip_ENCFF571ODZ ENCSR003SZZ esophagus squamous epithelium tissue female adult (51 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF746DWK ENCSR003GUC signal K562 genetically modified (insertion) using CRISPR targeting H. sapiens E4F1 E4F1 ENCSR003GUC signal Experimental 
wgEncodeReg4TfChip_ENCFF582AFY ENCSR003GUC K562 genetically modified (insertion) using CRISPR targeting H. sapiens E4F1 E4F1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF014DUJ ENCSR000MMZ signal upper lobe of left lung tissue female adult (51 years) EP300 ENCSR000MMZ signal Experimental 
wgEncodeReg4TfChip_ENCFF024QBJ ENCSR000MMZ upper lobe of left lung tissue female adult (51 years) EP300 peaks Experimental 
wgEncodeReg4TfChip_ENCFF419WLH ENCSR000HPG signal IMR-90 SMC3 ENCSR000HPG signal Experimental 
wgEncodeReg4TfChip_ENCFF627LON ENCSR000HPG IMR-90 SMC3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF096HGW ENCSR000FCE signal K562 ETV6 ENCSR000FCE signal Experimental 
wgEncodeReg4TfChip_ENCFF311NMS ENCSR000FCE K562 ETV6 peaks Experimental 
wgEncodeReg4TfChip_ENCFF094FAV ENCSR000FCD signal K562 SMAD5 ENCSR000FCD signal Experimental 
wgEncodeReg4TfChip_ENCFF941FJJ ENCSR000FCD K562 SMAD5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF024HES ENCSR000FCC signal K562 NFE2 ENCSR000FCC signal Experimental 
wgEncodeReg4TfChip_ENCFF163BSI ENCSR000FCC K562 NFE2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF344TTK ENCSR000FCB signal K562 MITF ENCSR000FCB signal Experimental 
wgEncodeReg4TfChip_ENCFF512RED ENCSR000FCB K562 MITF peaks Experimental 
wgEncodeReg4TfChip_ENCFF039LKD ENCSR000FAL signal NB4 POLR2A ENCSR000FAL signal Experimental 
wgEncodeReg4TfChip_ENCFF780KAX ENCSR000FAL NB4 POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF444MEV ENCSR000FAJ signal K562 POLR2A ENCSR000FAJ signal Experimental 
wgEncodeReg4TfChip_ENCFF757TUO ENCSR000FAJ K562 POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF378SNN ENCSR000FAI signal K562 FOS ENCSR000FAI signal Experimental 
wgEncodeReg4TfChip_ENCFF951GBI ENCSR000FAI K562 FOS peaks Experimental 
wgEncodeReg4TfChip_ENCFF764AXM ENCSR000FAH signal K562 JUN ENCSR000FAH signal Experimental 
wgEncodeReg4TfChip_ENCFF455LLS ENCSR000FAH K562 JUN peaks Experimental 
wgEncodeReg4TfChip_ENCFF892FZN ENCSR000FAG signal K562 MYC ENCSR000FAG signal Experimental 
wgEncodeReg4TfChip_ENCFF263IVY ENCSR000FAG K562 MYC peaks Experimental 
wgEncodeReg4TfChip_ENCFF133UXU ENCSR000FAF signal K562 NFE2 ENCSR000FAF signal Experimental 
wgEncodeReg4TfChip_ENCFF333EDW ENCSR000FAF K562 NFE2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF510CZS ENCSR000FAE signal K562 MAX ENCSR000FAE signal Experimental 
wgEncodeReg4TfChip_ENCFF775FNS ENCSR000FAE K562 MAX peaks Experimental 
wgEncodeReg4TfChip_ENCFF320RTQ ENCSR000FAD signal K562 RAD21 ENCSR000FAD signal Experimental 
wgEncodeReg4TfChip_ENCFF192VNH ENCSR000FAD K562 RAD21 peaks Experimental 
wgEncodeReg4TfChip_ENCFF979WYY ENCSR000EZL signal HeLa-S3 POLR2A ENCSR000EZL signal Experimental 
wgEncodeReg4TfChip_ENCFF224LWS ENCSR000EZL HeLa-S3 POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF717HGQ ENCSR000EZF signal HeLa-S3 MAX ENCSR000EZF signal Experimental 
wgEncodeReg4TfChip_ENCFF019SXC ENCSR000EZF HeLa-S3 MAX peaks Experimental 
wgEncodeReg4TfChip_ENCFF635GEX ENCSR000EZE signal HeLa-S3 FOS ENCSR000EZE signal Experimental 
wgEncodeReg4TfChip_ENCFF829XRF ENCSR000EZE HeLa-S3 FOS peaks Experimental 
wgEncodeReg4TfChip_ENCFF605QNJ ENCSR000EZD signal HeLa-S3 MYC ENCSR000EZD signal Experimental 
wgEncodeReg4TfChip_ENCFF448AMU ENCSR000EZD HeLa-S3 MYC peaks Experimental 
wgEncodeReg4TfChip_ENCFF120EJX ENCSR000EZC signal HeLa-S3 SMARCA4 ENCSR000EZC signal Experimental 
wgEncodeReg4TfChip_ENCFF590FML ENCSR000EZC HeLa-S3 SMARCA4 peaks Experimental 
wgEncodeReg4TfChip_ENCFF503MRU ENCSR000EYZ signal GM12878 FOS ENCSR000EYZ signal Experimental 
wgEncodeReg4TfChip_ENCFF157FTE ENCSR000EYZ GM12878 FOS peaks Experimental 
wgEncodeReg4TfChip_ENCFF078RFY ENCSR000EYV signal GM12878 JUND ENCSR000EYV signal Experimental 
wgEncodeReg4TfChip_ENCFF384XFV ENCSR000EYV GM12878 JUND peaks Experimental 
wgEncodeReg4TfChip_ENCFF752HVO ENCSR000EYB signal SH-SY5Y GATA2 ENCSR000EYB signal Experimental 
wgEncodeReg4TfChip_ENCFF485YIB ENCSR000EYB SH-SY5Y GATA2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF062MFF ENCSR000EXZ signal SH-SY5Y GATA3 ENCSR000EXZ signal Experimental 
wgEncodeReg4TfChip_ENCFF475HYF ENCSR000EXZ SH-SY5Y GATA3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF709UFM ENCSR000EXX signal Raji POLR2A ENCSR000EXX signal Experimental 
wgEncodeReg4TfChip_ENCFF613VGX ENCSR000EXX Raji POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF793YCK ENCSR000EXR signal erythroblast embryo (16-19 weeks) GATA1 ENCSR000EXR signal Experimental 
wgEncodeReg4TfChip_ENCFF125LDD ENCSR000EXR erythroblast embryo (16-19 weeks) GATA1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF462TRI ENCSR000EXP signal erythroblast male GATA1 ENCSR000EXP signal Experimental 
wgEncodeReg4TfChip_ENCFF867JAR ENCSR000EXP erythroblast male GATA1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF622QTN ENCSR000EXO signal erythroblast male POLR2A ENCSR000EXO signal Experimental 
wgEncodeReg4TfChip_ENCFF498VMR ENCSR000EXO erythroblast male POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF990XEY ENCSR000EXL signal Panc1 TCF7L2 ENCSR000EXL signal Experimental 
wgEncodeReg4TfChip_ENCFF829HHL ENCSR000EXL Panc1 TCF7L2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF121CEN ENCSR000EXH signal NT2/D1 SUZ12 ENCSR000EXH signal Experimental 
wgEncodeReg4TfChip_ENCFF574SXS ENCSR000EXH NT2/D1 SUZ12 peaks Experimental 
wgEncodeReg4TfChip_ENCFF682QWZ ENCSR000EXG signal NT2/D1 YY1 ENCSR000EXG signal Experimental 
wgEncodeReg4TfChip_ENCFF999MII ENCSR000EXG NT2/D1 YY1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF171UHW ENCSR000EWY signal NT2/D1 ZNF274 ENCSR000EWY signal Experimental 
wgEncodeReg4TfChip_ENCFF960BHH ENCSR000EWY NT2/D1 ZNF274 peaks Experimental 
wgEncodeReg4TfChip_ENCFF858GLM ENCSR000EWX signal MCF-7 stably expressing E2F1 E2F1 ENCSR000EWX signal Experimental 
wgEncodeReg4TfChip_ENCFF692OYJ ENCSR000EWX MCF-7 stably expressing E2F1 E2F1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF087MTQ ENCSR000EWV signal MCF-7 GATA3 ENCSR000EWV signal Experimental 
wgEncodeReg4TfChip_ENCFF695MAU ENCSR000EWV MCF-7 GATA3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF690HUD ENCSR000EWU signal MCF-7 ZNF217 ENCSR000EWU signal Experimental 
wgEncodeReg4TfChip_ENCFF299BWK ENCSR000EWU MCF-7 ZNF217 peaks Experimental 
wgEncodeReg4TfChip_ENCFF536HFB ENCSR000EWT signal MCF-7 TCF7L2 ENCSR000EWT signal Experimental 
wgEncodeReg4TfChip_ENCFF219LIX ENCSR000EWT MCF-7 TCF7L2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF794AFQ ENCSR000EWS signal MCF-7 GATA3 ENCSR000EWS signal Experimental 
wgEncodeReg4TfChip_ENCFF178GBS ENCSR000EWS MCF-7 GATA3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF552HMM ENCSR000EWN signal K562 ZNF263 ENCSR000EWN signal Experimental 
wgEncodeReg4TfChip_ENCFF650LPZ ENCSR000EWN K562 ZNF263 peaks Experimental 
wgEncodeReg4TfChip_ENCFF240CAC ENCSR000EWM signal K562 GATA1 ENCSR000EWM signal Experimental 
wgEncodeReg4TfChip_ENCFF876GFS ENCSR000EWM K562 GATA1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF093QLM ENCSR000EWL signal K562 E2F4 ENCSR000EWL signal Experimental 
wgEncodeReg4TfChip_ENCFF950BEB ENCSR000EWL K562 E2F4 peaks Experimental 
wgEncodeReg4TfChip_ENCFF440PPQ ENCSR000EWJ signal K562 E2F6 ENCSR000EWJ signal Experimental 
wgEncodeReg4TfChip_ENCFF163WMT ENCSR000EWJ K562 E2F6 peaks Experimental 
wgEncodeReg4TfChip_ENCFF989IND ENCSR000EWI signal K562 SETDB1 ENCSR000EWI signal Experimental 
wgEncodeReg4TfChip_ENCFF745PAW ENCSR000EWI K562 SETDB1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF582TIG ENCSR000EWG signal K562 GATA2 ENCSR000EWG signal Experimental 
wgEncodeReg4TfChip_ENCFF513FTZ ENCSR000EWG K562 GATA2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF480HTQ ENCSR000EWF signal K562 YY1 ENCSR000EWF signal Experimental 
wgEncodeReg4TfChip_ENCFF768DPZ ENCSR000EWF K562 YY1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF134HNV ENCSR000EWD signal K562 SETDB1 ENCSR000EWD signal Experimental 
wgEncodeReg4TfChip_ENCFF348FRY ENCSR000EWD K562 SETDB1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF101JVS ENCSR000EVY signal K562 TRIM28 ENCSR000EVY signal Experimental 
wgEncodeReg4TfChip_ENCFF671NCI ENCSR000EVY K562 TRIM28 peaks Experimental 
wgEncodeReg4TfChip_ENCFF544BIW ENCSR000EVX signal K562 ZNF274 ENCSR000EVX signal Experimental 
wgEncodeReg4TfChip_ENCFF187RMG ENCSR000EVX K562 ZNF274 peaks Experimental 
wgEncodeReg4TfChip_ENCFF126VAU ENCSR000EVW signal endothelial cell of umbilical vein newborn GATA2 ENCSR000EVW signal Experimental 
wgEncodeReg4TfChip_ENCFF148NLK ENCSR000EVW endothelial cell of umbilical vein newborn GATA2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF301XXM ENCSR000EVU signal endothelial cell of umbilical vein newborn FOS ENCSR000EVU signal Experimental 
wgEncodeReg4TfChip_ENCFF415XBG ENCSR000EVU endothelial cell of umbilical vein newborn FOS peaks Experimental 
wgEncodeReg4TfChip_ENCFF410HBT ENCSR000EVS signal HepG2 NR2C2 ENCSR000EVS signal Experimental 
wgEncodeReg4TfChip_ENCFF026DHW ENCSR000EVS HepG2 NR2C2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF559TQB ENCSR000EVQ signal HepG2 TCF7L2 ENCSR000EVQ signal Experimental 
wgEncodeReg4TfChip_ENCFF125ABE ENCSR000EVQ HepG2 TCF7L2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF499WRL ENCSR000EVN signal HeLa-S3 NR2C2 ENCSR000EVN signal Experimental 
wgEncodeReg4TfChip_ENCFF796ZSS ENCSR000EVN HeLa-S3 NR2C2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF819FVH ENCSR000EVM signal HeLa-S3 stably expressing E2F1 E2F1 ENCSR000EVM signal Experimental 
wgEncodeReg4TfChip_ENCFF877AEN ENCSR000EVM HeLa-S3 stably expressing E2F1 E2F1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF669WYW ENCSR000EVL HeLa-S3 E2F4 peaks Experimental 
wgEncodeReg4TfChip_ENCFF962XXU ENCSR000EVK signal HeLa-S3 E2F6 ENCSR000EVK signal Experimental 
wgEncodeReg4TfChip_ENCFF766OCY ENCSR000EVK HeLa-S3 E2F6 peaks Experimental 
wgEncodeReg4TfChip_ENCFF296QBC ENCSR000EVJ signal HeLa-S3 E2F1 ENCSR000EVJ signal Experimental 
wgEncodeReg4TfChip_ENCFF170ZHA ENCSR000EVJ HeLa-S3 E2F1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF955ZTX ENCSR000EVI signal HeLa-S3 ELK4 ENCSR000EVI signal Experimental 
wgEncodeReg4TfChip_ENCFF727BQM ENCSR000EVI HeLa-S3 ELK4 peaks Experimental 
wgEncodeReg4TfChip_ENCFF996KVT ENCSR000EVF signal HeLa-S3 TCF7L2 ENCSR000EVF signal Experimental 
wgEncodeReg4TfChip_ENCFF084KRL ENCSR000EVF HeLa-S3 TCF7L2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF390UCE ENCSR000EVE signal HeLa-S3 TCF7L2 ENCSR000EVE signal Experimental 
wgEncodeReg4TfChip_ENCFF673QAB ENCSR000EVE HeLa-S3 TCF7L2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF510DFY ENCSR000EVD signal HEK293 ZNF263 ENCSR000EVD signal Experimental 
wgEncodeReg4TfChip_ENCFF336CWQ ENCSR000EVD HEK293 ZNF263 peaks Experimental 
wgEncodeReg4TfChip_ENCFF340FXG ENCSR000EUZ signal HEK293 TRIM28 ENCSR000EUZ signal Experimental 
wgEncodeReg4TfChip_ENCFF582MWI ENCSR000EUZ HEK293 TRIM28 peaks Experimental 
wgEncodeReg4TfChip_ENCFF851WEQ ENCSR000EUY signal HEK293 TCF7L2 ENCSR000EUY signal Experimental 
wgEncodeReg4TfChip_ENCFF513JQN ENCSR000EUY HEK293 TCF7L2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF957AFR ENCSR000EUV signal HCT116 TCF7L2 ENCSR000EUV signal Experimental 
wgEncodeReg4TfChip_ENCFF038POZ ENCSR000EUV HCT116 TCF7L2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF802CGI ENCSR000EUU signal HCT116 POLR2A ENCSR000EUU signal Experimental 
wgEncodeReg4TfChip_ENCFF849NGT ENCSR000EUU HCT116 POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF498CWI ENCSR000EUQ signal H1 SUZ12 ENCSR000EUQ signal Experimental 
wgEncodeReg4TfChip_ENCFF507HGF ENCSR000EUQ H1 SUZ12 peaks Experimental 
wgEncodeReg4TfChip_ENCFF527TEZ ENCSR000EUP signal H1 MAX ENCSR000EUP signal Experimental 
wgEncodeReg4TfChip_ENCFF601FOM ENCSR000EUP H1 MAX peaks Experimental 
wgEncodeReg4TfChip_ENCFF389FDQ ENCSR000EUO signal H1 CTBP2 ENCSR000EUO signal Experimental 
wgEncodeReg4TfChip_ENCFF329MAX ENCSR000EUO H1 CTBP2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF344IHV ENCSR000EUN signal H1 ZNF274 ENCSR000EUN signal Experimental 
wgEncodeReg4TfChip_ENCFF434LDY ENCSR000EUN H1 ZNF274 peaks Experimental 
wgEncodeReg4TfChip_ENCFF260SWT ENCSR000EUM signal GM12878 YY1 ENCSR000EUM signal Experimental 
wgEncodeReg4TfChip_ENCFF150EFU ENCSR000EUM GM12878 YY1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF835AYP ENCSR000EUL signal GM12878 NR2C2 ENCSR000EUL signal Experimental 
wgEncodeReg4TfChip_ENCFF550ARE ENCSR000EUL GM12878 NR2C2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF305RRT ENCSR000EUJ signal GM12878 IKZF1 ENCSR000EUJ signal Experimental 
wgEncodeReg4TfChip_ENCFF616FJX ENCSR000EUJ GM12878 IKZF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF815QDW ENCSR000EUI signal GM08714 ZNF274 ENCSR000EUI signal Experimental 
wgEncodeReg4TfChip_ENCFF609SEN ENCSR000EUI GM08714 ZNF274 peaks Experimental 
wgEncodeReg4TfChip_ENCFF747ZZB ENCSR000EIC signal SK-N-SH CTCF ENCSR000EIC signal Experimental 
wgEncodeReg4TfChip_ENCFF731NJX ENCSR000EIC SK-N-SH CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF728HYA ENCSR000EIB signal SK-N-SH JUND ENCSR000EIB signal Experimental 
wgEncodeReg4TfChip_ENCFF971JKN ENCSR000EIB SK-N-SH JUND peaks Experimental 
wgEncodeReg4TfChip_ENCFF233NFA ENCSR000EIA signal SK-N-SH MXI1 ENCSR000EIA signal Experimental 
wgEncodeReg4TfChip_ENCFF746HVJ ENCSR000EIA SK-N-SH MXI1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF989ZNU ENCSR000EHZ signal SK-N-SH NRF1 ENCSR000EHZ signal Experimental 
wgEncodeReg4TfChip_ENCFF820YTU ENCSR000EHZ SK-N-SH NRF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF607XDL ENCSR000EHY signal SK-N-SH RFX5 ENCSR000EHY signal Experimental 
wgEncodeReg4TfChip_ENCFF755HLO ENCSR000EHY SK-N-SH RFX5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF914LBH ENCSR000EHX signal SK-N-SH RAD21 ENCSR000EHX signal Experimental 
wgEncodeReg4TfChip_ENCFF747MAS ENCSR000EHX SK-N-SH RAD21 peaks Experimental 
wgEncodeReg4TfChip_ENCFF991ZZB ENCSR000EHW signal SK-N-SH SMC3 ENCSR000EHW signal Experimental 
wgEncodeReg4TfChip_ENCFF791WFB ENCSR000EHW SK-N-SH SMC3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF626ANA ENCSR000EHV signal SK-N-SH EP300 ENCSR000EHV signal Experimental 
wgEncodeReg4TfChip_ENCFF829RWA ENCSR000EHV SK-N-SH EP300 peaks Experimental 
wgEncodeReg4TfChip_ENCFF308UJV ENCSR000EHS signal NB4 MAX ENCSR000EHS signal Experimental 
wgEncodeReg4TfChip_ENCFF966MWB ENCSR000EHS NB4 MAX peaks Experimental 
wgEncodeReg4TfChip_ENCFF656BVJ ENCSR000EHR signal NB4 MYC ENCSR000EHR signal Experimental 
wgEncodeReg4TfChip_ENCFF142PRP ENCSR000EHR NB4 MYC peaks Experimental 
wgEncodeReg4TfChip_ENCFF280PTW ENCSR000EHO signal K562 SMARCA4 ENCSR000EHO signal Experimental 
wgEncodeReg4TfChip_ENCFF357NOJ ENCSR000EHO K562 SMARCA4 peaks Experimental 
wgEncodeReg4TfChip_ENCFF424PDB ENCSR000EHN signal K562 SMARCB1 ENCSR000EHN signal Experimental 
wgEncodeReg4TfChip_ENCFF006QTQ ENCSR000EHN K562 SMARCB1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF937ZPS ENCSR000EHL signal K562 POLR2A ENCSR000EHL signal Experimental 
wgEncodeReg4TfChip_ENCFF419GHN ENCSR000EHL K562 POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF318QRJ ENCSR000EHH signal K562 NRF1 ENCSR000EHH signal Experimental 
wgEncodeReg4TfChip_ENCFF773FOM ENCSR000EHH K562 NRF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF080NEA ENCSR000EHG signal K562 USF2 ENCSR000EHG signal Experimental 
wgEncodeReg4TfChip_ENCFF495XTL ENCSR000EHG K562 USF2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF711PAO ENCSR000EHF signal K562 POLR2AphosphoS2 ENCSR000EHF signal Experimental 
wgEncodeReg4TfChip_ENCFF643HGX ENCSR000EHF K562 POLR2AphosphoS2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF454KRI ENCSR000EHE signal K562 CEBPB ENCSR000EHE signal Experimental 
wgEncodeReg4TfChip_ENCFF189VBN ENCSR000EHE K562 CEBPB peaks Experimental 
wgEncodeReg4TfChip_ENCFF032HVZ ENCSR000EHD signal K562 CHD2 ENCSR000EHD signal Experimental 
wgEncodeReg4TfChip_ENCFF857WME ENCSR000EHD K562 CHD2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF352YOO ENCSR000EHC signal K562 GTF2F1 ENCSR000EHC signal Experimental 
wgEncodeReg4TfChip_ENCFF290EKB ENCSR000EHC K562 GTF2F1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF439GTA ENCSR000EHB signal K562 TAL1 ENCSR000EHB signal Experimental 
wgEncodeReg4TfChip_ENCFF661CCK ENCSR000EHB K562 TAL1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF727KHF ENCSR000EHA signal K562 TBP ENCSR000EHA signal Experimental 
wgEncodeReg4TfChip_ENCFF901UYM ENCSR000EHA K562 TBP peaks Experimental 
wgEncodeReg4TfChip_ENCFF336XYS ENCSR000EGZ K562 MXI1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF198BYC ENCSR000EGY signal K562 EP300 ENCSR000EGY signal Experimental 
wgEncodeReg4TfChip_ENCFF696URH ENCSR000EGY K562 EP300 peaks Experimental 
wgEncodeReg4TfChip_ENCFF530IEE ENCSR000EGX signal K562 MAFK ENCSR000EGX signal Experimental 
wgEncodeReg4TfChip_ENCFF380WHM ENCSR000EGX K562 MAFK peaks Experimental 
wgEncodeReg4TfChip_ENCFF469OWD ENCSR000EGW signal K562 SMC3 ENCSR000EGW signal Experimental 
wgEncodeReg4TfChip_ENCFF582XIX ENCSR000EGW K562 SMC3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF057JQO ENCSR000EGV signal K562 BHLHE40 ENCSR000EGV signal Experimental 
wgEncodeReg4TfChip_ENCFF923NJI ENCSR000EGV K562 BHLHE40 peaks Experimental 
wgEncodeReg4TfChip_ENCFF427FTJ ENCSR000EGR signal K562 NFYA ENCSR000EGR signal Experimental 
wgEncodeReg4TfChip_ENCFF666BET ENCSR000EGR K562 NFYA peaks Experimental 
wgEncodeReg4TfChip_ENCFF608VTZ ENCSR000EGQ signal K562 NFYB ENCSR000EGQ signal Experimental 
wgEncodeReg4TfChip_ENCFF709RXX ENCSR000EGQ K562 NFYB peaks Experimental 
wgEncodeReg4TfChip_ENCFF817FLM ENCSR000EGO signal K562 RFX5 ENCSR000EGO signal Experimental 
wgEncodeReg4TfChip_ENCFF734TCX ENCSR000EGO K562 RFX5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF985WIP ENCSR000EGN signal K562 JUND ENCSR000EGN signal Experimental 
wgEncodeReg4TfChip_ENCFF830LVJ ENCSR000EGN K562 JUND peaks Experimental 
wgEncodeReg4TfChip_ENCFF682MFJ ENCSR000EGM signal K562 CTCF ENCSR000EGM signal Experimental 
wgEncodeReg4TfChip_ENCFF400DFR ENCSR000EGM K562 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF801QJW ENCSR000EGJ signal K562 MYC ENCSR000EGJ signal Experimental 
wgEncodeReg4TfChip_ENCFF988ZRU ENCSR000EGJ K562 MYC peaks Experimental 
wgEncodeReg4TfChip_ENCFF750ZMW ENCSR000EGI signal K562 MAFF ENCSR000EGI signal Experimental 
wgEncodeReg4TfChip_ENCFF071YKK ENCSR000EGI K562 MAFF peaks Experimental 
wgEncodeReg4TfChip_ENCFF857APX ENCSR000EGG signal K562 RCOR1 ENCSR000EGG signal Experimental 
wgEncodeReg4TfChip_ENCFF216EEJ ENCSR000EGG K562 RCOR1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF434PYZ ENCSR000EGF signal K562 POLR2AphosphoS2 ENCSR000EGF signal Experimental 
wgEncodeReg4TfChip_ENCFF214YGX ENCSR000EGF K562 POLR2AphosphoS2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF636VVR ENCSR000EGE signal K562 EP300 ENCSR000EGE signal Experimental 
wgEncodeReg4TfChip_ENCFF226VMS ENCSR000EGE K562 EP300 peaks Experimental 
wgEncodeReg4TfChip_ENCFF886PIZ ENCSR000EGD signal K562 BACH1 ENCSR000EGD signal Experimental 
wgEncodeReg4TfChip_ENCFF990JHI ENCSR000EGD K562 BACH1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF211CGZ ENCSR000EGC signal K562 RCOR1 ENCSR000EGC signal Experimental 
wgEncodeReg4TfChip_ENCFF721RTS ENCSR000EGC K562 RCOR1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF422CNL ENCSR000EGB signal K562 TBL1XR1 ENCSR000EGB signal Experimental 
wgEncodeReg4TfChip_ENCFF899VEC ENCSR000EGB K562 TBL1XR1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF689LKD ENCSR000EGA signal K562 TBL1XR1 ENCSR000EGA signal Experimental 
wgEncodeReg4TfChip_ENCFF783QLQ ENCSR000EGA K562 TBL1XR1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF863MOX ENCSR000EFZ signal K562 UBTF ENCSR000EFZ signal Experimental 
wgEncodeReg4TfChip_ENCFF174SPM ENCSR000EFZ K562 UBTF peaks Experimental 
wgEncodeReg4TfChip_ENCFF415DOV ENCSR000EFY signal K562 ARID3A ENCSR000EFY signal Experimental 
wgEncodeReg4TfChip_ENCFF728CDS ENCSR000EFY K562 ARID3A peaks Experimental 
wgEncodeReg4TfChip_ENCFF286HAP ENCSR000EFX signal K562 MAZ ENCSR000EFX signal Experimental 
wgEncodeReg4TfChip_ENCFF333ZIV ENCSR000EFX K562 MAZ peaks Experimental 
wgEncodeReg4TfChip_ENCFF939UDC ENCSR000EFW signal K562 UBTF ENCSR000EFW signal Experimental 
wgEncodeReg4TfChip_ENCFF775DLK ENCSR000EFW K562 UBTF peaks Experimental 
wgEncodeReg4TfChip_ENCFF755MWA ENCSR000EFV signal K562 MAX ENCSR000EFV signal Experimental 
wgEncodeReg4TfChip_ENCFF110LJS ENCSR000EFV K562 MAX peaks Experimental 
wgEncodeReg4TfChip_ENCFF700LIO ENCSR000EFU signal K562 ELK1 ENCSR000EFU signal Experimental 
wgEncodeReg4TfChip_ENCFF913QBM ENCSR000EFU K562 ELK1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF334KVR ENCSR000EFT signal K562 GATA1 ENCSR000EFT signal Experimental 
wgEncodeReg4TfChip_ENCFF094CMK ENCSR000EFT K562 GATA1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF528PWS ENCSR000EFS signal K562 JUN ENCSR000EFS signal Experimental 
wgEncodeReg4TfChip_ENCFF182NTM ENCSR000EFS K562 JUN peaks Experimental 
wgEncodeReg4TfChip_ENCFF042TOP ENCSR000EFQ signal K562 ZMIZ1 ENCSR000EFQ signal Experimental 
wgEncodeReg4TfChip_ENCFF647WJV ENCSR000EFQ K562 ZMIZ1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF661OFX ENCSR000EFP signal K562 ZNF384 ENCSR000EFP signal Experimental 
wgEncodeReg4TfChip_ENCFF365NXQ ENCSR000EFP K562 ZNF384 peaks Experimental 
wgEncodeReg4TfChip_ENCFF888MTH ENCSR000EFO signal K562 CUX1 ENCSR000EFO signal Experimental 
wgEncodeReg4TfChip_ENCFF057AIX ENCSR000EFO K562 CUX1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF060ZSK ENCSR000EFN signal K562 HCFC1 ENCSR000EFN signal Experimental 
wgEncodeReg4TfChip_ENCFF959WVM ENCSR000EFN K562 HCFC1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF304HZD ENCSR000EFM signal IMR-90 CEBPB ENCSR000EFM signal Experimental 
wgEncodeReg4TfChip_ENCFF468UGY ENCSR000EFM IMR-90 CEBPB peaks Experimental 
wgEncodeReg4TfChip_ENCFF851ZRC ENCSR000EFK signal IMR-90 POLR2A ENCSR000EFK signal Experimental 
wgEncodeReg4TfChip_ENCFF672YWV ENCSR000EFK IMR-90 POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF048PZI ENCSR000EFJ signal IMR-90 RAD21 ENCSR000EFJ signal Experimental 
wgEncodeReg4TfChip_ENCFF752PTH ENCSR000EFJ IMR-90 RAD21 peaks Experimental 
wgEncodeReg4TfChip_ENCFF105FHL ENCSR000EFI signal IMR-90 CTCF ENCSR000EFI signal Experimental 
wgEncodeReg4TfChip_ENCFF887MRH ENCSR000EFI IMR-90 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF998FWF ENCSR000EFH signal IMR-90 MAFK ENCSR000EFH signal Experimental 
wgEncodeReg4TfChip_ENCFF336DHZ ENCSR000EFH IMR-90 MAFK peaks Experimental 
wgEncodeReg4TfChip_ENCFF697ZWE ENCSR000EFG signal IMR-90 RCOR1 ENCSR000EFG signal Experimental 
wgEncodeReg4TfChip_ENCFF644MZN ENCSR000EFG IMR-90 RCOR1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF178YPK ENCSR000EFF signal IMR-90 MAZ ENCSR000EFF signal Experimental 
wgEncodeReg4TfChip_ENCFF682IKN ENCSR000EFF IMR-90 MAZ peaks Experimental 
wgEncodeReg4TfChip_ENCFF203VSK ENCSR000EFE signal IMR-90 MXI1 ENCSR000EFE signal Experimental 
wgEncodeReg4TfChip_ENCFF040YVH ENCSR000EFE IMR-90 MXI1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF606CXT ENCSR000EFD signal IMR-90 RFX5 ENCSR000EFD signal Experimental 
wgEncodeReg4TfChip_ENCFF886KPO ENCSR000EFD IMR-90 RFX5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF121KVV ENCSR000EFC signal IMR-90 CHD1 ENCSR000EFC signal Experimental 
wgEncodeReg4TfChip_ENCFF921SVK ENCSR000EFC IMR-90 CHD1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF088YCV ENCSR000EFB signal endothelial cell of umbilical vein newborn POLR2A ENCSR000EFB signal Experimental 
wgEncodeReg4TfChip_ENCFF091YHT ENCSR000EFB endothelial cell of umbilical vein newborn POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF672FUO ENCSR000EFA signal endothelial cell of umbilical vein newborn JUN ENCSR000EFA signal Experimental 
wgEncodeReg4TfChip_ENCFF791BMV ENCSR000EFA endothelial cell of umbilical vein newborn JUN peaks Experimental 
wgEncodeReg4TfChip_ENCFF577WCB ENCSR000EEZ signal endothelial cell of umbilical vein newborn MAX ENCSR000EEZ signal Experimental 
wgEncodeReg4TfChip_ENCFF100YIN ENCSR000EEZ endothelial cell of umbilical vein newborn MAX peaks Experimental 
wgEncodeReg4TfChip_ENCFF761IJZ ENCSR000EEM signal HepG2 POLR2A ENCSR000EEM signal Experimental 
wgEncodeReg4TfChip_ENCFF350RIU ENCSR000EEM HepG2 POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF576NZL ENCSR000EEL signal HepG2 TBP ENCSR000EEL signal Experimental 
wgEncodeReg4TfChip_ENCFF023IVD ENCSR000EEL HepG2 TBP peaks Experimental 
wgEncodeReg4TfChip_ENCFF972PLC ENCSR000EEK signal HepG2 JUN ENCSR000EEK signal Experimental 
wgEncodeReg4TfChip_ENCFF401CRH ENCSR000EEK HepG2 JUN peaks Experimental 
wgEncodeReg4TfChip_ENCFF103TQH ENCSR000EEI signal HepG2 JUND ENCSR000EEI signal Experimental 
wgEncodeReg4TfChip_ENCFF869OPW ENCSR000EEI HepG2 JUND peaks Experimental 
wgEncodeReg4TfChip_ENCFF278RDU ENCSR000EEH signal HepG2 NRF1 ENCSR000EEH signal Experimental 
wgEncodeReg4TfChip_ENCFF969ALM ENCSR000EEH HepG2 NRF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF242MRW ENCSR000EEG signal HepG2 RAD21 ENCSR000EEG signal Experimental 
wgEncodeReg4TfChip_ENCFF963UBJ ENCSR000EEG HepG2 RAD21 peaks Experimental 
wgEncodeReg4TfChip_ENCFF081QHF ENCSR000EEF signal HepG2 USF2 ENCSR000EEF signal Experimental 
wgEncodeReg4TfChip_ENCFF671JRC ENCSR000EEF HepG2 USF2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF425LEA ENCSR000EEE signal HepG2 CEBPB ENCSR000EEE signal Experimental 
wgEncodeReg4TfChip_ENCFF536NTI ENCSR000EEE HepG2 CEBPB peaks Experimental 
wgEncodeReg4TfChip_ENCFF510DGE ENCSR000EED signal HepG2 CHD2 ENCSR000EED signal Experimental 
wgEncodeReg4TfChip_ENCFF968LAV ENCSR000EED HepG2 CHD2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF978RLF ENCSR000EEC signal HepG2 MAFF ENCSR000EEC signal Experimental 
wgEncodeReg4TfChip_ENCFF452YUT ENCSR000EEC HepG2 MAFF peaks Experimental 
wgEncodeReg4TfChip_ENCFF927ETM ENCSR000EEB signal HepG2 MAFK ENCSR000EEB signal Experimental 
wgEncodeReg4TfChip_ENCFF743ZOF ENCSR000EEB HepG2 MAFK peaks Experimental 
wgEncodeReg4TfChip_ENCFF418PFH ENCSR000EEA signal HepG2 RFX5 ENCSR000EEA signal Experimental 
wgEncodeReg4TfChip_ENCFF065UQI ENCSR000EEA HepG2 RFX5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF712FOK ENCSR000EDZ signal HepG2 MAFK ENCSR000EDZ signal Experimental 
wgEncodeReg4TfChip_ENCFF767LDG ENCSR000EDZ HepG2 MAFK peaks Experimental 
wgEncodeReg4TfChip_ENCFF698DLK ENCSR000EDY signal HepG2 BRCA1 ENCSR000EDY signal Experimental 
wgEncodeReg4TfChip_ENCFF748DCX ENCSR000EDY HepG2 BRCA1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF940PKN ENCSR000EDX signal HepG2 POLR2AphosphoS2 ENCSR000EDX signal Experimental 
wgEncodeReg4TfChip_ENCFF422YUC ENCSR000EDX HepG2 POLR2AphosphoS2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF803QEY ENCSR000EDW signal HepG2 SMC3 ENCSR000EDW signal Experimental 
wgEncodeReg4TfChip_ENCFF745UAV ENCSR000EDW HepG2 SMC3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF334OTF ENCSR000EDV signal HepG2 EP300 ENCSR000EDV signal Experimental 
wgEncodeReg4TfChip_ENCFF251RXO ENCSR000EDV HepG2 EP300 peaks Experimental 
wgEncodeReg4TfChip_ENCFF169TID ENCSR000EDU signal HepG2 MXI1 ENCSR000EDU signal Experimental 
wgEncodeReg4TfChip_ENCFF493ITN ENCSR000EDU HepG2 MXI1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF790BGS ENCSR000EDT signal HepG2 BHLHE40 ENCSR000EDT signal Experimental 
wgEncodeReg4TfChip_ENCFF961RID ENCSR000EDT HepG2 BHLHE40 peaks Experimental 
wgEncodeReg4TfChip_ENCFF409MFO ENCSR000EDS signal HepG2 MAX ENCSR000EDS signal Experimental 
wgEncodeReg4TfChip_ENCFF102SKR ENCSR000EDS HepG2 MAX peaks Experimental 
wgEncodeReg4TfChip_ENCFF872ATT ENCSR000EDQ signal HepG2 RCOR1 ENCSR000EDQ signal Experimental 
wgEncodeReg4TfChip_ENCFF418AQX ENCSR000EDQ HepG2 RCOR1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF824CWV ENCSR000EDP signal HepG2 ARID3A ENCSR000EDP signal Experimental 
wgEncodeReg4TfChip_ENCFF122GLS ENCSR000EDP HepG2 ARID3A peaks Experimental 
wgEncodeReg4TfChip_ENCFF498TSJ ENCSR000EDN signal HepG2 MAZ ENCSR000EDN signal Experimental 
wgEncodeReg4TfChip_ENCFF867JNL ENCSR000EDN HepG2 MAZ peaks Experimental 
wgEncodeReg4TfChip_ENCFF295CGX ENCSR000EDM signal HeLa-S3 SMARCC1 ENCSR000EDM signal Experimental 
wgEncodeReg4TfChip_ENCFF971JGA ENCSR000EDM HeLa-S3 SMARCC1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF748FEL ENCSR000EDL signal HeLa-S3 SMARCC2 ENCSR000EDL signal Experimental 
wgEncodeReg4TfChip_ENCFF313RPK ENCSR000EDL HeLa-S3 SMARCC2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF805DTS ENCSR000EDK signal HeLa-S3 SMARCB1 ENCSR000EDK signal Experimental 
wgEncodeReg4TfChip_ENCFF733PLR ENCSR000EDK HeLa-S3 SMARCB1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF558WGC ENCSR000EDJ signal HeLa-S3 NRF1 ENCSR000EDJ signal Experimental 
wgEncodeReg4TfChip_ENCFF346WLN ENCSR000EDJ HeLa-S3 NRF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF687DOT ENCSR000EDH signal HeLa-S3 JUND ENCSR000EDH signal Experimental 
wgEncodeReg4TfChip_ENCFF642OHL ENCSR000EDH HeLa-S3 JUND peaks Experimental 
wgEncodeReg4TfChip_ENCFF245VLB ENCSR000EDG signal HeLa-S3 JUN ENCSR000EDG signal Experimental 
wgEncodeReg4TfChip_ENCFF668QVP ENCSR000EDG HeLa-S3 JUN peaks Experimental 
wgEncodeReg4TfChip_ENCFF411IEL ENCSR000EDF signal HeLa-S3 IRF3 ENCSR000EDF signal Experimental 
wgEncodeReg4TfChip_ENCFF506FET ENCSR000EDF HeLa-S3 IRF3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF357XMG ENCSR000EDE signal HeLa-S3 RAD21 ENCSR000EDE signal Experimental 
wgEncodeReg4TfChip_ENCFF775CHI ENCSR000EDE HeLa-S3 RAD21 peaks Experimental 
wgEncodeReg4TfChip_ENCFF613AQY ENCSR000EDD signal HeLa-S3 TBP ENCSR000EDD signal Experimental 
wgEncodeReg4TfChip_ENCFF715NNJ ENCSR000EDD HeLa-S3 TBP peaks Experimental 
wgEncodeReg4TfChip_ENCFF786MVZ ENCSR000EDC signal HeLa-S3 STAT3 ENCSR000EDC signal Experimental 
wgEncodeReg4TfChip_ENCFF655DGU ENCSR000EDC HeLa-S3 STAT3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF690UED ENCSR000EDB signal HeLa-S3 BRCA1 ENCSR000EDB signal Experimental 
wgEncodeReg4TfChip_ENCFF218GPC ENCSR000EDB HeLa-S3 BRCA1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF868WMP ENCSR000EDA signal HeLa-S3 CEBPB ENCSR000EDA signal Experimental 
wgEncodeReg4TfChip_ENCFF722WEG ENCSR000EDA HeLa-S3 CEBPB peaks Experimental 
wgEncodeReg4TfChip_ENCFF541OKE ENCSR000ECZ signal HeLa-S3 GTF2F1 ENCSR000ECZ signal Experimental 
wgEncodeReg4TfChip_ENCFF868VGE ENCSR000ECZ HeLa-S3 GTF2F1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF390VHM ENCSR000ECY signal HeLa-S3 PRDM1 ENCSR000ECY signal Experimental 
wgEncodeReg4TfChip_ENCFF893HDJ ENCSR000ECY HeLa-S3 PRDM1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF618YUX ENCSR000ECX signal HeLa-S3 RFX5 ENCSR000ECX signal Experimental 
wgEncodeReg4TfChip_ENCFF703XPB ENCSR000ECX HeLa-S3 RFX5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF828UPZ ENCSR000ECW signal HeLa-S3 USF2 ENCSR000ECW signal Experimental 
wgEncodeReg4TfChip_ENCFF765YUZ ENCSR000ECW HeLa-S3 USF2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF541JEL ENCSR000ECV signal HeLa-S3 EP300 ENCSR000ECV signal Experimental 
wgEncodeReg4TfChip_ENCFF089VPQ ENCSR000ECV HeLa-S3 EP300 peaks Experimental 
wgEncodeReg4TfChip_ENCFF547NVJ ENCSR000ECU signal HeLa-S3 MXI1 ENCSR000ECU signal Experimental 
wgEncodeReg4TfChip_ENCFF947VEL ENCSR000ECU HeLa-S3 MXI1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF738UXP ENCSR000ECT signal HeLa-S3 POLR2AphosphoS2 ENCSR000ECT signal Experimental 
wgEncodeReg4TfChip_ENCFF045HUU ENCSR000ECT HeLa-S3 POLR2AphosphoS2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF971PWK ENCSR000ECS signal HeLa-S3 SMC3 ENCSR000ECS signal Experimental 
wgEncodeReg4TfChip_ENCFF992MML ENCSR000ECS HeLa-S3 SMC3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF239ZWG ENCSR000ECP signal HeLa-S3 CHD2 ENCSR000ECP signal Experimental 
wgEncodeReg4TfChip_ENCFF078QRQ ENCSR000ECP HeLa-S3 CHD2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF713LTW ENCSR000ECN signal HeLa-S3 MAX ENCSR000ECN signal Experimental 
wgEncodeReg4TfChip_ENCFF398RFF ENCSR000ECN HeLa-S3 MAX peaks Experimental 
wgEncodeReg4TfChip_ENCFF339BCT ENCSR000ECM signal HeLa-S3 RCOR1 ENCSR000ECM signal Experimental 
wgEncodeReg4TfChip_ENCFF471KYI ENCSR000ECM HeLa-S3 RCOR1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF826WJT ENCSR000ECL signal HeLa-S3 MAZ ENCSR000ECL signal Experimental 
wgEncodeReg4TfChip_ENCFF212FIJ ENCSR000ECL HeLa-S3 MAZ peaks Experimental 
wgEncodeReg4TfChip_ENCFF556HSM ENCSR000ECK signal HeLa-S3 MAFK ENCSR000ECK signal Experimental 
wgEncodeReg4TfChip_ENCFF304XGR ENCSR000ECK HeLa-S3 MAFK peaks Experimental 
wgEncodeReg4TfChip_ENCFF093YWI ENCSR000ECJ signal HeLa-S3 ZKSCAN1 ENCSR000ECJ signal Experimental 
wgEncodeReg4TfChip_ENCFF104OCU ENCSR000ECJ HeLa-S3 ZKSCAN1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF638BKZ ENCSR000ECI signal HeLa-S3 ELK1 ENCSR000ECI signal Experimental 
wgEncodeReg4TfChip_ENCFF608AEL ENCSR000ECI HeLa-S3 ELK1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF217UZI ENCSR000ECH signal HeLa-S3 HCFC1 ENCSR000ECH signal Experimental 
wgEncodeReg4TfChip_ENCFF159VGJ ENCSR000ECH HeLa-S3 HCFC1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF557TMO ENCSR000ECF signal H1 RFX5 ENCSR000ECF signal Experimental 
wgEncodeReg4TfChip_ENCFF605EGG ENCSR000ECF H1 RFX5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF002NBT ENCSR000ECE signal H1 RAD21 ENCSR000ECE signal Experimental 
wgEncodeReg4TfChip_ENCFF967OJF ENCSR000ECE H1 RAD21 peaks Experimental 
wgEncodeReg4TfChip_ENCFF390ECL ENCSR000ECD signal H1 USF2 ENCSR000ECD signal Experimental 
wgEncodeReg4TfChip_ENCFF434EDF ENCSR000ECD H1 USF2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF747YJU ENCSR000ECC signal H1 NRF1 ENCSR000ECC signal Experimental 
wgEncodeReg4TfChip_ENCFF582PEJ ENCSR000ECC H1 NRF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF206PWF ENCSR000ECB signal H1 TBP ENCSR000ECB signal Experimental 
wgEncodeReg4TfChip_ENCFF859IIO ENCSR000ECB H1 TBP peaks Experimental 
wgEncodeReg4TfChip_ENCFF010YXS ENCSR000EBZ H1 JUND peaks Experimental 
wgEncodeReg4TfChip_ENCFF145JGY ENCSR000EBY signal H1 MYC ENCSR000EBY signal Experimental 
wgEncodeReg4TfChip_ENCFF794ZJT ENCSR000EBY H1 MYC peaks Experimental 
wgEncodeReg4TfChip_ENCFF786TPQ ENCSR000EBX signal H1 BRCA1 ENCSR000EBX signal Experimental 
wgEncodeReg4TfChip_ENCFF288NOI ENCSR000EBX H1 BRCA1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF906RLR ENCSR000EBV signal H1 CEBPB ENCSR000EBV signal Experimental 
wgEncodeReg4TfChip_ENCFF871PTR ENCSR000EBV H1 CEBPB peaks Experimental 
wgEncodeReg4TfChip_ENCFF119KAM ENCSR000EBU signal H1 CHD1 ENCSR000EBU signal Experimental 
wgEncodeReg4TfChip_ENCFF128BID ENCSR000EBU H1 CHD1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF495IUE ENCSR000EBT signal H1 CHD2 ENCSR000EBT signal Experimental 
wgEncodeReg4TfChip_ENCFF991MKH ENCSR000EBT H1 CHD2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF045YJE ENCSR000EBS signal H1 MAFK ENCSR000EBS signal Experimental 
wgEncodeReg4TfChip_ENCFF854XWE ENCSR000EBS H1 MAFK peaks Experimental 
wgEncodeReg4TfChip_ENCFF720NTH ENCSR000EBR signal H1 MXI1 ENCSR000EBR signal Experimental 
wgEncodeReg4TfChip_ENCFF963FZS ENCSR000EBR H1 MXI1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF519TTD ENCSR000EBQ signal H1 BACH1 ENCSR000EBQ signal Experimental 
wgEncodeReg4TfChip_ENCFF282VDB ENCSR000EBQ H1 BACH1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF160LPK ENCSR000EBP signal H1 GTF2F1 ENCSR000EBP signal Experimental 
wgEncodeReg4TfChip_ENCFF399TGL ENCSR000EBP H1 GTF2F1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF744KFM ENCSR000EBO signal H1 SIN3A ENCSR000EBO signal Experimental 
wgEncodeReg4TfChip_ENCFF042ZSL ENCSR000EBO H1 SIN3A peaks Experimental 
wgEncodeReg4TfChip_ENCFF068POE ENCSR000EBK signal GM19193 POLR2A ENCSR000EBK signal Experimental 
wgEncodeReg4TfChip_ENCFF599VTO ENCSR000EBK GM19193 POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF785QUL ENCSR000EBG signal GM19099 POLR2A ENCSR000EBG signal Experimental 
wgEncodeReg4TfChip_ENCFF726IBN ENCSR000EBG GM19099 POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF297ZSX ENCSR000EBC signal GM18951 POLR2A ENCSR000EBC signal Experimental 
wgEncodeReg4TfChip_ENCFF079KKO ENCSR000EBC GM18951 POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF630NHO ENCSR000EAY signal GM18526 POLR2A ENCSR000EAY signal Experimental 
wgEncodeReg4TfChip_ENCFF599EPS ENCSR000EAY GM18526 POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF747IOW ENCSR000EAU signal GM18505 POLR2A ENCSR000EAU signal Experimental 
wgEncodeReg4TfChip_ENCFF311CYB ENCSR000EAU GM18505 POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF076QUF ENCSR000EAR signal GM15510 POLR2A ENCSR000EAR signal Experimental 
wgEncodeReg4TfChip_ENCFF880HVJ ENCSR000EAR GM15510 POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF266HKY ENCSR000EAM signal GM12892 POLR2A ENCSR000EAM signal Experimental 
wgEncodeReg4TfChip_ENCFF506PGQ ENCSR000EAM GM12892 POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF391SAJ ENCSR000EAJ signal GM12891 POLR2A ENCSR000EAJ signal Experimental 
wgEncodeReg4TfChip_ENCFF012SUT ENCSR000EAJ GM12891 POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF328MMS ENCSR000EAD signal GM12878 POLR2A ENCSR000EAD signal Experimental 
wgEncodeReg4TfChip_ENCFF263VRI ENCSR000EAD GM12878 POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF571ZJJ ENCSR000EAC signal GM12878 RAD21 ENCSR000EAC signal Experimental 
wgEncodeReg4TfChip_ENCFF046CBW ENCSR000EAC GM12878 RAD21 peaks Experimental 
wgEncodeReg4TfChip_ENCFF956PLX ENCSR000EAA signal GM12878 WRNIP1 ENCSR000EAA signal Experimental 
wgEncodeReg4TfChip_ENCFF384UKU ENCSR000EAA GM12878 WRNIP1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF017ZEX ENCSR000DZZ signal GM12878 TBP ENCSR000DZZ signal Experimental 
wgEncodeReg4TfChip_ENCFF571OXR ENCSR000DZZ GM12878 TBP peaks Experimental 
wgEncodeReg4TfChip_ENCFF806XAD ENCSR000DZX signal GM12878 IRF3 ENCSR000DZX signal Experimental 
wgEncodeReg4TfChip_ENCFF530XSI ENCSR000DZX GM12878 IRF3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF536CFB ENCSR000DZW signal GM12878 RFX5 ENCSR000DZW signal Experimental 
wgEncodeReg4TfChip_ENCFF768MIX ENCSR000DZW GM12878 RFX5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF011FHF ENCSR000DZV signal GM12878 STAT3 ENCSR000DZV signal Experimental 
wgEncodeReg4TfChip_ENCFF098ABL ENCSR000DZV GM12878 STAT3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF899OET ENCSR000DZU signal GM12878 USF2 ENCSR000DZU signal Experimental 
wgEncodeReg4TfChip_ENCFF078SJX ENCSR000DZU GM12878 USF2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF017KXT ENCSR000DZS signal GM12878 BRCA1 ENCSR000DZS signal Experimental 
wgEncodeReg4TfChip_ENCFF082DLE ENCSR000DZS GM12878 BRCA1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF138PNE ENCSR000DZR signal GM12878 CHD2 ENCSR000DZR signal Experimental 
wgEncodeReg4TfChip_ENCFF697XCL ENCSR000DZR GM12878 CHD2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF365IUW ENCSR000DZQ signal GM12878 EBF1 ENCSR000DZQ signal Experimental 
wgEncodeReg4TfChip_ENCFF167CZS ENCSR000DZQ GM12878 EBF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF401YFJ ENCSR000DZP signal GM12878 SMC3 ENCSR000DZP signal Experimental 
wgEncodeReg4TfChip_ENCFF085RLZ ENCSR000DZP GM12878 SMC3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF902IBW ENCSR000DZO signal GM12878 NRF1 ENCSR000DZO signal Experimental 
wgEncodeReg4TfChip_ENCFF969FRH ENCSR000DZO GM12878 NRF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF485CGE ENCSR000DZN signal GM12878 CTCF ENCSR000DZN signal Experimental 
wgEncodeReg4TfChip_ENCFF635MMB ENCSR000DZN GM12878 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF194UWM ENCSR000DZM signal GM12878 STAT1 ENCSR000DZM signal Experimental 
wgEncodeReg4TfChip_ENCFF887ZLZ ENCSR000DZM GM12878 STAT1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF353DID ENCSR000DZK signal GM12878 POLR2AphosphoS2 ENCSR000DZK signal Experimental 
wgEncodeReg4TfChip_ENCFF899QYP ENCSR000DZK GM12878 POLR2AphosphoS2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF206VRV ENCSR000DZJ signal GM12878 BHLHE40 ENCSR000DZJ signal Experimental 
wgEncodeReg4TfChip_ENCFF010ZUU ENCSR000DZJ GM12878 BHLHE40 peaks Experimental 
wgEncodeReg4TfChip_ENCFF122CNK ENCSR000DZI signal GM12878 MXI1 ENCSR000DZI signal Experimental 
wgEncodeReg4TfChip_ENCFF666NJR ENCSR000DZI GM12878 MXI1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF545BXW ENCSR000DZG signal GM12878 EP300 ENCSR000DZG signal Experimental 
wgEncodeReg4TfChip_ENCFF039QRE ENCSR000DZG GM12878 EP300 peaks Experimental 
wgEncodeReg4TfChip_ENCFF232BTG ENCSR000DZF signal GM12878 MAX ENCSR000DZF signal Experimental 
wgEncodeReg4TfChip_ENCFF849VCQ ENCSR000DZF GM12878 MAX peaks Experimental 
wgEncodeReg4TfChip_ENCFF143QTK ENCSR000DZE signal GM12878 CHD1 ENCSR000DZE signal Experimental 
wgEncodeReg4TfChip_ENCFF566UBH ENCSR000DZE GM12878 CHD1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF482JMC ENCSR000DZD signal GM12878 EP300 ENCSR000DZD signal Experimental 
wgEncodeReg4TfChip_ENCFF242HCG ENCSR000DZD GM12878 EP300 peaks Experimental 
wgEncodeReg4TfChip_ENCFF972XNQ ENCSR000DZC signal GM12878 RCOR1 ENCSR000DZC signal Experimental 
wgEncodeReg4TfChip_ENCFF982CRX ENCSR000DZC GM12878 RCOR1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF746TCL ENCSR000DZB signal GM12878 ELK1 ENCSR000DZB signal Experimental 
wgEncodeReg4TfChip_ENCFF807NFQ ENCSR000DZB GM12878 ELK1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF420YPZ ENCSR000DZA signal GM12878 MAZ ENCSR000DZA signal Experimental 
wgEncodeReg4TfChip_ENCFF404CEP ENCSR000DZA GM12878 MAZ peaks Experimental 
wgEncodeReg4TfChip_ENCFF964GST ENCSR000DYZ signal GM12878 TBL1XR1 ENCSR000DYZ signal Experimental 
wgEncodeReg4TfChip_ENCFF409FTM ENCSR000DYZ GM12878 TBL1XR1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF482TVC ENCSR000DYY signal GM12878 E2F4 ENCSR000DYY signal Experimental 
wgEncodeReg4TfChip_ENCFF509WLQ ENCSR000DYY GM12878 E2F4 peaks Experimental 
wgEncodeReg4TfChip_ENCFF858OPR ENCSR000DYX signal GM12878 SIN3A ENCSR000DYX signal Experimental 
wgEncodeReg4TfChip_ENCFF238GUI ENCSR000DYX GM12878 SIN3A peaks Experimental 
wgEncodeReg4TfChip_ENCFF949YIL ENCSR000DYV signal GM12878 MAFK ENCSR000DYV signal Experimental 
wgEncodeReg4TfChip_ENCFF605LFT ENCSR000DYV GM12878 MAFK peaks Experimental 
wgEncodeReg4TfChip_ENCFF104OMJ ENCSR000DYU signal GM12878 SREBF1 ENCSR000DYU signal Experimental 
wgEncodeReg4TfChip_ENCFF321ERB ENCSR000DYU GM12878 SREBF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF619LTN ENCSR000DYT signal GM12878 SREBF2 ENCSR000DYT signal Experimental 
wgEncodeReg4TfChip_ENCFF670DYX ENCSR000DYT GM12878 SREBF2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF527HKA ENCSR000DYS signal GM12878 JUND ENCSR000DYS signal Experimental 
wgEncodeReg4TfChip_ENCFF086GAB ENCSR000DYS GM12878 JUND peaks Experimental 
wgEncodeReg4TfChip_ENCFF745BDD ENCSR000DYR signal GM12878 CUX1 ENCSR000DYR signal Experimental 
wgEncodeReg4TfChip_ENCFF064TOM ENCSR000DYR GM12878 CUX1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF091TIJ ENCSR000DYQ signal GM12878 ESRRA ENCSR000DYQ signal Experimental 
wgEncodeReg4TfChip_ENCFF760DZX ENCSR000DYQ GM12878 ESRRA peaks Experimental 
wgEncodeReg4TfChip_ENCFF862AYM ENCSR000DYP signal GM12878 ZNF384 ENCSR000DYP signal Experimental 
wgEncodeReg4TfChip_ENCFF229VSP ENCSR000DYP GM12878 ZNF384 peaks Experimental 
wgEncodeReg4TfChip_ENCFF397PDR ENCSR000DYO signal GM10847 POLR2A ENCSR000DYO signal Experimental 
wgEncodeReg4TfChip_ENCFF241PBX ENCSR000DYO GM10847 POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF775ERC ENCSR000DYJ signal A549 BHLHE40 ENCSR000DYJ signal Experimental 
wgEncodeReg4TfChip_ENCFF980EQQ ENCSR000DYJ A549 BHLHE40 peaks Experimental 
wgEncodeReg4TfChip_ENCFF382KFX ENCSR000DYI signal A549 CEBPB ENCSR000DYI signal Experimental 
wgEncodeReg4TfChip_ENCFF235AIY ENCSR000DYI A549 CEBPB peaks Experimental 
wgEncodeReg4TfChip_ENCFF269NYK ENCSR000DYG signal A549 MAX ENCSR000DYG signal Experimental 
wgEncodeReg4TfChip_ENCFF985GDG ENCSR000DYG A549 MAX peaks Experimental 
wgEncodeReg4TfChip_ENCFF565TJA ENCSR000DYF signal A549 POLR2AphosphoS2 ENCSR000DYF signal Experimental 
wgEncodeReg4TfChip_ENCFF034EBG ENCSR000DYF A549 POLR2AphosphoS2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF107UUA ENCSR000DYE signal A549 RAD21 ENCSR000DYE signal Experimental 
wgEncodeReg4TfChip_ENCFF777QNW ENCSR000DYE A549 RAD21 peaks Experimental 
wgEncodeReg4TfChip_ENCFF806UIF ENCSR000DYD signal A549 CTCF ENCSR000DYD signal Experimental 
wgEncodeReg4TfChip_ENCFF434LUY ENCSR000DYD A549 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF030IDQ ENCSR000DYC signal A549 MYC ENCSR000DYC signal Experimental 
wgEncodeReg4TfChip_ENCFF722CWN ENCSR000DYC A549 MYC peaks Experimental 
wgEncodeReg4TfChip_ENCFF902IOE ENCSR000DYB signal WI38 CTCF ENCSR000DYB signal Experimental 
wgEncodeReg4TfChip_ENCFF219HOH ENCSR000DYB WI38 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF181ESK ENCSR000DXW signal WERI-Rb-1 CTCF ENCSR000DXW signal Experimental 
wgEncodeReg4TfChip_ENCFF349QKF ENCSR000DXW WERI-Rb-1 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF365EIN ENCSR000DXI signal bronchial epithelial cell CTCF ENCSR000DXI signal Experimental 
wgEncodeReg4TfChip_ENCFF500SEA ENCSR000DXI bronchial epithelial cell CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF874ELT ENCSR000DXD signal epithelial cell of proximal tubule CTCF ENCSR000DXD signal Experimental 
wgEncodeReg4TfChip_ENCFF763ZKS ENCSR000DXD epithelial cell of proximal tubule CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF141GXC ENCSR000DWY signal fibroblast of lung male adult (45 years) CTCF ENCSR000DWY signal Experimental 
wgEncodeReg4TfChip_ENCFF084DUH ENCSR000DWY fibroblast of lung male adult (45 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF668CCM ENCSR000DWX signal keratinocyte female CTCF ENCSR000DWX signal Experimental 
wgEncodeReg4TfChip_ENCFF667ULX ENCSR000DWX keratinocyte female CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF076GOF ENCSR000DWQ signal foreskin fibroblast male newborn CTCF ENCSR000DWQ signal Experimental 
wgEncodeReg4TfChip_ENCFF671HLG ENCSR000DWQ foreskin fibroblast male newborn CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF740SMV ENCSR000DWN signal NB4 CTCF ENCSR000DWN signal Experimental 
wgEncodeReg4TfChip_ENCFF155DNY ENCSR000DWN NB4 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF662LGI ENCSR000DWH signal MCF-7 CTCF ENCSR000DWH signal Experimental 
wgEncodeReg4TfChip_ENCFF139NQI ENCSR000DWH MCF-7 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF534ITO ENCSR000DWE signal K562 CTCF ENCSR000DWE signal Experimental 
wgEncodeReg4TfChip_ENCFF598YSU ENCSR000DWE K562 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF666CXN ENCSR000DVQ signal fibroblast of villous mesenchyme CTCF ENCSR000DVQ signal Experimental 
wgEncodeReg4TfChip_ENCFF345VQO ENCSR000DVQ fibroblast of villous mesenchyme CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF105ZMP ENCSR000DVP signal endothelial cell of umbilical vein male newborn CTCF ENCSR000DVP signal Experimental 
wgEncodeReg4TfChip_ENCFF677IZD ENCSR000DVP endothelial cell of umbilical vein male newborn CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF313KFS ENCSR000DVI signal retinal pigment epithelial cell CTCF ENCSR000DVI signal Experimental 
wgEncodeReg4TfChip_ENCFF810AAG ENCSR000DVI retinal pigment epithelial cell CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF518OZL ENCSR000DVH signal kidney epithelial cell CTCF ENCSR000DVH signal Experimental 
wgEncodeReg4TfChip_ENCFF173LWY ENCSR000DVH kidney epithelial cell CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF004BWD ENCSR000DVA signal fibroblast of lung CTCF ENCSR000DVA signal Experimental 
wgEncodeReg4TfChip_ENCFF505HVQ ENCSR000DVA fibroblast of lung CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF240OTM ENCSR000DUX signal fibroblast of pulmonary artery CTCF ENCSR000DUX signal Experimental 
wgEncodeReg4TfChip_ENCFF742RSV ENCSR000DUX fibroblast of pulmonary artery CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF506VAR ENCSR000DUU signal fibroblast of mammary gland female CTCF ENCSR000DUU signal Experimental 
wgEncodeReg4TfChip_ENCFF109AZU ENCSR000DUU fibroblast of mammary gland female CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF715XOZ ENCSR000DUS signal mammary epithelial cell female CTCF ENCSR000DUS signal Experimental 
wgEncodeReg4TfChip_ENCFF164SPU ENCSR000DUS mammary epithelial cell female CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF244CXJ ENCSR000DUP signal HL-60 CTCF ENCSR000DUP signal Experimental 
wgEncodeReg4TfChip_ENCFF998PWW ENCSR000DUP HL-60 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF449WXS ENCSR000DUM signal HFF-Myc originated from foreskin fibroblast CTCF ENCSR000DUM signal Experimental 
wgEncodeReg4TfChip_ENCFF680WYR ENCSR000DUM HFF-Myc originated from foreskin fibroblast CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF047ISZ ENCSR000DUH signal foreskin fibroblast male newborn CTCF ENCSR000DUH signal Experimental 
wgEncodeReg4TfChip_ENCFF219EBQ ENCSR000DUH foreskin fibroblast male newborn CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF841SRT ENCSR000DUG signal HepG2 CTCF ENCSR000DUG signal Experimental 
wgEncodeReg4TfChip_ENCFF127KUP ENCSR000DUG HepG2 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF599XVV ENCSR000DUB signal HeLa-S3 G1b phase CTCF ENCSR000DUB signal Experimental 
wgEncodeReg4TfChip_ENCFF073HFL ENCSR000DUB HeLa-S3 G1b phase CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF128UTY ENCSR000DTW signal HEK293 CTCF ENCSR000DTW signal Experimental 
wgEncodeReg4TfChip_ENCFF498RMM ENCSR000DTW HEK293 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF906XOP ENCSR000DTR signal epithelial cell of esophagus CTCF ENCSR000DTR signal Experimental 
wgEncodeReg4TfChip_ENCFF472JGE ENCSR000DTR epithelial cell of esophagus CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF388PVO ENCSR000DTO signal HCT116 CTCF ENCSR000DTO signal Experimental 
wgEncodeReg4TfChip_ENCFF209YMI ENCSR000DTO HCT116 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF438ZPS ENCSR000DTL signal choroid plexus epithelial cell CTCF ENCSR000DTL signal Experimental 
wgEncodeReg4TfChip_ENCFF407YNR ENCSR000DTL choroid plexus epithelial cell CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF193CJN ENCSR000DTI signal cardiac muscle cell CTCF ENCSR000DTI signal Experimental 
wgEncodeReg4TfChip_ENCFF728JSA ENCSR000DTI cardiac muscle cell CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF330JYE ENCSR000DTF signal cardiac fibroblast female adult CTCF ENCSR000DTF signal Experimental 
wgEncodeReg4TfChip_ENCFF326EDY ENCSR000DTF cardiac fibroblast female adult CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF176ELT ENCSR000DTA signal brain microvascular endothelial cell CTCF ENCSR000DTA signal Experimental 
wgEncodeReg4TfChip_ENCFF293XJO ENCSR000DTA brain microvascular endothelial cell CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF812BUV ENCSR000DSZ signal astrocyte of the cerebellum CTCF ENCSR000DSZ signal Experimental 
wgEncodeReg4TfChip_ENCFF511OCS ENCSR000DSZ astrocyte of the cerebellum CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF387GYF ENCSR000DSU signal astrocyte of the spinal cord CTCF ENCSR000DSU signal Experimental 
wgEncodeReg4TfChip_ENCFF044YTP ENCSR000DSU astrocyte of the spinal cord CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF644EEX ENCSR000DRZ signal GM12878 CTCF ENCSR000DRZ signal Experimental 
wgEncodeReg4TfChip_ENCFF485TGR ENCSR000DRZ GM12878 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF872JBW ENCSR000DRU signal GM12875 CTCF ENCSR000DRU signal Experimental 
wgEncodeReg4TfChip_ENCFF081UCQ ENCSR000DRU GM12875 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF112WLO ENCSR000DRR signal GM12874 CTCF ENCSR000DRR signal Experimental 
wgEncodeReg4TfChip_ENCFF942MTD ENCSR000DRR GM12874 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF668LUY ENCSR000DRP signal GM12873 CTCF ENCSR000DRP signal Experimental 
wgEncodeReg4TfChip_ENCFF711LOS ENCSR000DRP GM12873 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF709YNV ENCSR000DRN signal GM12872 CTCF ENCSR000DRN signal Experimental 
wgEncodeReg4TfChip_ENCFF697BYI ENCSR000DRN GM12872 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF452NQO ENCSR000DRE signal GM12865 CTCF ENCSR000DRE signal Experimental 
wgEncodeReg4TfChip_ENCFF815OXX ENCSR000DRE GM12865 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF070FTG ENCSR000DRB signal GM12864 CTCF ENCSR000DRB signal Experimental 
wgEncodeReg4TfChip_ENCFF357DQE ENCSR000DRB GM12864 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF172GQZ ENCSR000DQY signal GM12801 CTCF ENCSR000DQY signal Experimental 
wgEncodeReg4TfChip_ENCFF220GVX ENCSR000DQY GM12801 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF564FON ENCSR000DQW signal GM06990 CTCF ENCSR000DQW signal Experimental 
wgEncodeReg4TfChip_ENCFF471OQT ENCSR000DQW GM06990 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF227NGR ENCSR000DQN signal Caco-2 CTCF ENCSR000DQN signal Experimental 
wgEncodeReg4TfChip_ENCFF934QYS ENCSR000DQN Caco-2 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF573RGJ ENCSR000DQI signal BJ CTCF ENCSR000DQI signal Experimental 
wgEncodeReg4TfChip_ENCFF434HEC ENCSR000DQI BJ CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF434PKZ ENCSR000DQD signal BE2C CTCF ENCSR000DQD signal Experimental 
wgEncodeReg4TfChip_ENCFF757SRF ENCSR000DQD BE2C CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF674AZI ENCSR000DPY signal fibroblast of the aortic adventitia female CTCF ENCSR000DPY signal Experimental 
wgEncodeReg4TfChip_ENCFF639DMR ENCSR000DPY fibroblast of the aortic adventitia female CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF080HIA ENCSR000DPV signal AG10803 CTCF ENCSR000DPV signal Experimental 
wgEncodeReg4TfChip_ENCFF549AQK ENCSR000DPV AG10803 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF683EOM ENCSR000DPS signal AG09319 CTCF ENCSR000DPS signal Experimental 
wgEncodeReg4TfChip_ENCFF401ZTN ENCSR000DPS AG09319 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF233THH ENCSR000DPP signal AG09309 CTCF ENCSR000DPP signal Experimental 
wgEncodeReg4TfChip_ENCFF478XPS ENCSR000DPP AG09309 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF766VDL ENCSR000DPM signal AG04450 CTCF ENCSR000DPM signal Experimental 
wgEncodeReg4TfChip_ENCFF116DJL ENCSR000DPM AG04450 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF526IVK ENCSR000DPG signal AG04449 CTCF ENCSR000DPG signal Experimental 
wgEncodeReg4TfChip_ENCFF248MBD ENCSR000DPG AG04449 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF840GOE ENCSR000DPF signal A549 CTCF ENCSR000DPF signal Experimental 
wgEncodeReg4TfChip_ENCFF034FVO ENCSR000DPF A549 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF121YFD ENCSR000DOK signal K562 BDP1 ENCSR000DOK signal Experimental 
wgEncodeReg4TfChip_ENCFF448WZN ENCSR000DOK K562 BDP1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF355ULG ENCSR000DOI signal K562 POLR3A ENCSR000DOI signal Experimental 
wgEncodeReg4TfChip_ENCFF452GCM ENCSR000DOI K562 POLR3A peaks Experimental 
wgEncodeReg4TfChip_ENCFF315WSH ENCSR000DOH signal K562 SIRT6 ENCSR000DOH signal Experimental 
wgEncodeReg4TfChip_ENCFF380JOG ENCSR000DOH K562 SIRT6 peaks Experimental 
wgEncodeReg4TfChip_ENCFF840BJJ ENCSR000DOG signal K562 ATF3 ENCSR000DOG signal Experimental 
wgEncodeReg4TfChip_ENCFF611FFO ENCSR000DOG K562 ATF3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF856EMT ENCSR000DOE signal K562 GTF2B ENCSR000DOE signal Experimental 
wgEncodeReg4TfChip_ENCFF716QMI ENCSR000DOE K562 GTF2B peaks Experimental 
wgEncodeReg4TfChip_ENCFF604DDU ENCSR000DOD signal K562 GTF3C2 ENCSR000DOD signal Experimental 
wgEncodeReg4TfChip_ENCFF396ZJP ENCSR000DOD K562 GTF3C2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF614MZM ENCSR000DOB signal K562 HMGN3 ENCSR000DOB signal Experimental 
wgEncodeReg4TfChip_ENCFF083BIJ ENCSR000DOB K562 HMGN3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF358NKR ENCSR000DOA signal K562 CCNT2 ENCSR000DOA signal Experimental 
wgEncodeReg4TfChip_ENCFF199GSZ ENCSR000DOA K562 CCNT2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF271JYU ENCSR000DNZ signal K562 ATF1 ENCSR000DNZ signal Experimental 
wgEncodeReg4TfChip_ENCFF980NSF ENCSR000DNZ K562 ATF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF992VCO ENCSR000DNY signal HeLa-S3 GTF3C2 ENCSR000DNY signal Experimental 
wgEncodeReg4TfChip_ENCFF144RTV ENCSR000DNY HeLa-S3 GTF3C2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF578NZS ENCSR000DNU signal HeLa-S3 POLR3A ENCSR000DNU signal Experimental 
wgEncodeReg4TfChip_ENCFF777TAS ENCSR000DNU HeLa-S3 POLR3A peaks Experimental 
wgEncodeReg4TfChip_ENCFF882QYK ENCSR000DNS signal HeLa-S3 NFYA ENCSR000DNS signal Experimental 
wgEncodeReg4TfChip_ENCFF016YWF ENCSR000DNS HeLa-S3 NFYA peaks Experimental 
wgEncodeReg4TfChip_ENCFF589IYL ENCSR000DNR signal HeLa-S3 NFYB ENCSR000DNR signal Experimental 
wgEncodeReg4TfChip_ENCFF854TNJ ENCSR000DNR HeLa-S3 NFYB peaks Experimental 
wgEncodeReg4TfChip_ENCFF718CBS ENCSR000DNN GM12878 NFYA peaks Experimental 
wgEncodeReg4TfChip_ENCFF992FDL ENCSR000DNM signal GM12878 NFYB ENCSR000DNM signal Experimental 
wgEncodeReg4TfChip_ENCFF474DNH ENCSR000DNM GM12878 NFYB peaks Experimental 
wgEncodeReg4TfChip_ENCFF659YSR ENCSR000DNI signal spleen tissue female adult (20 years) and female adult (30 years) CTCF ENCSR000DNI signal Experimental 
wgEncodeReg4TfChip_ENCFF678RAG ENCSR000DNI spleen tissue female adult (20 years) and female adult (30 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF876OHV ENCSR000DND signal pancreas tissue male adult (54 years) and male adult (60 years) CTCF ENCSR000DND signal Experimental 
wgEncodeReg4TfChip_ENCFF101CZV ENCSR000DND pancreas tissue male adult (54 years) and male adult (60 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF298JJU ENCSR000DNC signal keratinocyte female CTCF ENCSR000DNC signal Experimental 
wgEncodeReg4TfChip_ENCFF046PBT ENCSR000DNC keratinocyte female CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF050EWJ ENCSR000DNA signal A549 CTCF ENCSR000DNA signal Experimental 
wgEncodeReg4TfChip_ENCFF182TCQ ENCSR000DNA A549 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF774RVE ENCSR000DMZ signal A549 POLR2A ENCSR000DMZ signal Experimental 
wgEncodeReg4TfChip_ENCFF748RAW ENCSR000DMZ A549 POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF312UWU ENCSR000DMY signal D721Med CTCF ENCSR000DMY signal Experimental 
wgEncodeReg4TfChip_ENCFF513FYD ENCSR000DMY D721Med CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF946JSU ENCSR000DMV signal MCF-7 CTCF ENCSR000DMV signal Experimental 
wgEncodeReg4TfChip_ENCFF414SZG ENCSR000DMV MCF-7 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF164XWP ENCSR000DMT MCF-7 POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF621UYZ ENCSR000DMR signal MCF-7 CTCF ENCSR000DMR signal Experimental 
wgEncodeReg4TfChip_ENCFF494VXA ENCSR000DMR MCF-7 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF948IKG ENCSR000DMQ signal MCF-7 MYC ENCSR000DMQ signal Experimental 
wgEncodeReg4TfChip_ENCFF542NWJ ENCSR000DMQ MCF-7 MYC peaks Experimental 
wgEncodeReg4TfChip_ENCFF663NQQ ENCSR000DMO signal MCF-7 CTCF ENCSR000DMO signal Experimental 
wgEncodeReg4TfChip_ENCFF844STM ENCSR000DMO MCF-7 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF680VPV ENCSR000DMN signal MCF-7 POLR2A ENCSR000DMN signal Experimental 
wgEncodeReg4TfChip_ENCFF411WCU ENCSR000DMN MCF-7 POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF204CFQ ENCSR000DMM signal MCF-7 MYC ENCSR000DMM signal Experimental 
wgEncodeReg4TfChip_ENCFF394LGD ENCSR000DMM MCF-7 MYC peaks Experimental 
wgEncodeReg4TfChip_ENCFF826BBU ENCSR000DML signal MCF-7 CTCF ENCSR000DML signal Experimental 
wgEncodeReg4TfChip_ENCFF954TUV ENCSR000DML MCF-7 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF453SAI ENCSR000DMK signal MCF-7 POLR2A ENCSR000DMK signal Experimental 
wgEncodeReg4TfChip_ENCFF309IKZ ENCSR000DMK MCF-7 POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF608BTU ENCSR000DMJ signal MCF-7 MYC ENCSR000DMJ signal Experimental 
wgEncodeReg4TfChip_ENCFF767RTQ ENCSR000DMJ MCF-7 MYC peaks Experimental 
wgEncodeReg4TfChip_ENCFF827WDQ ENCSR000DMH signal lung tissue male adult (27 years) and male adult (35 years) CTCF ENCSR000DMH signal Experimental 
wgEncodeReg4TfChip_ENCFF782RBX ENCSR000DMH lung tissue male adult (27 years) and male adult (35 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF076NHL ENCSR000DMF signal LNCaP clone FGC CTCF ENCSR000DMF signal Experimental 
wgEncodeReg4TfChip_ENCFF519YVI ENCSR000DMF LNCaP clone FGC CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF446TPO ENCSR000DMC signal kidney tissue male adult (22 years) and male adult (27 years) and male adult (35 years) CTCF ENCSR000DMC signal Experimental 
wgEncodeReg4TfChip_ENCFF335EKK ENCSR000DMC kidney tissue male adult (22 years) and male adult (27 years) and male adult (35 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF110AJS ENCSR000DMA signal K562 CTCF ENCSR000DMA signal Experimental 
wgEncodeReg4TfChip_ENCFF082GOI ENCSR000DMA K562 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF341GGH ENCSR000DLZ signal K562 MYC ENCSR000DLZ signal Experimental 
wgEncodeReg4TfChip_ENCFF640IEK ENCSR000DLZ K562 MYC peaks Experimental 
wgEncodeReg4TfChip_ENCFF348QLX ENCSR000DLY signal K562 POLR2A ENCSR000DLY signal Experimental 
wgEncodeReg4TfChip_ENCFF137JSF ENCSR000DLY K562 POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF047DPU ENCSR000DLW signal endothelial cell of umbilical vein newborn CTCF ENCSR000DLW signal Experimental 
wgEncodeReg4TfChip_ENCFF455OQM ENCSR000DLW endothelial cell of umbilical vein newborn CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF221KHO ENCSR000DLV signal endothelial cell of umbilical vein newborn POLR2A ENCSR000DLV signal Experimental 
wgEncodeReg4TfChip_ENCFF131DWO ENCSR000DLV endothelial cell of umbilical vein newborn POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF395PNZ ENCSR000DLU signal endothelial cell of umbilical vein newborn MYC ENCSR000DLU signal Experimental 
wgEncodeReg4TfChip_ENCFF537XOZ ENCSR000DLU endothelial cell of umbilical vein newborn MYC peaks Experimental 
wgEncodeReg4TfChip_ENCFF579BUC ENCSR000DLS signal HepG2 CTCF ENCSR000DLS signal Experimental 
wgEncodeReg4TfChip_ENCFF668CTD ENCSR000DLS HepG2 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF411YIG ENCSR000DLR signal HepG2 MYC ENCSR000DLR signal Experimental 
wgEncodeReg4TfChip_ENCFF056MEM ENCSR000DLR HepG2 MYC peaks Experimental 
wgEncodeReg4TfChip_ENCFF323HAZ ENCSR000DLQ signal HepG2 POLR2A ENCSR000DLQ signal Experimental 
wgEncodeReg4TfChip_ENCFF252NAR ENCSR000DLQ HepG2 POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF684CXT ENCSR000DLO signal HeLa-S3 CTCF ENCSR000DLO signal Experimental 
wgEncodeReg4TfChip_ENCFF565UFR ENCSR000DLO HeLa-S3 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF545BFM ENCSR000DLN signal HeLa-S3 MYC ENCSR000DLN signal Experimental 
wgEncodeReg4TfChip_ENCFF369WIV ENCSR000DLN HeLa-S3 MYC peaks Experimental 
wgEncodeReg4TfChip_ENCFF193YCT ENCSR000DLM signal HeLa-S3 POLR2A ENCSR000DLM signal Experimental 
wgEncodeReg4TfChip_ENCFF455YYQ ENCSR000DLM HeLa-S3 POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF648BTZ ENCSR000DLK signal H1 CTCF ENCSR000DLK signal Experimental 
wgEncodeReg4TfChip_ENCFF230QSV ENCSR000DLK H1 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF415BIV ENCSR000DLJ signal H1 POLR2A ENCSR000DLJ signal Experimental 
wgEncodeReg4TfChip_ENCFF770YBQ ENCSR000DLJ H1 POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF795QXM ENCSR000DLG signal GM20000 CTCF ENCSR000DLG signal Experimental 
wgEncodeReg4TfChip_ENCFF217HWJ ENCSR000DLG GM20000 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF233CKI ENCSR000DLB signal GM13977 CTCF ENCSR000DLB signal Experimental 
wgEncodeReg4TfChip_ENCFF528ESQ ENCSR000DLB GM13977 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF199JKB ENCSR000DKZ signal GM13976 CTCF ENCSR000DKZ signal Experimental 
wgEncodeReg4TfChip_ENCFF896BYT ENCSR000DKZ GM13976 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF800WUV ENCSR000DKV signal GM12878 CTCF ENCSR000DKV signal Experimental 
wgEncodeReg4TfChip_ENCFF511URZ ENCSR000DKV GM12878 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF405YWN ENCSR000DKU signal GM12878 MYC ENCSR000DKU signal Experimental 
wgEncodeReg4TfChip_ENCFF168NSM ENCSR000DKU GM12878 MYC peaks Experimental 
wgEncodeReg4TfChip_ENCFF200WHZ ENCSR000DKT signal GM12878 POLR2A ENCSR000DKT signal Experimental 
wgEncodeReg4TfChip_ENCFF631ERR ENCSR000DKT GM12878 POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF156BQJ ENCSR000DKR signal GM10266 CTCF ENCSR000DKR signal Experimental 
wgEncodeReg4TfChip_ENCFF241YYF ENCSR000DKR GM10266 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF775HGO ENCSR000DKP signal GM10248 CTCF ENCSR000DKP signal Experimental 
wgEncodeReg4TfChip_ENCFF083HVS ENCSR000DKP GM10248 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF930UCG ENCSR000DKN signal H54 CTCF ENCSR000DKN signal Experimental 
wgEncodeReg4TfChip_ENCFF879HHE ENCSR000DKN H54 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF090STA ENCSR000DKM signal H54 POLR2A ENCSR000DKM signal Experimental 
wgEncodeReg4TfChip_ENCFF398BXN ENCSR000DKM H54 POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF602MQL ENCSR000DKA signal K562 stably expressing GATA2 GATA2 ENCSR000DKA signal Experimental 
wgEncodeReg4TfChip_ENCFF830LLA ENCSR000DKA K562 stably expressing GATA2 GATA2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF167WLX ENCSR000DJZ signal K562 stably expressing HDAC8 HDAC8 ENCSR000DJZ signal Experimental 
wgEncodeReg4TfChip_ENCFF452GZK ENCSR000DJZ K562 stably expressing HDAC8 HDAC8 peaks Experimental 
wgEncodeReg4TfChip_ENCFF837YHG ENCSR000DJY signal K562 stably expressing JUNB JUNB ENCSR000DJY signal Experimental 
wgEncodeReg4TfChip_ENCFF388SEP ENCSR000DJY K562 stably expressing JUNB JUNB peaks Experimental 
wgEncodeReg4TfChip_ENCFF931KUD ENCSR000DJX signal K562 stably expressing JUND JUND ENCSR000DJX signal Experimental 
wgEncodeReg4TfChip_ENCFF336RCR ENCSR000DJX K562 stably expressing JUND JUND peaks Experimental 
wgEncodeReg4TfChip_ENCFF301TUF ENCSR000BVO signal T47D JUND ENCSR000BVO signal Experimental 
wgEncodeReg4TfChip_ENCFF318BWX ENCSR000BVO T47D JUND peaks Experimental 
wgEncodeReg4TfChip_ENCFF209WUY ENCSR000BVN signal HepG2 ZEB1 ENCSR000BVN signal Experimental 
wgEncodeReg4TfChip_ENCFF808RQT ENCSR000BVN HepG2 ZEB1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF180VJV ENCSR000BVM signal HepG2 NR2F2 ENCSR000BVM signal Experimental 
wgEncodeReg4TfChip_ENCFF483TVJ ENCSR000BVM HepG2 NR2F2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF520PZN ENCSR000BVL signal HepG2 CREB1 ENCSR000BVL signal Experimental 
wgEncodeReg4TfChip_ENCFF245CBB ENCSR000BVL HepG2 CREB1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF427NMO ENCSR000BVK signal HCT116 USF1 ENCSR000BVK signal Experimental 
wgEncodeReg4TfChip_ENCFF330PYP ENCSR000BVK HCT116 USF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF317YMX ENCSR000BVJ signal HCT116 TEAD4 ENCSR000BVJ signal Experimental 
wgEncodeReg4TfChip_ENCFF526YYD ENCSR000BVJ HCT116 TEAD4 peaks Experimental 
wgEncodeReg4TfChip_ENCFF825IKF ENCSR000BVI signal HCT116 REST ENCSR000BVI signal Experimental 
wgEncodeReg4TfChip_ENCFF929AYY ENCSR000BVI HCT116 REST peaks Experimental 
wgEncodeReg4TfChip_ENCFF805TRK ENCSR000BVH signal HCT116 ELF1 ENCSR000BVH signal Experimental 
wgEncodeReg4TfChip_ENCFF354GUK ENCSR000BVH HCT116 ELF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF358PGL ENCSR000BVG signal SK-N-SH RXRA ENCSR000BVG signal Experimental 
wgEncodeReg4TfChip_ENCFF893DLM ENCSR000BVG SK-N-SH RXRA peaks Experimental 
wgEncodeReg4TfChip_ENCFF943EXC ENCSR000BVE signal SK-N-SH PBX3 ENCSR000BVE signal Experimental 
wgEncodeReg4TfChip_ENCFF876BMC ENCSR000BVE SK-N-SH PBX3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF067NCG ENCSR000BVD signal SK-N-SH MAX ENCSR000BVD signal Experimental 
wgEncodeReg4TfChip_ENCFF285LXR ENCSR000BVD SK-N-SH MAX peaks Experimental 
wgEncodeReg4TfChip_ENCFF874QFL ENCSR000BVC signal SK-N-SH MEF2A ENCSR000BVC signal Experimental 
wgEncodeReg4TfChip_ENCFF053MLP ENCSR000BVC SK-N-SH MEF2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF858SNZ ENCSR000BVB signal SK-N-SH FOSL2 ENCSR000BVB signal Experimental 
wgEncodeReg4TfChip_ENCFF127ZDW ENCSR000BVB SK-N-SH FOSL2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF575VPC ENCSR000BVA signal MCF-7 SRF ENCSR000BVA signal Experimental 
wgEncodeReg4TfChip_ENCFF508RYE ENCSR000BVA MCF-7 SRF peaks Experimental 
wgEncodeReg4TfChip_ENCFF616ZCX ENCSR000BUZ signal MCF-7 PML ENCSR000BUZ signal Experimental 
wgEncodeReg4TfChip_ENCFF839EHA ENCSR000BUZ MCF-7 PML peaks Experimental 
wgEncodeReg4TfChip_ENCFF816WPO ENCSR000BUY signal MCF-7 NR2F2 ENCSR000BUY signal Experimental 
wgEncodeReg4TfChip_ENCFF329FZB ENCSR000BUY MCF-7 NR2F2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF419IBH ENCSR000BUX signal MCF-7 EGR1 ENCSR000BUX signal Experimental 
wgEncodeReg4TfChip_ENCFF679ZBN ENCSR000BUX MCF-7 EGR1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF590DUM ENCSR000BUW signal HL-60 SPI1 ENCSR000BUW signal Experimental 
wgEncodeReg4TfChip_ENCFF645GBT ENCSR000BUW HL-60 SPI1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF087HTJ ENCSR000BUV signal Ishikawa TCF12 ENCSR000BUV signal Experimental 
wgEncodeReg4TfChip_ENCFF467DDW ENCSR000BUV Ishikawa TCF12 peaks Experimental 
wgEncodeReg4TfChip_ENCFF891YPV ENCSR000BUU signal Ishikawa REST ENCSR000BUU signal Experimental 
wgEncodeReg4TfChip_ENCFF456OHV ENCSR000BUU Ishikawa REST peaks Experimental 
wgEncodeReg4TfChip_ENCFF090FHE ENCSR000BUT signal Ishikawa NFIC ENCSR000BUT signal Experimental 
wgEncodeReg4TfChip_ENCFF029AAD ENCSR000BUT Ishikawa NFIC peaks Experimental 
wgEncodeReg4TfChip_ENCFF503FYP ENCSR000BUS signal Ishikawa FOXM1 ENCSR000BUS signal Experimental 
wgEncodeReg4TfChip_ENCFF578VDD ENCSR000BUS Ishikawa FOXM1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF185BAH ENCSR000BUR signal Ishikawa CREB1 ENCSR000BUR signal Experimental 
wgEncodeReg4TfChip_ENCFF197ISF ENCSR000BUR Ishikawa CREB1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF976MXJ ENCSR000BUQ signal SK-N-SH TEAD4 ENCSR000BUQ signal Experimental 
wgEncodeReg4TfChip_ENCFF754TJT ENCSR000BUQ SK-N-SH TEAD4 peaks Experimental 
wgEncodeReg4TfChip_ENCFF055VSN ENCSR000BUP signal Panc1 REST ENCSR000BUP signal Experimental 
wgEncodeReg4TfChip_ENCFF518EEQ ENCSR000BUP Panc1 REST peaks Experimental 
wgEncodeReg4TfChip_ENCFF642LVK ENCSR000BUO signal MCF-7 TEAD4 ENCSR000BUO signal Experimental 
wgEncodeReg4TfChip_ENCFF710WPA ENCSR000BUO MCF-7 TEAD4 peaks Experimental 
wgEncodeReg4TfChip_ENCFF302JJZ ENCSR000BUN signal MCF-7 TCF12 ENCSR000BUN signal Experimental 
wgEncodeReg4TfChip_ENCFF329MRX ENCSR000BUN MCF-7 TCF12 peaks Experimental 
wgEncodeReg4TfChip_ENCFF736LEG ENCSR000BUM signal MCF-7 SIN3A ENCSR000BUM signal Experimental 
wgEncodeReg4TfChip_ENCFF521RDC ENCSR000BUM MCF-7 SIN3A peaks Experimental 
wgEncodeReg4TfChip_ENCFF352OFF ENCSR000BUL signal MCF-7 MAX ENCSR000BUL signal Experimental 
wgEncodeReg4TfChip_ENCFF169IXS ENCSR000BUL MCF-7 MAX peaks Experimental 
wgEncodeReg4TfChip_ENCFF676BAJ ENCSR000BUK signal MCF-7 GABPA ENCSR000BUK signal Experimental 
wgEncodeReg4TfChip_ENCFF735CHO ENCSR000BUK MCF-7 GABPA peaks Experimental 
wgEncodeReg4TfChip_ENCFF230WOU ENCSR000BUJ signal MCF-7 FOXM1 ENCSR000BUJ signal Experimental 
wgEncodeReg4TfChip_ENCFF363FKA ENCSR000BUJ MCF-7 FOXM1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF510CWC ENCSR000BUI signal MCF-7 FOSL2 ENCSR000BUI signal Experimental 
wgEncodeReg4TfChip_ENCFF716UWP ENCSR000BUI MCF-7 FOSL2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF845YDA ENCSR000BUH signal HCT116 CBX3 ENCSR000BUH signal Experimental 
wgEncodeReg4TfChip_ENCFF947BOL ENCSR000BUH HCT116 CBX3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF388DEA ENCSR000BUG signal HCT116 ATF3 ENCSR000BUG signal Experimental 
wgEncodeReg4TfChip_ENCFF088WVX ENCSR000BUG HCT116 ATF3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF795MDW ENCSR000BUF signal GM12878 CREB1 ENCSR000BUF signal Experimental 
wgEncodeReg4TfChip_ENCFF870CVH ENCSR000BUF GM12878 CREB1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF234CXZ ENCSR000BUE signal Ishikawa EP300 ENCSR000BUE signal Experimental 
wgEncodeReg4TfChip_ENCFF364ZWT ENCSR000BUE Ishikawa EP300 peaks Experimental 
wgEncodeReg4TfChip_ENCFF848NSF ENCSR000BUD signal A549 TEAD4 ENCSR000BUD signal Experimental 
wgEncodeReg4TfChip_ENCFF243FTL ENCSR000BUD A549 TEAD4 peaks Experimental 
wgEncodeReg4TfChip_ENCFF857RPR ENCSR000BUC signal A549 RAD21 ENCSR000BUC signal Experimental 
wgEncodeReg4TfChip_ENCFF047SFC ENCSR000BUC A549 RAD21 peaks Experimental 
wgEncodeReg4TfChip_ENCFF388AIS ENCSR000BUB signal A549 CEBPB ENCSR000BUB signal Experimental 
wgEncodeReg4TfChip_ENCFF781RLJ ENCSR000BUB A549 CEBPB peaks Experimental 
wgEncodeReg4TfChip_ENCFF613ZSN ENCSR000BUA signal SK-N-SH EP300 ENCSR000BUA signal Experimental 
wgEncodeReg4TfChip_ENCFF451CNG ENCSR000BUA SK-N-SH EP300 peaks Experimental 
wgEncodeReg4TfChip_ENCFF925RPJ ENCSR000BTZ signal SK-N-SH USF1 ENCSR000BTZ signal Experimental 
wgEncodeReg4TfChip_ENCFF967PDP ENCSR000BTZ SK-N-SH USF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF047XQD ENCSR000BTY signal Ishikawa MAX ENCSR000BTY signal Experimental 
wgEncodeReg4TfChip_ENCFF064TDQ ENCSR000BTY Ishikawa MAX peaks Experimental 
wgEncodeReg4TfChip_ENCFF905SRS ENCSR000BTX signal neural cell originated from H1 TAF1 ENCSR000BTX signal Experimental 
wgEncodeReg4TfChip_ENCFF468SPD ENCSR000BTX neural cell originated from H1 TAF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF201GFS ENCSR000BTW signal neural cell originated from H1 POLR2AphosphoS5 ENCSR000BTW signal Experimental 
wgEncodeReg4TfChip_ENCFF604SPB ENCSR000BTW neural cell originated from H1 POLR2AphosphoS5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF367QZK ENCSR000BTV signal neural cell originated from H1 REST ENCSR000BTV signal Experimental 
wgEncodeReg4TfChip_ENCFF882LXX ENCSR000BTV neural cell originated from H1 REST peaks Experimental 
wgEncodeReg4TfChip_ENCFF561WEM ENCSR000BTU signal Ishikawa RAD21 ENCSR000BTU signal Experimental 
wgEncodeReg4TfChip_ENCFF570JVV ENCSR000BTU Ishikawa RAD21 peaks Experimental 
wgEncodeReg4TfChip_ENCFF699GAS ENCSR000BTT signal Ishikawa CEBPB ENCSR000BTT signal Experimental 
wgEncodeReg4TfChip_ENCFF010USJ ENCSR000BTT Ishikawa CEBPB peaks Experimental 
wgEncodeReg4TfChip_ENCFF105KVL ENCSR000BTS signal SK-N-SH ZBTB33 ENCSR000BTS signal Experimental 
wgEncodeReg4TfChip_ENCFF667JYU ENCSR000BTS SK-N-SH ZBTB33 peaks Experimental 
wgEncodeReg4TfChip_ENCFF954BGW ENCSR000BTR signal MCF-7 EP300 ENCSR000BTR signal Experimental 
wgEncodeReg4TfChip_ENCFF508OAU ENCSR000BTR MCF-7 EP300 peaks Experimental 
wgEncodeReg4TfChip_ENCFF586PQJ ENCSR000BTQ signal MCF-7 RAD21 ENCSR000BTQ signal Experimental 
wgEncodeReg4TfChip_ENCFF724VCQ ENCSR000BTQ MCF-7 RAD21 peaks Experimental 
wgEncodeReg4TfChip_ENCFF852EGW ENCSR000BTP signal MCF-7 HDAC2 ENCSR000BTP signal Experimental 
wgEncodeReg4TfChip_ENCFF881POI ENCSR000BTP MCF-7 HDAC2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF649BTF ENCSR000BTO signal Ishikawa TAF1 ENCSR000BTO signal Experimental 
wgEncodeReg4TfChip_ENCFF271ZVL ENCSR000BTO Ishikawa TAF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF947CZC ENCSR000BTN signal A549 PBX3 ENCSR000BTN signal Experimental 
wgEncodeReg4TfChip_ENCFF277EQG ENCSR000BTN A549 PBX3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF239MVC ENCSR000BTM signal HepG2 MAX ENCSR000BTM signal Experimental 
wgEncodeReg4TfChip_ENCFF479OHI ENCSR000BTM HepG2 MAX peaks Experimental 
wgEncodeReg4TfChip_ENCFF774ZIK ENCSR000BTL signal HL-60 POLR2AphosphoS5 ENCSR000BTL signal Experimental 
wgEncodeReg4TfChip_ENCFF321XKE ENCSR000BTL HL-60 POLR2AphosphoS5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF550LIE ENCSR000BTK signal HL-60 GABPA ENCSR000BTK signal Experimental 
wgEncodeReg4TfChip_ENCFF515BEZ ENCSR000BTK HL-60 GABPA peaks Experimental 
wgEncodeReg4TfChip_ENCFF276UPC ENCSR000BTJ signal A549 MAX ENCSR000BTJ signal Experimental 
wgEncodeReg4TfChip_ENCFF310XGQ ENCSR000BTJ A549 MAX peaks Experimental 
wgEncodeReg4TfChip_ENCFF360FLA ENCSR000BTI signal A549 GATA3 ENCSR000BTI signal Experimental 
wgEncodeReg4TfChip_ENCFF226FVV ENCSR000BTI A549 GATA3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF344RYH ENCSR000BTH signal SK-N-SH GATA3 ENCSR000BTH signal Experimental 
wgEncodeReg4TfChip_ENCFF040SSB ENCSR000BTH SK-N-SH GATA3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF012OQH ENCSR000BTG signal SK-N-SH GABPA ENCSR000BTG signal Experimental 
wgEncodeReg4TfChip_ENCFF755TJJ ENCSR000BTG SK-N-SH GABPA peaks Experimental 
wgEncodeReg4TfChip_ENCFF333TOH ENCSR000BTF signal HL-60 REST ENCSR000BTF signal Experimental 
wgEncodeReg4TfChip_ENCFF589LOF ENCSR000BTF HL-60 REST peaks Experimental 
wgEncodeReg4TfChip_ENCFF045ROE ENCSR000BTE signal HCT116 FOSL1 ENCSR000BTE signal Experimental 
wgEncodeReg4TfChip_ENCFF540ZXN ENCSR000BTE HCT116 FOSL1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF167FVY ENCSR000BTD signal Ishikawa SRF ENCSR000BTD signal Experimental 
wgEncodeReg4TfChip_ENCFF992QXM ENCSR000BTD Ishikawa SRF peaks Experimental 
wgEncodeReg4TfChip_ENCFF190MLK ENCSR000BTC signal A549 E2F6 ENCSR000BTC signal Experimental 
wgEncodeReg4TfChip_ENCFF550XVR ENCSR000BTC A549 E2F6 peaks Experimental 
wgEncodeReg4TfChip_ENCFF139AWF ENCSR000BTB signal SK-N-SH FOXM1 ENCSR000BTB signal Experimental 
wgEncodeReg4TfChip_ENCFF404RGX ENCSR000BTB SK-N-SH FOXM1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF473ESQ ENCSR000BTA signal SK-N-SH ELF1 ENCSR000BTA signal Experimental 
wgEncodeReg4TfChip_ENCFF871YHY ENCSR000BTA SK-N-SH ELF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF233AKY ENCSR000BSZ signal Ishikawa ZBTB7A ENCSR000BSZ signal Experimental 
wgEncodeReg4TfChip_ENCFF191NFH ENCSR000BSZ Ishikawa ZBTB7A peaks Experimental 
wgEncodeReg4TfChip_ENCFF022DUI ENCSR000BSY signal Ishikawa YY1 ENCSR000BSY signal Experimental 
wgEncodeReg4TfChip_ENCFF505XQX ENCSR000BSY Ishikawa YY1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF119JLW ENCSR000BSX signal Ishikawa USF1 ENCSR000BSX signal Experimental 
wgEncodeReg4TfChip_ENCFF728IEG ENCSR000BSX Ishikawa USF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF585GTH ENCSR000BSW signal Ishikawa TEAD4 ENCSR000BSW signal Experimental 
wgEncodeReg4TfChip_ENCFF772OTG ENCSR000BSW Ishikawa TEAD4 peaks Experimental 
wgEncodeReg4TfChip_ENCFF616MLR ENCSR000BSV signal SK-N-SH NFIC ENCSR000BSV signal Experimental 
wgEncodeReg4TfChip_ENCFF965AKM ENCSR000BSV SK-N-SH NFIC peaks Experimental 
wgEncodeReg4TfChip_ENCFF117QCR ENCSR000BSU signal MCF-7 JUND ENCSR000BSU signal Experimental 
wgEncodeReg4TfChip_ENCFF450KFZ ENCSR000BSU MCF-7 JUND peaks Experimental 
wgEncodeReg4TfChip_ENCFF342GNN ENCSR000BST signal MCF-7 GATA3 ENCSR000BST signal Experimental 
wgEncodeReg4TfChip_ENCFF437NQS ENCSR000BST MCF-7 GATA3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF643PJK ENCSR000BSS signal MCF-7 ELF1 ENCSR000BSS signal Experimental 
wgEncodeReg4TfChip_ENCFF687CWI ENCSR000BSS MCF-7 ELF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF981IVQ ENCSR000BSR signal MCF-7 CEBPB ENCSR000BSR signal Experimental 
wgEncodeReg4TfChip_ENCFF772ZTQ ENCSR000BSR MCF-7 CEBPB peaks Experimental 
wgEncodeReg4TfChip_ENCFF822LPR ENCSR000BSQ signal Ishikawa EGR1 ENCSR000BSQ signal Experimental 
wgEncodeReg4TfChip_ENCFF550FKT ENCSR000BSQ Ishikawa EGR1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF266WIG ENCSR000BSP signal MCF-7 REST ENCSR000BSP signal Experimental 
wgEncodeReg4TfChip_ENCFF893RRD ENCSR000BSP MCF-7 REST peaks Experimental 
wgEncodeReg4TfChip_ENCFF517YHP ENCSR000BSO signal K562 CREB1 ENCSR000BSO signal Experimental 
wgEncodeReg4TfChip_ENCFF175LMX ENCSR000BSO K562 CREB1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF326DPO ENCSR000BSN signal H1 CREB1 ENCSR000BSN signal Experimental 
wgEncodeReg4TfChip_ENCFF955PMP ENCSR000BSN H1 CREB1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF155TGQ ENCSR000BSM signal SK-N-SH YY1 ENCSR000BSM signal Experimental 
wgEncodeReg4TfChip_ENCFF087JSD ENCSR000BSM SK-N-SH YY1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF154PJI ENCSR000BSL signal SK-N-SH TCF12 ENCSR000BSL signal Experimental 
wgEncodeReg4TfChip_ENCFF147AHB ENCSR000BSL SK-N-SH TCF12 peaks Experimental 
wgEncodeReg4TfChip_ENCFF120SAA ENCSR000BSK signal SK-N-SH JUND ENCSR000BSK signal Experimental 
wgEncodeReg4TfChip_ENCFF551NEQ ENCSR000BSK SK-N-SH JUND peaks Experimental 
wgEncodeReg4TfChip_ENCFF828CIK ENCSR000BSJ signal H1 MAX ENCSR000BSJ signal Experimental 
wgEncodeReg4TfChip_ENCFF914VQY ENCSR000BSJ H1 MAX peaks Experimental 
wgEncodeReg4TfChip_ENCFF785DWK ENCSR000BSI H1 E2F6 peaks Experimental 
wgEncodeReg4TfChip_ENCFF842QPT ENCSR000BSH signal HCT116 MAX ENCSR000BSH signal Experimental 
wgEncodeReg4TfChip_ENCFF810LEN ENCSR000BSH HCT116 MAX peaks Experimental 
wgEncodeReg4TfChip_ENCFF784QKD ENCSR000BSG signal HCT116 SIN3A ENCSR000BSG signal Experimental 
wgEncodeReg4TfChip_ENCFF203YBB ENCSR000BSG HCT116 SIN3A peaks Experimental 
wgEncodeReg4TfChip_ENCFF205TXT ENCSR000BSF signal HCT116 SP1 ENCSR000BSF signal Experimental 
wgEncodeReg4TfChip_ENCFF800LBN ENCSR000BSF HCT116 SP1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF626CDS ENCSR000BSE signal HCT116 CTCF ENCSR000BSE signal Experimental 
wgEncodeReg4TfChip_ENCFF373YMA ENCSR000BSE HCT116 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF705PPP ENCSR000BSD signal HCT116 CEBPB ENCSR000BSD signal Experimental 
wgEncodeReg4TfChip_ENCFF097OLY ENCSR000BSD HCT116 CEBPB peaks Experimental 
wgEncodeReg4TfChip_ENCFF449SAT ENCSR000BSC signal HCT116 SRF ENCSR000BSC signal Experimental 
wgEncodeReg4TfChip_ENCFF497JOF ENCSR000BSC HCT116 SRF peaks Experimental 
wgEncodeReg4TfChip_ENCFF776IXR ENCSR000BSB signal HCT116 RAD21 ENCSR000BSB signal Experimental 
wgEncodeReg4TfChip_ENCFF568PEO ENCSR000BSB HCT116 RAD21 peaks Experimental 
wgEncodeReg4TfChip_ENCFF647MFN ENCSR000BSA signal HCT116 JUND ENCSR000BSA signal Experimental 
wgEncodeReg4TfChip_ENCFF748ZQX ENCSR000BSA HCT116 JUND peaks Experimental 
wgEncodeReg4TfChip_ENCFF329FHN ENCSR000BRZ signal HCT116 EGR1 ENCSR000BRZ signal Experimental 
wgEncodeReg4TfChip_ENCFF456NPQ ENCSR000BRZ HCT116 EGR1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF307KTY ENCSR000BRY signal H1 TEAD4 ENCSR000BRY signal Experimental 
wgEncodeReg4TfChip_ENCFF778PAX ENCSR000BRY H1 TEAD4 peaks Experimental 
wgEncodeReg4TfChip_ENCFF019EWO ENCSR000BRX signal GM12878 CEBPB ENCSR000BRX signal Experimental 
wgEncodeReg4TfChip_ENCFF942VJF ENCSR000BRX GM12878 CEBPB peaks Experimental 
wgEncodeReg4TfChip_ENCFF520JFI ENCSR000BRW signal K562 TRIM28 ENCSR000BRW signal Experimental 
wgEncodeReg4TfChip_ENCFF172UPN ENCSR000BRW K562 TRIM28 peaks Experimental 
wgEncodeReg4TfChip_ENCFF891YKE ENCSR000BRU signal GM12878 FOXM1 ENCSR000BRU signal Experimental 
wgEncodeReg4TfChip_ENCFF264DJE ENCSR000BRU GM12878 FOXM1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF051QOQ ENCSR000BRT signal K562 CBX3 ENCSR000BRT signal Experimental 
wgEncodeReg4TfChip_ENCFF410AQU ENCSR000BRT K562 CBX3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF332WQF ENCSR000BRS signal K562 NR2F2 ENCSR000BRS signal Experimental 
wgEncodeReg4TfChip_ENCFF004YPK ENCSR000BRS K562 NR2F2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF171KLX ENCSR000BRR signal K562 STAT5A ENCSR000BRR signal Experimental 
wgEncodeReg4TfChip_ENCFF226BTJ ENCSR000BRR K562 STAT5A peaks Experimental 
wgEncodeReg4TfChip_ENCFF018MOC ENCSR000BRQ signal K562 CEBPB ENCSR000BRQ signal Experimental 
wgEncodeReg4TfChip_ENCFF194QGF ENCSR000BRQ K562 CEBPB peaks Experimental 
wgEncodeReg4TfChip_ENCFF324SMM ENCSR000BRP signal HepG2 TEAD4 ENCSR000BRP signal Experimental 
wgEncodeReg4TfChip_ENCFF006QNB ENCSR000BRP HepG2 TEAD4 peaks Experimental 
wgEncodeReg4TfChip_ENCFF678BPN ENCSR000BRO signal HepG2 MYBL2 ENCSR000BRO signal Experimental 
wgEncodeReg4TfChip_ENCFF176QIX ENCSR000BRO HepG2 MYBL2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF766JTP ENCSR000BRN signal GM12878 NFIC ENCSR000BRN signal Experimental 
wgEncodeReg4TfChip_ENCFF259FWL ENCSR000BRN GM12878 NFIC peaks Experimental 
wgEncodeReg4TfChip_ENCFF442LBB ENCSR000BRK signal K562 TEAD4 ENCSR000BRK signal Experimental 
wgEncodeReg4TfChip_ENCFF673NIK ENCSR000BRK K562 TEAD4 peaks Experimental 
wgEncodeReg4TfChip_ENCFF298OKU ENCSR000BRI signal GM12878 RUNX3 ENCSR000BRI signal Experimental 
wgEncodeReg4TfChip_ENCFF395WHA ENCSR000BRI GM12878 RUNX3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF544EYZ ENCSR000BRH signal GM12878 MTA3 ENCSR000BRH signal Experimental 
wgEncodeReg4TfChip_ENCFF681QPL ENCSR000BRH GM12878 MTA3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF082RUV ENCSR000BRG signal GM12878 EGR1 ENCSR000BRG signal Experimental 
wgEncodeReg4TfChip_ENCFF784ATC ENCSR000BRG GM12878 EGR1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF615YAM ENCSR000BQZ signal GM12878 STAT5A ENCSR000BQZ signal Experimental 
wgEncodeReg4TfChip_ENCFF267JUM ENCSR000BQZ GM12878 STAT5A peaks Experimental 
wgEncodeReg4TfChip_ENCFF124PYB ENCSR000BQY signal K562 PML ENCSR000BQY signal Experimental 
wgEncodeReg4TfChip_ENCFF801LKH ENCSR000BQY K562 PML peaks Experimental 
wgEncodeReg4TfChip_ENCFF210IKG ENCSR000BQX signal HepG2 NFIC ENCSR000BQX signal Experimental 
wgEncodeReg4TfChip_ENCFF169TKU ENCSR000BQX HepG2 NFIC peaks Experimental 
wgEncodeReg4TfChip_ENCFF936NTH ENCSR000BQW signal HepG2 MBD4 ENCSR000BQW signal Experimental 
wgEncodeReg4TfChip_ENCFF785HSD ENCSR000BQW HepG2 MBD4 peaks Experimental 
wgEncodeReg4TfChip_ENCFF354CMX ENCSR000BQV signal H1 SP4 ENCSR000BQV signal Experimental 
wgEncodeReg4TfChip_ENCFF473YOB ENCSR000BQV H1 SP4 peaks Experimental 
wgEncodeReg4TfChip_ENCFF031CBV ENCSR000BQU signal H1 ATF2 ENCSR000BQU signal Experimental 
wgEncodeReg4TfChip_ENCFF295GZO ENCSR000BQU H1 ATF2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF560MLE ENCSR000BQT signal GM12878 TCF3 ENCSR000BQT signal Experimental 
wgEncodeReg4TfChip_ENCFF658WIO ENCSR000BQT GM12878 TCF3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF845YET ENCSR000BQS signal GM12878 REST ENCSR000BQS signal Experimental 
wgEncodeReg4TfChip_ENCFF943QPB ENCSR000BQS GM12878 REST peaks Experimental 
wgEncodeReg4TfChip_ENCFF564QGX ENCSR000BQN signal PFSK-1 TAF1 ENCSR000BQN signal Experimental 
wgEncodeReg4TfChip_ENCFF982LZL ENCSR000BQN PFSK-1 TAF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF044IIN ENCSR000BQM signal GM12878 PML ENCSR000BQM signal Experimental 
wgEncodeReg4TfChip_ENCFF160JQZ ENCSR000BQM GM12878 PML peaks Experimental 
wgEncodeReg4TfChip_ENCFF397GIR ENCSR000BQL signal GM12878 NFATC1 ENCSR000BQL signal Experimental 
wgEncodeReg4TfChip_ENCFF023CAZ ENCSR000BQL GM12878 NFATC1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF329LQR ENCSR000BQK signal GM12878 ATF2 ENCSR000BQK signal Experimental 
wgEncodeReg4TfChip_ENCFF521LQJ ENCSR000BQK GM12878 ATF2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF090ILC ENCSR000BQI signal HepG2 CEBPB ENCSR000BQI signal Experimental 
wgEncodeReg4TfChip_ENCFF074JWB ENCSR000BQI HepG2 CEBPB peaks Experimental 
wgEncodeReg4TfChip_ENCFF608ZRI ENCSR000BQG signal H1 SP2 ENCSR000BQG signal Experimental 
wgEncodeReg4TfChip_ENCFF903ACN ENCSR000BQG H1 SP2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF691PCR ENCSR000BQF signal SK-N-SH TAF1 ENCSR000BQF signal Experimental 
wgEncodeReg4TfChip_ENCFF630ERV ENCSR000BQF SK-N-SH TAF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF416BKX ENCSR000BQC signal endothelial cell of umbilical vein newborn POLR2AphosphoS5 ENCSR000BQC signal Experimental 
wgEncodeReg4TfChip_ENCFF303XUJ ENCSR000BQC endothelial cell of umbilical vein newborn POLR2AphosphoS5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF438GKH ENCSR000BQB signal endothelial cell of umbilical vein newborn POLR2A ENCSR000BQB signal Experimental 
wgEncodeReg4TfChip_ENCFF467WJF ENCSR000BQB endothelial cell of umbilical vein newborn POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF404SHW ENCSR000BQA signal HepG2 ZBTB7A ENCSR000BQA signal Experimental 
wgEncodeReg4TfChip_ENCFF173BJH ENCSR000BQA HepG2 ZBTB7A peaks Experimental 
wgEncodeReg4TfChip_ENCFF857WOC ENCSR000BPL signal SK-N-MC POLR2AphosphoS5 ENCSR000BPL signal Experimental 
wgEncodeReg4TfChip_ENCFF088IVG ENCSR000BPL SK-N-MC POLR2AphosphoS5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF317XUE ENCSR000BPK signal Panc1 REST ENCSR000BPK signal Experimental 
wgEncodeReg4TfChip_ENCFF338WSQ ENCSR000BPK Panc1 REST peaks Experimental 
wgEncodeReg4TfChip_ENCFF736UDR ENCSR000BPJ signal K562 CTCF ENCSR000BPJ signal Experimental 
wgEncodeReg4TfChip_ENCFF609SWF ENCSR000BPJ K562 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF801BXZ ENCSR000BPI signal HepG2 POLR2AphosphoS5 ENCSR000BPI signal Experimental 
wgEncodeReg4TfChip_ENCFF736SLT ENCSR000BPI HepG2 POLR2AphosphoS5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF329NEY ENCSR000BPC signal PFSK-1 POLR2AphosphoS5 ENCSR000BPC signal Experimental 
wgEncodeReg4TfChip_ENCFF576NIT ENCSR000BPC PFSK-1 POLR2AphosphoS5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF565JCC ENCSR000BPB signal SK-N-SH SIN3A ENCSR000BPB signal Experimental 
wgEncodeReg4TfChip_ENCFF931NFD ENCSR000BPB SK-N-SH SIN3A peaks Experimental 
wgEncodeReg4TfChip_ENCFF328ZFV ENCSR000BPA signal SK-N-SH POLR2AphosphoS5 ENCSR000BPA signal Experimental 
wgEncodeReg4TfChip_ENCFF683PFH ENCSR000BPA SK-N-SH POLR2AphosphoS5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF656JKF ENCSR000BOZ signal SK-N-SH REST ENCSR000BOZ signal Experimental 
wgEncodeReg4TfChip_ENCFF635KBN ENCSR000BOZ SK-N-SH REST peaks Experimental 
wgEncodeReg4TfChip_ENCFF007LGA ENCSR000BOY signal PFSK-1 SIN3A ENCSR000BOY signal Experimental 
wgEncodeReg4TfChip_ENCFF218MAY ENCSR000BOY PFSK-1 SIN3A peaks Experimental 
wgEncodeReg4TfChip_ENCFF456XLQ ENCSR000BOX signal PFSK-1 REST ENCSR000BOX signal Experimental 
wgEncodeReg4TfChip_ENCFF845VHA ENCSR000BOX PFSK-1 REST peaks Experimental 
wgEncodeReg4TfChip_ENCFF819LXI ENCSR000BOW signal Panc1 SIN3A ENCSR000BOW signal Experimental 
wgEncodeReg4TfChip_ENCFF898EEQ ENCSR000BOW Panc1 SIN3A peaks Experimental 
wgEncodeReg4TfChip_ENCFF198YPS ENCSR000BOV signal Panc1 POLR2AphosphoS5 ENCSR000BOV signal Experimental 
wgEncodeReg4TfChip_ENCFF290KAB ENCSR000BOV Panc1 POLR2AphosphoS5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF456EWJ ENCSR000BOU signal HepG2 SP2 ENCSR000BOU signal Experimental 
wgEncodeReg4TfChip_ENCFF237ADX ENCSR000BOU HepG2 SP2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF551FJI ENCSR000BOT signal HepG2 REST ENCSR000BOT signal Experimental 
wgEncodeReg4TfChip_ENCFF122AWR ENCSR000BOT HepG2 REST peaks Experimental 
wgEncodeReg4TfChip_ENCFF884WBU ENCSR000BNY signal HCT116 ZBTB33 ENCSR000BNY signal Experimental 
wgEncodeReg4TfChip_ENCFF847AJN ENCSR000BNY HCT116 ZBTB33 peaks Experimental 
wgEncodeReg4TfChip_ENCFF658WIT ENCSR000BNX signal HCT116 YY1 ENCSR000BNX signal Experimental 
wgEncodeReg4TfChip_ENCFF497ZQZ ENCSR000BNX HCT116 YY1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF173LQN ENCSR000BNW signal K562 SIX5 ENCSR000BNW signal Experimental 
wgEncodeReg4TfChip_ENCFF637NIL ENCSR000BNW K562 SIX5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF069EOR ENCSR000BNV signal K562 MEF2A ENCSR000BNV signal Experimental 
wgEncodeReg4TfChip_ENCFF903PRO ENCSR000BNV K562 MEF2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF235PHN ENCSR000BNU signal K562 ATF3 ENCSR000BNU signal Experimental 
wgEncodeReg4TfChip_ENCFF965VXT ENCSR000BNU K562 ATF3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF688ZPL ENCSR000BNT signal HepG2 YY1 ENCSR000BNT signal Experimental 
wgEncodeReg4TfChip_ENCFF956MUY ENCSR000BNT HepG2 YY1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF497ZMJ ENCSR000BNR signal H1 HDAC2 ENCSR000BNR signal Experimental 
wgEncodeReg4TfChip_ENCFF939VKA ENCSR000BNR H1 HDAC2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF546WTN ENCSR000BNQ signal GM12878 BCL3 ENCSR000BNQ signal Experimental 
wgEncodeReg4TfChip_ENCFF854PAY ENCSR000BNQ GM12878 BCL3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF408AOH ENCSR000BNP signal GM12878 YY1 ENCSR000BNP signal Experimental 
wgEncodeReg4TfChip_ENCFF908JTL ENCSR000BNP GM12878 YY1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF316VWM ENCSR000BNN signal K562 THAP1 ENCSR000BNN signal Experimental 
wgEncodeReg4TfChip_ENCFF851EDE ENCSR000BNN K562 THAP1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF457YNJ ENCSR000BNM signal K562 TAF7 ENCSR000BNM signal Experimental 
wgEncodeReg4TfChip_ENCFF461SFY ENCSR000BNM K562 TAF7 peaks Experimental 
wgEncodeReg4TfChip_ENCFF612GEX ENCSR000BNL signal K562 SP2 ENCSR000BNL signal Experimental 
wgEncodeReg4TfChip_ENCFF891GNQ ENCSR000BNL K562 SP2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF037JSC ENCSR000BNK signal K562 CTCFL ENCSR000BNK signal Experimental 
wgEncodeReg4TfChip_ENCFF883NXC ENCSR000BNK K562 CTCFL peaks Experimental 
wgEncodeReg4TfChip_ENCFF529BXW ENCSR000BNJ signal HepG2 HNF4G ENCSR000BNJ signal Experimental 
wgEncodeReg4TfChip_ENCFF323ATZ ENCSR000BNJ HepG2 HNF4G peaks Experimental 
wgEncodeReg4TfChip_ENCFF302QCS ENCSR000BNI signal HepG2 FOXA2 ENCSR000BNI signal Experimental 
wgEncodeReg4TfChip_ENCFF533COJ ENCSR000BNI HepG2 FOXA2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF038RVZ ENCSR000BNH signal H1 CTCF ENCSR000BNH signal Experimental 
wgEncodeReg4TfChip_ENCFF414GZI ENCSR000BNH H1 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF907FVJ ENCSR000BNG signal GM12878 MEF2C ENCSR000BNG signal Experimental 
wgEncodeReg4TfChip_ENCFF473ASZ ENCSR000BNG GM12878 MEF2C peaks Experimental 
wgEncodeReg4TfChip_ENCFF628OZF ENCSR000BNE signal K562 EGR1 ENCSR000BNE signal Experimental 
wgEncodeReg4TfChip_ENCFF006PJY ENCSR000BNE K562 EGR1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF148RLQ ENCSR000BND GM12878 ZEB1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF192DBG ENCSR000BNA signal HepG2 ZBTB33 ENCSR000BNA signal Experimental 
wgEncodeReg4TfChip_ENCFF375CMT ENCSR000BNA HepG2 ZBTB33 peaks Experimental 
wgEncodeReg4TfChip_ENCFF534OBQ ENCSR000BMZ signal HepG2 ELF1 ENCSR000BMZ signal Experimental 
wgEncodeReg4TfChip_ENCFF838BCU ENCSR000BMZ HepG2 ELF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF496LTS ENCSR000BMY signal GM12878 RAD21 ENCSR000BMY signal Experimental 
wgEncodeReg4TfChip_ENCFF101UQZ ENCSR000BMY GM12878 RAD21 peaks Experimental 
wgEncodeReg4TfChip_ENCFF678DNB ENCSR000BMW signal K562 REST ENCSR000BMW signal Experimental 
wgEncodeReg4TfChip_ENCFF430APM ENCSR000BMW K562 REST peaks Experimental 
wgEncodeReg4TfChip_ENCFF135MPD ENCSR000BMV signal K562 FOSL1 ENCSR000BMV signal Experimental 
wgEncodeReg4TfChip_ENCFF728OTE ENCSR000BMV K562 FOSL1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF106YHB ENCSR000BMU signal H1 POU5F1 ENCSR000BMU signal Experimental 
wgEncodeReg4TfChip_ENCFF698ZAP ENCSR000BMU H1 POU5F1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF512EZC ENCSR000BMT signal H1 NANOG ENCSR000BMT signal Experimental 
wgEncodeReg4TfChip_ENCFF747ZPQ ENCSR000BMT H1 NANOG peaks Experimental 
wgEncodeReg4TfChip_ENCFF496FVA ENCSR000BMR signal K562 POLR2A ENCSR000BMR signal Experimental 
wgEncodeReg4TfChip_ENCFF262YXJ ENCSR000BMR K562 POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF750YNG ENCSR000BMQ signal GM12878 EGR1 ENCSR000BMQ signal Experimental 
wgEncodeReg4TfChip_ENCFF092DJY ENCSR000BMQ GM12878 EGR1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF898NVJ ENCSR000BMO signal HepG2 FOXA1 ENCSR000BMO signal Experimental 
wgEncodeReg4TfChip_ENCFF740VZW ENCSR000BMO HepG2 FOXA1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF176JDN ENCSR000BMN signal HeLa-S3 REST ENCSR000BMN signal Experimental 
wgEncodeReg4TfChip_ENCFF911DTC ENCSR000BMN HeLa-S3 REST peaks Experimental 
wgEncodeReg4TfChip_ENCFF855XPI ENCSR000BML signal HCT116 POLR2AphosphoS5 ENCSR000BML signal Experimental 
wgEncodeReg4TfChip_ENCFF508RDJ ENCSR000BML HCT116 POLR2AphosphoS5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF683VIM ENCSR000BMI signal GM12878 SRF ENCSR000BMI signal Experimental 
wgEncodeReg4TfChip_ENCFF565AWY ENCSR000BMI GM12878 SRF peaks Experimental 
wgEncodeReg4TfChip_ENCFF914XSS ENCSR000BMH signal K562 YY1 ENCSR000BMH signal Experimental 
wgEncodeReg4TfChip_ENCFF660QRE ENCSR000BMH K562 YY1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF069JZH ENCSR000BMG signal K562 HDAC2 ENCSR000BMG signal Experimental 
wgEncodeReg4TfChip_ENCFF738SPU ENCSR000BMG K562 HDAC2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF033JHZ ENCSR000BME signal K562 ZBTB7A ENCSR000BME signal Experimental 
wgEncodeReg4TfChip_ENCFF579ZGM ENCSR000BME K562 ZBTB7A peaks Experimental 
wgEncodeReg4TfChip_ENCFF320FFB ENCSR000BMD signal K562 ELF1 ENCSR000BMD signal Experimental 
wgEncodeReg4TfChip_ENCFF496AKI ENCSR000BMD K562 ELF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF091VZO ENCSR000BMC signal HepG2 HDAC2 ENCSR000BMC signal Experimental 
wgEncodeReg4TfChip_ENCFF087XCR ENCSR000BMC HepG2 HDAC2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF262CCB ENCSR000BMB signal GM12878 ELF1 ENCSR000BMB signal Experimental 
wgEncodeReg4TfChip_ENCFF432UGA ENCSR000BMB GM12878 ELF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF705FOY ENCSR000BLW signal HepG2 EP300 ENCSR000BLW signal Experimental 
wgEncodeReg4TfChip_ENCFF354ACD ENCSR000BLW HepG2 EP300 peaks Experimental 
wgEncodeReg4TfChip_ENCFF202ZJP ENCSR000BLV signal HepG2 SRF ENCSR000BLV signal Experimental 
wgEncodeReg4TfChip_ENCFF625QHW ENCSR000BLV HepG2 SRF peaks Experimental 
wgEncodeReg4TfChip_ENCFF160JKQ ENCSR000BLU signal H1 TAF7 ENCSR000BLU signal Experimental 
wgEncodeReg4TfChip_ENCFF085VVL ENCSR000BLU H1 TAF7 peaks Experimental 
wgEncodeReg4TfChip_ENCFF839ZEC ENCSR000BLT signal GM12892 YY1 ENCSR000BLT signal Experimental 
wgEncodeReg4TfChip_ENCFF802MHJ ENCSR000BLT GM12892 YY1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF972ODZ ENCSR000BLS signal HepG2 RAD21 ENCSR000BLS signal Experimental 
wgEncodeReg4TfChip_ENCFF906QIS ENCSR000BLS HepG2 RAD21 peaks Experimental 
wgEncodeReg4TfChip_ENCFF176UCO ENCSR000BLR signal K562 SIN3A ENCSR000BLR signal Experimental 
wgEncodeReg4TfChip_ENCFF397YHR ENCSR000BLR K562 SIN3A peaks Experimental 
wgEncodeReg4TfChip_ENCFF750XUV ENCSR000BLP signal K562 MAX ENCSR000BLP signal Experimental 
wgEncodeReg4TfChip_ENCFF524IJO ENCSR000BLP K562 MAX peaks Experimental 
wgEncodeReg4TfChip_ENCFF441PRL ENCSR000BLO signal K562 GABPA ENCSR000BLO signal Experimental 
wgEncodeReg4TfChip_ENCFF996TSW ENCSR000BLO K562 GABPA peaks Experimental 
wgEncodeReg4TfChip_ENCFF216TRT ENCSR000BLK signal K562 SRF ENCSR000BLK signal Experimental 
wgEncodeReg4TfChip_ENCFF664RPC ENCSR000BLK K562 SRF peaks Experimental 
wgEncodeReg4TfChip_ENCFF279TIE ENCSR000BLI signal K562 E2F6 ENCSR000BLI signal Experimental 
wgEncodeReg4TfChip_ENCFF136LTS ENCSR000BLI K562 E2F6 peaks Experimental 
wgEncodeReg4TfChip_ENCFF677JAB ENCSR000BLF signal HepG2 HNF4A ENCSR000BLF signal Experimental 
wgEncodeReg4TfChip_ENCFF669NAM ENCSR000BLF HepG2 HNF4A peaks Experimental 
wgEncodeReg4TfChip_ENCFF408EGB ENCSR000BLE signal HepG2 FOXA1 ENCSR000BLE signal Experimental 
wgEncodeReg4TfChip_ENCFF207NVJ ENCSR000BLE HepG2 FOXA1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF506AAX ENCSR000BLD signal H1 RAD21 ENCSR000BLD signal Experimental 
wgEncodeReg4TfChip_ENCFF698EWO ENCSR000BLD H1 RAD21 peaks Experimental 
wgEncodeReg4TfChip_ENCFF652NKM ENCSR000BKV signal K562 RAD21 ENCSR000BKV signal Experimental 
wgEncodeReg4TfChip_ENCFF169SQI ENCSR000BKV K562 RAD21 peaks Experimental 
wgEncodeReg4TfChip_ENCFF157ZKE ENCSR000BKU signal K562 YY1 ENCSR000BKU signal Experimental 
wgEncodeReg4TfChip_ENCFF199FNC ENCSR000BKU K562 YY1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF095DZT ENCSR000BKT signal K562 USF1 ENCSR000BKT signal Experimental 
wgEncodeReg4TfChip_ENCFF633EZB ENCSR000BKT K562 USF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF491WAE ENCSR000BKS K562 TAF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF514URW ENCSR000BKR K562 POLR2AphosphoS5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF063WBM ENCSR000BKQ signal K562 ETS1 ENCSR000BKQ signal Experimental 
wgEncodeReg4TfChip_ENCFF688UQG ENCSR000BKQ K562 ETS1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF740VNX ENCSR000BKP signal H1 JUND ENCSR000BKP signal Experimental 
wgEncodeReg4TfChip_ENCFF468JZD ENCSR000BKP H1 JUND peaks Experimental 
wgEncodeReg4TfChip_ENCFF524IWI ENCSR000BKO signal K562 SP1 ENCSR000BKO signal Experimental 
wgEncodeReg4TfChip_ENCFF365HQT ENCSR000BKO K562 SP1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF371RWI ENCSR000BKM signal K562 GATA2 ENCSR000BKM signal Experimental 
wgEncodeReg4TfChip_ENCFF544PCK ENCSR000BKM K562 GATA2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF988PWB ENCSR000BKK signal H1 EP300 ENCSR000BKK signal Experimental 
wgEncodeReg4TfChip_ENCFF927IYK ENCSR000BKK H1 EP300 peaks Experimental 
wgEncodeReg4TfChip_ENCFF805XWY ENCSR000BKJ signal GM12891 YY1 ENCSR000BKJ signal Experimental 
wgEncodeReg4TfChip_ENCFF460SIS ENCSR000BKJ GM12891 YY1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF132TYI ENCSR000BKH signal K562 BCLAF1 ENCSR000BKH signal Experimental 
wgEncodeReg4TfChip_ENCFF936NCS ENCSR000BKH K562 BCLAF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF851UBU ENCSR000BKF signal K562 ZBTB33 ENCSR000BKF signal Experimental 
wgEncodeReg4TfChip_ENCFF911VPU ENCSR000BKF K562 ZBTB33 peaks Experimental 
wgEncodeReg4TfChip_ENCFF662YUV ENCSR000BKE signal HepG2 ATF3 ENCSR000BKE signal Experimental 
wgEncodeReg4TfChip_ENCFF928LDD ENCSR000BKE HepG2 ATF3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF904SDR ENCSR000BKD signal H1 YY1 ENCSR000BKD signal Experimental 
wgEncodeReg4TfChip_ENCFF524BTL ENCSR000BKD H1 YY1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF753CFJ ENCSR000BKC signal H1 ATF3 ENCSR000BKC signal Experimental 
wgEncodeReg4TfChip_ENCFF852GZY ENCSR000BKC H1 ATF3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF778ICR ENCSR000BKB signal GM12878 MEF2A ENCSR000BKB signal Experimental 
wgEncodeReg4TfChip_ENCFF652BHX ENCSR000BKB GM12878 MEF2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF065YMX ENCSR000BKA signal GM12878 ETS1 ENCSR000BKA signal Experimental 
wgEncodeReg4TfChip_ENCFF019FEB ENCSR000BKA GM12878 ETS1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF225WFX ENCSR000BJZ signal GM12878 BCLAF1 ENCSR000BJZ signal Experimental 
wgEncodeReg4TfChip_ENCFF306JRM ENCSR000BJZ GM12878 BCLAF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF243XPP ENCSR000BJY signal GM12878 ATF3 ENCSR000BJY signal Experimental 
wgEncodeReg4TfChip_ENCFF358BXK ENCSR000BJY GM12878 ATF3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF956IGM ENCSR000BJX signal HepG2 SP1 ENCSR000BJX signal Experimental 
wgEncodeReg4TfChip_ENCFF123KAM ENCSR000BJX HepG2 SP1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF827JSM ENCSR000BJW signal H1 RXRA ENCSR000BJW signal Experimental 
wgEncodeReg4TfChip_ENCFF570NHK ENCSR000BJW H1 RXRA peaks Experimental 
wgEncodeReg4TfChip_ENCFF877WDP ENCSR000BJP signal PFSK-1 REST ENCSR000BJP signal Experimental 
wgEncodeReg4TfChip_ENCFF668WMP ENCSR000BJP PFSK-1 REST peaks Experimental 
wgEncodeReg4TfChip_ENCFF861MDR ENCSR000BJO signal Panc1 REST ENCSR000BJO signal Experimental 
wgEncodeReg4TfChip_ENCFF629OJO ENCSR000BJO Panc1 REST peaks Experimental 
wgEncodeReg4TfChip_ENCFF284KMH ENCSR000BJN signal HepG2 TAF1 ENCSR000BJN signal Experimental 
wgEncodeReg4TfChip_ENCFF961AVP ENCSR000BJN HepG2 TAF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF473DMJ ENCSR000BJM signal HepG2 POLR2A ENCSR000BJM signal Experimental 
wgEncodeReg4TfChip_ENCFF718XAJ ENCSR000BJM HepG2 POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF829ZXF ENCSR000BJL signal HepG2 REST ENCSR000BJL signal Experimental 
wgEncodeReg4TfChip_ENCFF800JSL ENCSR000BJL HepG2 REST peaks Experimental 
wgEncodeReg4TfChip_ENCFF279KCZ ENCSR000BJK signal HepG2 GABPA ENCSR000BJK signal Experimental 
wgEncodeReg4TfChip_ENCFF467OEO ENCSR000BJK HepG2 GABPA peaks Experimental 
wgEncodeReg4TfChip_ENCFF724JQD ENCSR000BJJ signal SK-N-SH REST ENCSR000BJJ signal Experimental 
wgEncodeReg4TfChip_ENCFF861MKH ENCSR000BJJ SK-N-SH REST peaks Experimental 
wgEncodeReg4TfChip_ENCFF547IEN ENCSR000BJI signal GM12892 PAX5 ENCSR000BJI signal Experimental 
wgEncodeReg4TfChip_ENCFF635MSF ENCSR000BJI GM12892 PAX5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF009PMK ENCSR000BJH signal GM12891 PAX5 ENCSR000BJH signal Experimental 
wgEncodeReg4TfChip_ENCFF490KVF ENCSR000BJH GM12891 PAX5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF400IMT ENCSR000BJG signal HepG2 TCF12 ENCSR000BJG signal Experimental 
wgEncodeReg4TfChip_ENCFF236EQD ENCSR000BJG HepG2 TCF12 peaks Experimental 
wgEncodeReg4TfChip_ENCFF308TWB ENCSR000BJE signal GM12878 SIX5 ENCSR000BJE signal Experimental 
wgEncodeReg4TfChip_ENCFF766FEJ ENCSR000BJE GM12878 SIX5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF870ANL ENCSR000BJD signal GM12878 RXRA ENCSR000BJD signal Experimental 
wgEncodeReg4TfChip_ENCFF083VEI ENCSR000BJD GM12878 RXRA peaks Experimental 
wgEncodeReg4TfChip_ENCFF517ZBF ENCSR000BJA signal H1 EGR1 ENCSR000BJA signal Experimental 
wgEncodeReg4TfChip_ENCFF451BLH ENCSR000BJA H1 EGR1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF437HCY ENCSR000BIW signal H1 GABPA ENCSR000BIW signal Experimental 
wgEncodeReg4TfChip_ENCFF739QFD ENCSR000BIW H1 GABPA peaks Experimental 
wgEncodeReg4TfChip_ENCFF920RYL ENCSR000BIV signal H1 SRF ENCSR000BIV signal Experimental 
wgEncodeReg4TfChip_ENCFF036PEF ENCSR000BIV H1 SRF peaks Experimental 
wgEncodeReg4TfChip_ENCFF697QRN ENCSR000BIU signal H1 USF1 ENCSR000BIU signal Experimental 
wgEncodeReg4TfChip_ENCFF090WVU ENCSR000BIU H1 USF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF717UNQ ENCSR000BIT signal H1 TCF12 ENCSR000BIT signal Experimental 
wgEncodeReg4TfChip_ENCFF203EBH ENCSR000BIT H1 TCF12 peaks Experimental 
wgEncodeReg4TfChip_ENCFF762YET ENCSR000BIS signal H1 SIN3A ENCSR000BIS signal Experimental 
wgEncodeReg4TfChip_ENCFF896IJG ENCSR000BIS H1 SIN3A peaks Experimental 
wgEncodeReg4TfChip_ENCFF684HIL ENCSR000BIR signal H1 SP1 ENCSR000BIR signal Experimental 
wgEncodeReg4TfChip_ENCFF263FUH ENCSR000BIR H1 SP1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF724HLZ ENCSR000BIQ signal H1 SIX5 ENCSR000BIQ signal Experimental 
wgEncodeReg4TfChip_ENCFF942SOJ ENCSR000BIQ H1 SIX5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF635EWE ENCSR000BIM signal GM12891 TAF1 ENCSR000BIM signal Experimental 
wgEncodeReg4TfChip_ENCFF254YPA ENCSR000BIM GM12891 TAF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF443CZX ENCSR000BIL signal GM12891 POLR2AphosphoS5 ENCSR000BIL signal Experimental 
wgEncodeReg4TfChip_ENCFF127ICP ENCSR000BIL GM12891 POLR2AphosphoS5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF960VMU ENCSR000BIK signal GM12891 POLR2A ENCSR000BIK signal Experimental 
wgEncodeReg4TfChip_ENCFF379FCI ENCSR000BIK GM12891 POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF419HTJ ENCSR000BIJ signal GM12891 SPI1 ENCSR000BIJ signal Experimental 
wgEncodeReg4TfChip_ENCFF563IUT ENCSR000BIJ GM12891 SPI1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF533NYL ENCSR000BII signal GM12891 POU2F2 ENCSR000BII signal Experimental 
wgEncodeReg4TfChip_ENCFF166YPP ENCSR000BII GM12891 POU2F2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF559YIO ENCSR000BIF signal GM12878 POLR2AphosphoS5 ENCSR000BIF signal Experimental 
wgEncodeReg4TfChip_ENCFF412KAE ENCSR000BIF GM12878 POLR2AphosphoS5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF029RTI ENCSR000BIE signal HepG2 CTCF ENCSR000BIE signal Experimental 
wgEncodeReg4TfChip_ENCFF915BIE ENCSR000BIE HepG2 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF652YMX ENCSR000BID signal HepG2 BHLHE40 ENCSR000BID signal Experimental 
wgEncodeReg4TfChip_ENCFF272ULI ENCSR000BID HepG2 BHLHE40 peaks Experimental 
wgEncodeReg4TfChip_ENCFF093YDV ENCSR000BIC signal H1 POLR2AphosphoS5 ENCSR000BIC signal Experimental 
wgEncodeReg4TfChip_ENCFF833NJP ENCSR000BIC H1 POLR2AphosphoS5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF076VFP ENCSR000BIB signal GM12892 TAF1 ENCSR000BIB signal Experimental 
wgEncodeReg4TfChip_ENCFF440DJD ENCSR000BIB GM12892 TAF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF426NSN ENCSR000BIA signal GM12892 POLR2AphosphoS5 ENCSR000BIA signal Experimental 
wgEncodeReg4TfChip_ENCFF542ZFO ENCSR000BIA GM12892 POLR2AphosphoS5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF597COP ENCSR000BHZ signal GM12892 POLR2A ENCSR000BHZ signal Experimental 
wgEncodeReg4TfChip_ENCFF245LYF ENCSR000BHZ GM12892 POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF669HQT ENCSR000BHU signal HepG2 RXRA ENCSR000BHU signal Experimental 
wgEncodeReg4TfChip_ENCFF204YVO ENCSR000BHU HepG2 RXRA peaks Experimental 
wgEncodeReg4TfChip_ENCFF908IXJ ENCSR000BHT signal HeLa-S3 TAF1 ENCSR000BHT signal Experimental 
wgEncodeReg4TfChip_ENCFF556LCN ENCSR000BHT HeLa-S3 TAF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF282IEP ENCSR000BHS signal HeLa-S3 GABPA ENCSR000BHS signal Experimental 
wgEncodeReg4TfChip_ENCFF211VKG ENCSR000BHS HeLa-S3 GABPA peaks Experimental 
wgEncodeReg4TfChip_ENCFF650AIE ENCSR000BHR signal HepG2 ZBTB33 ENCSR000BHR signal Experimental 
wgEncodeReg4TfChip_ENCFF339WCT ENCSR000BHR HepG2 ZBTB33 peaks Experimental 
wgEncodeReg4TfChip_ENCFF586UTL ENCSR000BHP signal HepG2 FOSL2 ENCSR000BHP signal Experimental 
wgEncodeReg4TfChip_ENCFF796NIA ENCSR000BHP HepG2 FOSL2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF856RPW ENCSR000BHO signal H1 TAF1 ENCSR000BHO signal Experimental 
wgEncodeReg4TfChip_ENCFF478SZO ENCSR000BHO H1 TAF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF566JSR ENCSR000BHN H1 POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF424VJZ ENCSR000BHM signal H1 REST ENCSR000BHM signal Experimental 
wgEncodeReg4TfChip_ENCFF429RUE ENCSR000BHM H1 REST peaks Experimental 
wgEncodeReg4TfChip_ENCFF952WGS ENCSR000BHK signal GM12878 SP1 ENCSR000BHK signal Experimental 
wgEncodeReg4TfChip_ENCFF620LDJ ENCSR000BHK GM12878 SP1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF397VPJ ENCSR000BHJ signal GM12878 PAX5 ENCSR000BHJ signal Experimental 
wgEncodeReg4TfChip_ENCFF503GOV ENCSR000BHJ GM12878 PAX5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF456HGP ENCSR000BHD signal GM12878 PAX5 ENCSR000BHD signal Experimental 
wgEncodeReg4TfChip_ENCFF482PUW ENCSR000BHD GM12878 PAX5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF544CDL ENCSR000BHC signal GM12878 ZBTB33 ENCSR000BHC signal Experimental 
wgEncodeReg4TfChip_ENCFF024ZOE ENCSR000BHC GM12878 ZBTB33 peaks Experimental 
wgEncodeReg4TfChip_ENCFF928OAA ENCSR000BHB signal GM12878 EP300 ENCSR000BHB signal Experimental 
wgEncodeReg4TfChip_ENCFF347NRI ENCSR000BHB GM12878 EP300 peaks Experimental 
wgEncodeReg4TfChip_ENCFF925SGV ENCSR000BHA signal GM12878 BCL11A ENCSR000BHA signal Experimental 
wgEncodeReg4TfChip_ENCFF717YPR ENCSR000BHA GM12878 BCL11A peaks Experimental 
wgEncodeReg4TfChip_ENCFF579VGX ENCSR000BGZ signal GM12878 TCF12 ENCSR000BGZ signal Experimental 
wgEncodeReg4TfChip_ENCFF506WWB ENCSR000BGZ GM12878 TCF12 peaks Experimental 
wgEncodeReg4TfChip_ENCFF486IOQ ENCSR000BGY signal GM12878 IRF4 ENCSR000BGY signal Experimental 
wgEncodeReg4TfChip_ENCFF769ZDL ENCSR000BGY GM12878 IRF4 peaks Experimental 
wgEncodeReg4TfChip_ENCFF401KKQ ENCSR000BGX signal K562 SIX5 ENCSR000BGX signal Experimental 
wgEncodeReg4TfChip_ENCFF472MWE ENCSR000BGX K562 SIX5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF216QNX ENCSR000BGW signal K562 SPI1 ENCSR000BGW signal Experimental 
wgEncodeReg4TfChip_ENCFF410ORC ENCSR000BGW K562 SPI1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF696PUH ENCSR000BGU signal GM12878 EBF1 ENCSR000BGU signal Experimental 
wgEncodeReg4TfChip_ENCFF813OXE ENCSR000BGU GM12878 EBF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF013ZCI ENCSR000BGT signal GM12878 BATF ENCSR000BGT signal Experimental 
wgEncodeReg4TfChip_ENCFF954REE ENCSR000BGT GM12878 BATF peaks Experimental 
wgEncodeReg4TfChip_ENCFF307JTI ENCSR000BGS signal GM12878 TAF1 ENCSR000BGS signal Experimental 
wgEncodeReg4TfChip_ENCFF746UKX ENCSR000BGS GM12878 TAF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF386ZNA ENCSR000BGR signal GM12878 PBX3 ENCSR000BGR signal Experimental 
wgEncodeReg4TfChip_ENCFF285BQQ ENCSR000BGR GM12878 PBX3 peaks Experimental 
wgEncodeReg4TfChip_ENCFF042MFJ ENCSR000BGQ signal GM12878 SPI1 ENCSR000BGQ signal Experimental 
wgEncodeReg4TfChip_ENCFF134LCP ENCSR000BGQ GM12878 SPI1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF366GEF ENCSR000BGP signal GM12878 POU2F2 ENCSR000BGP signal Experimental 
wgEncodeReg4TfChip_ENCFF207RKY ENCSR000BGP GM12878 POU2F2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF180XTE ENCSR000BGO signal HeLa-S3 POLR2A ENCSR000BGO signal Experimental 
wgEncodeReg4TfChip_ENCFF773DNG ENCSR000BGO HeLa-S3 POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF829OAJ ENCSR000BGM signal HepG2 USF1 ENCSR000BGM signal Experimental 
wgEncodeReg4TfChip_ENCFF807KYJ ENCSR000BGM HepG2 USF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF223BYL ENCSR000BGL signal HepG2 SIN3A ENCSR000BGL signal Experimental 
wgEncodeReg4TfChip_ENCFF394WQQ ENCSR000BGL HepG2 SIN3A peaks Experimental 
wgEncodeReg4TfChip_ENCFF506FJI ENCSR000BGK signal HepG2 JUND ENCSR000BGK signal Experimental 
wgEncodeReg4TfChip_ENCFF172HFZ ENCSR000BGK HepG2 JUND peaks Experimental 
wgEncodeReg4TfChip_ENCFF029MAS ENCSR000BGI signal GM12878 USF1 ENCSR000BGI signal Experimental 
wgEncodeReg4TfChip_ENCFF880HJL ENCSR000BGI GM12878 USF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF248GFX ENCSR000BGF signal GM12878 REST ENCSR000BGF signal Experimental 
wgEncodeReg4TfChip_ENCFF235NGC ENCSR000BGF GM12878 REST peaks Experimental 
wgEncodeReg4TfChip_ENCFF127YAF ENCSR000BGE signal GM12878 SRF ENCSR000BGE signal Experimental 
wgEncodeReg4TfChip_ENCFF880MVC ENCSR000BGE GM12878 SRF peaks Experimental 
wgEncodeReg4TfChip_ENCFF203NVD ENCSR000BGD signal GM12878 POLR2A ENCSR000BGD signal Experimental 
wgEncodeReg4TfChip_ENCFF521FXC ENCSR000BGD GM12878 POLR2A peaks Experimental 
wgEncodeReg4TfChip_ENCFF416LRH ENCSR000BGB signal SK-N-MC FOXP2 ENCSR000BGB signal Experimental 
wgEncodeReg4TfChip_ENCFF865YOS ENCSR000BGB SK-N-MC FOXP2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF978PPO ENCSR000BGA signal PFSK-1 FOXP2 ENCSR000BGA signal Experimental 
wgEncodeReg4TfChip_ENCFF349WGE ENCSR000BGA PFSK-1 FOXP2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF826LWF ENCSR000AVC signal H1 KDM4A ENCSR000AVC signal Experimental 
wgEncodeReg4TfChip_ENCFF078LED ENCSR000AVC H1 KDM4A peaks Experimental 
wgEncodeReg4TfChip_ENCFF395MPO ENCSR000AVB signal H1 HDAC2 ENCSR000AVB signal Experimental 
wgEncodeReg4TfChip_ENCFF353UJQ ENCSR000AVB H1 HDAC2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF520FHO ENCSR000AVA signal H1 CHD7 ENCSR000AVA signal Experimental 
wgEncodeReg4TfChip_ENCFF126NLU ENCSR000AVA H1 CHD7 peaks Experimental 
wgEncodeReg4TfChip_ENCFF031SQY ENCSR000AUZ signal B cell female adult (27 years) EZH2 ENCSR000AUZ signal Experimental 
wgEncodeReg4TfChip_ENCFF803EMO ENCSR000AUZ B cell female adult (27 years) EZH2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF035DJL ENCSR000AUV signal B cell female adult (27 years) and female adult (43 years) CTCF ENCSR000AUV signal Experimental 
wgEncodeReg4TfChip_ENCFF506FKC ENCSR000AUV B cell female adult (27 years) and female adult (43 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF699NGB ENCSR000AUQ signal H1 EP300 ENCSR000AUQ signal Experimental 
wgEncodeReg4TfChip_ENCFF937OPV ENCSR000AUQ H1 EP300 peaks Experimental 
wgEncodeReg4TfChip_ENCFF689SMA ENCSR000AUC signal K562 SUZ12 ENCSR000AUC signal Experimental 
wgEncodeReg4TfChip_ENCFF397TBJ ENCSR000AUC K562 SUZ12 peaks Experimental 
wgEncodeReg4TfChip_ENCFF973QCP ENCSR000AUA signal K562 RNF2 ENCSR000AUA signal Experimental 
wgEncodeReg4TfChip_ENCFF295YTA ENCSR000AUA K562 RNF2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF512QLB ENCSR000ATX signal K562 KDM1A ENCSR000ATX signal Experimental 
wgEncodeReg4TfChip_ENCFF934ZRG ENCSR000ATX K562 KDM1A peaks Experimental 
wgEncodeReg4TfChip_ENCFF802ZED ENCSR000ATW signal K562 CBX8 ENCSR000ATW signal Experimental 
wgEncodeReg4TfChip_ENCFF485TBL ENCSR000ATW K562 CBX8 peaks Experimental 
wgEncodeReg4TfChip_ENCFF925XCF ENCSR000ATU signal K562 CBX2 ENCSR000ATU signal Experimental 
wgEncodeReg4TfChip_ENCFF578AQI ENCSR000ATU K562 CBX2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF224RZW ENCSR000ATS signal H1 SUZ12 ENCSR000ATS signal Experimental 
wgEncodeReg4TfChip_ENCFF881NFR ENCSR000ATS H1 SUZ12 peaks Experimental 
wgEncodeReg4TfChip_ENCFF711VBX ENCSR000ATR signal H1 SAP30 ENCSR000ATR signal Experimental 
wgEncodeReg4TfChip_ENCFF149IOE ENCSR000ATR H1 SAP30 peaks Experimental 
wgEncodeReg4TfChip_ENCFF496PSJ ENCSR000ATN signal CD14-positive monocyte female CTCF ENCSR000ATN signal Experimental 
wgEncodeReg4TfChip_ENCFF590KQU ENCSR000ATN CD14-positive monocyte female CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF366FDV ENCSR000ATM signal K562 REST ENCSR000ATM signal Experimental 
wgEncodeReg4TfChip_ENCFF758CZL ENCSR000ATM K562 REST peaks Experimental 
wgEncodeReg4TfChip_ENCFF359TYM ENCSR000ATL signal K562 CHD4 ENCSR000ATL signal Experimental 
wgEncodeReg4TfChip_ENCFF933NKI ENCSR000ATL K562 CHD4 peaks Experimental 
wgEncodeReg4TfChip_ENCFF557NCI ENCSR000ATK signal H1 PHF8 ENCSR000ATK signal Experimental 
wgEncodeReg4TfChip_ENCFF427UFV ENCSR000ATK H1 PHF8 peaks Experimental 
wgEncodeReg4TfChip_ENCFF756UYQ ENCSR000ATC signal HeLa-S3 EZH2 ENCSR000ATC signal Experimental 
wgEncodeReg4TfChip_ENCFF318LHU ENCSR000ATC HeLa-S3 EZH2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF310GPL ENCSR000ATA signal endothelial cell of umbilical vein male newborn EZH2 ENCSR000ATA signal Experimental 
wgEncodeReg4TfChip_ENCFF539AKL ENCSR000ATA endothelial cell of umbilical vein male newborn EZH2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF786FVB ENCSR000ASZ signal myotube originated from skeletal muscle myoblast EZH2 ENCSR000ASZ signal Experimental 
wgEncodeReg4TfChip_ENCFF857GWB ENCSR000ASZ myotube originated from skeletal muscle myoblast EZH2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF105JFX ENCSR000ASY signal H1 EZH2 ENCSR000ASY signal Experimental 
wgEncodeReg4TfChip_ENCFF232NZA ENCSR000ASY H1 EZH2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF696DTJ ENCSR000ASW signal DND-41 EZH2 ENCSR000ASW signal Experimental 
wgEncodeReg4TfChip_ENCFF187XWF ENCSR000ASW DND-41 EZH2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF834XLX ENCSR000ASE signal fibroblast of dermis EZH2 ENCSR000ASE signal Experimental 
wgEncodeReg4TfChip_ENCFF029VZK ENCSR000ASE fibroblast of dermis EZH2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF245GAF ENCSR000ARR signal astrocyte EZH2 ENCSR000ARR signal Experimental 
wgEncodeReg4TfChip_ENCFF365JTP ENCSR000ARR astrocyte EZH2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF469MCE ENCSR000ARO signal fibroblast of lung female child (11 years) and male adult (45 years) EZH2 ENCSR000ARO signal Experimental 
wgEncodeReg4TfChip_ENCFF479BAW ENCSR000ARO fibroblast of lung female child (11 years) and male adult (45 years) EZH2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF566SGP ENCSR000ARK signal keratinocyte male EZH2 ENCSR000ARK signal Experimental 
wgEncodeReg4TfChip_ENCFF070STK ENCSR000ARK keratinocyte male EZH2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF559YWA ENCSR000ARI signal HepG2 EZH2 ENCSR000ARI signal Experimental 
wgEncodeReg4TfChip_ENCFF912EIW ENCSR000ARI HepG2 EZH2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF079PJF ENCSR000ARE signal mammary epithelial cell female adult (50 years) EZH2 ENCSR000ARE signal Experimental 
wgEncodeReg4TfChip_ENCFF224GAI ENCSR000ARE mammary epithelial cell female adult (50 years) EZH2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF398MEO ENCSR000AQU signal DND-41 CTCF ENCSR000AQU signal Experimental 
wgEncodeReg4TfChip_ENCFF913MRA ENCSR000AQU DND-41 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF619DFE ENCSR000AQK signal H1 CHD1 ENCSR000AQK signal Experimental 
wgEncodeReg4TfChip_ENCFF998XEK ENCSR000AQK H1 CHD1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF419SOE ENCSR000AQJ signal K562 SAP30 ENCSR000AQJ signal Experimental 
wgEncodeReg4TfChip_ENCFF652WJB ENCSR000AQJ K562 SAP30 peaks Experimental 
wgEncodeReg4TfChip_ENCFF569SQS ENCSR000AQI signal K562 RBBP5 ENCSR000AQI signal Experimental 
wgEncodeReg4TfChip_ENCFF070CVK ENCSR000AQI K562 RBBP5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF092HFK ENCSR000AQH signal K562 PHF8 ENCSR000AQH signal Experimental 
wgEncodeReg4TfChip_ENCFF217UCA ENCSR000AQH K562 PHF8 peaks Experimental 
wgEncodeReg4TfChip_ENCFF065PDS ENCSR000AQG signal K562 HDAC2 ENCSR000AQG signal Experimental 
wgEncodeReg4TfChip_ENCFF889DON ENCSR000AQG K562 HDAC2 peaks Experimental 
wgEncodeReg4TfChip_ENCFF549WXX ENCSR000AQF signal K562 HDAC1 ENCSR000AQF signal Experimental 
wgEncodeReg4TfChip_ENCFF872AQB ENCSR000AQF K562 HDAC1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF506RWL ENCSR000AQD signal K562 CHD1 ENCSR000AQD signal Experimental 
wgEncodeReg4TfChip_ENCFF118VJV ENCSR000AQD K562 CHD1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF841AUM ENCSR000AQC signal H1 RBBP5 ENCSR000AQC signal Experimental 
wgEncodeReg4TfChip_ENCFF905HFL ENCSR000AQC H1 RBBP5 peaks Experimental 
wgEncodeReg4TfChip_ENCFF339MLW ENCSR000AQA signal K562 KDM5B ENCSR000AQA signal Experimental 
wgEncodeReg4TfChip_ENCFF049WWX ENCSR000AQA K562 KDM5B peaks Experimental 
wgEncodeReg4TfChip_ENCFF720GFK ENCSR000APM signal fibroblast of dermis CTCF ENCSR000APM signal Experimental 
wgEncodeReg4TfChip_ENCFF986DNJ ENCSR000APM fibroblast of dermis CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF185GGC ENCSR000APF signal osteoblast CTCF ENCSR000APF signal Experimental 
wgEncodeReg4TfChip_ENCFF491ZJZ ENCSR000APF osteoblast CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF714NPP ENCSR000AOO signal astrocyte CTCF ENCSR000AOO signal Experimental 
wgEncodeReg4TfChip_ENCFF861WUP ENCSR000AOO astrocyte CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF179RSE ENCSR000AOA signal HeLa-S3 CTCF ENCSR000AOA signal Experimental 
wgEncodeReg4TfChip_ENCFF255ASZ ENCSR000AOA HeLa-S3 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF450CWJ ENCSR000ANS signal myotube originated from skeletal muscle myoblast CTCF ENCSR000ANS signal Experimental 
wgEncodeReg4TfChip_ENCFF127SFR ENCSR000ANS myotube originated from skeletal muscle myoblast CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF616VTY ENCSR000ANO signal fibroblast of lung female child (11 years) and male adult (45 years) CTCF ENCSR000ANO signal Experimental 
wgEncodeReg4TfChip_ENCFF356FDN ENCSR000ANO fibroblast of lung female child (11 years) and male adult (45 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF755CPB ENCSR000ANE signal skeletal muscle myoblast male adult (22 years) CTCF ENCSR000ANE signal Experimental 
wgEncodeReg4TfChip_ENCFF813BQI ENCSR000ANE skeletal muscle myoblast male adult (22 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF332TNJ ENCSR000AMF signal H1 CTCF ENCSR000AMF signal Experimental 
wgEncodeReg4TfChip_ENCFF764RHO ENCSR000AMF H1 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF357NFO ENCSR000AMA signal HepG2 CTCF ENCSR000AMA signal Experimental 
wgEncodeReg4TfChip_ENCFF194VBQ ENCSR000AMA HepG2 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF804LBC ENCSR000ALV signal mammary epithelial cell female adult (50 years) CTCF ENCSR000ALV signal Experimental 
wgEncodeReg4TfChip_ENCFF304VVZ ENCSR000ALV mammary epithelial cell female adult (50 years) CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF638DZB ENCSR000ALJ signal keratinocyte female CTCF ENCSR000ALJ signal Experimental 
wgEncodeReg4TfChip_ENCFF805QIE ENCSR000ALJ keratinocyte female CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF334OZC ENCSR000ALA signal endothelial cell of umbilical vein male newborn CTCF ENCSR000ALA signal Experimental 
wgEncodeReg4TfChip_ENCFF947JAB ENCSR000ALA endothelial cell of umbilical vein male newborn CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF979PWH ENCSR000AKO signal K562 CTCF ENCSR000AKO signal Experimental 
wgEncodeReg4TfChip_ENCFF430KTH ENCSR000AKO K562 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF734CUT ENCSR000AKB signal GM12878 CTCF ENCSR000AKB signal Experimental 
wgEncodeReg4TfChip_ENCFF923ZBP ENCSR000AKB GM12878 CTCF peaks Experimental 
wgEncodeReg4TfChip_ENCFF154VDI ENCSR000AHF signal MCF-7 TAF1 ENCSR000AHF signal Experimental 
wgEncodeReg4TfChip_ENCFF091WNP ENCSR000AHF MCF-7 TAF1 peaks Experimental 
wgEncodeReg4TfChip_ENCFF775RBW ENCSR000AHD signal MCF-7 CTCF ENCSR000AHD signal Experimental 
wgEncodeReg4TfChip_ENCFF881HZW ENCSR000AHD MCF-7 CTCF peaks Experimental 
decipherPopulation DECIPHER Population CNVs DECIPHER: Population CNVs Phenotypes, Variants, and Literature Description NOTE: While the DECIPHER database is open to the public, users seeking information about a personal medical or genetic condition are urged to consult with a qualified physician for diagnosis and for answers to personal questions. Because the UCSC Genes mappings for CNVs are based on associations from RefSeq and UniProt, they are dependent on any interpretations from those sources. Furthermore, because many DECIPHER records refer to multiple gene names, or syndromes not tightly mapped to individual genes, the associations in this track should be treated with skepticism and any conclusions based on them should be carefully scrutinized using independent resources. Data Display Agreement Notice The CNV/SNV data are only available for display in the Browser, and not for bulk download. Access to bulk data may be obtained directly from DECIPHER (https://www.deciphergenomics.org/about/data-sharing) and is subject to a Data Access Agreement, in which the user certifies that no attempt to identify individual patients will be undertaken. The same restrictions apply to the public data displayed at UCSC in the UCSC Genome Browser; no one is authorized to attempt to identify patients by any means. These data are made available as soon as possible and may be a pre-publication release. For information on the proper use of DECIPHER data, please see https://www.deciphergenomics.org/about/data-sharing. The DECIPHER consortium provides these data in good faith as a research tool, but without verifying the accuracy, clinical validity, or utility of the data. The DECIPHER consortium makes no warranty, express or implied, nor assumes any legal liability or responsibility for any purpose for which the data are used. The DECIPHER database of submicroscopic chromosomal imbalance collects clinical information about chromosomal microdeletions/duplications/insertions, translocations and inversions, and displays this information on the human genome map. The CNVs and SNVs tracks show genomic regions of reported cases and their associated phenotype information. All data have passed the strict consent requirements of the DECIPHER project and are approved for unrestricted public release. Clicking the Patient View ID link brings up a more detailed informational page on the patient at the DECIPHER web site. The Population CNVs track shows common copy-number variants (CNVs) and their population frequencies, lifted over from the hg19 assembly. Display Conventions and Configuration The genomic locations of DECIPHER variants are labeled with the DECIPHER variant descriptions. Mouseover on items shows variant details, clinical interpretation, and associated conditions. Further information on each variant is displayed on the details page by a click onto any variant. For the CNVs track, the entries are colored by the type of variant: red for loss blue for gain grey for amplification A light-to-dark color gradient indicates the clinical significance of each variant, with the lightest shade being benign, to the darkest shade being pathogenic. Detailed information on the CNV color code is described here. Items can be filtered according to the size of the variant, variant type, and clinical significance using the track Configure options. For the SNVs track, the entries are colored according to the estimated clinical significance of the variant: black for likely or definitely pathogenic dark grey for uncertain or unknown light grey for likely or definitely benign For the Population CNVs track, genomic variants are visually differentiated to facilitate quick and clear identification. Variants are colored according to their clinical significance and type: Red - exclusively deletion site. (deletions) Blue - exclusively duplication site. (duplication) Grey - deletions and duplications site. (del/dup) The Population CNVs track's mouseover tooltip provides the following information about the data: Position: Specifies the chromosomal range of the CNV. Type of CNV: Indicates if the variation is a loss, gain, or deletions/duplications(del/dup). Frequency of CNV: Reflects how often the CNV occurs in the sampled population. Number of Observations: The count of times this CNV was observed in the dataset. Sample Size of Study: The total number of samples examined. Method Data provided by the DECIPHER project group are imported and processed to create a simple BED track to annotate the genomic regions associated with individual patients. Contact For more information on DECIPHER, please contact &#99;&#111;n&#116;&#97;c&#116;&#64;&#100;&#101;&#99;&#105;p&#104;&#101;&#114;&#103;&#101;&#110;&#111;&#109;&#105;c&#115;. &#111;&#114;g Data Access The DECIPHER data access and documentation can be found at DECIPHER Downloads. References Firth HV, Richards SM, Bevan AP, Clayton S, Corpas M, Rajan D, Van Vooren S, Moreau Y, Pettett RM, Carter NP. DECIPHER: Database of Chromosomal Imbalance and Phenotype in Humans Using Ensembl Resources. Am J Hum Genet. 2009 Apr;84(4):524-33. PMID: 19344873; PMC: PMC2667985 
encodeCcreCombined ENCODE3 cCREs ENCODE3 Registry of candidate Cis-Regulatory Elements (cCREs) Regulation Description This track displays the ENCODE Registry of candidate cis-Regulatory Elements (cCREs) in the human genome, a total of 926,535 elements identified and classified by the ENCODE Data Analysis Center according to biochemical signatures. cCREs are the subset of representative DNase hypersensitive sites across ENCODE and Roadmap Epigenomics samples that are supported by either histone modifications (H3K4me3 and H3K27ac) or CTCF-binding data. The Registry of cCREs is one of the core components of the integrative level of the ENCODE Encyclopedia of DNA Elements. Additional exploration of the cCRE's and underlying raw ENCODE data is provided by the SCREEN (Search Candidate cis-Regulatory Elements) web tool, designed specifically for the Registry, accessible by linkouts from the track details page. The cCREs identified in the mouse genome are available in a companion track, here. The related cCREs by Biosample composite track presents ccREs and associated epigenetic signal in all individual biosamples in a large matrix. Additional views of the data are provided by the ENCODE Integrative Megahub. --> Display Conventions and Configuration CCREs are colored and labeled according to classification by regulatory signature: Color UCSC label ENCODE classification ENCODE label red prom promoter-like signature PLS orange enhP proximal enhancer-like signature pELS yellow enhD distal enhancer-like signature dELS pink K4m3 DNase-H3K4me3 DNase-H3K4me3 blue CTCF CTCF-only CTCF-only The DNase-H3K4me3 elements are those with promoter-like biochemical signature that are not within 200bp of an annotated TSS. Methods All individual DNase hypersensitive sites (DHSs) identified from 706 DNase-seq experiments in humans (a total of 93 million sites from 706 experiments) were iteratively clustered and filtered for the highest signal across all experiments, producing representative DHSs (rDHSs), with a total of 2.2 million such sites in human. The highest signal elements from this set that were also supported by high H3K4me3, H3K27ac and/or CTCF ChIP-seq signals were designated cCRE's (a total of 926,535 in human). Classification of cCRE's was performed based on the following criteria: cCREs with promoter-like signatures (cCRE-PLS) fall within 200 bp of an annotated GENCODE TSS and have high DNase and H3K4me3 signals. cCREs with enhancer-like signatures (cCRE-ELS) have high DNase and H3K27ac with low H3K4me3 max-Z score if they are within 200 bp of an annotated TSS. The subset of cCREs-ELS within 2 kb of a TSS is denoted proximal (cCRE-pELS), while the remaining subset is denoted distal (cCRE-dELS). DNase-H3K4me3 cCREs have high H3K4me3 max-Z scores but low H3K27ac max-Z scores and do not fall within 200 bp of a TSS. CTCF-only cCREs have high DNase and CTCF and low H3K4me3 and H3K27ac. The GENCODE V24 (Ensembl 33) basic gene annotation set was used in this analysis. For further detail about the identification and classification of ENCODE cCREs see the About page of the SCREEN web tool. Data Access The ENCODE accession numbers of the constituent datasets at the ENCODE Portal are available from the cCRE details page. The data in this track can be interactively explored with the Table Browser or the Data Integrator. The data can be accessed from scripts through our API, the track name is "encodeCcreCombined". For automated download and analysis, this annotation is stored in a bigBed file that can be downloaded from our download server. The file for this track is called encodeCcreCombined.bb. Individual regions or the whole genome annotation can be obtained using our tool bigBedToBed which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tool can also be used to obtain only features within a given range, e.g. bigBedToBed http://hgdownload.soe.ucsc.edu/gbdb/hg38/encode3/ccre/encodeCcreCombined.bb -chrom=chr21 -start=0 -end=100000000 stdout Release Notes This annotation is based on ENCODE data released on or before September 14, 2018. Data from the Common fund supported Roadmap Epigenomics Mapping Consortium (REMC) were included for building the ENCODE cCREs. Please see the 2015 paper on their analysis of reference human genomes for more information. Credits This dataset was produced by the ENCODE Data Analysis Center (ZLab at UMass Medical Center). Please check the ZLab ENCODE Public Hubs for the most updated data. Thanks to Henry Pratt, Jill Moore, Michael Purcaro, and Zhiping Weng, PI for providing this data. Thanks also to the ENCODE Consortium, the ENCODE production laboratories, and the ENCODE Data Coordination Center for generating and processing the datasets used here. References ENCODE Project Consortium. Expanded Encyclopedias of DNA Elements in the Human and Mouse Genomes. Nature. 2020 July 30;583(7818):699-710 ENCODE Project Consortium. An integrated encyclopedia of DNA elements in the human genome. Nature. 2012 Sep 6;489(7414):57-74. PMID: 22955616; PMC: PMC3439153 ENCODE Project Consortium. A user's guide to the encyclopedia of DNA elements (ENCODE). PLoS Biol. 2011 Apr;9(4):e1001046. PMID: 21526222; PMC: PMC3079585 
knownGeneV45 GENCODE V45 GENCODE V45 Genes and Gene Predictions Description The GENCODE Genes track (version 45, January 2024) shows high-quality manual annotations merged with evidence-based automated annotations across the entire human genome generated by the GENCODE project. By default, only the basic gene set is displayed, which is a subset of the comprehensive gene set. The basic set represents transcripts that GENCODE believes will be useful to the majority of users. The track includes protein-coding genes, non-coding RNA genes, and pseudo-genes, though pseudo-genes are not displayed by default. It contains annotations on the reference chromosomes as well as assembly patches and alternative loci (haplotypes). The following table provides statistics for the v45 release derived from the GTF file that contains annotations only on the main chromosomes. More information on how they were generated can be found in the GENCODE site. GENCODE v45 Release Stats GenesObservedTranscriptsObserved Protein-coding genes19,395Protein-coding transcripts89,110 Long non-coding RNA genes20,424- full length protein-coding64,028 Small non-coding RNA genes7,565- partial length protein-coding25,082 Pseudogenes14,719Nonsense mediated decay transcripts21,427 Immunoglobulin/T-cell receptor gene segments648Long non-coding RNA loci transcripts59,719 Total No of distinct translations65,357Genes that have more than one distinct translations13,600 For more information on the different gene tracks, see our Genes FAQ. Display Conventions and Configuration By default, this track displays only the basic GENCODE set, splice variants, and non-coding genes. It includes options to display the entire GENCODE set and pseudogenes. To customize these options, the respective boxes can be checked or unchecked at the top of this description page. This track also includes a variety of labels which identify the transcripts when visibility is set to &quot;full&quot; or &quot;pack&quot;. Gene symbols (e.g. NIPA1) are displayed by default, but additional options include GENCODE Transcript ID (ENST00000561183.5), UCSC Known Gene ID (uc001yve.4), UniProt Display ID (Q7RTP0). Additional information about gene and transcript names can be found in our FAQ. This track, in general, follows the display conventions for gene prediction tracks. The exons for putative non-coding genes and untranslated regions are represented by relatively thin blocks, while those for coding open reading frames are thicker. Coloring for the gene annotations is based on the annotation type: coding: protein coding transcripts, including polymorphic pseudogenes non-coding: non-protein coding transcripts pseudogene: pseudogene transcript annotations problem: problem transcripts (Biotypes of retained_intron, TEC, or disrupted_domain) This track contains an optional codon coloring feature that allows users to quickly validate and compare gene predictions. There is also an option to display the data as a density graph, which can be helpful for visualizing the distribution of items over a region. Squishy-pack Display Within a gene using the pack display mode, transcripts below a specified rank will be condensed into a view similar to squish mode. The transcript ranking approach is preliminary and will change in future releases. The transcripts rankings are defined by the following criteria for protein-coding and non-coding genes: Protein_coding genes MANE or Ensembl canonical 1st: MANE Select / Ensembl canonical 2nd: MANE Plus Clinical Coding biotypes 1st: protein_coding and protein_coding_LoF 2nd: NMDs and NSDs 3rd: retained intron and protein_coding_CDS_not_defined Completeness 1st: full length 2nd: CDS start/end not found CARS score (only for coding transcripts) Transcript genomic span and length (only for non-coding transcripts) Non-coding genes Transcript biotype 1st: transcript biotype identical to gene biotype Ensembl canonical GENCODE basic Transcript genomic span Transcript length Methods The GENCODE v45 track was built from the GENCODE downloads file gencode.v45.chr_patch_hapl_scaff.annotation.gff3.gz. Data from other sources were correlated with the GENCODE data to build association tables. Related Data The GENCODE Genes transcripts are annotated in numerous tables, each of which is also available as a downloadable file. One can see a full list of the associated tables in the Table Browser by selecting GENCODE Genes from the track menu; this list is then available on the table menu. Data access GENCODE Genes and its associated tables can be explored interactively using the REST API, the Table Browser or the Data Integrator. The genePred format files for hg38 are available from our downloads directory or in our GTF download directory. All the tables can also be queried directly from our public MySQL servers, with more information available on our help page as well as on our blog. Credits The GENCODE Genes track was produced at UCSC from the GENCODE comprehensive gene set using a computational pipeline developed by Jim Kent and Brian Raney. This version of the track was generated by Jonathan Casper. References Frankish A, Carbonell-Sala S, Diekhans M, Jungreis I, Loveland JE, Mudge JM, Sisu C, Wright JC, Arnan C, Barnes I et al. GENCODE: reference annotation for the human and mouse genomes in 2023. Nucleic Acids Res. 2023 Jan 6;51(D1):D942-D949. PMID: 36420896; PMC: PMC9825462 A full list of GENCODE publications is available at The GENCODE Project web site. Data Release Policy GENCODE data are available for use without restrictions. 
problematicGIAB GIAB Problematic Regions Difficult regions from GIAB via NCBI Mapping and Sequencing Description This container track helps call out sections of the genome that often cause problems or confusion when working with the genome. The hg19 genome has a track with the same name, but with more subtracks, as the GeT-RM and Genome-in-a-Bottle artifact variants do not exist for hg38. Problematic Regions The Problematic Regions track contains the following subtracks: The UCSC Unusual Regions subtrack contains annotations collected at UCSC, put together from other tracks, our experiences and support email list requests over the years. For example, it contains the most well-known gene clusters (IGH, IGL, PAR1/2, TCRA, TCRB, etc) and annotations for the GRC fixed sequences, alternate haplotypes, unplaced contigs, pseudo-autosomal regions, and mitochondria. These loci can yield alignments with low-quality mapping scores and discordant read pairs, especially for short-read sequencing data. The data set was manually curated, based on the Genome Browser's assembly description, the FAQs about assembly, and the NCBI RefSeq &quot;other&quot; annotations track data. The ENCODE Blacklist subtrack contains a comprehensive set of regions which are troublesome for high-throughput Next-Generation Sequencing (NGS) aligners. These regions tend to have a very high ratio of multi-mapping to unique mapping reads and high variance in mappability due to repetitive elements such as satellite, centromeric and telomeric repeats. The GRC Exclusions subtrack contains a set of regions that have been flagged by the GRC to contain false duplications or contamination sequences. The GRC has now removed these sequences from the files that it uses to generate the reference assembly, however, removing the sequences from the GRCh38/hg38 assembly would trigger the next major release of the human assembly. In order to help users recognize these regions and avoid them in their analyses, the GRC have produced a masking file to be used as a companion to GRCh38, and the BED file is available from the GenBank FTP site. Highly Reproducible Regions (HighRepro) The Highly Reproducible Regions track highlights regions and variants from eight samples that can be used to assess variant detection pipelines. The &quot;Highly Reproducible Regions&quot; subtrack comprises the intersection of the reproducible regions across all eight samples, while the &quot;Variants&quot; subtracks contain the reproducible variants from each assayed sample. Both tracks contain data from the following samples: a Chinese Quartet, samples CQ-5, CQ-6, CQ-7, CQ-8 a HapMap Trio, samples NA10385, NA12248, NA12249 a Genome in a Bottle sample, NA12878s Please refer to the Pan et al reference for more information on how these regions were defined. GIAB Problematic Regions The Genome in a Bottle (GIAB) Problematic Regions tracks provide stratifications of the genome to evaluate variant calls in complex regions. It is designed for use with Global Alliance for Genomic Health (GA4GH) benchmarking tools like hap.py and includes regions with low complexity, segmental duplications, functional regions, and difficult-to-sequence areas. Developed in collaboration with GA4GH, the Genome in a Bottle (GIAB) consortium, and the Telomere-to-Telomere Consortium (T2T), the dataset aims to standardize the analysis of genetic variation by offering pre-defined BED files for stratifying true and false positives in genomic studies, facilitating accurate assessments in complex areas of the genome. The creation of the GIAB Problematic Regions tracks involves using a pipeline and configuration to generate stratification BED files that categorize genomic regions based on specific challenges, such as low complexity or difficult mapping, to facilitate accurate benchmarking of variant calls. For more information on the pipeline and configuration used, please visit the following webpage: https://ftp-trace.ncbi.nlm.nih.gov/ReferenceSamples/giab/release/genome-stratifications/v3.5/README.md. If you have questions or comments, please write to Justin Zook (jzook@nist.gov). Panmask Easy 151b Regions The Panmask Easy 151b Regions subtrack contains a set of sample-agnostic easy regions where short-read variant calling reaches high accuracy. Easy regions are derived for variant filtration agnostic to individual samples. They are genomic intervals where general variant callers achieve high accuracy without sophisticated filtering. A set of easy regions for ancient DNA variant filtering was generated by selecting 35-mers that could not be mapped elsewhere within one mismatch or gap. Read alignments from multiple samples were inspected to exclude regions with excessively high or low coverage or those enriched with low mapping quality alignments. The easy regions generated through this k-mer uniqueness procedure are referred to as pm151:lenient, where &quot;pm&quot; stands for panmask. In addition, low complexity regions identified by SDUST were removed. The pm151 regions are used to filter spurious variant calls in centromeres, long repeats, and other genomic regions where short-read mapping is often problematic. They cover 88.2% of hg38, 92.2% of coding regions, and 96.3% of ClinVar pathogenic variants. The track can be used to filter variant calls for clinical or research human samples. Like the HighRepro track in this container (see above), it shows regions that are easy to sequence, not those that are problematic. The data was derived from the HPRC assemblies, and this track presents the 151b-easy panmask set. Display Conventions and Configuration Each track contains a set of regions of varying length with no special configuration options. The UCSC Unusual Regions track has a mouse-over description, all other tracks have at most a name field, which can be shown in pack mode. The tracks are usually kept in dense mode. The Hide empty subtracks control hides subtracks with no data in the browser window. Changing the browser window by zooming or scrolling may result in the display of a different selection of tracks. Data access The raw data can be explored interactively with the Table Browser or the Data Integrator. For automated download and analysis, the genome annotation is stored in bigBed files that can be downloaded from our download server. Individual regions or the whole genome annotation can be obtained using our tool bigBedToBed which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tool can also be used to obtain only features within a given range, e.g. bigBedToBed http://hgdownload.soe.ucsc.edu/gbdb/hg38/problematic/comments.bb -chrom=chr21 -start=0 -end=100000000 stdout Methods Files were downloaded from the respective databases and converted to bigBed format. The procedure is documented in our hg38 makeDoc file. Credits Thanks to Anna Benet-Pag&egrave;s, Max Haeussler, Angie Hinrichs, Daniel Schmelter, and Jairo Navarro at the UCSC Genome Browser for planning, building, and testing these tracks. The underlying data comes from the ENCODE Blacklist and some parts were copied manually from the HGNC and NCBI RefSeq tracks. References Amemiya HM, Kundaje A, Boyle AP. The ENCODE Blacklist: Identification of Problematic Regions of the Genome. Sci Rep. 2019 Jun 27;9(1):9354. PMID: 31249361; PMC: PMC6597582 Dwarshuis N, Kalra D, McDaniel J, Sanio P, Alvarez Jerez P, Jadhav B, Huang WE, Mondal R, Busby B, Olson ND et al. The GIAB genomic stratifications resource for human reference genomes. Nat Commun. 2024 Oct 19;15(1):9029. PMID: 39424793; PMC: PMC11489684 Krusche P, Trigg L, Boutros PC, Mason CE, De La Vega FM, Moore BL, Gonzalez-Porta M, Eberle MA, Tezak Z, Lababidi S et al. Best practices for benchmarking germline small-variant calls in human genomes. Nat Biotechnol. 2019 May;37(5):555-560. PMID: 30858580; PMC: PMC6699627 Li H. Finding easy regions for short-read variant calling from pangenome data. ArXiv. 2025 Aug 8;. PMID: 40799803; PMC: PMC12340882 Pan B, Ren L, Onuchic V, Guan M, Kusko R, Bruinsma S, Trigg L, Scherer A, Ning B, Zhang C et al. Assessing reproducibility of inherited variants detected with short-read whole genome sequencing. Genome Biol. 2022 Jan 3;23(1):2. PMID: 34980216; PMC: PMC8722114 
notinalllowmapandsegdupregions Not lowMap+SegDup Genome In a Bottle: not lowMap+SegDup mapping regions Mapping and Sequencing 
notinalldifficultregions Not difficult regions Genome In a Bottle: not difficult regions Mapping and Sequencing 
alllowmapandsegdupregions LowMap+SegDup Genome In a Bottle: lowMap+SegDup regions Mapping and Sequencing 
alldifficultregions All difficult regions Genome In a Bottle: all difficult regions Mapping and Sequencing 
gtexImmuneAtlasFullDetails GTEx Immune Atlas GTEx single nuclei immune expression Single Cell RNA-seq Description This track collection shows data from Single-nucleus cross-tissue molecular reference maps toward understanding disease gene function. The dataset covers ~200,000 single nuclei from a total of 16 human donors across 25 samples, using 4 different sample preparation protocols followed by droplet based single-cell RNA-seq. The samples were obtained from frozen tissue as part of the Genotype-Tissue Expression (GTEx) project. Samples were taken from the esophagus, skeletal muscle, heart, lung, prostate, breast, and skin. The dataset includes 43 broad cell classes, some specific to certain tissues and some shared across all tissue types. The read count is calculated by taking, for this cell type and gene location, the total number of transcript reads divided by the number of cells, and is therefore an average or mean value. This track collection contains three bar chart tracks of RNA expression. The first track, Cross Tissue Nuclei, allows cells to be grouped together and faceted on up to 4 categories: tissue, cell class, cell subclass, and cell type. The second track, Cross Tissue Details, allows cells to be grouped together and faceted on up to 7 categories: tissue, cell class, cell subclass, cell type, granular cell type, sex, and donor. The third track, GTEx Immune Atlas, allows cells to be grouped together and faceted on up to 5 categories: tissue, cell type, cell class, sex, and donor. Please see the GTEx portal for further interactive displays and additional data. Display Conventions and Configuration Tissue-cell type combinations in the Full and Combined tracks are colored by which cell type they belong to in the below table: Color Cell Type Endothelial Epithelial Glia Immune Neuron Stromal Other Tissue-cell type combinations in the Immune Atlas track are shaded according to the below table: Color Cell Type Inflammatory Macrophage Lung Macrophage Monocyte/Macrophage FCGR3A High Monocyte/Macrophage FCGR3A Low Macrophage HLAII High Macrophage LYVE1 High Proliferating Macrophage Dendritic Cell 1 Dendritic Cell 2 Mature Dendritic Cell Langerhans CD14+ Monocyte CD16+ Monocyte LAM-like Other Methods Using the previously collected tissue samples from the Genotype-Tissue Expression project, nuclei were isolated using four different protocols and sequenced using droplet based single cell RNA-seq. CellBender v2.1 and other standard quality control techniques were applied, resulting in 209,126 nuclei profiles across eight tissues, with a mean of 918 genes and 1519 transcripts per profile. Data from all samples was integrated with a conditional variation autoencoder in order to correct for multiple sources of variation like sex, and protocol while preserving tissue and cell type specific effects. For detailed methods, please refer to Eraslan et al, or the GTEx portal website. UCSC Methods The gene expression files were downloaded from the GTEx portal. The UCSC command line utilities matrixClusterColumns, matrixToBarChartBed, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions or our Data Access FAQ for more information. The expScores field for this track contains a comma-separated list of values for each cell type, and the expCount field is the size of the expScores array, which is the total number of cell types. The value in the expScores field corresponds to the read count for that cell type, and the order of the cell types is defined by the barChartBars line in the trackDb file for this track. Credits Thanks to the GTEx Consortium for creating and analyzing these data. References Eraslan G, Drokhlyansky E, Anand S, Fiskin E, Subramanian A, Slyper M, Wang J, Van Wittenberghe N, Rouhana JM, Waldman J et al. Single-nucleus cross-tissue molecular reference maps toward understanding disease gene function. Science. 2022 May 13;376(6594):eabl4290. PMID: 35549429; PMC: PMC9383269 
microsat Microsatellite Microsatellites - Di-nucleotide and Tri-nucleotide Repeats Repeats Description This track displays regions that are likely to be useful as microsatellite markers. These are sequences of at least 15 perfect di-nucleotide and tri-nucleotide repeats and tend to be highly polymorphic in the population. Methods The data shown in this track are a subset of the Simple Repeats track, selecting only those repeats of period 2 and 3, with 100% identity and no indels and with at least 15 copies of the repeat. The Simple Repeats track is created using the Tandem Repeats Finder. For more information about this program, see Benson (1999). Credits Tandem Repeats Finder was written by Gary Benson. References Benson G. Tandem repeats finder: a program to analyze DNA sequences. Nucleic Acids Res. 1999 Jan 15;27(2):573-80. PMID: 9862982; PMC: PMC148217 
nmdDetectiveB NMDetective-B NMDetective-B: Decision tree prediction of NMD efficiency (Lindeboom 2016) Genes and Gene Predictions Description The NMDetective tracks display genome-wide predictions of nonsense-mediated mRNA decay (NMD) efficiency from Lindeboom et al. 2016. NMDetective scores predict whether a premature termination codon (PTC) at a given position will trigger NMD and mRNA degradation, or whether the transcript will escape NMD and potentially produce a truncated protein. Scores range from approximately &minus;1 to +1. Positive values indicate that a PTC at that position is predicted to trigger NMD (the mRNA is degraded). Negative values indicate that the PTC is predicted to escape NMD (the truncated mRNA may be translated into an aberrant protein). Values near zero indicate intermediate or uncertain NMD efficiency. Subtracks TrackDescription NMDetective-A Random forest model predicting NMD efficiency for all possible PTCs introduced by single-nucleotide variants. Explains ~71% of systematic variance in NMD efficiency. NMDetective-B Simplified decision tree model for all possible PTCs. Slightly lower accuracy (~68% variance explained) but more interpretable, making it suitable for clinical applications. NMDetective-A PTC Random forest model predicting NMD efficiency specifically for the first out-of-frame PTC introduced by frameshifting indel mutations. NMDetective-B PTC Decision tree model for the first out-of-frame PTC from frameshifting indels. Display Conventions and Configuration Each subtrack is displayed as a signal (bigWig) track. By default, the vertical axis ranges from &minus;1 to +1. Regions with positive values (predicted NMD-triggering) are shown above the baseline; regions with negative values (predicted NMD escape) are shown below. Blue tracks (NMDetective-A and -B): predictions for all possible PTCs from single-nucleotide nonsense variants. Green tracks (NMDetective-A PTC and -B PTC): predictions for the first out-of-frame PTC from frameshifting indels. Methods The NMDetective models were trained on somatic nonsense mutation data from 9,769 cancer patients and validated with frameshift mutations and germline variants (Lindeboom et al. 2019). The models incorporate the following features to predict NMD efficiency: Whether the PTC falls in the last exon Distance to the last 50 nt of the penultimate exon (the EJC-based &ldquo;50 bp rule&rdquo;) Distance from the coding start (start-proximal NMD insensitivity) Exon length mRNA half-life Distance to the downstream exon-junction complex Distance to the wild-type stop codon NMDetective-A (random forest regression) captures non-linear interactions among these features and achieves the highest predictive accuracy. NMDetective-B (decision tree) applies a simpler rule-based classification that is more transparent, with a modest reduction in accuracy. The predictions were generated for every possible PTC-introducing single-nucleotide variant and for the first out-of-frame PTC from every possible single-nucleotide frameshifting indel across all human protein-coding transcripts. The original bedGraph custom track files were downloaded from the NMDetective Figshare page resource and converted to bigWig format at UCSC. Data Access The data underlying these tracks can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credits Thanks to Rik Lindeboom for providing custom tracks and the original NMDetective data on Figshare. References Lindeboom RG, Supek F, Lehner B. The rules and impact of nonsense-mediated mRNA decay in human cancers. Nat Genet. 2016 Oct;48(10):1112-8. PMID: 27618451; PMC: PMC5045715 Lindeboom RGH, Vermeulen M, Lehner B, Supek F. The impact of nonsense-mediated mRNA decay on genetic disease, gene editing and cancer immunotherapy. Nat Genet. 2019 Nov;51(11):1645-1651. PMID: 31659324; PMC: PMC6858879 
nuMtSeq NuMTs Sequence Nuclear mitochondrial DNA segments Repeats Description and display conventions Nuclear mitochondrial DNA segments (NUMTs) are a kind of insertion from the mitochondrion to the nucleus, which is an ongoing and frequent process that happens in all eukaryotes. In previous studies, NUMTs have been reported to increase genetic diversity, promote gene and genome evolution, and generate novel nuclear exons. NUMTs can also affect the accuracy when nuclear genomes are assembled. This track is a collection of Nuclear mitochondrial DNA segments, provided in BED format. Notice: Alignments to incompletely assembled or unmapped chromosome locations are omitted in this track. In this track, the BED score is calculated by -10log10(E-value), representing the alignment confidence and is reflected in the level of gray. Scores &gt;=100 (E-values &lt;= 1e-10) are colored black. It is important to note that when a NUMT is a merged result, the score is taken as the highest score among all results. Methods This dataset identifies nuclear mitochondrial genome segments (NUMTs) by comparing nuclear and mitochondrial genomes and proteins using LAST alignment tools. The method involves several steps: nuclear genome-mitochondrial genome comparison, nuclear genome-mitochondrial protein comparison, and exclusion of overlapping nuclear ribosomal RNA regions using maf-Bed and seg-suite tools. Results are merged if alignments are consistent across both comparisons, with sequences under 30bp excluded. Bedtools and LAST are used throughout the process for efficient alignment and merging. For more detailed information on the methods used for detecting NUMTs, please visit the following webpage: https://github.com/Koumokuyou/NUMTs Contact If you have questions or comments, please write to: Huang Muyao, &#50;&#49;&#55;&#49;27&#50;&#57;&#48;&#51;&#64;&#101;&#100;&#117;.&#107;.&#117;&#45;&#116;&#111;k&#121;&#111;.ac.&#106;&#112; References Kleine T, Maier UG, Leister D. DNA transfer from organelles to the nucleus: the idiosyncratic genetics of endosymbiosis. Annu Rev Plant Biol. 2009;60:115-38. DOI: 10.1146/annurev.arplant.043008.092119; PMID: 19014347 Zhang GJ, Dong R, Lan LN, Li SF, Gao WJ, Niu HX. Nuclear Integrants of Organellar DNA Contribute to Genome Structure and Evolution in Plants. Int J Mol Sci. 2020 Jan 21;21(3). DOI: 10.3390/ijms21030707; PMID: 31973163; PMC: PMC7037861 Yao Y, Frith MC. Improved DNA-Versus-Protein Homology Search for Protein Fossils. IEEE/ACM Trans Comput Biol Bioinform. 2023 May-Jun;20(3):1691-1699. DOI: 10.1109/TCBB.2022.3177855; PMID: 35617174 Frith MC. A simple method for finding related sequences by adding probabilities of alternative alignments. Genome Res. 2024 Sep 13;. DOI: 10.1101/gr.279464.124; PMID: 39152037 
omimLocation OMIM Cyto Loci OMIM Cytogenetic Loci Phenotypes - Gene Unknown Phenotypes, Variants, and Literature Description NOTE: OMIM is intended for use primarily by physicians and other professionals concerned with genetic disorders, by genetics researchers, and by advanced students in science and medicine. While the OMIM database is open to the public, users seeking information about a personal medical or genetic condition are urged to consult with a qualified physician for diagnosis and for answers to personal questions. Further, please be sure to click through to omim.org for the very latest, as they are continually updating data. NOTE ABOUT DOWNLOADS: OMIM is the property of Johns Hopkins University and is not available for download or mirroring by any third party without their permission. Please see OMIM for downloads. OMIM is a compendium of human genes and genetic phenotypes. The full-text, referenced overviews in OMIM contain information on all known Mendelian disorders and over 12,000 genes. OMIM is authored and edited at the McKusick-Nathans Institute of Genetic Medicine, Johns Hopkins University School of Medicine, under the direction of Dr. Ada Hamosh. This database was initiated in the early 1960s by Dr. Victor A. McKusick as a catalog of Mendelian traits and disorders, entitled Mendelian Inheritance in Man (MIM). The OMIM data are separated into three separate tracks: OMIM Alleles &nbsp;&nbsp;&nbsp;&nbsp;Variants in the OMIM database that have associated dbSNP identifiers. This track is currently unavailable on the hg38 assembly, as it depends on dbSNP data that has not been released yet. OMIM Genes &nbsp;&nbsp;&nbsp;&nbsp;The genomic positions of gene entries in the OMIM database. The coloring indicates the associated OMIM phenotype map key. OMIM Phenotypes - Gene Unknown &nbsp;&nbsp;&nbsp;&nbsp;Regions known to be associated with a phenotype, but for which no specific gene is known to be causative. This track also includes known multi-gene syndromes. This track shows the cytogenetic locations of phenotype entries in the Online Mendelian Inheritance in Man (OMIM) database for which the gene is unknown. Display Conventions and Configuration Cytogenetic locations of OMIM entries are displayed as solid blocks. The entries are colored according to the OMIM phenotype map key of associated disorders: Lighter Green for phenotype map key 1 OMIM records - the disorder has been placed on the map based on its association with a gene, but the underlying defect is not known. Light Green for phenotype map key 2 OMIM records - the disorder has been placed on the map by linkage; no mutation has been found. Dark Green for phenotype map key 3 OMIM records - the molecular basis for the disorder is known; a mutation has been found in the gene. Purple for phenotype map key 4 OMIM records - a contiguous gene deletion or duplication syndrome; multiple genes are deleted or duplicated causing the phenotype. Gene symbols and disease information, when available, are displayed on the details pages. The descriptions of OMIM entries are shown on the main browser display when Full display mode is chosen. In Pack mode, the descriptions are shown when mousing over each entry. Items displayed can be filtered according to phenotype map key on the track controls page. Methods This track was constructed as follows: The data file genemap.txt from OMIM was loaded into the MySQL table omimGeneMap. Entries in genemap.txt having disorder info were parsed and loaded into the omimPhenotype table. The phenotype map keys (the numbers (1)(2)(3)(4) from the disorder columns) were placed into a separate field. The cytogenetic location data (from the location column in omimGeneMap) were parsed and converted into genomic start and end positions based on the cytoBand table. These genomic positions, together with the corresponding OMIM IDs, were loaded into the omimLocation table. All entries with no associated phenotype map key and all OMIM gene entries as reported in the &quot;OMIM Genes&quot; track were then excluded from the omimLocation table. Data Access Because OMIM has only allowed Data queries within individual chromosomes, no download files are available from the Genome Browser. Full genome datasets can be downloaded directly from the OMIM Downloads page. All genome-wide downloads are freely available from OMIM after registration. If you need the OMIM data in exactly the format of the UCSC Genome Browser, for example if you are running a UCSC Genome Browser local installation (a partial &quot;mirror&quot;), please create a user account on omim.org and contact OMIM via https://omim.org/contact. Send them your OMIM account name and request access to the UCSC Genome Browser 'entitlement'. They will then grant you access to a MySQL/MariaDB data dump that contains all UCSC Genome Browser OMIM tables. UCSC offers queries within chromosomes from Table Browser that include a variety of filtering options and cross-referencing other datasets using our Data Integrator tool. UCSC also has an API that can be used to retrieve data in JSON format from a particular chromosome range. Please refer to our searchable mailing list archives for more questions and example queries, or our Data Access FAQ for more information. Credits Thanks to OMIM and NCBI for the use of their data. This track was constructed by Fan Hsu, Robert Kuhn, and Brooke Rhead of the UCSC Genome Bioinformatics Group. References Amberger J, Bocchini CA, Scott AF, Hamosh A. McKusick's Online Mendelian Inheritance in Man (OMIM&#174;). Nucleic Acids Res. 2009 Jan;37(Database issue):D793-6. Epub 2008 Oct 8. Hamosh A, Scott AF, Amberger JS, Bocchini CA, McKusick VA. Online Mendelian Inheritance in Man (OMIM), a knowledgebase of human genes and genetic disorders. Nucleic Acids Res. 2005 Jan 1;33(Database issue):D514-7. 
recombMat Recomb. deCODE Mat Recombination rate: deCODE Genetics, maternal Mapping and Sequencing Description The recombination rate track represents calculated rates of recombination based on the genetic maps from deCODE (Halldorsson et al., 2019) and 1000 Genomes (2013 Phase 3 release, lifted from hg19). The deCODE map is more recent, has a higher resolution and was natively created on hg38 and therefore recommended. For the Recomb. deCODE average track, the recombination rates for chrX represent the female rate. This track also includes a subtrack with all the individual deCODE recombination events and another subtrack with several thousand de-novo mutations found in the deCODE sequencing data. These two tracks are hidden by default and have to be switched on explicitly on the configuration page. Display Conventions and Configuration This is a super track that contains different subtracks, three with the deCODE recombination rates (paternal, maternal and average) and one with the 1000 Genomes recombination rate (average). These tracks are in signal graph (wiggle) format. By default, to show most recombination hotspots, their maximum value is set to 100 cM, even though many regions have values higher than 100. The maximum value can be changed on the configuration pages of the tracks. There are two more tracks that show additional details provided by deCODE: one subtrack with the raw data of all cross-overs tagged with their proband ID and another one with around 8000 human de-novo mutation variants that are linked to cross-over changes. Methods The deCODE genetic map was created at deCODE Genetics. It is based on microarrays assaying 626,828 SNP markers that allowed to identify 1,476,140 crossovers in 56,321 paternal meioses and 3,055,395 crossovers in 70,086 maternal meioses. In total, the data is based on 4,531,535 crossovers in 126,427 meioses. By using WGS data with 9,305,070 SNPs, the boundaries for 761,981 crossovers were refined: 247,942 crossovers in 9423 paternal meioses and 514,039 crossovers in 11,750 maternal meioses. The average resolution of the genetic map is 682 base pairs (bp): 655 and 708 bp for the paternal and maternal maps, respectively. The 1000 Genomes genetic map is based on the IMPUTE genetic map based on 1000 Genomes Phase 3, on hg19 coordinates. It was converted to hg38 by Po-Ru Loh at the Broad Institute. After a run of liftOver, he post-processed the data to deal with situations in which consecutive map locations became much closer/farther after lifting. The heuristic used is sufficient for statistical phasing but may not be optimal for other analyses. For this reason, and because of its higher resolution, the DeCODE map is therefore recommended for hg38. As with all other tracks, the data conversion commands and pointers to the original data files are documented in the makeDoc file of this track. Data Access The raw data can be explored interactively with the Table Browser, or the Data Integrator. For automated access, this track, like all others, is available via our API. However, for bulk processing, it is recommended to download the dataset. For automated download and analysis, the genome annotation is stored at UCSC in bigWig and bigBed files that can be downloaded from our download server. Individual regions or the whole genome annotation can be obtained using our tools bigWigToWig or bigBedToBed which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tools can also be used to obtain features confined to a given range, e.g., bigWigToBedGraph -chrom=chr17 -start=45941345 -end=45942345 http://hgdownload.soe.ucsc.edu/gbdb/hg38/recombRate/recombAvg.bw stdout Please refer to our Data Access FAQ for more information. Credits This track was produced at UCSC using data that are freely available for the deCODE and 1000 Genomes genetic maps. Thanks to Po-Ru Loh at the Broad Institute for providing the code to lift the hg19 1000 Genomes map data to hg38. References 1000 Genomes Project Consortium., Abecasis GR, Altshuler D, Auton A, Brooks LD, Durbin RM, Gibbs RA, Hurles ME, McVean GA. A map of human genome variation from population-scale sequencing. Nature. 2010 Oct 28;467(7319):1061-73. PMID: 20981092; PMC: PMC3042601 Halldorsson BV, Palsson G, Stefansson OA, Jonsson H, Hardarson MT, Eggertsson HP, Gunnarsson B, Oddsson A, Halldorsson GH, Zink F et al. Characterizing mutagenic effects of recombination through a sequence-level genetic map. Science. 2019 Jan 25;363(6425). PMID: 30679340 
TSS_activity_TPM TSS activity (TPM) FANTOM5: TSS activity per sample (TPM) Regulation Description The FANTOM5 track shows mapped transcription start sites (TSS) and their usage in primary cells, cell lines, and tissues to produce a comprehensive overview of gene expression across the human body by using single molecule sequencing. Display Conventions and Configuration Items in this track are colored according to their strand orientation. Blue indicates alignment to the negative strand, and red indicates alignment to the positive strand. Methods Protocol Individual biological states are profiled by HeliScopeCAGE, which is a variation of the CAGE (Cap Analysis Gene Expression) protocol based on a single molecule sequencer. The standard protocol requiring 5 &micro;g of total RNA as a starting material is referred to as hCAGE, and an optimized version for a lower quantity (~ 100 ng) is referred to as LQhCAGE (Kanamori-Katyama et al. 2011). hCAGE LQhCAGE Samples Transcription start sites (TSSs) were mapped and their usage in human and mouse primary cells, cell lines, and tissues was to produce a comprehensive overview of mammalian gene expression across the human body. 5&prime;-end of the mapped CAGE reads are counted at a single base pair resolution (CTSS, CAGE tag starting sites) on the genomic coordinates, which represent TSS activities in the sample. Individual samples shown in "TSS activity" tracks are grouped as below. Primary cell Tissue Cell Line Time course Fractionation TSS peaks TSS (CAGE) peaks across the panel of the biological states (samples) are identified by DPI (decomposition based peak identification, Forrest et al. 2014), where each of the peaks consists of neighboring and related TSSs. The peaks are used as anchors to define promoters and units of promoter-level expression analysis. Two subsets of the peaks are defined based on evidence of read counts, depending on scopes of subsequent analyses, and the first subset (referred as a robust set of the peaks, thresholded for expression analysis is shown as TSS peaks. They are named "p#@GENE_SYMBOL" if associated with 5'-end of known genes, or "p@CHROM:START..END,STRAND" otherwise. The summary tracks consist of the TSS (CAGE) peaks and summary profiles of TSS activities (total and maximum values). The summary track consists of the following tracks. TSS (CAGE) peaks the robust peaks TSS summary profiles Total counts and TPM (tags per million) in all the samples Maximum counts and TPM among the samples TSS activity 5&prime;-end of the mapped CAGE reads are counted at a single base pair resolution (CTSS, CAGE tag starting sites) on the genomic coordinates, which represent TSS activities in the sample. The read counts tracks indicate raw counts of CAGE reads, and the TPM tracks indicate normalized counts as TPM (tags per million). Categories of individual samples - Cell Line hCAGE - Cell Line LQhCAGE - fractionation hCAGE - Primary cell hCAGE - Primary cell LQhCAGE - Time course hCAGE - Tissue hCAGE Data Access FANTOM5 data can be explored interactively with the Table Browser and cross-referenced with the Data Integrator. For programmatic access, the track can be accessed using the Genome Browser&apos;s REST API. ReMap annotations can be downloaded from the Genome Browser's download server as a bigBed file. This compressed binary format can be remotely queried through command line utilities. Please note that some of the download files can be quite large. The FANTOM5 reprocessed data can be found and downloaded on the FANTOM website. Credits Thanks to the FANTOM5 consortium, the Large Scale Data Managing Unit and Preventive Medicine and Applied Genomics Unit, the Center for Integrative Medical Sciences (IMS), and RIKEN for providing this data and its analysis. References FANTOM Consortium and the RIKEN PMI and CLST (DGT), Forrest AR, Kawaji H, Rehli M, Baillie JK, de Hoon MJ, Haberle V, Lassmann T, Kulakovskiy IV, Lizio M et al. A promoter-level mammalian expression atlas. Nature. 2014 Mar 27;507(7493):462-70. PMID: 24670764; PMC: PMC4529748 Kanamori-Katayama M, Itoh M, Kawaji H, Lassmann T, Katayama S, Kojima M, Bertin N, Kaiho A, Ninomiya N, Daub CO et al. Unamplified cap analysis of gene expression on a single-molecule sequencer. Genome Res. 2011 Jul;21(7):1150-9. PMID: 21596820; PMC: PMC3129257 Lizio M, Harshbarger J, Shimoji H, Severin J, Kasukawa T, Sahin S, Abugessaisa I, Fukuda S, Hori F, Ishikawa-Kato S et al. Gateways to the FANTOM5 promoter level mammalian expression atlas. Genome Biol. 2015 Jan 5;16(1):22. PMID: 25723102; PMC: PMC4310165 
VeinAdult_CNhs12844_tpm_rev VeinAdult- vein, adult_CNhs12844_10191-103E2_reverse Regulation 
VeinAdult_CNhs12844_tpm_fwd VeinAdult+ vein, adult_CNhs12844_10191-103E2_forward Regulation 
VaginaAdult_CNhs12854_tpm_rev VaginaAdult- vagina, adult_CNhs12854_10204-103F6_reverse Regulation 
VaginaAdult_CNhs12854_tpm_fwd VaginaAdult+ vagina, adult_CNhs12854_10204-103F6_forward Regulation 
UterusFetalDonor1_CNhs11763_tpm_rev UterusFetalD1- uterus, fetal, donor1_CNhs11763_10055-101H1_reverse Regulation 
UterusFetalDonor1_CNhs11763_tpm_fwd UterusFetalD1+ uterus, fetal, donor1_CNhs11763_10055-101H1_forward Regulation 
UterusAdultPool1_CNhs11676_tpm_rev UterusAdultPl1- uterus, adult, pool1_CNhs11676_10100-102D1_reverse Regulation 
UterusAdultPool1_CNhs11676_tpm_fwd UterusAdultPl1+ uterus, adult, pool1_CNhs11676_10100-102D1_forward Regulation 
UrethraDonor2_CNhs13464_tpm_rev UrethraD2- Urethra, donor2_CNhs13464_10319-105A4_reverse Regulation 
UrethraDonor2_CNhs13464_tpm_fwd UrethraD2+ Urethra, donor2_CNhs13464_10319-105A4_forward Regulation 
UniversalRNAHumanNormalTissuesBiochainPool1_CNhs10612_tpm_rev UniversalRnaNormalTissuesBiochainPl1- Universal RNA - Human Normal Tissues Biochain, pool1_CNhs10612_10007-101B4_reverse Regulation 
UniversalRNAHumanNormalTissuesBiochainPool1_CNhs10612_tpm_fwd UniversalRnaNormalTissuesBiochainPl1+ Universal RNA - Human Normal Tissues Biochain, pool1_CNhs10612_10007-101B4_forward Regulation 
UmbilicalCordFetalDonor1_CNhs11765_tpm_rev UmbilicalCordFetalD1- umbilical cord, fetal, donor1_CNhs11765_10057-101H3_reverse Regulation 
UmbilicalCordFetalDonor1_CNhs11765_tpm_fwd UmbilicalCordFetalD1+ umbilical cord, fetal, donor1_CNhs11765_10057-101H3_forward Regulation 
TracheaFetalDonor1_CNhs11766_tpm_rev TracheaFetalD1- trachea, fetal, donor1_CNhs11766_10058-101H4_reverse Regulation 
TracheaFetalDonor1_CNhs11766_tpm_fwd TracheaFetalD1+ trachea, fetal, donor1_CNhs11766_10058-101H4_forward Regulation 
TracheaAdultPool1_CNhs10635_tpm_rev TracheaAdultPl1- trachea, adult, pool1_CNhs10635_10029-101E2_reverse Regulation 
TracheaAdultPool1_CNhs10635_tpm_fwd TracheaAdultPl1+ trachea, adult, pool1_CNhs10635_10029-101E2_forward Regulation 
TonsilAdultPool1_CNhs10654_tpm_rev TonsilAdultPl1- tonsil, adult, pool1_CNhs10654_10047-101G2_reverse Regulation 
TonsilAdultPool1_CNhs10654_tpm_fwd TonsilAdultPl1+ tonsil, adult, pool1_CNhs10654_10047-101G2_forward Regulation 
TongueFetalDonor1_CNhs11768_tpm_rev TongueFetalD1- tongue, fetal, donor1_CNhs11768_10059-101H5_reverse Regulation 
TongueFetalDonor1_CNhs11768_tpm_fwd TongueFetalD1+ tongue, fetal, donor1_CNhs11768_10059-101H5_forward Regulation 
TongueEpidermisFungiformPapillaeDonor1_CNhs13460_tpm_rev TongueEpidermisD1- tongue epidermis (fungiform papillae), donor1_CNhs13460_10288-104F9_reverse Regulation 
TongueEpidermisFungiformPapillaeDonor1_CNhs13460_tpm_fwd TongueEpidermisD1+ tongue epidermis (fungiform papillae), donor1_CNhs13460_10288-104F9_forward Regulation 
TongueAdult_CNhs12853_tpm_rev TongueAdult- tongue, adult_CNhs12853_10203-103F5_reverse Regulation 
TongueAdult_CNhs12853_tpm_fwd TongueAdult+ tongue, adult_CNhs12853_10203-103F5_forward Regulation 
ThyroidFetalDonor1_CNhs11769_tpm_rev ThyroidFetalD1- thyroid, fetal, donor1_CNhs11769_10060-101H6_reverse Regulation 
ThyroidFetalDonor1_CNhs11769_tpm_fwd ThyroidFetalD1+ thyroid, fetal, donor1_CNhs11769_10060-101H6_forward Regulation 
ThyroidAdultPool1_CNhs10634_tpm_rev ThyroidAdultPl1- thyroid, adult, pool1_CNhs10634_10028-101E1_reverse Regulation 
ThyroidAdultPool1_CNhs10634_tpm_fwd ThyroidAdultPl1+ thyroid, adult, pool1_CNhs10634_10028-101E1_forward Regulation 
ThymusFetalPool1_CNhs10650_tpm_rev ThymusFetalPl1- thymus, fetal, pool1_CNhs10650_10043-101F7_reverse Regulation 
ThymusFetalPool1_CNhs10650_tpm_fwd ThymusFetalPl1+ thymus, fetal, pool1_CNhs10650_10043-101F7_forward Regulation 
ThymusAdultPool1_CNhs10633_tpm_rev ThymusAdultPl1- thymus, adult, pool1_CNhs10633_10027-101D9_reverse Regulation 
ThymusAdultPool1_CNhs10633_tpm_fwd ThymusAdultPl1+ thymus, adult, pool1_CNhs10633_10027-101D9_forward Regulation 
ThroatFetalDonor1_CNhs11770_tpm_rev ThroatFetalD1- throat, fetal, donor1_CNhs11770_10061-101H7_reverse Regulation 
ThroatFetalDonor1_CNhs11770_tpm_fwd ThroatFetalD1+ throat, fetal, donor1_CNhs11770_10061-101H7_forward Regulation 
ThroatAdult_CNhs12858_tpm_rev ThroatAdult- throat, adult_CNhs12858_10209-103G2_reverse Regulation 
ThroatAdult_CNhs12858_tpm_fwd ThroatAdult+ throat, adult_CNhs12858_10209-103G2_forward Regulation 
ThalamusNewbornDonor10223_CNhs14084_tpm_rev ThalamusNbD10223- thalamus, newborn, donor10223_CNhs14084_10366-105F6_reverse Regulation 
ThalamusNewbornDonor10223_CNhs14084_tpm_fwd ThalamusNbD10223+ thalamus, newborn, donor10223_CNhs14084_10366-105F6_forward Regulation 
ThalamusAdultDonor10258TechRep2_CNhs14551_tpm_rev ThalamusAdultD10258Tr2- thalamus, adult, donor10258, tech_rep2_CNhs14551_10370-105G1_reverse Regulation 
ThalamusAdultDonor10258TechRep2_CNhs14551_tpm_fwd ThalamusAdultD10258Tr2+ thalamus, adult, donor10258, tech_rep2_CNhs14551_10370-105G1_forward Regulation 
ThalamusAdultDonor10258TechRep1_CNhs14223_tpm_rev ThalamusAdultD10258Tr1- thalamus, adult, donor10258, tech_rep1_CNhs14223_10370-105G1_reverse Regulation 
ThalamusAdultDonor10258TechRep1_CNhs14223_tpm_fwd ThalamusAdultD10258Tr1+ thalamus, adult, donor10258, tech_rep1_CNhs14223_10370-105G1_forward Regulation 
ThalamusAdultDonor10252_CNhs12314_tpm_rev ThalamusAdultD10252- thalamus, adult, donor10252_CNhs12314_10154-103A1_reverse Regulation 
ThalamusAdultDonor10252_CNhs12314_tpm_fwd ThalamusAdultD10252+ thalamus, adult, donor10252_CNhs12314_10154-103A1_forward Regulation 
ThalamusAdultDonor10196_CNhs13794_tpm_rev ThalamusAdultD10196- thalamus - adult, donor10196_CNhs13794_10168-103B6_reverse Regulation 
ThalamusAdultDonor10196_CNhs13794_tpm_fwd ThalamusAdultD10196+ thalamus - adult, donor10196_CNhs13794_10168-103B6_forward Regulation 
TestisAdultPool2_CNhs12998_tpm_rev TestisAdultPl2- testis, adult, pool2_CNhs12998_10096-102C6_reverse Regulation 
TestisAdultPool2_CNhs12998_tpm_fwd TestisAdultPl2+ testis, adult, pool2_CNhs12998_10096-102C6_forward Regulation 
TestisAdultPool1_CNhs10632_tpm_rev TestisAdultPl1- testis, adult, pool1_CNhs10632_10026-101D8_reverse Regulation 
TestisAdultPool1_CNhs10632_tpm_fwd TestisAdultPl1+ testis, adult, pool1_CNhs10632_10026-101D8_forward Regulation 
TemporalLobeFetalDonor1TechRep2_CNhs12996_tpm_rev TemporalLobeFetalD1Tr2- temporal lobe, fetal, donor1, tech_rep2_CNhs12996_10063-101H9_reverse Regulation 
TemporalLobeFetalDonor1TechRep2_CNhs12996_tpm_fwd TemporalLobeFetalD1Tr2+ temporal lobe, fetal, donor1, tech_rep2_CNhs12996_10063-101H9_forward Regulation 
TemporalLobeFetalDonor1TechRep1_CNhs11772_tpm_rev TemporalLobeFetalD1Tr1- temporal lobe, fetal, donor1, tech_rep1_CNhs11772_10063-101H9_reverse Regulation 
TemporalLobeFetalDonor1TechRep1_CNhs11772_tpm_fwd TemporalLobeFetalD1Tr1+ temporal lobe, fetal, donor1, tech_rep1_CNhs11772_10063-101H9_forward Regulation 
TemporalLobeAdultPool1_CNhs10637_tpm_rev TemporalLobeAdultPl1- temporal lobe, adult, pool1_CNhs10637_10031-101E4_reverse Regulation 
TemporalLobeAdultPool1_CNhs10637_tpm_fwd TemporalLobeAdultPl1+ temporal lobe, adult, pool1_CNhs10637_10031-101E4_forward Regulation 
SubstantiaNigraNewbornDonor10223_CNhs14076_tpm_rev SubstantiaNigraNbD10223- substantia nigra, newborn, donor10223_CNhs14076_10358-105E7_reverse Regulation 
SubstantiaNigraNewbornDonor10223_CNhs14076_tpm_fwd SubstantiaNigraNbD10223+ substantia nigra, newborn, donor10223_CNhs14076_10358-105E7_forward Regulation 
SubstantiaNigraAdultDonor10258_CNhs14224_tpm_rev SubstantiaNigraAdultD10258- substantia nigra, adult, donor10258_CNhs14224_10371-105G2_reverse Regulation 
SubstantiaNigraAdultDonor10258_CNhs14224_tpm_fwd SubstantiaNigraAdultD10258+ substantia nigra, adult, donor10258_CNhs14224_10371-105G2_forward Regulation 
SubstantiaNigraAdultDonor10252_CNhs12318_tpm_rev SubstantiaNigraAdultD10252- substantia nigra, adult, donor10252_CNhs12318_10158-103A5_reverse Regulation 
SubstantiaNigraAdultDonor10252_CNhs12318_tpm_fwd SubstantiaNigraAdultD10252+ substantia nigra, adult, donor10252_CNhs12318_10158-103A5_forward Regulation 
SubstantiaNigraAdultDonor10196_CNhs13803_tpm_rev SubstantiaNigraAdultD10196- substantia nigra - adult, donor10196_CNhs13803_10178-103C7_reverse Regulation 
SubstantiaNigraAdultDonor10196_CNhs13803_tpm_fwd SubstantiaNigraAdultD10196+ substantia nigra - adult, donor10196_CNhs13803_10178-103C7_forward Regulation 
SubmaxillaryGlandAdult_CNhs12852_tpm_rev SubmaxillaryGlandAdult- submaxillary gland, adult_CNhs12852_10202-103F4_reverse Regulation 
SubmaxillaryGlandAdult_CNhs12852_tpm_fwd SubmaxillaryGlandAdult+ submaxillary gland, adult_CNhs12852_10202-103F4_forward Regulation 
StomachFetalDonor1_CNhs11771_tpm_rev StomachFetalD1- stomach, fetal, donor1_CNhs11771_10062-101H8_reverse Regulation 
StomachFetalDonor1_CNhs11771_tpm_fwd StomachFetalD1+ stomach, fetal, donor1_CNhs11771_10062-101H8_forward Regulation 
SpleenFetalPool1_CNhs10651_tpm_rev SpleenFetalPl1- spleen, fetal, pool1_CNhs10651_10044-101F8_reverse Regulation 
SpleenFetalPool1_CNhs10651_tpm_fwd SpleenFetalPl1+ spleen, fetal, pool1_CNhs10651_10044-101F8_forward Regulation 
SpleenAdultPool1_CNhs10631_tpm_rev SpleenAdultPl1- spleen, adult, pool1_CNhs10631_10025-101D7_reverse Regulation 
SpleenAdultPool1_CNhs10631_tpm_fwd SpleenAdultPl1+ spleen, adult, pool1_CNhs10631_10025-101D7_forward Regulation 
SpinalCordNewbornDonor10223_CNhs14077_tpm_rev SpinalCordNbD10223- spinal cord, newborn, donor10223_CNhs14077_10359-105E8_reverse Regulation 
SpinalCordNewbornDonor10223_CNhs14077_tpm_fwd SpinalCordNbD10223+ spinal cord, newborn, donor10223_CNhs14077_10359-105E8_forward Regulation 
SpinalCordFetalDonor1_CNhs11764_tpm_rev SpinalCordFetalD1- spinal cord, fetal, donor1_CNhs11764_10056-101H2_reverse Regulation 
SpinalCordFetalDonor1_CNhs11764_tpm_fwd SpinalCordFetalD1+ spinal cord, fetal, donor1_CNhs11764_10056-101H2_forward Regulation 
SpinalCordAdultDonor10258_CNhs14222_tpm_rev SpinalCordAdultD10258- spinal cord, adult, donor10258_CNhs14222_10369-105F9_reverse Regulation 
SpinalCordAdultDonor10258_CNhs14222_tpm_fwd SpinalCordAdultD10258+ spinal cord, adult, donor10258_CNhs14222_10369-105F9_forward Regulation 
SpinalCordAdultDonor10252_CNhs12227_tpm_rev SpinalCordAdultD10252- spinal cord, adult, donor10252_CNhs12227_10159-103A6_reverse Regulation 
SpinalCordAdultDonor10252_CNhs12227_tpm_fwd SpinalCordAdultD10252+ spinal cord, adult, donor10252_CNhs12227_10159-103A6_forward Regulation 
SpinalCordAdultDonor10196_CNhs13807_tpm_rev SpinalCordAdultD10196- spinal cord - adult, donor10196_CNhs13807_10181-103D1_reverse Regulation 
SpinalCordAdultDonor10196_CNhs13807_tpm_fwd SpinalCordAdultD10196+ spinal cord - adult, donor10196_CNhs13807_10181-103D1_forward Regulation 
SmoothMuscleAdultPool1_CNhs11755_tpm_rev SmoothMuscleAdultPl1- smooth muscle, adult, pool1_CNhs11755_10048-101G3_reverse Regulation 
SmoothMuscleAdultPool1_CNhs11755_tpm_fwd SmoothMuscleAdultPl1+ smooth muscle, adult, pool1_CNhs11755_10048-101G3_forward Regulation 
SmallIntestineFetalDonor1_CNhs11773_tpm_rev SmallIntestineFetalD1- small intestine, fetal, donor1_CNhs11773_10064-101I1_reverse Regulation 
SmallIntestineFetalDonor1_CNhs11773_tpm_fwd SmallIntestineFetalD1+ small intestine, fetal, donor1_CNhs11773_10064-101I1_forward Regulation 
SmallIntestineAdultPool1_CNhs10630_tpm_rev SmallIntestineAdultPl1- small intestine, adult, pool1_CNhs10630_10024-101D6_reverse Regulation 
SmallIntestineAdultPool1_CNhs10630_tpm_fwd SmallIntestineAdultPl1+ small intestine, adult, pool1_CNhs10630_10024-101D6_forward Regulation 
SkinPalmDonor1_CNhs13458_tpm_rev SkinPalmD1- Skin - palm, donor1_CNhs13458_10286-104F7_reverse Regulation 
SkinPalmDonor1_CNhs13458_tpm_fwd SkinPalmD1+ Skin - palm, donor1_CNhs13458_10286-104F7_forward Regulation 
SkinFetalDonor1_CNhs11774_tpm_rev SkinFetalD1- skin, fetal, donor1_CNhs11774_10065-101I2_reverse Regulation 
SkinFetalDonor1_CNhs11774_tpm_fwd SkinFetalD1+ skin, fetal, donor1_CNhs11774_10065-101I2_forward Regulation 
SkinAdultDonor1_CNhs11785_tpm_rev SkinAdultD1- skin, adult, donor1_CNhs11785_10074-102A2_reverse Regulation 
SkinAdultDonor1_CNhs11785_tpm_fwd SkinAdultD1+ skin, adult, donor1_CNhs11785_10074-102A2_forward Regulation 
SkeletalMuscleSoleusMuscleDonor1_CNhs13454_tpm_rev SkeletalMuscleSoleusMuscleD1- skeletal muscle - soleus muscle, donor1_CNhs13454_10282-104F3_reverse Regulation 
SkeletalMuscleSoleusMuscleDonor1_CNhs13454_tpm_fwd SkeletalMuscleSoleusMuscleD1+ skeletal muscle - soleus muscle, donor1_CNhs13454_10282-104F3_forward Regulation 
SkeletalMuscleFetalDonor1_CNhs11776_tpm_rev SkeletalMuscleFetalD1- skeletal muscle, fetal, donor1_CNhs11776_10066-101I3_reverse Regulation 
SkeletalMuscleFetalDonor1_CNhs11776_tpm_fwd SkeletalMuscleFetalD1+ skeletal muscle, fetal, donor1_CNhs11776_10066-101I3_forward Regulation 
SkeletalMuscleAdultPool1_CNhs10629_tpm_rev SkeletalMuscleAdultPl1- skeletal muscle, adult, pool1_CNhs10629_10023-101D5_reverse Regulation 
SkeletalMuscleAdultPool1_CNhs10629_tpm_fwd SkeletalMuscleAdultPl1+ skeletal muscle, adult, pool1_CNhs10629_10023-101D5_forward Regulation 
SeminalVesicleAdult_CNhs12851_tpm_rev SeminalVesicleAdult- seminal vesicle, adult_CNhs12851_10201-103F3_reverse Regulation 
SeminalVesicleAdult_CNhs12851_tpm_fwd SeminalVesicleAdult+ seminal vesicle, adult_CNhs12851_10201-103F3_forward Regulation 
SalivaryGlandAdultPool1_CNhs11677_tpm_rev SalivaryGlandAdultPl1- salivary gland, adult, pool1_CNhs11677_10093-102C3_reverse Regulation 
SalivaryGlandAdultPool1_CNhs11677_tpm_fwd SalivaryGlandAdultPl1+ salivary gland, adult, pool1_CNhs11677_10093-102C3_forward Regulation 
SABiosciencesXpressRefHumanUniversalTotalRNAPool1_CNhs10610_tpm_rev SabiosciencesXpressrefUniversalPl1- SABiosciences XpressRef Human Universal Total RNA, pool1_CNhs10610_10002-101A5_reverse Regulation 
SABiosciencesXpressRefHumanUniversalTotalRNAPool1_CNhs10610_tpm_fwd SabiosciencesXpressrefUniversalPl1+ SABiosciences XpressRef Human Universal Total RNA, pool1_CNhs10610_10002-101A5_forward Regulation 
RetinaAdultPool1_CNhs10636_tpm_rev RetinaAdultPl1- retina, adult, pool1_CNhs10636_10030-101E3_reverse Regulation 
RetinaAdultPool1_CNhs10636_tpm_fwd RetinaAdultPl1+ retina, adult, pool1_CNhs10636_10030-101E3_forward Regulation 
RectumFetalDonor1_CNhs11777_tpm_rev RectumFetalD1- rectum, fetal, donor1_CNhs11777_10067-101I4_reverse Regulation 
RectumFetalDonor1_CNhs11777_tpm_fwd RectumFetalD1+ rectum, fetal, donor1_CNhs11777_10067-101I4_forward Regulation 
PutamenNewbornDonor10223_CNhs14083_tpm_rev PutamenNbD10223- putamen, newborn, donor10223_CNhs14083_10365-105F5_reverse Regulation 
PutamenNewbornDonor10223_CNhs14083_tpm_fwd PutamenNbD10223+ putamen, newborn, donor10223_CNhs14083_10365-105F5_forward Regulation 
PutamenAdultDonor10258TechRep2_CNhs14618_tpm_rev PutamenAdultD10258Tr2- putamen, adult, donor10258, tech_rep2_CNhs14618_10372-105G3_reverse Regulation 
PutamenAdultDonor10258TechRep2_CNhs14618_tpm_fwd PutamenAdultD10258Tr2+ putamen, adult, donor10258, tech_rep2_CNhs14618_10372-105G3_forward Regulation 
PutamenAdultDonor10258TechRep1_CNhs14225_tpm_rev PutamenAdultD10258Tr1- putamen, adult, donor10258, tech_rep1_CNhs14225_10372-105G3_reverse Regulation 
PutamenAdultDonor10258TechRep1_CNhs14225_tpm_fwd PutamenAdultD10258Tr1+ putamen, adult, donor10258, tech_rep1_CNhs14225_10372-105G3_forward Regulation 
PutamenAdultDonor10252_CNhs13912_tpm_rev PutamenAdultD10252- putamen, adult, donor10252_CNhs13912_10152-102I8_reverse Regulation 
PutamenAdultDonor10252_CNhs13912_tpm_fwd PutamenAdultD10252+ putamen, adult, donor10252_CNhs13912_10152-102I8_forward Regulation 
PutamenAdultDonor10196_CNhs12324_tpm_rev PutamenAdultD10196- putamen, adult, donor10196_CNhs12324_10176-103C5_reverse Regulation 
PutamenAdultDonor10196_CNhs12324_tpm_fwd PutamenAdultD10196+ putamen, adult, donor10196_CNhs12324_10176-103C5_forward Regulation 
ProstateAdultPool1_CNhs10628_tpm_rev ProstateAdultPl1- prostate, adult, pool1_CNhs10628_10022-101D4_reverse Regulation 
ProstateAdultPool1_CNhs10628_tpm_fwd ProstateAdultPl1+ prostate, adult, pool1_CNhs10628_10022-101D4_forward Regulation 
PostcentralGyrusAdultPool1_CNhs10638_tpm_rev PostcentralGyrusAdultPl1- postcentral gyrus, adult, pool1_CNhs10638_10032-101E5_reverse Regulation 
PostcentralGyrusAdultPool1_CNhs10638_tpm_fwd PostcentralGyrusAdultPl1+ postcentral gyrus, adult, pool1_CNhs10638_10032-101E5_forward Regulation 
PonsAdultPool1_CNhs10640_tpm_rev PonsAdultPl1- pons, adult, pool1_CNhs10640_10033-101E6_reverse Regulation 
PonsAdultPool1_CNhs10640_tpm_fwd PonsAdultPl1+ pons, adult, pool1_CNhs10640_10033-101E6_forward Regulation 
PlacentaAdultPool1_CNhs10627_tpm_rev PlacentaAdultPl1- placenta, adult, pool1_CNhs10627_10021-101D3_reverse Regulation 
PlacentaAdultPool1_CNhs10627_tpm_fwd PlacentaAdultPl1+ placenta, adult, pool1_CNhs10627_10021-101D3_forward Regulation 
PituitaryGlandAdultDonor10258_CNhs14231_tpm_rev PituitaryGlandAdultD10258- pituitary gland, adult, donor10258_CNhs14231_10378-105G9_reverse Regulation 
PituitaryGlandAdultDonor10258_CNhs14231_tpm_fwd PituitaryGlandAdultD10258+ pituitary gland, adult, donor10258_CNhs14231_10378-105G9_forward Regulation 
PituitaryGlandAdultDonor10252_CNhs12229_tpm_rev PituitaryGlandAdultD10252- pituitary gland, adult, donor10252_CNhs12229_10162-103A9_reverse Regulation 
PituitaryGlandAdultDonor10252_CNhs12229_tpm_fwd PituitaryGlandAdultD10252+ pituitary gland, adult, donor10252_CNhs12229_10162-103A9_forward Regulation 
PituitaryGlandAdultDonor10196_CNhs13805_tpm_rev PituitaryGlandAdultD10196- pituitary gland - adult, donor10196_CNhs13805_10180-103C9_reverse Regulation 
PituitaryGlandAdultDonor10196_CNhs13805_tpm_fwd PituitaryGlandAdultD10196+ pituitary gland - adult, donor10196_CNhs13805_10180-103C9_forward Regulation 
PinealGlandAdultDonor10258_CNhs14230_tpm_rev PinealGlandAdultD10258- pineal gland, adult, donor10258_CNhs14230_10377-105G8_reverse Regulation 
PinealGlandAdultDonor10258_CNhs14230_tpm_fwd PinealGlandAdultD10258+ pineal gland, adult, donor10258_CNhs14230_10377-105G8_forward Regulation 
PinealGlandAdultDonor10252_CNhs12228_tpm_rev PinealGlandAdultD10252- pineal gland, adult, donor10252_CNhs12228_10160-103A7_reverse Regulation 
PinealGlandAdultDonor10252_CNhs12228_tpm_fwd PinealGlandAdultD10252+ pineal gland, adult, donor10252_CNhs12228_10160-103A7_forward Regulation 
PinealGlandAdultDonor10196_CNhs13804_tpm_rev PinealGlandAdultD10196- pineal gland - adult, donor10196_CNhs13804_10179-103C8_reverse Regulation 
PinealGlandAdultDonor10196_CNhs13804_tpm_fwd PinealGlandAdultD10196+ pineal gland - adult, donor10196_CNhs13804_10179-103C8_forward Regulation 
PenisAdult_CNhs12850_tpm_rev PenisAdult- penis, adult_CNhs12850_10200-103F2_reverse Regulation 
PenisAdult_CNhs12850_tpm_fwd PenisAdult+ penis, adult_CNhs12850_10200-103F2_forward Regulation 
ParotidGlandAdult_CNhs12849_tpm_rev ParotidGlandAdult- parotid gland, adult_CNhs12849_10199-103F1_reverse Regulation 
ParotidGlandAdult_CNhs12849_tpm_fwd ParotidGlandAdult+ parotid gland, adult_CNhs12849_10199-103F1_forward Regulation 
ParietalLobeNewbornDonor10223_CNhs14074_tpm_rev ParietalLobeNbD10223- parietal lobe, newborn, donor10223_CNhs14074_10356-105E5_reverse Regulation 
ParietalLobeNewbornDonor10223_CNhs14074_tpm_fwd ParietalLobeNbD10223+ parietal lobe, newborn, donor10223_CNhs14074_10356-105E5_forward Regulation 
ParietalLobeFetalDonor1_CNhs11782_tpm_rev ParietalLobeFetalD1- parietal lobe, fetal, donor1_CNhs11782_10072-101I9_reverse Regulation 
ParietalLobeFetalDonor1_CNhs11782_tpm_fwd ParietalLobeFetalD1+ parietal lobe, fetal, donor1_CNhs11782_10072-101I9_forward Regulation 
ParietalLobeAdultPool1_CNhs10641_tpm_rev ParietalLobeAdultPl1- parietal lobe, adult, pool1_CNhs10641_10034-101E7_reverse Regulation 
ParietalLobeAdultPool1_CNhs10641_tpm_fwd ParietalLobeAdultPl1+ parietal lobe, adult, pool1_CNhs10641_10034-101E7_forward Regulation 
ParietalLobeAdultDonor10252_CNhs12317_tpm_rev ParietalLobeAdultD10252- parietal lobe, adult, donor10252_CNhs12317_10157-103A4_reverse Regulation 
ParietalLobeAdultDonor10252_CNhs12317_tpm_fwd ParietalLobeAdultD10252+ parietal lobe, adult, donor10252_CNhs12317_10157-103A4_forward Regulation 
ParietalLobeAdultDonor10196_CNhs13797_tpm_rev ParietalLobeAdultD10196- parietal lobe - adult, donor10196_CNhs13797_10171-103B9_reverse Regulation 
ParietalLobeAdultDonor10196_CNhs13797_tpm_fwd ParietalLobeAdultD10196+ parietal lobe - adult, donor10196_CNhs13797_10171-103B9_forward Regulation 
ParietalCortexAdultDonor10258_CNhs14226_tpm_rev ParietalCortexAdultD10258- parietal cortex, adult, donor10258_CNhs14226_10373-105G4_reverse Regulation 
ParietalCortexAdultDonor10258_CNhs14226_tpm_fwd ParietalCortexAdultD10258+ parietal cortex, adult, donor10258_CNhs14226_10373-105G4_forward Regulation 
ParacentralGyrusAdultPool1_CNhs10642_tpm_rev ParacentralGyrusAdultPl1- paracentral gyrus, adult, pool1_CNhs10642_10035-101E8_reverse Regulation 
ParacentralGyrusAdultPool1_CNhs10642_tpm_fwd ParacentralGyrusAdultPl1+ paracentral gyrus, adult, pool1_CNhs10642_10035-101E8_forward Regulation 
PancreasAdultDonor1_CNhs11756_tpm_rev PancreasAdultD1- pancreas, adult, donor1_CNhs11756_10049-101G4_reverse Regulation 
PancreasAdultDonor1_CNhs11756_tpm_fwd PancreasAdultD1+ pancreas, adult, donor1_CNhs11756_10049-101G4_forward Regulation 
OvaryAdultPool1_CNhs10626_tpm_rev OvaryAdultPl1- ovary, adult, pool1_CNhs10626_10020-101D2_reverse Regulation 
OvaryAdultPool1_CNhs10626_tpm_fwd OvaryAdultPl1+ ovary, adult, pool1_CNhs10626_10020-101D2_forward Regulation 
OpticNerveDonor1_CNhs13449_tpm_rev OpticNerveD1- optic nerve, donor1_CNhs13449_10277-104E7_reverse Regulation 
OpticNerveDonor1_CNhs13449_tpm_fwd OpticNerveD1+ optic nerve, donor1_CNhs13449_10277-104E7_forward Regulation 
OlfactoryRegionAdult_CNhs12611_tpm_rev OlfactoryRegionAdult- olfactory region, adult_CNhs12611_10195-103E6_reverse Regulation 
OlfactoryRegionAdult_CNhs12611_tpm_fwd OlfactoryRegionAdult+ olfactory region, adult_CNhs12611_10195-103E6_forward Regulation 
OccipitalPoleAdultPool1_CNhs10643_tpm_rev OccipitalPoleAdultPl1- occipital pole, adult, pool1_CNhs10643_10036-101E9_reverse Regulation 
OccipitalPoleAdultPool1_CNhs10643_tpm_fwd OccipitalPoleAdultPl1+ occipital pole, adult, pool1_CNhs10643_10036-101E9_forward Regulation 
OccipitalLobeFetalDonor1_CNhs11784_tpm_rev OccipitalLobeFetalD1- occipital lobe, fetal, donor1_CNhs11784_10073-102A1_reverse Regulation 
OccipitalLobeFetalDonor1_CNhs11784_tpm_fwd OccipitalLobeFetalD1+ occipital lobe, fetal, donor1_CNhs11784_10073-102A1_forward Regulation 
OccipitalLobeAdultDonor1_CNhs11787_tpm_rev OccipitalLobeAdultD1- occipital lobe, adult, donor1_CNhs11787_10076-102A4_reverse Regulation 
OccipitalLobeAdultDonor1_CNhs11787_tpm_fwd OccipitalLobeAdultD1+ occipital lobe, adult, donor1_CNhs11787_10076-102A4_forward Regulation 
OccipitalCortexNewbornDonor10223_CNhs14073_tpm_rev OccipitalCortexNbD10223- occipital cortex, newborn, donor10223_CNhs14073_10355-105E4_reverse Regulation 
OccipitalCortexNewbornDonor10223_CNhs14073_tpm_fwd OccipitalCortexNbD10223+ occipital cortex, newborn, donor10223_CNhs14073_10355-105E4_forward Regulation 
OccipitalCortexAdultDonor10252_CNhs12320_tpm_rev OccipitalCortexAdultD10252- occipital cortex, adult, donor10252_CNhs12320_10163-103B1_reverse Regulation 
OccipitalCortexAdultDonor10252_CNhs12320_tpm_fwd OccipitalCortexAdultD10252+ occipital cortex, adult, donor10252_CNhs12320_10163-103B1_forward Regulation 
OccipitalCortexAdultDonor10196_CNhs13798_tpm_rev OccipitalCortexAdultD10196- occipital cortex - adult, donor10196_CNhs13798_10172-103C1_reverse Regulation 
OccipitalCortexAdultDonor10196_CNhs13798_tpm_fwd OccipitalCortexAdultD10196+ occipital cortex - adult, donor10196_CNhs13798_10172-103C1_forward Regulation 
NucleusAccumbensAdultPool1_CNhs10644_tpm_rev NucleusAccumbensAdultPl1- nucleus accumbens, adult, pool1_CNhs10644_10037-101F1_reverse Regulation 
NucleusAccumbensAdultPool1_CNhs10644_tpm_fwd NucleusAccumbensAdultPl1+ nucleus accumbens, adult, pool1_CNhs10644_10037-101F1_forward Regulation 
MedullaOblongataNewbornDonor10223_CNhs14079_tpm_rev MedullaOblongataNbD10223- medulla oblongata, newborn, donor10223_CNhs14079_10361-105F1_reverse Regulation 
MedullaOblongataNewbornDonor10223_CNhs14079_tpm_fwd MedullaOblongataNbD10223+ medulla oblongata, newborn, donor10223_CNhs14079_10361-105F1_forward Regulation 
MedullaOblongataAdultPool1_CNhs10645_tpm_rev MedullaOblongataAdultPl1- medulla oblongata, adult, pool1_CNhs10645_10038-101F2_reverse Regulation 
MedullaOblongataAdultPool1_CNhs10645_tpm_fwd MedullaOblongataAdultPl1+ medulla oblongata, adult, pool1_CNhs10645_10038-101F2_forward Regulation 
MedullaOblongataAdultDonor10252_CNhs12315_tpm_rev MedullaOblongataAdultD10252- medulla oblongata, adult, donor10252_CNhs12315_10155-103A2_reverse Regulation 
MedullaOblongataAdultDonor10252_CNhs12315_tpm_fwd MedullaOblongataAdultD10252+ medulla oblongata, adult, donor10252_CNhs12315_10155-103A2_forward Regulation 
MedullaOblongataAdultDonor10196_CNhs13800_tpm_rev MedullaOblongataAdultD10196- medulla oblongata - adult, donor10196_CNhs13800_10174-103C3_reverse Regulation 
MedullaOblongataAdultDonor10196_CNhs13800_tpm_fwd MedullaOblongataAdultD10196+ medulla oblongata - adult, donor10196_CNhs13800_10174-103C3_forward Regulation 
MedialTemporalGyrusNewbornDonor10223_CNhs14070_tpm_rev MedialTemporalGyrusNbD10223- medial temporal gyrus, newborn, donor10223_CNhs14070_10353-105E2_reverse Regulation 
MedialTemporalGyrusNewbornDonor10223_CNhs14070_tpm_fwd MedialTemporalGyrusNbD10223+ medial temporal gyrus, newborn, donor10223_CNhs14070_10353-105E2_forward Regulation 
MedialTemporalGyrusAdultDonor10258TechRep2_CNhs14552_tpm_rev MedialTemporalGyrusAdultD10258Tr2- medial temporal gyrus, adult, donor10258, tech_rep2_CNhs14552_10376-105G7_reverse Regulation 
MedialTemporalGyrusAdultDonor10258TechRep2_CNhs14552_tpm_fwd MedialTemporalGyrusAdultD10258Tr2+ medial temporal gyrus, adult, donor10258, tech_rep2_CNhs14552_10376-105G7_forward Regulation 
MedialTemporalGyrusAdultDonor10258TechRep1_CNhs14229_tpm_rev MedialTemporalGyrusAdultD10258Tr1- medial temporal gyrus, adult, donor10258, tech_rep1_CNhs14229_10376-105G7_reverse Regulation 
MedialTemporalGyrusAdultDonor10258TechRep1_CNhs14229_tpm_fwd MedialTemporalGyrusAdultD10258Tr1+ medial temporal gyrus, adult, donor10258, tech_rep1_CNhs14229_10376-105G7_forward Regulation 
MedialTemporalGyrusAdultDonor10252_CNhs12316_tpm_rev MedialTemporalGyrusAdultD10252- medial temporal gyrus, adult, donor10252_CNhs12316_10156-103A3_reverse Regulation 
MedialTemporalGyrusAdultDonor10252_CNhs12316_tpm_fwd MedialTemporalGyrusAdultD10252+ medial temporal gyrus, adult, donor10252_CNhs12316_10156-103A3_forward Regulation 
MedialTemporalGyrusAdultDonor10196_CNhs13809_tpm_rev MedialTemporalGyrusAdultD10196- medial temporal gyrus - adult, donor10196_CNhs13809_10183-103D3_reverse Regulation 
MedialTemporalGyrusAdultDonor10196_CNhs13809_tpm_fwd MedialTemporalGyrusAdultD10196+ medial temporal gyrus - adult, donor10196_CNhs13809_10183-103D3_forward Regulation 
MedialFrontalGyrusNewbornDonor10223_CNhs14069_tpm_rev MedialFrontalGyrusNbD10223- medial frontal gyrus, newborn, donor10223_CNhs14069_10352-105E1_reverse Regulation 
MedialFrontalGyrusNewbornDonor10223_CNhs14069_tpm_fwd MedialFrontalGyrusNbD10223+ medial frontal gyrus, newborn, donor10223_CNhs14069_10352-105E1_forward Regulation 
MedialFrontalGyrusAdultDonor10258_CNhs14221_tpm_rev MedialFrontalGyrusAdultD10258- medial frontal gyrus, adult, donor10258_CNhs14221_10368-105F8_reverse Regulation 
MedialFrontalGyrusAdultDonor10258_CNhs14221_tpm_fwd MedialFrontalGyrusAdultD10258+ medial frontal gyrus, adult, donor10258_CNhs14221_10368-105F8_forward Regulation 
MedialFrontalGyrusAdultDonor10252_CNhs12310_tpm_rev MedialFrontalGyrusAdultD10252- medial frontal gyrus, adult, donor10252_CNhs12310_10150-102I6_reverse Regulation 
MedialFrontalGyrusAdultDonor10252_CNhs12310_tpm_fwd MedialFrontalGyrusAdultD10252+ medial frontal gyrus, adult, donor10252_CNhs12310_10150-102I6_forward Regulation 
MedialFrontalGyrusAdultDonor10196_CNhs13796_tpm_rev MedialFrontalGyrusAdultD10196- medial frontal gyrus - adult, donor10196_CNhs13796_10170-103B8_reverse Regulation 
MedialFrontalGyrusAdultDonor10196_CNhs13796_tpm_fwd MedialFrontalGyrusAdultD10196+ medial frontal gyrus - adult, donor10196_CNhs13796_10170-103B8_forward Regulation 
LymphNodeAdultDonor1_CNhs11788_tpm_rev LymphNodeAdultD1- lymph node, adult, donor1_CNhs11788_10077-102A5_reverse Regulation 
LymphNodeAdultDonor1_CNhs11788_tpm_fwd LymphNodeAdultD1+ lymph node, adult, donor1_CNhs11788_10077-102A5_forward Regulation 
LungRightLowerLobeAdultDonor1_CNhs11786_tpm_rev LungRightLowerLobeAdultD1- lung, right lower lobe, adult, donor1_CNhs11786_10075-102A3_reverse Regulation 
LungRightLowerLobeAdultDonor1_CNhs11786_tpm_fwd LungRightLowerLobeAdultD1+ lung, right lower lobe, adult, donor1_CNhs11786_10075-102A3_forward Regulation 
LungFetalDonor1_CNhs11680_tpm_rev LungFetalD1- lung, fetal, donor1_CNhs11680_10068-101I5_reverse Regulation 
LungFetalDonor1_CNhs11680_tpm_fwd LungFetalD1+ lung, fetal, donor1_CNhs11680_10068-101I5_forward Regulation 
LungAdultPool1_CNhs10625_tpm_rev LungAdultPl1- lung, adult, pool1_CNhs10625_10019-101D1_reverse Regulation 
LungAdultPool1_CNhs10625_tpm_fwd LungAdultPl1+ lung, adult, pool1_CNhs10625_10019-101D1_forward Regulation 
LocusCoeruleusNewbornDonor10223_CNhs14080_tpm_rev LocusCoeruleusNbD10223- locus coeruleus, newborn, donor10223_CNhs14080_10362-105F2_reverse Regulation 
LocusCoeruleusNewbornDonor10223_CNhs14080_tpm_fwd LocusCoeruleusNbD10223+ locus coeruleus, newborn, donor10223_CNhs14080_10362-105F2_forward Regulation 
LocusCoeruleusAdultDonor10258_CNhs14550_tpm_rev LocusCoeruleusAdultD10258- locus coeruleus, adult, donor10258_CNhs14550_10375-105G6_reverse Regulation 
LocusCoeruleusAdultDonor10258_CNhs14550_tpm_fwd LocusCoeruleusAdultD10258+ locus coeruleus, adult, donor10258_CNhs14550_10375-105G6_forward Regulation 
LocusCoeruleusAdultDonor10252_CNhs12322_tpm_rev LocusCoeruleusAdultD10252- locus coeruleus, adult, donor10252_CNhs12322_10165-103B3_reverse Regulation 
LocusCoeruleusAdultDonor10252_CNhs12322_tpm_fwd LocusCoeruleusAdultD10252+ locus coeruleus, adult, donor10252_CNhs12322_10165-103B3_forward Regulation 
LocusCoeruleusAdultDonor10196_CNhs13808_tpm_rev LocusCoeruleusAdultD10196- locus coeruleus - adult, donor10196_CNhs13808_10182-103D2_reverse Regulation 
LocusCoeruleusAdultDonor10196_CNhs13808_tpm_fwd LocusCoeruleusAdultD10196+ locus coeruleus - adult, donor10196_CNhs13808_10182-103D2_forward Regulation 
LiverFetalPool1_CNhs11798_tpm_rev LiverFetalPl1- liver, fetal, pool1_CNhs11798_10086-102B5_reverse Regulation 
LiverFetalPool1_CNhs11798_tpm_fwd LiverFetalPl1+ liver, fetal, pool1_CNhs11798_10086-102B5_forward Regulation 
LiverAdultPool1_CNhs10624_tpm_rev LiverAdultPl1- liver, adult, pool1_CNhs10624_10018-101C9_reverse Regulation 
LiverAdultPool1_CNhs10624_tpm_fwd LiverAdultPl1+ liver, adult, pool1_CNhs10624_10018-101C9_forward Regulation 
LeftVentricleAdultDonor1_CNhs11789_tpm_rev LeftVentricleAdultD1- left ventricle, adult, donor1_CNhs11789_10078-102A6_reverse Regulation 
LeftVentricleAdultDonor1_CNhs11789_tpm_fwd LeftVentricleAdultD1+ left ventricle, adult, donor1_CNhs11789_10078-102A6_forward Regulation 
LeftAtriumAdultDonor1_CNhs11790_tpm_rev LeftAtriumAdultD1- left atrium, adult, donor1_CNhs11790_10079-102A7_reverse Regulation 
LeftAtriumAdultDonor1_CNhs11790_tpm_fwd LeftAtriumAdultD1+ left atrium, adult, donor1_CNhs11790_10079-102A7_forward Regulation 
KidneyFetalPool1_CNhs10652_tpm_rev KidneyFetalPl1- kidney, fetal, pool1_CNhs10652_10045-101F9_reverse Regulation 
KidneyFetalPool1_CNhs10652_tpm_fwd KidneyFetalPl1+ kidney, fetal, pool1_CNhs10652_10045-101F9_forward Regulation 
KidneyAdultPool1_CNhs10622_tpm_rev KidneyAdultPl1- kidney, adult, pool1_CNhs10622_10017-101C8_reverse Regulation 
KidneyAdultPool1_CNhs10622_tpm_fwd KidneyAdultPl1+ kidney, adult, pool1_CNhs10622_10017-101C8_forward Regulation 
InsulaAdultPool1_CNhs10646_tpm_rev InsulaAdultPl1- insula, adult, pool1_CNhs10646_10039-101F3_reverse Regulation 
InsulaAdultPool1_CNhs10646_tpm_fwd InsulaAdultPl1+ insula, adult, pool1_CNhs10646_10039-101F3_forward Regulation 
HippocampusNewbornDonor10223_CNhs14081_tpm_rev HippocampusNbD10223- hippocampus, newborn, donor10223_CNhs14081_10363-105F3_reverse Regulation 
HippocampusNewbornDonor10223_CNhs14081_tpm_fwd HippocampusNbD10223+ hippocampus, newborn, donor10223_CNhs14081_10363-105F3_forward Regulation 
HippocampusAdultDonor10258_CNhs14227_tpm_rev HippocampusAdultD10258- hippocampus, adult, donor10258_CNhs14227_10374-105G5_reverse Regulation 
HippocampusAdultDonor10258_CNhs14227_tpm_fwd HippocampusAdultD10258+ hippocampus, adult, donor10258_CNhs14227_10374-105G5_forward Regulation 
HippocampusAdultDonor10252_CNhs12312_tpm_rev HippocampusAdultD10252- hippocampus, adult, donor10252_CNhs12312_10153-102I9_reverse Regulation 
HippocampusAdultDonor10252_CNhs12312_tpm_fwd HippocampusAdultD10252+ hippocampus, adult, donor10252_CNhs12312_10153-102I9_forward Regulation 
HippocampusAdultDonor10196_CNhs13795_tpm_rev HippocampusAdultD10196- hippocampus - adult, donor10196_CNhs13795_10169-103B7_reverse Regulation 
HippocampusAdultDonor10196_CNhs13795_tpm_fwd HippocampusAdultD10196+ hippocampus - adult, donor10196_CNhs13795_10169-103B7_forward Regulation 
HeartTricuspidValveAdult_CNhs12857_tpm_rev HeartTricuspidValveAdult- heart - tricuspid valve, adult_CNhs12857_10207-103F9_reverse Regulation 
HeartTricuspidValveAdult_CNhs12857_tpm_fwd HeartTricuspidValveAdult+ heart - tricuspid valve, adult_CNhs12857_10207-103F9_forward Regulation 
HeartPulmonicValveAdult_CNhs12856_tpm_rev HeartPulmonicValveAdult- heart - pulmonic valve, adult_CNhs12856_10206-103F8_reverse Regulation 
HeartPulmonicValveAdult_CNhs12856_tpm_fwd HeartPulmonicValveAdult+ heart - pulmonic valve, adult_CNhs12856_10206-103F8_forward Regulation 
HeartMitralValveAdult_CNhs12855_tpm_rev HeartMitralValveAdult- heart - mitral valve, adult_CNhs12855_10205-103F7_reverse Regulation 
HeartMitralValveAdult_CNhs12855_tpm_fwd HeartMitralValveAdult+ heart - mitral valve, adult_CNhs12855_10205-103F7_forward Regulation 
HeartFetalPool1_CNhs10653_tpm_rev HeartFetalPl1- heart, fetal, pool1_CNhs10653_10046-101G1_reverse Regulation 
HeartFetalPool1_CNhs10653_tpm_fwd HeartFetalPl1+ heart, fetal, pool1_CNhs10653_10046-101G1_forward Regulation 
HeartAdultPool1_CNhs10621_tpm_rev HeartAdultPl1- heart, adult, pool1_CNhs10621_10016-101C7_reverse Regulation 
HeartAdultPool1_CNhs10621_tpm_fwd HeartAdultPl1+ heart, adult, pool1_CNhs10621_10016-101C7_forward Regulation 
HeartAdultDiseasedPostinfarctionDonor1_CNhs11757_tpm_rev HeartAdultDiseasedPost-infarctionD1- heart, adult, diseased post-infarction, donor1_CNhs11757_10050-101G5_reverse Regulation 
HeartAdultDiseasedPostinfarctionDonor1_CNhs11757_tpm_fwd HeartAdultDiseasedPost-infarctionD1+ heart, adult, diseased post-infarction, donor1_CNhs11757_10050-101G5_forward Regulation 
HeartAdultDiseasedDonor1_CNhs11758_tpm_rev HeartAdultDiseasedD1- heart, adult, diseased, donor1_CNhs11758_10051-101G6_reverse Regulation 
HeartAdultDiseasedDonor1_CNhs11758_tpm_fwd HeartAdultDiseasedD1+ heart, adult, diseased, donor1_CNhs11758_10051-101G6_forward Regulation 
GlobusPallidusNewbornDonor10223_CNhs14082_tpm_rev GlobusPallidusNbD10223- globus pallidus, newborn, donor10223_CNhs14082_10364-105F4_reverse Regulation 
GlobusPallidusNewbornDonor10223_CNhs14082_tpm_fwd GlobusPallidusNbD10223+ globus pallidus, newborn, donor10223_CNhs14082_10364-105F4_forward Regulation 
GlobusPallidusAdultDonor10258_CNhs14549_tpm_rev GlobusPallidusAdultD10258- globus pallidus, adult, donor10258_CNhs14549_10367-105F7_reverse Regulation 
GlobusPallidusAdultDonor10258_CNhs14549_tpm_fwd GlobusPallidusAdultD10258+ globus pallidus, adult, donor10258_CNhs14549_10367-105F7_forward Regulation 
GlobusPallidusAdultDonor10252_CNhs12319_tpm_rev GlobusPallidusAdultD10252- globus pallidus, adult, donor10252_CNhs12319_10161-103A8_reverse Regulation 
GlobusPallidusAdultDonor10252_CNhs12319_tpm_fwd GlobusPallidusAdultD10252+ globus pallidus, adult, donor10252_CNhs12319_10161-103A8_forward Regulation 
GlobusPallidusAdultDonor10196_CNhs13801_tpm_rev GlobusPallidusAdultD10196- globus pallidus - adult, donor10196_CNhs13801_10175-103C4_reverse Regulation 
GlobusPallidusAdultDonor10196_CNhs13801_tpm_fwd GlobusPallidusAdultD10196+ globus pallidus - adult, donor10196_CNhs13801_10175-103C4_forward Regulation 
GallBladderAdult_CNhs12848_tpm_rev GallBladderAdult- gall bladder, adult_CNhs12848_10198-103E9_reverse Regulation 
GallBladderAdult_CNhs12848_tpm_fwd GallBladderAdult+ gall bladder, adult_CNhs12848_10198-103E9_forward Regulation 
FrontalLobeAdultPool1_CNhs10647_tpm_rev FrontalLobeAdultPl1- frontal lobe, adult, pool1_CNhs10647_10040-101F4_reverse Regulation 
FrontalLobeAdultPool1_CNhs10647_tpm_fwd FrontalLobeAdultPl1+ frontal lobe, adult, pool1_CNhs10647_10040-101F4_forward Regulation 
FingernailIncludingNailPlateEponychiumAndHyponychiumDonor2_CNhs13445_tpm_rev FingernailD2- Fingernail (including nail plate, eponychium and hyponychium), donor2_CNhs13445_10301-104H4_reverse Regulation 
FingernailIncludingNailPlateEponychiumAndHyponychiumDonor2_CNhs13445_tpm_fwd FingernailD2+ Fingernail (including nail plate, eponychium and hyponychium), donor2_CNhs13445_10301-104H4_forward Regulation 
EyeVitreousHumorDonor1_CNhs13440_tpm_rev EyeVitreousHumorD1- eye - vitreous humor, donor1_CNhs13440_10268-104D7_reverse Regulation 
EyeVitreousHumorDonor1_CNhs13440_tpm_fwd EyeVitreousHumorD1+ eye - vitreous humor, donor1_CNhs13440_10268-104D7_forward Regulation 
EyeMuscleSuperiorDonor2_CNhs13441_tpm_rev EyeMuscleSuperiorD2- eye - muscle superior, donor2_CNhs13441_10297-104G9_reverse Regulation 
EyeMuscleSuperiorDonor2_CNhs13441_tpm_fwd EyeMuscleSuperiorD2+ eye - muscle superior, donor2_CNhs13441_10297-104G9_forward Regulation 
EyeMuscleMedialDonor2_CNhs13443_tpm_rev EyeMuscleMedialD2- eye - muscle medial, donor2_CNhs13443_10299-104H2_reverse Regulation 
EyeMuscleMedialDonor2_CNhs13443_tpm_fwd EyeMuscleMedialD2+ eye - muscle medial, donor2_CNhs13443_10299-104H2_forward Regulation 
EyeMuscleLateralDonor2_CNhs13442_tpm_rev EyeMuscleLateralD2- eye - muscle lateral, donor2_CNhs13442_10298-104H1_reverse Regulation 
EyeMuscleLateralDonor2_CNhs13442_tpm_fwd EyeMuscleLateralD2+ eye - muscle lateral, donor2_CNhs13442_10298-104H1_forward Regulation 
EyeMuscleInferiorRectusDonor1_CNhs13444_tpm_rev EyeMuscleInferiorRectusD1- eye - muscle inferior rectus, donor1_CNhs13444_10272-104E2_reverse Regulation 
EyeMuscleInferiorRectusDonor1_CNhs13444_tpm_fwd EyeMuscleInferiorRectusD1+ eye - muscle inferior rectus, donor1_CNhs13444_10272-104E2_forward Regulation 
EyeFetalDonor1_CNhs11762_tpm_rev EyeFetalD1- eye, fetal, donor1_CNhs11762_10054-101G9_reverse Regulation 
EyeFetalDonor1_CNhs11762_tpm_fwd EyeFetalD1+ eye, fetal, donor1_CNhs11762_10054-101G9_forward Regulation 
EsophagusAdultPool1_CNhs10620_tpm_rev EsophagusAdultPl1- esophagus, adult, pool1_CNhs10620_10015-101C6_reverse Regulation 
EsophagusAdultPool1_CNhs10620_tpm_fwd EsophagusAdultPl1+ esophagus, adult, pool1_CNhs10620_10015-101C6_forward Regulation 
EpididymisAdult_CNhs12847_tpm_rev EpididymisAdult- epididymis, adult_CNhs12847_10197-103E8_reverse Regulation 
EpididymisAdult_CNhs12847_tpm_fwd EpididymisAdult+ epididymis, adult_CNhs12847_10197-103E8_forward Regulation 
DuraMaterAdultDonor1_CNhs10648_tpm_rev DuraMaterAdultD1- dura mater, adult, donor1_CNhs10648_10041-101F5_reverse Regulation 
DuraMaterAdultDonor1_CNhs10648_tpm_fwd DuraMaterAdultD1+ dura mater, adult, donor1_CNhs10648_10041-101F5_forward Regulation 
DuodenumFetalDonor1TechRep2_CNhs12997_tpm_rev DuodenumFetalD1Tr2- duodenum, fetal, donor1, tech_rep2_CNhs12997_10071-101I8_reverse Regulation 
DuodenumFetalDonor1TechRep2_CNhs12997_tpm_fwd DuodenumFetalD1Tr2+ duodenum, fetal, donor1, tech_rep2_CNhs12997_10071-101I8_forward Regulation 
DuodenumFetalDonor1TechRep1_CNhs11781_tpm_rev DuodenumFetalD1Tr1- duodenum, fetal, donor1, tech_rep1_CNhs11781_10071-101I8_reverse Regulation 
DuodenumFetalDonor1TechRep1_CNhs11781_tpm_fwd DuodenumFetalD1Tr1+ duodenum, fetal, donor1, tech_rep1_CNhs11781_10071-101I8_forward Regulation 
DuctusDeferensAdult_CNhs12846_tpm_rev DuctusDeferensAdult- ductus deferens, adult_CNhs12846_10196-103E7_reverse Regulation 
DuctusDeferensAdult_CNhs12846_tpm_fwd DuctusDeferensAdult+ ductus deferens, adult_CNhs12846_10196-103E7_forward Regulation 
DiencephalonAdult_CNhs12610_tpm_rev DiencephalonAdult- diencephalon, adult_CNhs12610_10193-103E4_reverse Regulation 
DiencephalonAdult_CNhs12610_tpm_fwd DiencephalonAdult+ diencephalon, adult_CNhs12610_10193-103E4_forward Regulation 
DiaphragmFetalDonor1_CNhs11779_tpm_rev DiaphragmFetalD1- diaphragm, fetal, donor1_CNhs11779_10069-101I6_reverse Regulation 
DiaphragmFetalDonor1_CNhs11779_tpm_fwd DiaphragmFetalD1+ diaphragm, fetal, donor1_CNhs11779_10069-101I6_forward Regulation 
CruciateLigamentDonor2_CNhs13439_tpm_rev CruciateLigamentD2- cruciate ligament, donor2_CNhs13439_10295-104G7_reverse Regulation 
CruciateLigamentDonor2_CNhs13439_tpm_fwd CruciateLigamentD2+ cruciate ligament, donor2_CNhs13439_10295-104G7_forward Regulation 
CorpusCallosumAdultPool1_CNhs10649_tpm_rev CorpusCallosumAdultPl1- corpus callosum, adult, pool1_CNhs10649_10042-101F6_reverse Regulation 
CorpusCallosumAdultPool1_CNhs10649_tpm_fwd CorpusCallosumAdultPl1+ corpus callosum, adult, pool1_CNhs10649_10042-101F6_forward Regulation 
ColonFetalDonor1_CNhs11780_tpm_rev ColonFetalD1- colon, fetal, donor1_CNhs11780_10070-101I7_reverse Regulation 
ColonFetalDonor1_CNhs11780_tpm_fwd ColonFetalD1+ colon, fetal, donor1_CNhs11780_10070-101I7_forward Regulation 
ColonAdultPool1_CNhs10619_tpm_rev ColonAdultPl1- colon, adult, pool1_CNhs10619_10014-101C5_reverse Regulation 
ColonAdultPool1_CNhs10619_tpm_fwd ColonAdultPl1+ colon, adult, pool1_CNhs10619_10014-101C5_forward Regulation 
ColonAdultDonor1_CNhs11794_tpm_rev ColonAdultD1- colon, adult, donor1_CNhs11794_10082-102B1_reverse Regulation 
ColonAdultDonor1_CNhs11794_tpm_fwd ColonAdultD1+ colon, adult, donor1_CNhs11794_10082-102B1_forward Regulation 
ClontechHumanUniversalReferenceTotalRNAPool1_CNhs10608_tpm_rev ClontechUniversalReferencePl1- Clontech Human Universal Reference Total RNA, pool1_CNhs10608_10000-101A1_reverse Regulation 
ClontechHumanUniversalReferenceTotalRNAPool1_CNhs10608_tpm_fwd ClontechUniversalReferencePl1+ Clontech Human Universal Reference Total RNA, pool1_CNhs10608_10000-101A1_forward Regulation 
CervixAdultPool1_CNhs10618_tpm_rev CervixAdultPl1- cervix, adult, pool1_CNhs10618_10013-101C4_reverse Regulation 
CervixAdultPool1_CNhs10618_tpm_fwd CervixAdultPl1+ cervix, adult, pool1_CNhs10618_10013-101C4_forward Regulation 
CerebrospinalFluidDonor2_CNhs13437_tpm_rev CerebrospinalFluidD2- cerebrospinal fluid, donor2_CNhs13437_10294-104G6_reverse Regulation 
CerebrospinalFluidDonor2_CNhs13437_tpm_fwd CerebrospinalFluidD2+ cerebrospinal fluid, donor2_CNhs13437_10294-104G6_forward Regulation 
CerebralMeningesAdult_CNhs12840_tpm_rev CerebralMeningesAdult- cerebral meninges, adult_CNhs12840_10188-103D8_reverse Regulation 
CerebralMeningesAdult_CNhs12840_tpm_fwd CerebralMeningesAdult+ cerebral meninges, adult_CNhs12840_10188-103D8_forward Regulation 
CerebellumNewbornDonor10223_CNhs14075_tpm_rev CerebellumNbD10223- cerebellum, newborn, donor10223_CNhs14075_10357-105E6_reverse Regulation 
CerebellumNewbornDonor10223_CNhs14075_tpm_fwd CerebellumNbD10223+ cerebellum, newborn, donor10223_CNhs14075_10357-105E6_forward Regulation 
CerebellumAdultPool1_CNhs11795_tpm_rev CerebellumAdultPl1- cerebellum, adult, pool1_CNhs11795_10083-102B2_reverse Regulation 
CerebellumAdultPool1_CNhs11795_tpm_fwd CerebellumAdultPl1+ cerebellum, adult, pool1_CNhs11795_10083-102B2_forward Regulation 
CerebellumAdultDonor10252_CNhs12323_tpm_rev CerebellumAdultD10252- cerebellum, adult, donor10252_CNhs12323_10166-103B4_reverse Regulation 
CerebellumAdultDonor10252_CNhs12323_tpm_fwd CerebellumAdultD10252+ cerebellum, adult, donor10252_CNhs12323_10166-103B4_forward Regulation 
CerebellumAdultDonor10196_CNhs13799_tpm_rev CerebellumAdultD10196- cerebellum - adult, donor10196_CNhs13799_10173-103C2_reverse Regulation 
CerebellumAdultDonor10196_CNhs13799_tpm_fwd CerebellumAdultD10196+ cerebellum - adult, donor10196_CNhs13799_10173-103C2_forward Regulation 
CaudateNucleusNewbornDonor10223_CNhs14071_tpm_rev CaudateNucleusNbD10223- caudate nucleus, newborn, donor10223_CNhs14071_10354-105E3_reverse Regulation 
CaudateNucleusNewbornDonor10223_CNhs14071_tpm_fwd CaudateNucleusNbD10223+ caudate nucleus, newborn, donor10223_CNhs14071_10354-105E3_forward Regulation 
CaudateNucleusAdultDonor10258_CNhs14232_tpm_rev CaudateNucleusAdultD10258- caudate nucleus, adult, donor10258_CNhs14232_10379-105H1_reverse Regulation 
CaudateNucleusAdultDonor10258_CNhs14232_tpm_fwd CaudateNucleusAdultD10258+ caudate nucleus, adult, donor10258_CNhs14232_10379-105H1_forward Regulation 
CaudateNucleusAdultDonor10252_CNhs12321_tpm_rev CaudateNucleusAdultD10252- caudate nucleus, adult, donor10252_CNhs12321_10164-103B2_reverse Regulation 
CaudateNucleusAdultDonor10252_CNhs12321_tpm_fwd CaudateNucleusAdultD10252+ caudate nucleus, adult, donor10252_CNhs12321_10164-103B2_forward Regulation 
CaudateNucleusAdultDonor10196_CNhs13802_tpm_rev CaudateNucleusAdultD10196- caudate nucleus - adult, donor10196_CNhs13802_10177-103C6_reverse Regulation 
CaudateNucleusAdultDonor10196_CNhs13802_tpm_fwd CaudateNucleusAdultD10196+ caudate nucleus - adult, donor10196_CNhs13802_10177-103C6_forward Regulation 
BreastAdultDonor1_CNhs11792_tpm_rev BreastAdultD1- breast, adult, donor1_CNhs11792_10080-102A8_reverse Regulation 
BreastAdultDonor1_CNhs11792_tpm_fwd BreastAdultD1+ breast, adult, donor1_CNhs11792_10080-102A8_forward Regulation 
BrainFetalPool1_CNhs11797_tpm_rev BrainFetalPl1- brain, fetal, pool1_CNhs11797_10085-102B4_reverse Regulation 
BrainFetalPool1_CNhs11797_tpm_fwd BrainFetalPl1+ brain, fetal, pool1_CNhs11797_10085-102B4_forward Regulation 
BrainAdultPool1_CNhs10617_tpm_rev BrainAdultPl1- brain, adult, pool1_CNhs10617_10012-101C3_reverse Regulation 
BrainAdultPool1_CNhs10617_tpm_fwd BrainAdultPl1+ brain, adult, pool1_CNhs10617_10012-101C3_forward Regulation 
BrainAdultDonor1_CNhs11796_tpm_rev BrainAdultD1- brain, adult, donor1_CNhs11796_10084-102B3_reverse Regulation 
BrainAdultDonor1_CNhs11796_tpm_fwd BrainAdultD1+ brain, adult, donor1_CNhs11796_10084-102B3_forward Regulation 
BoneMarrowAdult_CNhs12845_tpm_rev BoneMarrowAdult- bone marrow, adult_CNhs12845_10192-103E3_reverse Regulation 
BoneMarrowAdult_CNhs12845_tpm_fwd BoneMarrowAdult+ bone marrow, adult_CNhs12845_10192-103E3_forward Regulation 
BloodAdultPool1_CNhs11761_tpm_rev BloodAdultPl1- blood, adult, pool1_CNhs11761_10053-101G8_reverse Regulation 
BloodAdultPool1_CNhs11761_tpm_fwd BloodAdultPl1+ blood, adult, pool1_CNhs11761_10053-101G8_forward Regulation 
BladderAdultPool1_CNhs10616_tpm_rev BladderAdultPl1- bladder, adult, pool1_CNhs10616_10011-101C2_reverse Regulation 
BladderAdultPool1_CNhs10616_tpm_fwd BladderAdultPl1+ bladder, adult, pool1_CNhs10616_10011-101C2_forward Regulation 
ArteryAdult_CNhs12843_tpm_rev ArteryAdult- artery, adult_CNhs12843_10190-103E1_reverse Regulation 
ArteryAdult_CNhs12843_tpm_fwd ArteryAdult+ artery, adult_CNhs12843_10190-103E1_forward Regulation 
AppendixAdult_CNhs12842_tpm_rev AppendixAdult- appendix, adult_CNhs12842_10189-103D9_reverse Regulation 
AppendixAdult_CNhs12842_tpm_fwd AppendixAdult+ appendix, adult_CNhs12842_10189-103D9_forward Regulation 
AortaAdultPool1_CNhs11760_tpm_rev AortaAdultPl1- aorta, adult, pool1_CNhs11760_10052-101G7_reverse Regulation 
AortaAdultPool1_CNhs11760_tpm_fwd AortaAdultPl1+ aorta, adult, pool1_CNhs11760_10052-101G7_forward Regulation 
AmygdalaNewbornDonor10223_CNhs14078_tpm_rev AmygdalaNbD1D10223- amygdala, newborn, donor10223_CNhs14078_10360-105E9_reverse Regulation 
AmygdalaNewbornDonor10223_CNhs14078_tpm_fwd AmygdalaNbD1D10223+ amygdala, newborn, donor10223_CNhs14078_10360-105E9_forward Regulation 
AmygdalaAdultDonor10252_CNhs12311_tpm_rev AmygdalaAdultD10252- amygdala, adult, donor10252_CNhs12311_10151-102I7_reverse Regulation 
AmygdalaAdultDonor10252_CNhs12311_tpm_fwd AmygdalaAdultD10252+ amygdala, adult, donor10252_CNhs12311_10151-102I7_forward Regulation 
AmygdalaAdultDonor10196_CNhs13793_tpm_rev AmygdalaAdultD10196- amygdala - adult, donor10196_CNhs13793_10167-103B5_reverse Regulation 
AmygdalaAdultDonor10196_CNhs13793_tpm_fwd AmygdalaAdultD10196+ amygdala - adult, donor10196_CNhs13793_10167-103B5_forward Regulation 
AdrenalGlandAdultPool1_CNhs11793_tpm_rev AdrenalGlandAdultPl1- adrenal gland, adult, pool1_CNhs11793_10081-102A9_reverse Regulation 
AdrenalGlandAdultPool1_CNhs11793_tpm_fwd AdrenalGlandAdultPl1+ adrenal gland, adult, pool1_CNhs11793_10081-102A9_forward Regulation 
AdiposeTissueAdultPool1_CNhs10615_tpm_rev AdiposeTissueAdultPl1- adipose tissue, adult, pool1_CNhs10615_10010-101C1_reverse Regulation 
AdiposeTissueAdultPool1_CNhs10615_tpm_fwd AdiposeTissueAdultPl1+ adipose tissue, adult, pool1_CNhs10615_10010-101C1_forward Regulation 
AdiposeDonor4_CNhs13975_tpm_rev AdiposeD4- adipose, donor4_CNhs13975_10187-103D7_reverse Regulation 
AdiposeDonor4_CNhs13975_tpm_fwd AdiposeD4+ adipose, donor4_CNhs13975_10187-103D7_forward Regulation 
AdiposeDonor3_CNhs13974_tpm_rev AdiposeD3- adipose, donor3_CNhs13974_10186-103D6_reverse Regulation 
AdiposeDonor3_CNhs13974_tpm_fwd AdiposeD3+ adipose, donor3_CNhs13974_10186-103D6_forward Regulation 
AdiposeDonor2_CNhs13973_tpm_rev AdiposeD2- adipose, donor2_CNhs13973_10185-103D5_reverse Regulation 
AdiposeDonor2_CNhs13973_tpm_fwd AdiposeD2+ adipose, donor2_CNhs13973_10185-103D5_forward Regulation 
AdiposeDonor1_CNhs13972_tpm_rev AdiposeD1- adipose, donor1_CNhs13972_10184-103D4_reverse Regulation 
AdiposeDonor1_CNhs13972_tpm_fwd AdiposeD1+ adipose, donor1_CNhs13972_10184-103D4_forward Regulation 
AchillesTendonDonor2_CNhs13435_tpm_rev AchillesTendonD2- achilles tendon, donor2_CNhs13435_10292-104G4_reverse Regulation 
AchillesTendonDonor2_CNhs13435_tpm_fwd AchillesTendonD2+ achilles tendon, donor2_CNhs13435_10292-104G4_forward Regulation 
Saos2OsteosarcomaCellLineUntreatedControlDay28BiolRep3B3T17_CNhs14196_tpm_rev Tc:Saos-2Untreated_Day28Br3- Saos-2 osteosarcoma cell line, untreated control, day28, biol_rep3 (B3 T17)_CNhs14196_12893-137H4_reverse Regulation 
Saos2OsteosarcomaCellLineUntreatedControlDay28BiolRep3B3T17_CNhs14196_tpm_fwd Tc:Saos-2Untreated_Day28Br3+ Saos-2 osteosarcoma cell line, untreated control, day28, biol_rep3 (B3 T17)_CNhs14196_12893-137H4_forward Regulation 
Saos2OsteosarcomaCellLineUntreatedControlDay28BiolRep2B2T17_CNhs14195_tpm_rev Tc:Saos-2Untreated_Day28Br2- Saos-2 osteosarcoma cell line, untreated control, day28, biol_rep2 (B2 T17)_CNhs14195_12795-136F5_reverse Regulation 
Saos2OsteosarcomaCellLineUntreatedControlDay28BiolRep2B2T17_CNhs14195_tpm_fwd Tc:Saos-2Untreated_Day28Br2+ Saos-2 osteosarcoma cell line, untreated control, day28, biol_rep2 (B2 T17)_CNhs14195_12795-136F5_forward Regulation 
Saos2OsteosarcomaCellLineUntreatedControlDay28BiolRep1B1T17_CNhs14194_tpm_rev Tc:Saos-2Untreated_Day28Br1- Saos-2 osteosarcoma cell line, untreated control, day28, biol_rep1 (B1 T17)_CNhs14194_12697-135D6_reverse Regulation 
Saos2OsteosarcomaCellLineUntreatedControlDay28BiolRep1B1T17_CNhs14194_tpm_fwd Tc:Saos-2Untreated_Day28Br1+ Saos-2 osteosarcoma cell line, untreated control, day28, biol_rep1 (B1 T17)_CNhs14194_12697-135D6_forward Regulation 
MesenchymalStemCellsAdiposeDerivedUndifferentiatedControlBiolRep3_CNhs13634_tpm_rev Tc:MscToAdiposeUndiffBr3- mesenchymal stem cells (adipose derived), undifferentiated control, biol_rep3_CNhs13634_13282-142F6_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedUndifferentiatedControlBiolRep3_CNhs13634_tpm_fwd Tc:MscToAdiposeUndiffBr3+ mesenchymal stem cells (adipose derived), undifferentiated control, biol_rep3_CNhs13634_13282-142F6_forward Regulation 
MesenchymalStemCellsAdiposeDerivedUndifferentiatedControlBiolRep2_CNhs13633_tpm_rev Tc:MscToAdiposeUndiffBr2- mesenchymal stem cells (adipose derived), undifferentiated control, biol_rep2_CNhs13633_13281-142F5_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedUndifferentiatedControlBiolRep2_CNhs13633_tpm_fwd Tc:MscToAdiposeUndiffBr2+ mesenchymal stem cells (adipose derived), undifferentiated control, biol_rep2_CNhs13633_13281-142F5_forward Regulation 
MesenchymalStemCellsAdiposeDerivedUndifferentiatedControlBiolRep1_CNhs13692_tpm_rev Tc:MscToAdiposeUndiffBr1- mesenchymal stem cells (adipose derived), undifferentiated control, biol_rep1_CNhs13692_13280-142F4_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedUndifferentiatedControlBiolRep1_CNhs13692_tpm_fwd Tc:MscToAdiposeUndiffBr1+ mesenchymal stem cells (adipose derived), undifferentiated control, biol_rep1_CNhs13692_13280-142F4_forward Regulation 
MonocytederivedMacrophagesResponseToMockInfluenzaInfection00hr00minDonor1868_121MI_0h_CNhs13637_tpm_rev Tc:MdmToMock_00hr00minD1- Monocyte-derived macrophages response to mock influenza infection, 00hr00min, donor1 (868_121:MI_0h)_CNhs13637_13304-142I1_reverse Regulation 
MonocytederivedMacrophagesResponseToMockInfluenzaInfection00hr00minDonor1868_121MI_0h_CNhs13637_tpm_fwd Tc:MdmToMock_00hr00minD1+ Monocyte-derived macrophages response to mock influenza infection, 00hr00min, donor1 (868_121:MI_0h)_CNhs13637_13304-142I1_forward Regulation 
MonocytederivedMacrophagesResponseToLPS16hrDonor1T20Subject1_CNhs12930_tpm_rev Tc:MdmToLps_16hrD1- Monocyte-derived macrophages response to LPS, 16hr, donor1 (t20 Subject1)_CNhs12930_12717-135F8_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS16hrDonor1T20Subject1_CNhs12930_tpm_fwd Tc:MdmToLps_16hrD1+ Monocyte-derived macrophages response to LPS, 16hr, donor1 (t20 Subject1)_CNhs12930_12717-135F8_forward Regulation 
MonocytederivedMacrophagesResponseToLPS10hrDonor1T17Subject1_CNhs12928_tpm_rev Tc:MdmToLps_10hrD1- Monocyte-derived macrophages response to LPS, 10hr, donor1 (t17 Subject1)_CNhs12928_12714-135F5_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS10hrDonor1T17Subject1_CNhs12928_tpm_fwd Tc:MdmToLps_10hrD1+ Monocyte-derived macrophages response to LPS, 10hr, donor1 (t17 Subject1)_CNhs12928_12714-135F5_forward Regulation 
MonocytederivedMacrophagesResponseToLPS07hrDonor3T15Subject3_CNhs13325_tpm_rev Tc:MdmToLps_07hrD3- Monocyte-derived macrophages response to LPS, 07hr, donor3 (t15 Subject3)_CNhs13325_12908-138A1_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS07hrDonor3T15Subject3_CNhs13325_tpm_fwd Tc:MdmToLps_07hrD3+ Monocyte-derived macrophages response to LPS, 07hr, donor3 (t15 Subject3)_CNhs13325_12908-138A1_forward Regulation 
MonocytederivedMacrophagesResponseToLPS07hrDonor2T15Subject2_CNhs13394_tpm_rev Tc:MdmToLps_07hrD2- Monocyte-derived macrophages response to LPS, 07hr, donor2 (t15 Subject2)_CNhs13394_12810-136H2_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS07hrDonor2T15Subject2_CNhs13394_tpm_fwd Tc:MdmToLps_07hrD2+ Monocyte-derived macrophages response to LPS, 07hr, donor2 (t15 Subject2)_CNhs13394_12810-136H2_forward Regulation 
MonocytederivedMacrophagesResponseToLPS07hrDonor1T15Subject1_CNhs12926_tpm_rev Tc:MdmToLps_07hrD1- Monocyte-derived macrophages response to LPS, 07hr, donor1 (t15 Subject1)_CNhs12926_12712-135F3_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS07hrDonor1T15Subject1_CNhs12926_tpm_fwd Tc:MdmToLps_07hrD1+ Monocyte-derived macrophages response to LPS, 07hr, donor1 (t15 Subject1)_CNhs12926_12712-135F3_forward Regulation 
MonocytederivedMacrophagesResponseToLPS06hrDonor3T14Subject3_CNhs13187_tpm_rev Tc:MdmToLps_06hrD3- Monocyte-derived macrophages response to LPS, 06hr, donor3 (t14 Subject3)_CNhs13187_12907-137I9_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS06hrDonor3T14Subject3_CNhs13187_tpm_fwd Tc:MdmToLps_06hrD3+ Monocyte-derived macrophages response to LPS, 06hr, donor3 (t14 Subject3)_CNhs13187_12907-137I9_forward Regulation 
MonocytederivedMacrophagesResponseToLPS06hrDonor2T14Subject2_CNhs13393_tpm_rev Tc:MdmToLps_06hrD2- Monocyte-derived macrophages response to LPS, 06hr, donor2 (t14 Subject2)_CNhs13393_12809-136H1_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS06hrDonor2T14Subject2_CNhs13393_tpm_fwd Tc:MdmToLps_06hrD2+ Monocyte-derived macrophages response to LPS, 06hr, donor2 (t14 Subject2)_CNhs13393_12809-136H1_forward Regulation 
MonocytederivedMacrophagesResponseToLPS06hrDonor1T14Subject1_CNhs12925_tpm_rev Tc:MdmToLps_06hrD1- Monocyte-derived macrophages response to LPS, 06hr, donor1 (t14 Subject1)_CNhs12925_12711-135F2_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS06hrDonor1T14Subject1_CNhs12925_tpm_fwd Tc:MdmToLps_06hrD1+ Monocyte-derived macrophages response to LPS, 06hr, donor1 (t14 Subject1)_CNhs12925_12711-135F2_forward Regulation 
MonocytederivedMacrophagesResponseToLPS04hrDonor1T12Subject1_CNhs13154_tpm_rev Tc:MdmToLps_04hrD1- Monocyte-derived macrophages response to LPS, 04hr, donor1 (t12 Subject1)_CNhs13154_12709-135E9_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS04hrDonor1T12Subject1_CNhs13154_tpm_fwd Tc:MdmToLps_04hrD1+ Monocyte-derived macrophages response to LPS, 04hr, donor1 (t12 Subject1)_CNhs13154_12709-135E9_forward Regulation 
MonocytederivedMacrophagesResponseToLPS03hr30minDonor1T11Subject1_CNhs13153_tpm_rev Tc:MdmToLps_03hr30minD1- Monocyte-derived macrophages response to LPS, 03hr30min, donor1 (t11 Subject1)_CNhs13153_12708-135E8_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS03hr30minDonor1T11Subject1_CNhs13153_tpm_fwd Tc:MdmToLps_03hr30minD1+ Monocyte-derived macrophages response to LPS, 03hr30min, donor1 (t11 Subject1)_CNhs13153_12708-135E8_forward Regulation 
MonocytederivedMacrophagesResponseToLPS02hr00minDonor1T8Subject1_CNhs13151_tpm_rev Tc:MdmToLps_02hr00minD1- Monocyte-derived macrophages response to LPS, 02hr00min, donor1 (t8 Subject1)_CNhs13151_12705-135E5_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS02hr00minDonor1T8Subject1_CNhs13151_tpm_fwd Tc:MdmToLps_02hr00minD1+ Monocyte-derived macrophages response to LPS, 02hr00min, donor1 (t8 Subject1)_CNhs13151_12705-135E5_forward Regulation 
MonocytederivedMacrophagesResponseToLPS01hr40minDonor3T7Subject3_CNhs13180_tpm_rev Tc:MdmToLps_01hr40minD3- Monocyte-derived macrophages response to LPS, 01hr40min, donor3 (t7 Subject3)_CNhs13180_12900-137I2_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS01hr40minDonor3T7Subject3_CNhs13180_tpm_fwd Tc:MdmToLps_01hr40minD3+ Monocyte-derived macrophages response to LPS, 01hr40min, donor3 (t7 Subject3)_CNhs13180_12900-137I2_forward Regulation 
MonocytederivedMacrophagesResponseToLPS01hr40minDonor2T7Subject2_CNhs13385_tpm_rev Tc:MdmToLps_01hr40minD2- Monocyte-derived macrophages response to LPS, 01hr40min, donor2 (t7 Subject2)_CNhs13385_12802-136G3_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS01hr40minDonor2T7Subject2_CNhs13385_tpm_fwd Tc:MdmToLps_01hr40minD2+ Monocyte-derived macrophages response to LPS, 01hr40min, donor2 (t7 Subject2)_CNhs13385_12802-136G3_forward Regulation 
MonocytederivedMacrophagesResponseToLPS01hr40minDonor1T7Subject1_CNhs13150_tpm_rev Tc:MdmToLps_01hr40minD1- Monocyte-derived macrophages response to LPS, 01hr40min, donor1 (t7 Subject1)_CNhs13150_12704-135E4_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS01hr40minDonor1T7Subject1_CNhs13150_tpm_fwd Tc:MdmToLps_01hr40minD1+ Monocyte-derived macrophages response to LPS, 01hr40min, donor1 (t7 Subject1)_CNhs13150_12704-135E4_forward Regulation 
MonocytederivedMacrophagesResponseToLPS01hr20minDonor1T6Subject1_CNhs13149_tpm_rev Tc:MdmToLps_01hr20minD1- Monocyte-derived macrophages response to LPS, 01hr20min, donor1 (t6 Subject1)_CNhs13149_12703-135E3_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS01hr20minDonor1T6Subject1_CNhs13149_tpm_fwd Tc:MdmToLps_01hr20minD1+ Monocyte-derived macrophages response to LPS, 01hr20min, donor1 (t6 Subject1)_CNhs13149_12703-135E3_forward Regulation 
MonocytederivedMacrophagesResponseToLPS01hr00minDonor1T5Subject1_CNhs13148_tpm_rev Tc:MdmToLps_01hr00minD1- Monocyte-derived macrophages response to LPS, 01hr00min, donor1 (t5 Subject1)_CNhs13148_12702-135E2_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS01hr00minDonor1T5Subject1_CNhs13148_tpm_fwd Tc:MdmToLps_01hr00minD1+ Monocyte-derived macrophages response to LPS, 01hr00min, donor1 (t5 Subject1)_CNhs13148_12702-135E2_forward Regulation 
MonocytederivedMacrophagesResponseToLPS00hr45minDonor1T4Subject1_CNhs13147_tpm_rev Tc:MdmToLps_00hr45minD1- Monocyte-derived macrophages response to LPS, 00hr45min, donor1 (t4 Subject1)_CNhs13147_12701-135E1_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS00hr45minDonor1T4Subject1_CNhs13147_tpm_fwd Tc:MdmToLps_00hr45minD1+ Monocyte-derived macrophages response to LPS, 00hr45min, donor1 (t4 Subject1)_CNhs13147_12701-135E1_forward Regulation 
MonocytederivedMacrophagesResponseToLPS00hr30minDonor1T3Subject1_CNhs13146_tpm_rev Tc:MdmToLps_00hr30minD1- Monocyte-derived macrophages response to LPS, 00hr30min, donor1 (t3 Subject1)_CNhs13146_12700-135D9_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS00hr30minDonor1T3Subject1_CNhs13146_tpm_fwd Tc:MdmToLps_00hr30minD1+ Monocyte-derived macrophages response to LPS, 00hr30min, donor1 (t3 Subject1)_CNhs13146_12700-135D9_forward Regulation 
MonocytederivedMacrophagesResponseToLPS00hr15minDonor1T2Subject1_CNhs13145_tpm_rev Tc:MdmToLps_00hr15minD1- Monocyte-derived macrophages response to LPS, 00hr15min, donor1 (t2 Subject1)_CNhs13145_12699-135D8_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS00hr15minDonor1T2Subject1_CNhs13145_tpm_fwd Tc:MdmToLps_00hr15minD1+ Monocyte-derived macrophages response to LPS, 00hr15min, donor1 (t2 Subject1)_CNhs13145_12699-135D8_forward Regulation 
K562ErythroblasticLeukemiaResponseToHeminDay04BiolRep3_CNhs12804_tpm_rev Tc:K562ToHemin_Day04Br3- K562 erythroblastic leukemia response to hemin, day04, biol_rep3_CNhs12804_13228-141I6_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHeminDay04BiolRep3_CNhs12804_tpm_fwd Tc:K562ToHemin_Day04Br3+ K562 erythroblastic leukemia response to hemin, day04, biol_rep3_CNhs12804_13228-141I6_forward Regulation 
K562ErythroblasticLeukemiaResponseToHeminDay04BiolRep2_CNhs12702_tpm_rev Tc:K562ToHemin_Day04Br2- K562 erythroblastic leukemia response to hemin, day04, biol_rep2_CNhs12702_13162-141B3_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHeminDay04BiolRep2_CNhs12702_tpm_fwd Tc:K562ToHemin_Day04Br2+ K562 erythroblastic leukemia response to hemin, day04, biol_rep2_CNhs12702_13162-141B3_forward Regulation 
K562ErythroblasticLeukemiaResponseToHeminDay04BiolRep1_CNhs12474_tpm_rev Tc:K562ToHemin_Day04Br1- K562 erythroblastic leukemia response to hemin, day04, biol_rep1_CNhs12474_13096-140C9_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHeminDay04BiolRep1_CNhs12474_tpm_fwd Tc:K562ToHemin_Day04Br1+ K562 erythroblastic leukemia response to hemin, day04, biol_rep1_CNhs12474_13096-140C9_forward Regulation 
K562ErythroblasticLeukemiaResponseToHeminDay03BiolRep3_CNhs12803_tpm_rev Tc:K562ToHemin_Day03Br3- K562 erythroblastic leukemia response to hemin, day03, biol_rep3_CNhs12803_13227-141I5_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHeminDay03BiolRep3_CNhs12803_tpm_fwd Tc:K562ToHemin_Day03Br3+ K562 erythroblastic leukemia response to hemin, day03, biol_rep3_CNhs12803_13227-141I5_forward Regulation 
K562ErythroblasticLeukemiaResponseToHeminDay03BiolRep2_CNhs12701_tpm_rev Tc:K562ToHemin_Day03Br2- K562 erythroblastic leukemia response to hemin, day03, biol_rep2_CNhs12701_13161-141B2_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHeminDay03BiolRep2_CNhs12701_tpm_fwd Tc:K562ToHemin_Day03Br2+ K562 erythroblastic leukemia response to hemin, day03, biol_rep2_CNhs12701_13161-141B2_forward Regulation 
K562ErythroblasticLeukemiaResponseToHeminDay03BiolRep1_CNhs12473_tpm_rev Tc:K562ToHemin_Day03Br1- K562 erythroblastic leukemia response to hemin, day03, biol_rep1_CNhs12473_13095-140C8_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHeminDay03BiolRep1_CNhs12473_tpm_fwd Tc:K562ToHemin_Day03Br1+ K562 erythroblastic leukemia response to hemin, day03, biol_rep1_CNhs12473_13095-140C8_forward Regulation 
K562ErythroblasticLeukemiaResponseToHeminDay02BiolRep3_CNhs12802_tpm_rev Tc:K562ToHemin_Day02Br3- K562 erythroblastic leukemia response to hemin, day02, biol_rep3_CNhs12802_13226-141I4_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHeminDay02BiolRep3_CNhs12802_tpm_fwd Tc:K562ToHemin_Day02Br3+ K562 erythroblastic leukemia response to hemin, day02, biol_rep3_CNhs12802_13226-141I4_forward Regulation 
K562ErythroblasticLeukemiaResponseToHeminDay02BiolRep2_CNhs12700_tpm_rev Tc:K562ToHemin_Day02Br2- K562 erythroblastic leukemia response to hemin, day02, biol_rep2_CNhs12700_13160-141B1_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHeminDay02BiolRep2_CNhs12700_tpm_fwd Tc:K562ToHemin_Day02Br2+ K562 erythroblastic leukemia response to hemin, day02, biol_rep2_CNhs12700_13160-141B1_forward Regulation 
K562ErythroblasticLeukemiaResponseToHeminDay02BiolRep1_CNhs12472_tpm_rev Tc:K562ToHemin_Day02Br1- K562 erythroblastic leukemia response to hemin, day02, biol_rep1_CNhs12472_13094-140C7_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHeminDay02BiolRep1_CNhs12472_tpm_fwd Tc:K562ToHemin_Day02Br1+ K562 erythroblastic leukemia response to hemin, day02, biol_rep1_CNhs12472_13094-140C7_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin24hrBiolRep3_CNhs12801_tpm_rev Tc:K562ToHemin_24hrBr3- K562 erythroblastic leukemia response to hemin, 24hr, biol_rep3_CNhs12801_13225-141I3_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin24hrBiolRep3_CNhs12801_tpm_fwd Tc:K562ToHemin_24hrBr3+ K562 erythroblastic leukemia response to hemin, 24hr, biol_rep3_CNhs12801_13225-141I3_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin24hrBiolRep2_CNhs12699_tpm_rev Tc:K562ToHemin_24hrBr2- K562 erythroblastic leukemia response to hemin, 24hr, biol_rep2_CNhs12699_13159-141A9_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin24hrBiolRep2_CNhs12699_tpm_fwd Tc:K562ToHemin_24hrBr2+ K562 erythroblastic leukemia response to hemin, 24hr, biol_rep2_CNhs12699_13159-141A9_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin24hrBiolRep1_CNhs12471_tpm_rev Tc:K562ToHemin_24hrBr1- K562 erythroblastic leukemia response to hemin, 24hr, biol_rep1_CNhs12471_13093-140C6_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin24hrBiolRep1_CNhs12471_tpm_fwd Tc:K562ToHemin_24hrBr1+ K562 erythroblastic leukemia response to hemin, 24hr, biol_rep1_CNhs12471_13093-140C6_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin12hrBiolRep3_CNhs12800_tpm_rev Tc:K562ToHemin_12hrBr3- K562 erythroblastic leukemia response to hemin, 12hr, biol_rep3_CNhs12800_13224-141I2_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin12hrBiolRep3_CNhs12800_tpm_fwd Tc:K562ToHemin_12hrBr3+ K562 erythroblastic leukemia response to hemin, 12hr, biol_rep3_CNhs12800_13224-141I2_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin12hrBiolRep2_CNhs12698_tpm_rev Tc:K562ToHemin_12hrBr2- K562 erythroblastic leukemia response to hemin, 12hr, biol_rep2_CNhs12698_13158-141A8_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin12hrBiolRep2_CNhs12698_tpm_fwd Tc:K562ToHemin_12hrBr2+ K562 erythroblastic leukemia response to hemin, 12hr, biol_rep2_CNhs12698_13158-141A8_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin12hrBiolRep1_CNhs12470_tpm_rev Tc:K562ToHemin_12hrBr1- K562 erythroblastic leukemia response to hemin, 12hr, biol_rep1_CNhs12470_13092-140C5_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin12hrBiolRep1_CNhs12470_tpm_fwd Tc:K562ToHemin_12hrBr1+ K562 erythroblastic leukemia response to hemin, 12hr, biol_rep1_CNhs12470_13092-140C5_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin06hrBiolRep3_CNhs12799_tpm_rev Tc:K562ToHemin_06hrBr3- K562 erythroblastic leukemia response to hemin, 06hr, biol_rep3_CNhs12799_13223-141I1_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin06hrBiolRep3_CNhs12799_tpm_fwd Tc:K562ToHemin_06hrBr3+ K562 erythroblastic leukemia response to hemin, 06hr, biol_rep3_CNhs12799_13223-141I1_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin06hrBiolRep2_CNhs12697_tpm_rev Tc:K562ToHemin_06hrBr2- K562 erythroblastic leukemia response to hemin, 06hr, biol_rep2_CNhs12697_13157-141A7_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin06hrBiolRep2_CNhs12697_tpm_fwd Tc:K562ToHemin_06hrBr2+ K562 erythroblastic leukemia response to hemin, 06hr, biol_rep2_CNhs12697_13157-141A7_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin06hrBiolRep1_CNhs12469_tpm_rev Tc:K562ToHemin_06hrBr1- K562 erythroblastic leukemia response to hemin, 06hr, biol_rep1_CNhs12469_13091-140C4_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin06hrBiolRep1_CNhs12469_tpm_fwd Tc:K562ToHemin_06hrBr1+ K562 erythroblastic leukemia response to hemin, 06hr, biol_rep1_CNhs12469_13091-140C4_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin04hrBiolRep3_CNhs12798_tpm_rev Tc:K562ToHemin_04hrBr3- K562 erythroblastic leukemia response to hemin, 04hr, biol_rep3_CNhs12798_13222-141H9_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin04hrBiolRep3_CNhs12798_tpm_fwd Tc:K562ToHemin_04hrBr3+ K562 erythroblastic leukemia response to hemin, 04hr, biol_rep3_CNhs12798_13222-141H9_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin04hrBiolRep2_CNhs12696_tpm_rev Tc:K562ToHemin_04hrBr2- K562 erythroblastic leukemia response to hemin, 04hr, biol_rep2_CNhs12696_13156-141A6_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin04hrBiolRep2_CNhs12696_tpm_fwd Tc:K562ToHemin_04hrBr2+ K562 erythroblastic leukemia response to hemin, 04hr, biol_rep2_CNhs12696_13156-141A6_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin04hrBiolRep1_CNhs12468_tpm_rev Tc:K562ToHemin_04hrBr1- K562 erythroblastic leukemia response to hemin, 04hr, biol_rep1_CNhs12468_13090-140C3_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin04hrBiolRep1_CNhs12468_tpm_fwd Tc:K562ToHemin_04hrBr1+ K562 erythroblastic leukemia response to hemin, 04hr, biol_rep1_CNhs12468_13090-140C3_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin03hr30minBiolRep3_CNhs12797_tpm_rev Tc:K562ToHemin_03hr30minBr3- K562 erythroblastic leukemia response to hemin, 03hr30min, biol_rep3_CNhs12797_13221-141H8_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin03hr30minBiolRep3_CNhs12797_tpm_fwd Tc:K562ToHemin_03hr30minBr3+ K562 erythroblastic leukemia response to hemin, 03hr30min, biol_rep3_CNhs12797_13221-141H8_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin03hr30minBiolRep2_CNhs12695_tpm_rev Tc:K562ToHemin_03hr30minBr2- K562 erythroblastic leukemia response to hemin, 03hr30min, biol_rep2_CNhs12695_13155-141A5_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin03hr30minBiolRep2_CNhs12695_tpm_fwd Tc:K562ToHemin_03hr30minBr2+ K562 erythroblastic leukemia response to hemin, 03hr30min, biol_rep2_CNhs12695_13155-141A5_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin03hr30minBiolRep1_CNhs12467_tpm_rev Tc:K562ToHemin_03hr30minBr1- K562 erythroblastic leukemia response to hemin, 03hr30min, biol_rep1_CNhs12467_13089-140C2_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin03hr30minBiolRep1_CNhs12467_tpm_fwd Tc:K562ToHemin_03hr30minBr1+ K562 erythroblastic leukemia response to hemin, 03hr30min, biol_rep1_CNhs12467_13089-140C2_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin03hr00minBiolRep3_CNhs12796_tpm_rev Tc:K562ToHemin_03hr00minBr3- K562 erythroblastic leukemia response to hemin, 03hr00min, biol_rep3_CNhs12796_13220-141H7_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin03hr00minBiolRep3_CNhs12796_tpm_fwd Tc:K562ToHemin_03hr00minBr3+ K562 erythroblastic leukemia response to hemin, 03hr00min, biol_rep3_CNhs12796_13220-141H7_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin03hr00minBiolRep2_CNhs12694_tpm_rev Tc:K562ToHemin_03hr00minBr2- K562 erythroblastic leukemia response to hemin, 03hr00min, biol_rep2_CNhs12694_13154-141A4_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin03hr00minBiolRep2_CNhs12694_tpm_fwd Tc:K562ToHemin_03hr00minBr2+ K562 erythroblastic leukemia response to hemin, 03hr00min, biol_rep2_CNhs12694_13154-141A4_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin03hr00minBiolRep1_CNhs12466_tpm_rev Tc:K562ToHemin_03hr00minBr1- K562 erythroblastic leukemia response to hemin, 03hr00min, biol_rep1_CNhs12466_13088-140C1_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin03hr00minBiolRep1_CNhs12466_tpm_fwd Tc:K562ToHemin_03hr00minBr1+ K562 erythroblastic leukemia response to hemin, 03hr00min, biol_rep1_CNhs12466_13088-140C1_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin02hr30minBiolRep3_CNhs12795_tpm_rev Tc:K562ToHemin_02hr30minBr3- K562 erythroblastic leukemia response to hemin, 02hr30min, biol_rep3_CNhs12795_13219-141H6_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin02hr30minBiolRep3_CNhs12795_tpm_fwd Tc:K562ToHemin_02hr30minBr3+ K562 erythroblastic leukemia response to hemin, 02hr30min, biol_rep3_CNhs12795_13219-141H6_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin02hr30minBiolRep2_CNhs12693_tpm_rev Tc:K562ToHemin_02hr30minBr2- K562 erythroblastic leukemia response to hemin, 02hr30min, biol_rep2_CNhs12693_13153-141A3_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin02hr30minBiolRep2_CNhs12693_tpm_fwd Tc:K562ToHemin_02hr30minBr2+ K562 erythroblastic leukemia response to hemin, 02hr30min, biol_rep2_CNhs12693_13153-141A3_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin02hr30minBiolRep1_CNhs12465_tpm_rev Tc:K562ToHemin_02hr30minBr1- K562 erythroblastic leukemia response to hemin, 02hr30min, biol_rep1_CNhs12465_13087-140B9_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin02hr30minBiolRep1_CNhs12465_tpm_fwd Tc:K562ToHemin_02hr30minBr1+ K562 erythroblastic leukemia response to hemin, 02hr30min, biol_rep1_CNhs12465_13087-140B9_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin02hr00minBiolRep3_CNhs12794_tpm_rev Tc:K562ToHemin_02hr00minBr3- K562 erythroblastic leukemia response to hemin, 02hr00min, biol_rep3_CNhs12794_13218-141H5_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin02hr00minBiolRep3_CNhs12794_tpm_fwd Tc:K562ToHemin_02hr00minBr3+ K562 erythroblastic leukemia response to hemin, 02hr00min, biol_rep3_CNhs12794_13218-141H5_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin02hr00minBiolRep2_CNhs12692_tpm_rev Tc:K562ToHemin_02hr00minBr2- K562 erythroblastic leukemia response to hemin, 02hr00min, biol_rep2_CNhs12692_13152-141A2_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin02hr00minBiolRep2_CNhs12692_tpm_fwd Tc:K562ToHemin_02hr00minBr2+ K562 erythroblastic leukemia response to hemin, 02hr00min, biol_rep2_CNhs12692_13152-141A2_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin02hr00minBiolRep1_CNhs12737_tpm_rev Tc:K562ToHemin_02hr00minBr1- K562 erythroblastic leukemia response to hemin, 02hr00min, biol_rep1_CNhs12737_13086-140B8_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin02hr00minBiolRep1_CNhs12737_tpm_fwd Tc:K562ToHemin_02hr00minBr1+ K562 erythroblastic leukemia response to hemin, 02hr00min, biol_rep1_CNhs12737_13086-140B8_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin01hr40minBiolRep3_CNhs12792_tpm_rev Tc:K562ToHemin_01hr40minBr3- K562 erythroblastic leukemia response to hemin, 01hr40min, biol_rep3_CNhs12792_13217-141H4_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin01hr40minBiolRep3_CNhs12792_tpm_fwd Tc:K562ToHemin_01hr40minBr3+ K562 erythroblastic leukemia response to hemin, 01hr40min, biol_rep3_CNhs12792_13217-141H4_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin01hr40minBiolRep2_CNhs12691_tpm_rev Tc:K562ToHemin_01hr40minBr2- K562 erythroblastic leukemia response to hemin, 01hr40min, biol_rep2_CNhs12691_13151-141A1_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin01hr40minBiolRep2_CNhs12691_tpm_fwd Tc:K562ToHemin_01hr40minBr2+ K562 erythroblastic leukemia response to hemin, 01hr40min, biol_rep2_CNhs12691_13151-141A1_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin01hr40minBiolRep1_CNhs12464_tpm_rev Tc:K562ToHemin_01hr40minBr1- K562 erythroblastic leukemia response to hemin, 01hr40min, biol_rep1_CNhs12464_13085-140B7_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin01hr40minBiolRep1_CNhs12464_tpm_fwd Tc:K562ToHemin_01hr40minBr1+ K562 erythroblastic leukemia response to hemin, 01hr40min, biol_rep1_CNhs12464_13085-140B7_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin01hr20minBiolRep3_CNhs12791_tpm_rev Tc:K562ToHemin_01hr20minBr3- K562 erythroblastic leukemia response to hemin, 01hr20min, biol_rep3_CNhs12791_13216-141H3_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin01hr20minBiolRep3_CNhs12791_tpm_fwd Tc:K562ToHemin_01hr20minBr3+ K562 erythroblastic leukemia response to hemin, 01hr20min, biol_rep3_CNhs12791_13216-141H3_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin01hr20minBiolRep2_CNhs12690_tpm_rev Tc:K562ToHemin_01hr20minBr2- K562 erythroblastic leukemia response to hemin, 01hr20min, biol_rep2_CNhs12690_13150-140I9_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin01hr20minBiolRep2_CNhs12690_tpm_fwd Tc:K562ToHemin_01hr20minBr2+ K562 erythroblastic leukemia response to hemin, 01hr20min, biol_rep2_CNhs12690_13150-140I9_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin01hr20minBiolRep1_CNhs12463_tpm_rev Tc:K562ToHemin_01hr20minBr1- K562 erythroblastic leukemia response to hemin, 01hr20min, biol_rep1_CNhs12463_13084-140B6_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin01hr20minBiolRep1_CNhs12463_tpm_fwd Tc:K562ToHemin_01hr20minBr1+ K562 erythroblastic leukemia response to hemin, 01hr20min, biol_rep1_CNhs12463_13084-140B6_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin01hr00minBiolRep3_CNhs12790_tpm_rev Tc:K562ToHemin_01hr00minBr3- K562 erythroblastic leukemia response to hemin, 01hr00min, biol_rep3_CNhs12790_13215-141H2_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin01hr00minBiolRep3_CNhs12790_tpm_fwd Tc:K562ToHemin_01hr00minBr3+ K562 erythroblastic leukemia response to hemin, 01hr00min, biol_rep3_CNhs12790_13215-141H2_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin01hr00minBiolRep2_CNhs12689_tpm_rev Tc:K562ToHemin_01hr00minBr2- K562 erythroblastic leukemia response to hemin, 01hr00min, biol_rep2_CNhs12689_13149-140I8_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin01hr00minBiolRep2_CNhs12689_tpm_fwd Tc:K562ToHemin_01hr00minBr2+ K562 erythroblastic leukemia response to hemin, 01hr00min, biol_rep2_CNhs12689_13149-140I8_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin01hr00minBiolRep1_CNhs12462_tpm_rev Tc:K562ToHemin_01hr00minBr1- K562 erythroblastic leukemia response to hemin, 01hr00min, biol_rep1_CNhs12462_13083-140B5_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin01hr00minBiolRep1_CNhs12462_tpm_fwd Tc:K562ToHemin_01hr00minBr1+ K562 erythroblastic leukemia response to hemin, 01hr00min, biol_rep1_CNhs12462_13083-140B5_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin00hr45minBiolRep3_CNhs12789_tpm_rev Tc:K562ToHemin_00hr45minBr3- K562 erythroblastic leukemia response to hemin, 00hr45min, biol_rep3_CNhs12789_13214-141H1_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin00hr45minBiolRep3_CNhs12789_tpm_fwd Tc:K562ToHemin_00hr45minBr3+ K562 erythroblastic leukemia response to hemin, 00hr45min, biol_rep3_CNhs12789_13214-141H1_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin00hr45minBiolRep2_CNhs12688_tpm_rev Tc:K562ToHemin_00hr45minBr2- K562 erythroblastic leukemia response to hemin, 00hr45min, biol_rep2_CNhs12688_13148-140I7_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin00hr45minBiolRep2_CNhs12688_tpm_fwd Tc:K562ToHemin_00hr45minBr2+ K562 erythroblastic leukemia response to hemin, 00hr45min, biol_rep2_CNhs12688_13148-140I7_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin00hr45minBiolRep1_CNhs12461_tpm_rev Tc:K562ToHemin_00hr45minBr1- K562 erythroblastic leukemia response to hemin, 00hr45min, biol_rep1_CNhs12461_13082-140B4_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin00hr45minBiolRep1_CNhs12461_tpm_fwd Tc:K562ToHemin_00hr45minBr1+ K562 erythroblastic leukemia response to hemin, 00hr45min, biol_rep1_CNhs12461_13082-140B4_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin00hr30minBiolRep3_CNhs12788_tpm_rev Tc:K562ToHemin_00hr30minBr3- K562 erythroblastic leukemia response to hemin, 00hr30min, biol_rep3_CNhs12788_13213-141G9_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin00hr30minBiolRep3_CNhs12788_tpm_fwd Tc:K562ToHemin_00hr30minBr3+ K562 erythroblastic leukemia response to hemin, 00hr30min, biol_rep3_CNhs12788_13213-141G9_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin00hr30minBiolRep2_CNhs12687_tpm_rev Tc:K562ToHemin_00hr30minBr2- K562 erythroblastic leukemia response to hemin, 00hr30min, biol_rep2_CNhs12687_13147-140I6_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin00hr30minBiolRep2_CNhs12687_tpm_fwd Tc:K562ToHemin_00hr30minBr2+ K562 erythroblastic leukemia response to hemin, 00hr30min, biol_rep2_CNhs12687_13147-140I6_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin00hr30minBiolRep1_CNhs12460_tpm_rev Tc:K562ToHemin_00hr30minBr1- K562 erythroblastic leukemia response to hemin, 00hr30min, biol_rep1_CNhs12460_13081-140B3_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin00hr30minBiolRep1_CNhs12460_tpm_fwd Tc:K562ToHemin_00hr30minBr1+ K562 erythroblastic leukemia response to hemin, 00hr30min, biol_rep1_CNhs12460_13081-140B3_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin00hr15minBiolRep3_CNhs12787_tpm_rev Tc:K562ToHemin_00hr15minBr3- K562 erythroblastic leukemia response to hemin, 00hr15min, biol_rep3_CNhs12787_13212-141G8_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin00hr15minBiolRep3_CNhs12787_tpm_fwd Tc:K562ToHemin_00hr15minBr3+ K562 erythroblastic leukemia response to hemin, 00hr15min, biol_rep3_CNhs12787_13212-141G8_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin00hr15minBiolRep2_CNhs12686_tpm_rev Tc:K562ToHemin_00hr15minBr2- K562 erythroblastic leukemia response to hemin, 00hr15min, biol_rep2_CNhs12686_13146-140I5_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin00hr15minBiolRep2_CNhs12686_tpm_fwd Tc:K562ToHemin_00hr15minBr2+ K562 erythroblastic leukemia response to hemin, 00hr15min, biol_rep2_CNhs12686_13146-140I5_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin00hr15minBiolRep1_CNhs12459_tpm_rev Tc:K562ToHemin_00hr15minBr1- K562 erythroblastic leukemia response to hemin, 00hr15min, biol_rep1_CNhs12459_13080-140B2_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin00hr15minBiolRep1_CNhs12459_tpm_fwd Tc:K562ToHemin_00hr15minBr1+ K562 erythroblastic leukemia response to hemin, 00hr15min, biol_rep1_CNhs12459_13080-140B2_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin00hr00minBiolRep3_CNhs12786_tpm_rev Tc:K562ToHemin_00hr00minBr3- K562 erythroblastic leukemia response to hemin, 00hr00min, biol_rep3_CNhs12786_13211-141G7_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin00hr00minBiolRep3_CNhs12786_tpm_fwd Tc:K562ToHemin_00hr00minBr3+ K562 erythroblastic leukemia response to hemin, 00hr00min, biol_rep3_CNhs12786_13211-141G7_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin00hr00minBiolRep2_CNhs12684_tpm_rev Tc:K562ToHemin_00hr00minBr2- K562 erythroblastic leukemia response to hemin, 00hr00min, biol_rep2_CNhs12684_13145-140I4_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin00hr00minBiolRep2_CNhs12684_tpm_fwd Tc:K562ToHemin_00hr00minBr2+ K562 erythroblastic leukemia response to hemin, 00hr00min, biol_rep2_CNhs12684_13145-140I4_forward Regulation 
K562ErythroblasticLeukemiaResponseToHemin00hr00minBiolRep1_CNhs12458_tpm_rev Tc:K562ToHemin_00hr00minBr1- K562 erythroblastic leukemia response to hemin, 00hr00min, biol_rep1_CNhs12458_13079-140B1_reverse Regulation 
K562ErythroblasticLeukemiaResponseToHemin00hr00minBiolRep1_CNhs12458_tpm_fwd Tc:K562ToHemin_00hr00minBr1+ K562 erythroblastic leukemia response to hemin, 00hr00min, biol_rep1_CNhs12458_13079-140B1_forward Regulation 
HIPSBiolRep3_CNhs14216_tpm_rev Tc:hIPSBr3- hIPS, biol_rep3_CNhs14216_14382-156B8_reverse Regulation 
HIPSBiolRep3_CNhs14216_tpm_fwd Tc:hIPSBr3+ hIPS, biol_rep3_CNhs14216_14382-156B8_forward Regulation 
HIPSBiolRep2_CNhs14215_tpm_rev Tc:hIPSBr2- hIPS, biol_rep2_CNhs14215_14381-156B7_reverse Regulation 
HIPSBiolRep2_CNhs14215_tpm_fwd Tc:hIPSBr2+ hIPS, biol_rep2_CNhs14215_14381-156B7_forward Regulation 
HIPSBiolRep1_CNhs14214_tpm_rev Tc:hIPSBr1- hIPS, biol_rep1_CNhs14214_14380-156B6_reverse Regulation 
HIPSBiolRep1_CNhs14214_tpm_fwd Tc:hIPSBr1+ hIPS, biol_rep1_CNhs14214_14380-156B6_forward Regulation 
HIPSCCl2BiolRep3_CNhs14219_tpm_rev Tc:hIPS+CCl2Br3- hIPS +CCl2, biol_rep3_CNhs14219_14385-156C2_reverse Regulation 
HIPSCCl2BiolRep3_CNhs14219_tpm_fwd Tc:hIPS+CCl2Br3+ hIPS +CCl2, biol_rep3_CNhs14219_14385-156C2_forward Regulation 
HIPSCCl2BiolRep2_CNhs14218_tpm_rev Tc:hIPS+CCl2Br2- hIPS +CCl2, biol_rep2_CNhs14218_14384-156C1_reverse Regulation 
HIPSCCl2BiolRep2_CNhs14218_tpm_fwd Tc:hIPS+CCl2Br2+ hIPS +CCl2, biol_rep2_CNhs14218_14384-156C1_forward Regulation 
HIPSCCl2BiolRep1_CNhs14217_tpm_rev Tc:hIPS+CCl2Br1- hIPS +CCl2, biol_rep1_CNhs14217_14383-156B9_reverse Regulation 
HIPSCCl2BiolRep1_CNhs14217_tpm_fwd Tc:hIPS+CCl2Br1+ hIPS +CCl2, biol_rep1_CNhs14217_14383-156B9_forward Regulation 
H1EmbryonicStemCellsDifferentiationToCD34HSCDay09BiolRep3_CNhs13971_tpm_rev Tc:H1ToHsc_Day09Br3- H1 embryonic stem cells differentiation to CD34+ HSC, day09, biol_rep3_CNhs13971_13531-145G3_reverse Regulation 
H1EmbryonicStemCellsDifferentiationToCD34HSCDay09BiolRep3_CNhs13971_tpm_fwd Tc:H1ToHsc_Day09Br3+ H1 embryonic stem cells differentiation to CD34+ HSC, day09, biol_rep3_CNhs13971_13531-145G3_forward Regulation 
H1EmbryonicStemCellsDifferentiationToCD34HSCDay09BiolRep2_CNhs13970_tpm_rev Tc:H1ToHsc_Day09Br2- H1 embryonic stem cells differentiation to CD34+ HSC, day09, biol_rep2_CNhs13970_13530-145G2_reverse Regulation 
H1EmbryonicStemCellsDifferentiationToCD34HSCDay09BiolRep2_CNhs13970_tpm_fwd Tc:H1ToHsc_Day09Br2+ H1 embryonic stem cells differentiation to CD34+ HSC, day09, biol_rep2_CNhs13970_13530-145G2_forward Regulation 
H1EmbryonicStemCellsDifferentiationToCD34HSCDay09BiolRep1_CNhs13969_tpm_rev Tc:H1ToHsc_Day09Br1- H1 embryonic stem cells differentiation to CD34+ HSC, day09, biol_rep1_CNhs13969_13529-145G1_reverse Regulation 
H1EmbryonicStemCellsDifferentiationToCD34HSCDay09BiolRep1_CNhs13969_tpm_fwd Tc:H1ToHsc_Day09Br1+ H1 embryonic stem cells differentiation to CD34+ HSC, day09, biol_rep1_CNhs13969_13529-145G1_forward Regulation 
H1EmbryonicStemCellsDifferentiationToCD34HSCDay03BiolRep3_CNhs13968_tpm_rev Tc:H1ToHsc_Day03Br3- H1 embryonic stem cells differentiation to CD34+ HSC, day03, biol_rep3_CNhs13968_13528-145F9_reverse Regulation 
H1EmbryonicStemCellsDifferentiationToCD34HSCDay03BiolRep3_CNhs13968_tpm_fwd Tc:H1ToHsc_Day03Br3+ H1 embryonic stem cells differentiation to CD34+ HSC, day03, biol_rep3_CNhs13968_13528-145F9_forward Regulation 
H1EmbryonicStemCellsDifferentiationToCD34HSCDay03BiolRep2_CNhs13966_tpm_rev Tc:H1ToHsc_Day03Br2- H1 embryonic stem cells differentiation to CD34+ HSC, day03, biol_rep2_CNhs13966_13527-145F8_reverse Regulation 
H1EmbryonicStemCellsDifferentiationToCD34HSCDay03BiolRep2_CNhs13966_tpm_fwd Tc:H1ToHsc_Day03Br2+ H1 embryonic stem cells differentiation to CD34+ HSC, day03, biol_rep2_CNhs13966_13527-145F8_forward Regulation 
H1EmbryonicStemCellsDifferentiationToCD34HSCDay03BiolRep1_CNhs13965_tpm_rev Tc:H1ToHsc_Day03Br1- H1 embryonic stem cells differentiation to CD34+ HSC, day03, biol_rep1_CNhs13965_13526-145F7_reverse Regulation 
H1EmbryonicStemCellsDifferentiationToCD34HSCDay03BiolRep1_CNhs13965_tpm_fwd Tc:H1ToHsc_Day03Br1+ H1 embryonic stem cells differentiation to CD34+ HSC, day03, biol_rep1_CNhs13965_13526-145F7_forward Regulation 
H1EmbryonicStemCellsDifferentiationToCD34HSCDay00BiolRep3_CNhs13964_tpm_rev Tc:H1ToHsc_Day00Br3- H1 embryonic stem cells differentiation to CD34+ HSC, day00, biol_rep3_CNhs13964_13525-145F6_reverse Regulation 
H1EmbryonicStemCellsDifferentiationToCD34HSCDay00BiolRep3_CNhs13964_tpm_fwd Tc:H1ToHsc_Day00Br3+ H1 embryonic stem cells differentiation to CD34+ HSC, day00, biol_rep3_CNhs13964_13525-145F6_forward Regulation 
H1EmbryonicStemCellsDifferentiationToCD34HSCDay00BiolRep2_CNhs14068_tpm_rev Tc:H1ToHsc_Day00Br2- H1 embryonic stem cells differentiation to CD34+ HSC, day00, biol_rep2_CNhs14068_13524-145F5_reverse Regulation 
H1EmbryonicStemCellsDifferentiationToCD34HSCDay00BiolRep2_CNhs14068_tpm_fwd Tc:H1ToHsc_Day00Br2+ H1 embryonic stem cells differentiation to CD34+ HSC, day00, biol_rep2_CNhs14068_13524-145F5_forward Regulation 
H1EmbryonicStemCellsDifferentiationToCD34HSCDay00BiolRep1_CNhs14067_tpm_rev Tc:H1ToHsc_Day00Br1- H1 embryonic stem cells differentiation to CD34+ HSC, day00, biol_rep1_CNhs14067_13523-145F4_reverse Regulation 
H1EmbryonicStemCellsDifferentiationToCD34HSCDay00BiolRep1_CNhs14067_tpm_fwd Tc:H1ToHsc_Day00Br1+ H1 embryonic stem cells differentiation to CD34+ HSC, day00, biol_rep1_CNhs14067_13523-145F4_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha24hr00minBiolRep2_CNhs14536_tpm_rev Tc:ARPE-19Emt_24hr00minBr2- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 24hr00min, biol_rep2_CNhs14536_13680-147E8_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha24hr00minBiolRep2_CNhs14536_tpm_fwd Tc:ARPE-19Emt_24hr00minBr2+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 24hr00min, biol_rep2_CNhs14536_13680-147E8_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha06hr00minBiolRep2_CNhs14520_tpm_rev Tc:ARPE-19Emt_06hr00minBr2- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 06hr00min, biol_rep2_CNhs14520_13665-147D2_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha06hr00minBiolRep2_CNhs14520_tpm_fwd Tc:ARPE-19Emt_06hr00minBr2+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 06hr00min, biol_rep2_CNhs14520_13665-147D2_forward Regulation 
MyoblastDifferentiationToMyotubesDay10ControlDonor3_CNhs14584_tpm_rev MyoblastToMyotubes_Day10D3- Myoblast differentiation to myotubes, day10, control donor3_CNhs14584_13494-145C2_reverse Regulation 
MyoblastDifferentiationToMyotubesDay10ControlDonor3_CNhs14584_tpm_fwd MyoblastToMyotubes_Day10D3+ Myoblast differentiation to myotubes, day10, control donor3_CNhs14584_13494-145C2_forward Regulation 
MyoblastDifferentiationToMyotubesDay06DuchenneMuscularDystrophyDonor2_CNhs14601_tpm_rev MyoblastToMyotubes_Day06D2- Myoblast differentiation to myotubes, day06, Duchenne Muscular Dystrophy donor2_CNhs14601_13510-145D9_reverse Regulation 
MyoblastDifferentiationToMyotubesDay06DuchenneMuscularDystrophyDonor2_CNhs14601_tpm_fwd MyoblastToMyotubes_Day06D2+ Myoblast differentiation to myotubes, day06, Duchenne Muscular Dystrophy donor2_CNhs14601_13510-145D9_forward Regulation 
MyoblastDifferentiationToMyotubesDay01ControlDonor2_CNhs14568_tpm_rev MyoblastToMyotubes_Day01D2- Myoblast differentiation to myotubes, day01, control donor2_CNhs14568_13479-145A5_reverse Regulation 
MyoblastDifferentiationToMyotubesDay01ControlDonor2_CNhs14568_tpm_fwd MyoblastToMyotubes_Day01D2+ Myoblast differentiation to myotubes, day01, control donor2_CNhs14568_13479-145A5_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay14BiolRep2_CNhs13631_tpm_rev MscAdipogenicInduction_Day14Br2- mesenchymal stem cells (adipose derived), adipogenic induction, day14, biol_rep2_CNhs13631_13278-142F2_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay14BiolRep2_CNhs13631_tpm_fwd MscAdipogenicInduction_Day14Br2+ mesenchymal stem cells (adipose derived), adipogenic induction, day14, biol_rep2_CNhs13631_13278-142F2_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay04BiolRep2_CNhs13623_tpm_rev MscAdipogenicInduction_Day04Br2- mesenchymal stem cells (adipose derived), adipogenic induction, day04, biol_rep2_CNhs13623_13269-142E2_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay04BiolRep2_CNhs13623_tpm_fwd MscAdipogenicInduction_Day04Br2+ mesenchymal stem cells (adipose derived), adipogenic induction, day04, biol_rep2_CNhs13623_13269-142E2_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay01BiolRep1_CNhs13615_tpm_rev MscAdipogenicInduction_Day01Br1- mesenchymal stem cells (adipose derived), adipogenic induction, day01, biol_rep1_CNhs13615_13262-142D4_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay01BiolRep1_CNhs13615_tpm_fwd MscAdipogenicInduction_Day01Br1+ mesenchymal stem cells (adipose derived), adipogenic induction, day01, biol_rep1_CNhs13615_13262-142D4_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction12hr00minBiolRep3_CNhs13614_tpm_rev MscAdipogenicInduction_12hr00minBr3- mesenchymal stem cells (adipose derived), adipogenic induction, 12hr00min, biol_rep3_CNhs13614_13261-142D3_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction12hr00minBiolRep3_CNhs13614_tpm_fwd MscAdipogenicInduction_12hr00minBr3+ mesenchymal stem cells (adipose derived), adipogenic induction, 12hr00min, biol_rep3_CNhs13614_13261-142D3_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction12hr00minBiolRep2_CNhs13613_tpm_rev MscAdipogenicInduction_12hr00minBr2- mesenchymal stem cells (adipose derived), adipogenic induction, 12hr00min, biol_rep2_CNhs13613_13260-142D2_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction12hr00minBiolRep2_CNhs13613_tpm_fwd MscAdipogenicInduction_12hr00minBr2+ mesenchymal stem cells (adipose derived), adipogenic induction, 12hr00min, biol_rep2_CNhs13613_13260-142D2_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction12hr00minBiolRep1_CNhs13612_tpm_rev MscAdipogenicInduction_12hr00minBr1- mesenchymal stem cells (adipose derived), adipogenic induction, 12hr00min, biol_rep1_CNhs13612_13259-142D1_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction12hr00minBiolRep1_CNhs13612_tpm_fwd MscAdipogenicInduction_12hr00minBr1+ mesenchymal stem cells (adipose derived), adipogenic induction, 12hr00min, biol_rep1_CNhs13612_13259-142D1_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction03hr00minBiolRep2_CNhs13610_tpm_rev MscAdipogenicInduction_03hr00minBr2- mesenchymal stem cells (adipose derived), adipogenic induction, 03hr00min, biol_rep2_CNhs13610_13257-142C8_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction03hr00minBiolRep2_CNhs13610_tpm_fwd MscAdipogenicInduction_03hr00minBr2+ mesenchymal stem cells (adipose derived), adipogenic induction, 03hr00min, biol_rep2_CNhs13610_13257-142C8_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction02hr30minBiolRep2_CNhs13607_tpm_rev MscAdipogenicInduction_02hr30minBr2- mesenchymal stem cells (adipose derived), adipogenic induction, 02hr30min, biol_rep2_CNhs13607_13254-142C5_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction02hr30minBiolRep2_CNhs13607_tpm_fwd MscAdipogenicInduction_02hr30minBr2+ mesenchymal stem cells (adipose derived), adipogenic induction, 02hr30min, biol_rep2_CNhs13607_13254-142C5_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction02hr00minBiolRep3_CNhs13605_tpm_rev MscAdipogenicInduction_02hr00minBr3- mesenchymal stem cells (adipose derived), adipogenic induction, 02hr00min, biol_rep3_CNhs13605_13252-142C3_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction02hr00minBiolRep3_CNhs13605_tpm_fwd MscAdipogenicInduction_02hr00minBr3+ mesenchymal stem cells (adipose derived), adipogenic induction, 02hr00min, biol_rep3_CNhs13605_13252-142C3_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction01hr20minBiolRep3_CNhs13599_tpm_rev MscAdipogenicInduction_01hr20minBr3- mesenchymal stem cells (adipose derived), adipogenic induction, 01hr20min, biol_rep3_CNhs13599_13246-142B6_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction01hr20minBiolRep3_CNhs13599_tpm_fwd MscAdipogenicInduction_01hr20minBr3+ mesenchymal stem cells (adipose derived), adipogenic induction, 01hr20min, biol_rep3_CNhs13599_13246-142B6_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction01hr20minBiolRep2_CNhs13598_tpm_rev MscAdipogenicInduction_01hr20minBr2- mesenchymal stem cells (adipose derived), adipogenic induction, 01hr20min, biol_rep2_CNhs13598_13245-142B5_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction01hr20minBiolRep2_CNhs13598_tpm_fwd MscAdipogenicInduction_01hr20minBr2+ mesenchymal stem cells (adipose derived), adipogenic induction, 01hr20min, biol_rep2_CNhs13598_13245-142B5_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction01hr20minBiolRep1_CNhs13434_tpm_rev MscAdipogenicInduction_01hr20minBr1- mesenchymal stem cells (adipose derived), adipogenic induction, 01hr20min, biol_rep1_CNhs13434_13244-142B4_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction01hr20minBiolRep1_CNhs13434_tpm_fwd MscAdipogenicInduction_01hr20minBr1+ mesenchymal stem cells (adipose derived), adipogenic induction, 01hr20min, biol_rep1_CNhs13434_13244-142B4_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction00hr30minBiolRep3_CNhs13427_tpm_rev MscAdipogenicInduction_00hr30minBr3- mesenchymal stem cells (adipose derived), adipogenic induction, 00hr30min, biol_rep3_CNhs13427_13237-142A6_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction00hr30minBiolRep3_CNhs13427_tpm_fwd MscAdipogenicInduction_00hr30minBr3+ mesenchymal stem cells (adipose derived), adipogenic induction, 00hr30min, biol_rep3_CNhs13427_13237-142A6_forward Regulation 
MonocytederivedMacrophagesResponseToUdornInfluenzaInfection24hr00minDonor4227_121Ud_24h_CNhs13643_tpm_rev MonocyteMacrophageUdornInfluenza_24hr00minD4- Monocyte-derived macrophages response to udorn influenza infection, 24hr00min, donor4 (227_121:Ud_24h)_CNhs13643_13314-143A2_reverse Regulation 
MonocytederivedMacrophagesResponseToUdornInfluenzaInfection24hr00minDonor4227_121Ud_24h_CNhs13643_tpm_fwd MonocyteMacrophageUdornInfluenza_24hr00minD4+ Monocyte-derived macrophages response to udorn influenza infection, 24hr00min, donor4 (227_121:Ud_24h)_CNhs13643_13314-143A2_forward Regulation 
MonocytederivedMacrophagesResponseToUdornInfluenzaInfection02hr00minDonor2150_120Ud_2h_CNhs13647_tpm_rev MonocyteMacrophageUdornInfluenza_02hr00minD2- Monocyte-derived macrophages response to udorn influenza infection, 02hr00min, donor2 (150_120:Ud_2h)_CNhs13647_13318-143A6_reverse Regulation 
MonocytederivedMacrophagesResponseToUdornInfluenzaInfection02hr00minDonor2150_120Ud_2h_CNhs13647_tpm_fwd MonocyteMacrophageUdornInfluenza_02hr00minD2+ Monocyte-derived macrophages response to udorn influenza infection, 02hr00min, donor2 (150_120:Ud_2h)_CNhs13647_13318-143A6_forward Regulation 
MelanocyteDonor3MC3_CNhs13406_tpm_rev MelanocyteD3- Melanocyte, donor3 (MC+3)_CNhs13406_12837-137B2_reverse Regulation 
MelanocyteDonor3MC3_CNhs13406_tpm_fwd MelanocyteD3+ Melanocyte, donor3 (MC+3)_CNhs13406_12837-137B2_forward Regulation 
MelanocyteDonor2MC2_CNhs13156_tpm_rev MelanocyteD2- Melanocyte, donor2 (MC+2)_CNhs13156_12739-135I3_reverse Regulation 
MelanocyteDonor2MC2_CNhs13156_tpm_fwd MelanocyteD2+ Melanocyte, donor2 (MC+2)_CNhs13156_12739-135I3_forward Regulation 
MelanocyteDonor1MC1_CNhs12816_tpm_rev MelanocyteD1- Melanocyte, donor1 (MC+1)_CNhs12816_12641-134G4_reverse Regulation 
MelanocyteDonor1MC1_CNhs12816_tpm_fwd MelanocyteD1+ Melanocyte, donor1 (MC+1)_CNhs12816_12641-134G4_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay07BiolRep1_CNhs13659_tpm_rev Hes3-gfpCardiomyocyticInduction_Day07Br1- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day07, biol_rep1_CNhs13659_13334-143C4_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay07BiolRep1_CNhs13659_tpm_fwd Hes3-gfpCardiomyocyticInduction_Day07Br1+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day07, biol_rep1_CNhs13659_13334-143C4_forward Regulation 
H9EmbryonicStemCellsBiolRep3H9ES3_CNhs12837_tpm_rev H9EmbryonicStemCellsBr3- H9 Embryonic Stem cells, biol_rep3 (H9ES-3)_CNhs12837_12822-136I5_reverse Regulation 
H9EmbryonicStemCellsBiolRep3H9ES3_CNhs12837_tpm_fwd H9EmbryonicStemCellsBr3+ H9 Embryonic Stem cells, biol_rep3 (H9ES-3)_CNhs12837_12822-136I5_forward Regulation 
H9EmbryonicStemCellsBiolRep2H9ES2_CNhs12824_tpm_rev H9EmbryonicStemCellsBr2- H9 Embryonic Stem cells, biol_rep2 (H9ES-2)_CNhs12824_12724-135G6_reverse Regulation 
H9EmbryonicStemCellsBiolRep2H9ES2_CNhs12824_tpm_fwd H9EmbryonicStemCellsBr2+ H9 Embryonic Stem cells, biol_rep2 (H9ES-2)_CNhs12824_12724-135G6_forward Regulation 
H9EmbryonicStemCellsBiolRep1H9ES1_CNhs11917_tpm_rev H9EmbryonicStemCellsBr1- H9 Embryonic Stem cells, biol_rep1 (H9ES-1)_CNhs11917_12626-134E7_reverse Regulation 
H9EmbryonicStemCellsBiolRep1H9ES1_CNhs11917_tpm_fwd H9EmbryonicStemCellsBr1+ H9 Embryonic Stem cells, biol_rep1 (H9ES-1)_CNhs11917_12626-134E7_forward Regulation 
AorticSmoothMuscleCellResponseToIL1b05hrBiolRep3LK57_CNhs13585_tpm_rev AorticSmsToIL1b_05hrBr3- Aortic smooth muscle cell response to IL1b, 05hr, biol_rep3 (LK57)_CNhs13585_12856-137D3_reverse Regulation 
AorticSmoothMuscleCellResponseToIL1b05hrBiolRep3LK57_CNhs13585_tpm_fwd AorticSmsToIL1b_05hrBr3+ Aortic smooth muscle cell response to IL1b, 05hr, biol_rep3 (LK57)_CNhs13585_12856-137D3_forward Regulation 
AorticSmoothMuscleCellResponseToIL1b03hrBiolRep3LK51_CNhs13583_tpm_rev AorticSmsToIL1b_03hrBr3- Aortic smooth muscle cell response to IL1b, 03hr, biol_rep3 (LK51)_CNhs13583_12854-137D1_reverse Regulation 
AorticSmoothMuscleCellResponseToIL1b03hrBiolRep3LK51_CNhs13583_tpm_fwd AorticSmsToIL1b_03hrBr3+ Aortic smooth muscle cell response to IL1b, 03hr, biol_rep3 (LK51)_CNhs13583_12854-137D1_forward Regulation 
AorticSmoothMuscleCellResponseToIL1b02hrBiolRep1LK46_CNhs13354_tpm_rev AorticSmsToIL1b_02hrBr1- Aortic smooth muscle cell response to IL1b, 02hr, biol_rep1 (LK46)_CNhs13354_12657-134I2_reverse Regulation 
AorticSmoothMuscleCellResponseToIL1b02hrBiolRep1LK46_CNhs13354_tpm_fwd AorticSmsToIL1b_02hrBr1+ Aortic smooth muscle cell response to IL1b, 02hr, biol_rep1 (LK46)_CNhs13354_12657-134I2_forward Regulation 
AorticSmoothMuscleCellResponseToIL1b01hrBiolRep3LK45_CNhs13581_tpm_rev AorticSmsToIL1b_01hrBr3- Aortic smooth muscle cell response to IL1b, 01hr, biol_rep3 (LK45)_CNhs13581_12852-137C8_reverse Regulation 
AorticSmoothMuscleCellResponseToIL1b01hrBiolRep3LK45_CNhs13581_tpm_fwd AorticSmsToIL1b_01hrBr3+ Aortic smooth muscle cell response to IL1b, 01hr, biol_rep3 (LK45)_CNhs13581_12852-137C8_forward Regulation 
AorticSmoothMuscleCellResponseToFGF204hrBiolRep3LK24_CNhs13574_tpm_rev AorticSmsToFgf2_04hrBr3- Aortic smooth muscle cell response to FGF2, 04hr, biol_rep3 (LK24)_CNhs13574_12845-137C1_reverse Regulation 
AorticSmoothMuscleCellResponseToFGF204hrBiolRep3LK24_CNhs13574_tpm_fwd AorticSmsToFgf2_04hrBr3+ Aortic smooth muscle cell response to FGF2, 04hr, biol_rep3 (LK24)_CNhs13574_12845-137C1_forward Regulation 
AorticSmoothMuscleCellResponseToFGF204hrBiolRep2LK23_CNhs13365_tpm_rev AorticSmsToFgf2_04hrBr2- Aortic smooth muscle cell response to FGF2, 04hr, biol_rep2 (LK23)_CNhs13365_12747-136A2_reverse Regulation 
AorticSmoothMuscleCellResponseToFGF204hrBiolRep2LK23_CNhs13365_tpm_fwd AorticSmsToFgf2_04hrBr2+ Aortic smooth muscle cell response to FGF2, 04hr, biol_rep2 (LK23)_CNhs13365_12747-136A2_forward Regulation 
AorticSmoothMuscleCellResponseToFGF204hrBiolRep1LK22_CNhs13346_tpm_rev AorticSmsToFgf2_04hrBr1- Aortic smooth muscle cell response to FGF2, 04hr, biol_rep1 (LK22)_CNhs13346_12649-134H3_reverse Regulation 
AorticSmoothMuscleCellResponseToFGF204hrBiolRep1LK22_CNhs13346_tpm_fwd AorticSmsToFgf2_04hrBr1+ Aortic smooth muscle cell response to FGF2, 04hr, biol_rep1 (LK22)_CNhs13346_12649-134H3_forward Regulation 
AorticSmoothMuscleCellResponseToFGF201hrBiolRep2LK14_CNhs13362_tpm_rev AorticSmsToFgf2_01hrBr2- Aortic smooth muscle cell response to FGF2, 01hr, biol_rep2 (LK14)_CNhs13362_12744-135I8_reverse Regulation 
AorticSmoothMuscleCellResponseToFGF201hrBiolRep2LK14_CNhs13362_tpm_fwd AorticSmsToFgf2_01hrBr2+ Aortic smooth muscle cell response to FGF2, 01hr, biol_rep2 (LK14)_CNhs13362_12744-135I8_forward Regulation 
AorticSmoothMuscleCellResponseToFGF200hr00minBiolRep3LK3_CNhs13567_tpm_rev AorticSmsToFgf2_00hr00minBr3- Aortic smooth muscle cell response to FGF2, 00hr00min, biol_rep3 (LK3)_CNhs13567_12838-137B3_reverse Regulation 
AorticSmoothMuscleCellResponseToFGF200hr00minBiolRep3LK3_CNhs13567_tpm_fwd AorticSmsToFgf2_00hr00minBr3+ Aortic smooth muscle cell response to FGF2, 00hr00min, biol_rep3 (LK3)_CNhs13567_12838-137B3_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF100hr00minBiolRep1_CNhs12564_tpm_rev Mcf7ToEgf1_00hr00minBr1- MCF7 breast cancer cell line response to EGF1, 00hr00min, biol_rep1_CNhs12564_13031-139E7_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF100hr00minBiolRep1_CNhs12564_tpm_fwd Mcf7ToEgf1_00hr00minBr1+ MCF7 breast cancer cell line response to EGF1, 00hr00min, biol_rep1_CNhs12564_13031-139E7_forward Regulation 
WholeBloodRibopureDonor090612Donation3_CNhs11949_tpm_rev WholeBloodD090612Dn3- Whole blood (ribopure), donor090612, donation3_CNhs11949_12184-129A6_reverse Regulation 
WholeBloodRibopureDonor090612Donation3_CNhs11949_tpm_fwd WholeBloodD090612Dn3+ Whole blood (ribopure), donor090612, donation3_CNhs11949_12184-129A6_forward Regulation 
WholeBloodRibopureDonor090612Donation2_CNhs11673_tpm_rev WholeBloodD090612Dn2- Whole blood (ribopure), donor090612, donation2_CNhs11673_12183-129A5_reverse Regulation 
WholeBloodRibopureDonor090612Donation2_CNhs11673_tpm_fwd WholeBloodD090612Dn2+ Whole blood (ribopure), donor090612, donation2_CNhs11673_12183-129A5_forward Regulation 
WholeBloodRibopureDonor090612Donation1_CNhs11672_tpm_rev WholeBloodD090612Dn1- Whole blood (ribopure), donor090612, donation1_CNhs11672_12182-129A4_reverse Regulation 
WholeBloodRibopureDonor090612Donation1_CNhs11672_tpm_fwd WholeBloodD090612Dn1+ Whole blood (ribopure), donor090612, donation1_CNhs11672_12182-129A4_forward Regulation 
WholeBloodRibopureDonor090325Donation2_CNhs11076_tpm_rev WholeBloodD090325Dn2- Whole blood (ribopure), donor090325, donation2_CNhs11076_12177-128I8_reverse Regulation 
WholeBloodRibopureDonor090325Donation2_CNhs11076_tpm_fwd WholeBloodD090325Dn2+ Whole blood (ribopure), donor090325, donation2_CNhs11076_12177-128I8_forward Regulation 
WholeBloodRibopureDonor090325Donation1_CNhs11075_tpm_rev WholeBloodD090325Dn1- Whole blood (ribopure), donor090325, donation1_CNhs11075_12176-128I7_reverse Regulation 
WholeBloodRibopureDonor090325Donation1_CNhs11075_tpm_fwd WholeBloodD090325Dn1+ Whole blood (ribopure), donor090325, donation1_CNhs11075_12176-128I7_forward Regulation 
WholeBloodRibopureDonor090309Donation3_CNhs11948_tpm_rev WholeBloodD090309Dn3- Whole blood (ribopure), donor090309, donation3_CNhs11948_12181-129A3_reverse Regulation 
WholeBloodRibopureDonor090309Donation3_CNhs11948_tpm_fwd WholeBloodD090309Dn3+ Whole blood (ribopure), donor090309, donation3_CNhs11948_12181-129A3_forward Regulation 
WholeBloodRibopureDonor090309Donation2_CNhs11671_tpm_rev WholeBloodD090309Dn2- Whole blood (ribopure), donor090309, donation2_CNhs11671_12180-129A2_reverse Regulation 
WholeBloodRibopureDonor090309Donation2_CNhs11671_tpm_fwd WholeBloodD090309Dn2+ Whole blood (ribopure), donor090309, donation2_CNhs11671_12180-129A2_forward Regulation 
WholeBloodRibopureDonor090309Donation1_CNhs11675_tpm_rev WholeBloodD090309Dn1- Whole blood (ribopure), donor090309, donation1_CNhs11675_12179-129A1_reverse Regulation 
WholeBloodRibopureDonor090309Donation1_CNhs11675_tpm_fwd WholeBloodD090309Dn1+ Whole blood (ribopure), donor090309, donation1_CNhs11675_12179-129A1_forward Regulation 
UrothelialCellsDonor3_CNhs12122_tpm_rev UrothelialCellsD3- Urothelial Cells, donor3_CNhs12122_11681-122H7_reverse Regulation 
UrothelialCellsDonor3_CNhs12122_tpm_fwd UrothelialCellsD3+ Urothelial Cells, donor3_CNhs12122_11681-122H7_forward Regulation 
UrothelialCellsDonor2_CNhs12091_tpm_rev UrothelialCellsD2- Urothelial Cells, donor2_CNhs12091_11600-120H7_reverse Regulation 
UrothelialCellsDonor2_CNhs12091_tpm_fwd UrothelialCellsD2+ Urothelial Cells, donor2_CNhs12091_11600-120H7_forward Regulation 
UrothelialCellsDonor1_CNhs11334_tpm_rev UrothelialCellsD1- Urothelial Cells, donor1_CNhs11334_11520-119H8_reverse Regulation 
UrothelialCellsDonor1_CNhs11334_tpm_fwd UrothelialCellsD1+ Urothelial Cells, donor1_CNhs11334_11520-119H8_forward Regulation 
UrothelialCellsDonor0_CNhs10843_tpm_rev UrothelialCellsD0- Urothelial cells, donor0_CNhs10843_11216-116B1_reverse Regulation 
UrothelialCellsDonor0_CNhs10843_tpm_fwd UrothelialCellsD0+ Urothelial cells, donor0_CNhs10843_11216-116B1_forward Regulation 
TrachealEpithelialCellsDonor3_CNhs12051_tpm_rev TrachealEpithelialCellsD3- Tracheal Epithelial Cells, donor3_CNhs12051_11441-118I1_reverse Regulation 
TrachealEpithelialCellsDonor3_CNhs12051_tpm_fwd TrachealEpithelialCellsD3+ Tracheal Epithelial Cells, donor3_CNhs12051_11441-118I1_forward Regulation 
TrachealEpithelialCellsDonor2_CNhs11993_tpm_rev TrachealEpithelialCellsD2- Tracheal Epithelial Cells, donor2_CNhs11993_11369-118A1_reverse Regulation 
TrachealEpithelialCellsDonor2_CNhs11993_tpm_fwd TrachealEpithelialCellsD2+ Tracheal Epithelial Cells, donor2_CNhs11993_11369-118A1_forward Regulation 
TrachealEpithelialCellsDonor1_CNhs11092_tpm_rev TrachealEpithelialCellsD1- Tracheal Epithelial Cells, donor1_CNhs11092_11292-117A5_reverse Regulation 
TrachealEpithelialCellsDonor1_CNhs11092_tpm_fwd TrachealEpithelialCellsD1+ Tracheal Epithelial Cells, donor1_CNhs11092_11292-117A5_forward Regulation 
TrabecularMeshworkCellsDonor3_CNhs12124_tpm_rev TrabecularMeshworkCellsD3- Trabecular Meshwork Cells, donor3_CNhs12124_11693-123A1_reverse Regulation 
TrabecularMeshworkCellsDonor3_CNhs12124_tpm_fwd TrabecularMeshworkCellsD3+ Trabecular Meshwork Cells, donor3_CNhs12124_11693-123A1_forward Regulation 
TrabecularMeshworkCellsDonor2_CNhs12097_tpm_rev TrabecularMeshworkCellsD2- Trabecular Meshwork Cells, donor2_CNhs12097_11612-122A1_reverse Regulation 
TrabecularMeshworkCellsDonor2_CNhs12097_tpm_fwd TrabecularMeshworkCellsD2+ Trabecular Meshwork Cells, donor2_CNhs12097_11612-122A1_forward Regulation 
TrabecularMeshworkCellsDonor1_CNhs11340_tpm_rev TrabecularMeshworkCellsD1- Trabecular Meshwork Cells, donor1_CNhs11340_11532-120A2_reverse Regulation 
TrabecularMeshworkCellsDonor1_CNhs11340_tpm_fwd TrabecularMeshworkCellsD1+ Trabecular Meshwork Cells, donor1_CNhs11340_11532-120A2_forward Regulation 
TenocyteDonor3_CNhs12641_tpm_rev TenocyteD3- tenocyte, donor3_CNhs12641_11768-123I4_reverse Regulation 
TenocyteDonor3_CNhs12641_tpm_fwd TenocyteD3+ tenocyte, donor3_CNhs12641_11768-123I4_forward Regulation 
TenocyteDonor2_CNhs12640_tpm_rev TenocyteD2- tenocyte, donor2_CNhs12640_11765-123I1_reverse Regulation 
TenocyteDonor2_CNhs12640_tpm_fwd TenocyteD2+ tenocyte, donor2_CNhs12640_11765-123I1_forward Regulation 
TenocyteDonor1_CNhs12639_tpm_rev TenocyteD1- tenocyte, donor1_CNhs12639_11763-123H8_reverse Regulation 
TenocyteDonor1_CNhs12639_tpm_fwd TenocyteD1+ tenocyte, donor1_CNhs12639_11763-123H8_forward Regulation 
SynoviocyteDonor3_CNhs12050_tpm_rev SynoviocyteD3- Synoviocyte, donor3_CNhs12050_11440-118H9_reverse Regulation 
SynoviocyteDonor3_CNhs12050_tpm_fwd SynoviocyteD3+ Synoviocyte, donor3_CNhs12050_11440-118H9_forward Regulation 
SynoviocyteDonor2_CNhs11992_tpm_rev SynoviocyteD2- Synoviocyte, donor2_CNhs11992_11368-117I9_reverse Regulation 
SynoviocyteDonor2_CNhs11992_tpm_fwd SynoviocyteD2+ Synoviocyte, donor2_CNhs11992_11368-117I9_forward Regulation 
SynoviocyteDonor1_CNhs11068_tpm_rev SynoviocyteD1- Synoviocyte, donor1_CNhs11068_11291-117A4_reverse Regulation 
SynoviocyteDonor1_CNhs11068_tpm_fwd SynoviocyteD1+ Synoviocyte, donor1_CNhs11068_11291-117A4_forward Regulation 
SmoothMuscleCellsUterineDonor3_CNhs11927_tpm_rev SmcUterineD3- Smooth Muscle Cells - Uterine, donor3_CNhs11927_11466-119B8_reverse Regulation 
SmoothMuscleCellsUterineDonor3_CNhs11927_tpm_fwd SmcUterineD3+ Smooth Muscle Cells - Uterine, donor3_CNhs11927_11466-119B8_forward Regulation 
SmoothMuscleCellsUterineDonor1_CNhs11921_tpm_rev SmcUterineD1- Smooth Muscle Cells - Uterine, donor1_CNhs11921_11258-116F7_reverse Regulation 
SmoothMuscleCellsUterineDonor1_CNhs11921_tpm_fwd SmcUterineD1+ Smooth Muscle Cells - Uterine, donor1_CNhs11921_11258-116F7_forward Regulation 
SmoothMuscleCellsUmbilicalVeinDonor3_CNhs13076_tpm_rev SmcUmbilicalVeinD3- Smooth Muscle Cells - Umbilical Vein, donor3_CNhs13076_11702-123B1_reverse Regulation 
SmoothMuscleCellsUmbilicalVeinDonor3_CNhs13076_tpm_fwd SmcUmbilicalVeinD3+ Smooth Muscle Cells - Umbilical Vein, donor3_CNhs13076_11702-123B1_forward Regulation 
SmoothMuscleCellsUmbilicalVeinDonor2_CNhs12569_tpm_rev SmcUmbilicalVeinD2- Smooth Muscle Cells - Umbilical Vein, donor2_CNhs12569_11621-122B1_reverse Regulation 
SmoothMuscleCellsUmbilicalVeinDonor2_CNhs12569_tpm_fwd SmcUmbilicalVeinD2+ Smooth Muscle Cells - Umbilical Vein, donor2_CNhs12569_11621-122B1_forward Regulation 
SmoothMuscleCellsUmbilicalVeinDonor1_CNhs12597_tpm_rev SmcUmbilicalVeinD1- Smooth Muscle Cells - Umbilical Vein, donor1_CNhs12597_11541-120B2_reverse Regulation 
SmoothMuscleCellsUmbilicalVeinDonor1_CNhs12597_tpm_fwd SmcUmbilicalVeinD1+ Smooth Muscle Cells - Umbilical Vein, donor1_CNhs12597_11541-120B2_forward Regulation 
SmoothMuscleCellsUmbilicalArteryDonor3_CNhs12049_tpm_rev SmcUmbilicalArteryD3- Smooth Muscle Cells - Umbilical Artery, donor3_CNhs12049_11439-118H8_reverse Regulation 
SmoothMuscleCellsUmbilicalArteryDonor3_CNhs12049_tpm_fwd SmcUmbilicalArteryD3+ Smooth Muscle Cells - Umbilical Artery, donor3_CNhs12049_11439-118H8_forward Regulation 
SmoothMuscleCellsUmbilicalArteryDonor2_CNhs11991_tpm_rev SmcUmbilicalArteryD2- Smooth Muscle Cells - Umbilical Artery, donor2_CNhs11991_11367-117I8_reverse Regulation 
SmoothMuscleCellsUmbilicalArteryDonor2_CNhs11991_tpm_fwd SmcUmbilicalArteryD2+ Smooth Muscle Cells - Umbilical Artery, donor2_CNhs11991_11367-117I8_forward Regulation 
SmoothMuscleCellsUmbilicalArteryDonor1_CNhs11091_tpm_rev SmcUmbilicalArteryD1- Smooth Muscle Cells - Umbilical Artery, donor1_CNhs11091_11290-117A3_reverse Regulation 
SmoothMuscleCellsUmbilicalArteryDonor1_CNhs11091_tpm_fwd SmcUmbilicalArteryD1+ Smooth Muscle Cells - Umbilical Artery, donor1_CNhs11091_11290-117A3_forward Regulation 
SmoothMuscleCellsUmbilicalArteryDonor0_CNhs10839_tpm_rev SmcUmbilicalArteryD0- Smooth Muscle Cells - Umbilical artery, donor0_CNhs10839_11212-116A6_reverse Regulation 
SmoothMuscleCellsUmbilicalArteryDonor0_CNhs10839_tpm_fwd SmcUmbilicalArteryD0+ Smooth Muscle Cells - Umbilical artery, donor0_CNhs10839_11212-116A6_forward Regulation 
SmoothMuscleCellsTrachealDonor3_CNhs12894_tpm_rev SmcTrachealD3- Smooth Muscle Cells - Tracheal, donor3_CNhs12894_11674-122G9_reverse Regulation 
SmoothMuscleCellsTrachealDonor3_CNhs12894_tpm_fwd SmcTrachealD3+ Smooth Muscle Cells - Tracheal, donor3_CNhs12894_11674-122G9_forward Regulation 
SmoothMuscleCellsTrachealDonor2_CNhs12567_tpm_rev SmcTrachealD2- Smooth Muscle Cells - Tracheal, donor2_CNhs12567_11593-120G9_reverse Regulation 
SmoothMuscleCellsTrachealDonor2_CNhs12567_tpm_fwd SmcTrachealD2+ Smooth Muscle Cells - Tracheal, donor2_CNhs12567_11593-120G9_forward Regulation 
SmoothMuscleCellsTrachealDonor1_CNhs11329_tpm_rev SmcTrachealD1- Smooth Muscle Cells - Tracheal, donor1_CNhs11329_11513-119H1_reverse Regulation 
SmoothMuscleCellsTrachealDonor1_CNhs11329_tpm_fwd SmcTrachealD1+ Smooth Muscle Cells - Tracheal, donor1_CNhs11329_11513-119H1_forward Regulation 
SmoothMuscleCellsSubclavianArteryDonor3_CNhs12048_tpm_rev SmcSubclavianArteryD3- Smooth Muscle Cells - Subclavian Artery, donor3_CNhs12048_11438-118H7_reverse Regulation 
SmoothMuscleCellsSubclavianArteryDonor3_CNhs12048_tpm_fwd SmcSubclavianArteryD3+ Smooth Muscle Cells - Subclavian Artery, donor3_CNhs12048_11438-118H7_forward Regulation 
SmoothMuscleCellsSubclavianArteryDonor2_CNhs11990_tpm_rev SmcSubclavianArteryD2- Smooth Muscle Cells - Subclavian Artery, donor2_CNhs11990_11366-117I7_reverse Regulation 
SmoothMuscleCellsSubclavianArteryDonor2_CNhs11990_tpm_fwd SmcSubclavianArteryD2+ Smooth Muscle Cells - Subclavian Artery, donor2_CNhs11990_11366-117I7_forward Regulation 
SmoothMuscleCellsSubclavianArteryDonor1_CNhs11090_tpm_rev SmcSubclavianArteryD1- Smooth Muscle Cells - Subclavian Artery, donor1_CNhs11090_11289-117A2_reverse Regulation 
SmoothMuscleCellsSubclavianArteryDonor1_CNhs11090_tpm_fwd SmcSubclavianArteryD1+ Smooth Muscle Cells - Subclavian Artery, donor1_CNhs11090_11289-117A2_forward Regulation 
SmoothMuscleCellsPulmonaryArteryDonor3_CNhs12047_tpm_rev SmcPulmonaryArteryD3- Smooth Muscle Cells - Pulmonary Artery, donor3_CNhs12047_11437-118H6_reverse Regulation 
SmoothMuscleCellsPulmonaryArteryDonor3_CNhs12047_tpm_fwd SmcPulmonaryArteryD3+ Smooth Muscle Cells - Pulmonary Artery, donor3_CNhs12047_11437-118H6_forward Regulation 
SmoothMuscleCellsPulmonaryArteryDonor2_CNhs11989_tpm_rev SmcPulmonaryArteryD2- Smooth Muscle Cells - Pulmonary Artery, donor2_CNhs11989_11365-117I6_reverse Regulation 
SmoothMuscleCellsPulmonaryArteryDonor2_CNhs11989_tpm_fwd SmcPulmonaryArteryD2+ Smooth Muscle Cells - Pulmonary Artery, donor2_CNhs11989_11365-117I6_forward Regulation 
SmoothMuscleCellsPulmonaryArteryDonor1_CNhs11089_tpm_rev SmcPulmonaryArteryD1- Smooth Muscle Cells - Pulmonary Artery, donor1_CNhs11089_11288-117A1_reverse Regulation 
SmoothMuscleCellsPulmonaryArteryDonor1_CNhs11089_tpm_fwd SmcPulmonaryArteryD1+ Smooth Muscle Cells - Pulmonary Artery, donor1_CNhs11089_11288-117A1_forward Regulation 
SmoothMuscleCellsProstateDonor3_CNhs11910_tpm_rev SmcProstateD3- Smooth Muscle Cells - Prostate, donor3_CNhs11910_11465-119B7_reverse Regulation 
SmoothMuscleCellsProstateDonor3_CNhs11910_tpm_fwd SmcProstateD3+ Smooth Muscle Cells - Prostate, donor3_CNhs11910_11465-119B7_forward Regulation 
SmoothMuscleCellsProstateDonor2_CNhs11976_tpm_rev SmcProstateD2- Smooth Muscle Cells - Prostate, donor2_CNhs11976_11335-117F3_reverse Regulation 
SmoothMuscleCellsProstateDonor2_CNhs11976_tpm_fwd SmcProstateD2+ Smooth Muscle Cells - Prostate, donor2_CNhs11976_11335-117F3_forward Regulation 
SmoothMuscleCellsProstateDonor1_CNhs11920_tpm_rev SmcProstateD1- Smooth Muscle Cells - Prostate, donor1_CNhs11920_11257-116F6_reverse Regulation 
SmoothMuscleCellsProstateDonor1_CNhs11920_tpm_fwd SmcProstateD1+ Smooth Muscle Cells - Prostate, donor1_CNhs11920_11257-116F6_forward Regulation 
SmoothMuscleCellsIntestinalDonor1_CNhs12595_tpm_rev SmcIntestinalD1- Smooth Muscle Cells - Intestinal, donor1_CNhs12595_11509-119G6_reverse Regulation 
SmoothMuscleCellsIntestinalDonor1_CNhs12595_tpm_fwd SmcIntestinalD1+ Smooth Muscle Cells - Intestinal, donor1_CNhs12595_11509-119G6_forward Regulation 
SmoothMuscleCellsInternalThoracicArteryDonor3_CNhs12046_tpm_rev SmcInternalThoracicArteryD3- Smooth Muscle Cells - Internal Thoracic Artery, donor3_CNhs12046_11436-118H5_reverse Regulation 
SmoothMuscleCellsInternalThoracicArteryDonor3_CNhs12046_tpm_fwd SmcInternalThoracicArteryD3+ Smooth Muscle Cells - Internal Thoracic Artery, donor3_CNhs12046_11436-118H5_forward Regulation 
SmoothMuscleCellsInternalThoracicArteryDonor2_CNhs11988_tpm_rev SmcInternalThoracicArteryD2- Smooth Muscle Cells - Internal Thoracic Artery, donor2_CNhs11988_11364-117I5_reverse Regulation 
SmoothMuscleCellsInternalThoracicArteryDonor2_CNhs11988_tpm_fwd SmcInternalThoracicArteryD2+ Smooth Muscle Cells - Internal Thoracic Artery, donor2_CNhs11988_11364-117I5_forward Regulation 
SmoothMuscleCellsInternalThoracicArteryDonor1_CNhs11067_tpm_rev SmcInternalThoracicArteryD1- Smooth Muscle Cells - Internal Thoracic Artery, donor1_CNhs11067_11287-116I9_reverse Regulation 
SmoothMuscleCellsInternalThoracicArteryDonor1_CNhs11067_tpm_fwd SmcInternalThoracicArteryD1+ Smooth Muscle Cells - Internal Thoracic Artery, donor1_CNhs11067_11287-116I9_forward Regulation 
SmoothMuscleCellsEsophagealDonor2_CNhs12727_tpm_rev SmcEsophagealD2- Smooth Muscle Cells - Esophageal, donor2_CNhs12727_11588-120G4_reverse Regulation 
SmoothMuscleCellsEsophagealDonor2_CNhs12727_tpm_fwd SmcEsophagealD2+ Smooth Muscle Cells - Esophageal, donor2_CNhs12727_11588-120G4_forward Regulation 
SmoothMuscleCellsEsophagealDonor1_CNhs11324_tpm_rev SmcEsophagealD1- Smooth Muscle Cells - Esophageal, donor1_CNhs11324_11508-119G5_reverse Regulation 
SmoothMuscleCellsEsophagealDonor1_CNhs11324_tpm_fwd SmcEsophagealD1+ Smooth Muscle Cells - Esophageal, donor1_CNhs11324_11508-119G5_forward Regulation 
SmoothMuscleCellsCoronaryArteryDonor3_CNhs12045_tpm_rev SmcCoronaryArteryD3- Smooth Muscle Cells - Coronary Artery, donor3_CNhs12045_11435-118H4_reverse Regulation 
SmoothMuscleCellsCoronaryArteryDonor3_CNhs12045_tpm_fwd SmcCoronaryArteryD3+ Smooth Muscle Cells - Coronary Artery, donor3_CNhs12045_11435-118H4_forward Regulation 
SmoothMuscleCellsCoronaryArteryDonor2_CNhs11987_tpm_rev SmcCoronaryArteryD2- Smooth Muscle Cells - Coronary Artery, donor2_CNhs11987_11363-117I4_reverse Regulation 
SmoothMuscleCellsCoronaryArteryDonor2_CNhs11987_tpm_fwd SmcCoronaryArteryD2+ Smooth Muscle Cells - Coronary Artery, donor2_CNhs11987_11363-117I4_forward Regulation 
SmoothMuscleCellsCoronaryArteryDonor1_CNhs11088_tpm_rev SmcCoronaryArteryD1- Smooth Muscle Cells - Coronary Artery, donor1_CNhs11088_11286-116I8_reverse Regulation 
SmoothMuscleCellsCoronaryArteryDonor1_CNhs11088_tpm_fwd SmcCoronaryArteryD1+ Smooth Muscle Cells - Coronary Artery, donor1_CNhs11088_11286-116I8_forward Regulation 
SmoothMuscleCellsColonicDonor3_CNhs12007_tpm_rev SmcColonicD3- Smooth Muscle Cells - Colonic, donor3_CNhs12007_11396-118D1_reverse Regulation 
SmoothMuscleCellsColonicDonor3_CNhs12007_tpm_fwd SmcColonicD3+ Smooth Muscle Cells - Colonic, donor3_CNhs12007_11396-118D1_forward Regulation 
SmoothMuscleCellsColonicDonor2_CNhs11963_tpm_rev SmcColonicD2- Smooth Muscle Cells - Colonic, donor2_CNhs11963_11320-117D6_reverse Regulation 
SmoothMuscleCellsColonicDonor2_CNhs11963_tpm_fwd SmcColonicD2+ Smooth Muscle Cells - Colonic, donor2_CNhs11963_11320-117D6_forward Regulation 
SmoothMuscleCellsColonicDonor1_CNhs10868_tpm_rev SmcColonicD1- Smooth Muscle Cells - Colonic, donor1_CNhs10868_11239-116D6_reverse Regulation 
SmoothMuscleCellsColonicDonor1_CNhs10868_tpm_fwd SmcColonicD1+ Smooth Muscle Cells - Colonic, donor1_CNhs10868_11239-116D6_forward Regulation 
SmoothMuscleCellsCarotidDonor3_CNhs12044_tpm_rev SmcCarotidD3- Smooth Muscle Cells - Carotid, donor3_CNhs12044_11434-118H3_reverse Regulation 
SmoothMuscleCellsCarotidDonor3_CNhs12044_tpm_fwd SmcCarotidD3+ Smooth Muscle Cells - Carotid, donor3_CNhs12044_11434-118H3_forward Regulation 
SmoothMuscleCellsCarotidDonor2_CNhs11986_tpm_rev SmcCarotidD2- Smooth Muscle Cells - Carotid, donor2_CNhs11986_11362-117I3_reverse Regulation 
SmoothMuscleCellsCarotidDonor2_CNhs11986_tpm_fwd SmcCarotidD2+ Smooth Muscle Cells - Carotid, donor2_CNhs11986_11362-117I3_forward Regulation 
SmoothMuscleCellsCarotidDonor1_CNhs11087_tpm_rev SmcCarotidD1- Smooth Muscle Cells - Carotid, donor1_CNhs11087_11285-116I7_reverse Regulation 
SmoothMuscleCellsCarotidDonor1_CNhs11087_tpm_fwd SmcCarotidD1+ Smooth Muscle Cells - Carotid, donor1_CNhs11087_11285-116I7_forward Regulation 
SmoothMuscleCellsBronchialDonor2_CNhs12348_tpm_rev SmcBronchialD2- Smooth Muscle Cells - Bronchial, donor2_CNhs12348_11592-120G8_reverse Regulation 
SmoothMuscleCellsBronchialDonor2_CNhs12348_tpm_fwd SmcBronchialD2+ Smooth Muscle Cells - Bronchial, donor2_CNhs12348_11592-120G8_forward Regulation 
SmoothMuscleCellsBronchialDonor1_CNhs11328_tpm_rev SmcBronchialD1- Smooth Muscle Cells - Bronchial, donor1_CNhs11328_11512-119G9_reverse Regulation 
SmoothMuscleCellsBronchialDonor1_CNhs11328_tpm_fwd SmcBronchialD1+ Smooth Muscle Cells - Bronchial, donor1_CNhs11328_11512-119G9_forward Regulation 
SmoothMuscleCellsBrainVascularDonor3_CNhs12004_tpm_rev SmcBrainVascularD3- Smooth Muscle Cells - Brain Vascular, donor3_CNhs12004_11391-118C5_reverse Regulation 
SmoothMuscleCellsBrainVascularDonor3_CNhs12004_tpm_fwd SmcBrainVascularD3+ Smooth Muscle Cells - Brain Vascular, donor3_CNhs12004_11391-118C5_forward Regulation 
SmoothMuscleCellsBrainVascularDonor2_CNhs11900_tpm_rev SmcBrainVascularD2- Smooth Muscle Cells - Brain Vascular, donor2_CNhs11900_11315-117D1_reverse Regulation 
SmoothMuscleCellsBrainVascularDonor2_CNhs11900_tpm_fwd SmcBrainVascularD2+ Smooth Muscle Cells - Brain Vascular, donor2_CNhs11900_11315-117D1_forward Regulation 
SmoothMuscleCellsBrainVascularDonor1_CNhs10863_tpm_rev SmcBrainVascularD1- Smooth Muscle Cells - Brain Vascular, donor1_CNhs10863_11234-116D1_reverse Regulation 
SmoothMuscleCellsBrainVascularDonor1_CNhs10863_tpm_fwd SmcBrainVascularD1+ Smooth Muscle Cells - Brain Vascular, donor1_CNhs10863_11234-116D1_forward Regulation 
SmoothMuscleCellsBrachiocephalicDonor3_CNhs12043_tpm_rev SmcBrachiocephalicD3- Smooth Muscle Cells - Brachiocephalic, donor3_CNhs12043_11433-118H2_reverse Regulation 
SmoothMuscleCellsBrachiocephalicDonor3_CNhs12043_tpm_fwd SmcBrachiocephalicD3+ Smooth Muscle Cells - Brachiocephalic, donor3_CNhs12043_11433-118H2_forward Regulation 
SmoothMuscleCellsBrachiocephalicDonor2_CNhs11985_tpm_rev SmcBrachiocephalicD2- Smooth Muscle Cells - Brachiocephalic, donor2_CNhs11985_11361-117I2_reverse Regulation 
SmoothMuscleCellsBrachiocephalicDonor2_CNhs11985_tpm_fwd SmcBrachiocephalicD2+ Smooth Muscle Cells - Brachiocephalic, donor2_CNhs11985_11361-117I2_forward Regulation 
SmoothMuscleCellsBrachiocephalicDonor1_CNhs11086_tpm_rev SmcBrachiocephalicD1- Smooth Muscle Cells - Brachiocephalic, donor1_CNhs11086_11284-116I6_reverse Regulation 
SmoothMuscleCellsBrachiocephalicDonor1_CNhs11086_tpm_fwd SmcBrachiocephalicD1+ Smooth Muscle Cells - Brachiocephalic, donor1_CNhs11086_11284-116I6_forward Regulation 
SmoothMuscleCellsBladderDonor1_CNhs12893_tpm_rev SmcBladderD1- Smooth Muscle Cells - Bladder, donor1_CNhs12893_11519-119H7_reverse Regulation 
SmoothMuscleCellsBladderDonor1_CNhs12893_tpm_fwd SmcBladderD1+ Smooth Muscle Cells - Bladder, donor1_CNhs12893_11519-119H7_forward Regulation 
SmoothMuscleCellsAorticDonor3_CNhs11309_tpm_rev SmcAorticCytofracD3- Smooth Muscle Cells - Aortic, donor3_CNhs11309_11432-118H1_reverse Regulation 
SmoothMuscleCellsAorticDonor3_CNhs11309_tpm_fwd SmcAorticCytofracD3+ Smooth Muscle Cells - Aortic, donor3_CNhs11309_11432-118H1_forward Regulation 
SmoothMuscleCellsAorticDonor2_CNhs11305_tpm_rev SmcAorticCytofracD2- Smooth Muscle Cells - Aortic, donor2_CNhs11305_11360-117I1_reverse Regulation 
SmoothMuscleCellsAorticDonor2_CNhs11305_tpm_fwd SmcAorticCytofracD2+ Smooth Muscle Cells - Aortic, donor2_CNhs11305_11360-117I1_forward Regulation 
SmoothMuscleCellsAorticDonor1_CNhs11085_tpm_rev SmcAorticCytofracD1- Smooth Muscle Cells - Aortic, donor1_CNhs11085_11283-116I5_reverse Regulation 
SmoothMuscleCellsAorticDonor1_CNhs11085_tpm_fwd SmcAorticCytofracD1+ Smooth Muscle Cells - Aortic, donor1_CNhs11085_11283-116I5_forward Regulation 
SmoothMuscleCellsAorticDonor0_CNhs10838_tpm_rev SmcAorticCytofracD0- Smooth Muscle Cells - Aortic, donor0_CNhs10838_11210-116A4_reverse Regulation 
SmoothMuscleCellsAorticDonor0_CNhs10838_tpm_fwd SmcAorticCytofracD0+ Smooth Muscle Cells - Aortic, donor0_CNhs10838_11210-116A4_forward Regulation 
SmoothMuscleCellsAirwayControlDonor4_CNhs14193_tpm_rev SmcAirwayControlD4- Smooth muscle cells - airway, control, donor4_CNhs14193_11969-126D7_reverse Regulation 
SmoothMuscleCellsAirwayControlDonor4_CNhs14193_tpm_fwd SmcAirwayControlD4+ Smooth muscle cells - airway, control, donor4_CNhs14193_11969-126D7_forward Regulation 
SmoothMuscleCellsAirwayControlDonor3_CNhs14192_tpm_rev SmcAirwayControlD3- Smooth muscle cells - airway, control, donor3_CNhs14192_11968-126D6_reverse Regulation 
SmoothMuscleCellsAirwayControlDonor3_CNhs14192_tpm_fwd SmcAirwayControlD3+ Smooth muscle cells - airway, control, donor3_CNhs14192_11968-126D6_forward Regulation 
SmoothMuscleCellsAirwayControlDonor2_CNhs14191_tpm_rev SmcAirwayControlD2- Smooth muscle cells - airway, control, donor2_CNhs14191_11967-126D5_reverse Regulation 
SmoothMuscleCellsAirwayControlDonor2_CNhs14191_tpm_fwd SmcAirwayControlD2+ Smooth muscle cells - airway, control, donor2_CNhs14191_11967-126D5_forward Regulation 
SmoothMuscleCellsAirwayControlDonor1_CNhs14190_tpm_rev SmcAirwayControlD1- Smooth muscle cells - airway, control, donor1_CNhs14190_11966-126D4_reverse Regulation 
SmoothMuscleCellsAirwayControlDonor1_CNhs14190_tpm_fwd SmcAirwayControlD1+ Smooth muscle cells - airway, control, donor1_CNhs14190_11966-126D4_forward Regulation 
SmoothMuscleCellsAirwayAsthmaticDonor6_CNhs14189_tpm_rev SmcAirwayAsthmaD6- Smooth muscle cells - airway, asthmatic, donor6_CNhs14189_11965-126D3_reverse Regulation 
SmoothMuscleCellsAirwayAsthmaticDonor6_CNhs14189_tpm_fwd SmcAirwayAsthmaD6+ Smooth muscle cells - airway, asthmatic, donor6_CNhs14189_11965-126D3_forward Regulation 
SmoothMuscleCellsAirwayAsthmaticDonor5_CNhs14188_tpm_rev SmcAirwayAsthmaD5- Smooth muscle cells - airway, asthmatic, donor5_CNhs14188_11964-126D2_reverse Regulation 
SmoothMuscleCellsAirwayAsthmaticDonor5_CNhs14188_tpm_fwd SmcAirwayAsthmaD5+ Smooth muscle cells - airway, asthmatic, donor5_CNhs14188_11964-126D2_forward Regulation 
SmoothMuscleCellsAirwayAsthmaticDonor4_CNhs14187_tpm_rev SmcAirwayAsthmaD4- Smooth muscle cells - airway, asthmatic, donor4_CNhs14187_11963-126D1_reverse Regulation 
SmoothMuscleCellsAirwayAsthmaticDonor4_CNhs14187_tpm_fwd SmcAirwayAsthmaD4+ Smooth muscle cells - airway, asthmatic, donor4_CNhs14187_11963-126D1_forward Regulation 
SmoothMuscleCellsAirwayAsthmaticDonor3_CNhs14186_tpm_rev SmcAirwayAsthmaD3- Smooth muscle cells - airway, asthmatic, donor3_CNhs14186_11962-126C9_reverse Regulation 
SmoothMuscleCellsAirwayAsthmaticDonor3_CNhs14186_tpm_fwd SmcAirwayAsthmaD3+ Smooth muscle cells - airway, asthmatic, donor3_CNhs14186_11962-126C9_forward Regulation 
SmoothMuscleCellsAirwayAsthmaticDonor2_CNhs14184_tpm_rev SmcAirwayAsthmaD2- Smooth muscle cells - airway, asthmatic, donor2_CNhs14184_11961-126C8_reverse Regulation 
SmoothMuscleCellsAirwayAsthmaticDonor2_CNhs14184_tpm_fwd SmcAirwayAsthmaD2+ Smooth muscle cells - airway, asthmatic, donor2_CNhs14184_11961-126C8_forward Regulation 
SmoothMuscleCellsAirwayAsthmaticDonor1_CNhs14183_tpm_rev SmcAirwayAsthmaD1- Smooth muscle cells - airway, asthmatic, donor1_CNhs14183_11960-126C7_reverse Regulation 
SmoothMuscleCellsAirwayAsthmaticDonor1_CNhs14183_tpm_fwd SmcAirwayAsthmaD1+ Smooth muscle cells - airway, asthmatic, donor1_CNhs14183_11960-126C7_forward Regulation 
SmallAirwayEpithelialCellsDonor3_CNhs12016_tpm_rev SmallAirwayEpithelialCellsD3- Small Airway Epithelial Cells, donor3_CNhs12016_11406-118E2_reverse Regulation 
SmallAirwayEpithelialCellsDonor3_CNhs12016_tpm_fwd SmallAirwayEpithelialCellsD3+ Small Airway Epithelial Cells, donor3_CNhs12016_11406-118E2_forward Regulation 
SmallAirwayEpithelialCellsDonor2_CNhs11975_tpm_rev SmallAirwayEpithelialCellsD2- Small Airway Epithelial Cells, donor2_CNhs11975_11334-117F2_reverse Regulation 
SmallAirwayEpithelialCellsDonor2_CNhs11975_tpm_fwd SmallAirwayEpithelialCellsD2+ Small Airway Epithelial Cells, donor2_CNhs11975_11334-117F2_forward Regulation 
SmallAirwayEpithelialCellsDonor1_CNhs10884_tpm_rev SmallAirwayEpithelialCellsD1- Small Airway Epithelial Cells, donor1_CNhs10884_11256-116F5_reverse Regulation 
SmallAirwayEpithelialCellsDonor1_CNhs10884_tpm_fwd SmallAirwayEpithelialCellsD1+ Small Airway Epithelial Cells, donor1_CNhs10884_11256-116F5_forward Regulation 
SkeletalMuscleSatelliteCellsDonor3_CNhs12008_tpm_rev SkeletalMuscleSatelliteCellsD3- Skeletal Muscle Satellite Cells, donor3_CNhs12008_11397-118D2_reverse Regulation 
SkeletalMuscleSatelliteCellsDonor3_CNhs12008_tpm_fwd SkeletalMuscleSatelliteCellsD3+ Skeletal Muscle Satellite Cells, donor3_CNhs12008_11397-118D2_forward Regulation 
SkeletalMuscleSatelliteCellsDonor2_CNhs11964_tpm_rev SkeletalMuscleSatelliteCellsD2- Skeletal Muscle Satellite Cells, donor2_CNhs11964_11321-117D7_reverse Regulation 
SkeletalMuscleSatelliteCellsDonor2_CNhs11964_tpm_fwd SkeletalMuscleSatelliteCellsD2+ Skeletal Muscle Satellite Cells, donor2_CNhs11964_11321-117D7_forward Regulation 
SkeletalMuscleSatelliteCellsDonor1_CNhs10869_tpm_rev SkeletalMuscleSatelliteCellsD1- Skeletal Muscle Satellite Cells, donor1_CNhs10869_11240-116D7_reverse Regulation 
SkeletalMuscleSatelliteCellsDonor1_CNhs10869_tpm_fwd SkeletalMuscleSatelliteCellsD1+ Skeletal Muscle Satellite Cells, donor1_CNhs10869_11240-116D7_forward Regulation 
SkeletalMuscleCellsDifferentiatedIntoMyotubesMultinucleatedDonor3_CNhs12041_tpm_rev SkeletalMuscleCellsIntoMyotubesD3- Skeletal muscle cells differentiated into Myotubes - multinucleated, donor3_CNhs12041_11431-118G9_reverse Regulation 
SkeletalMuscleCellsDifferentiatedIntoMyotubesMultinucleatedDonor3_CNhs12041_tpm_fwd SkeletalMuscleCellsIntoMyotubesD3+ Skeletal muscle cells differentiated into Myotubes - multinucleated, donor3_CNhs12041_11431-118G9_forward Regulation 
SkeletalMuscleCellsDifferentiatedIntoMyotubesMultinucleatedDonor2_CNhs11984_tpm_rev SkeletalMuscleCellsIntoMyotubesD2- Skeletal muscle cells differentiated into Myotubes - multinucleated, donor2_CNhs11984_11359-117H9_reverse Regulation 
SkeletalMuscleCellsDifferentiatedIntoMyotubesMultinucleatedDonor2_CNhs11984_tpm_fwd SkeletalMuscleCellsIntoMyotubesD2+ Skeletal muscle cells differentiated into Myotubes - multinucleated, donor2_CNhs11984_11359-117H9_forward Regulation 
SkeletalMuscleCellsDifferentiatedIntoMyotubesMultinucleatedDonor1_CNhs11084_tpm_rev SkeletalMuscleCellsIntoMyotubesD1- Skeletal muscle cells differentiated into Myotubes - multinucleated, donor1_CNhs11084_11282-116I4_reverse Regulation 
SkeletalMuscleCellsDifferentiatedIntoMyotubesMultinucleatedDonor1_CNhs11084_tpm_fwd SkeletalMuscleCellsIntoMyotubesD1+ Skeletal muscle cells differentiated into Myotubes - multinucleated, donor1_CNhs11084_11282-116I4_forward Regulation 
SkeletalMuscleCellsDonor6_CNhs12060_tpm_rev SkeletalMuscleCellsD6- Skeletal Muscle Cells, donor6_CNhs12060_11459-119B1_reverse Regulation 
SkeletalMuscleCellsDonor6_CNhs12060_tpm_fwd SkeletalMuscleCellsD6+ Skeletal Muscle Cells, donor6_CNhs12060_11459-119B1_forward Regulation 
SkeletalMuscleCellsDonor5_CNhs12056_tpm_rev SkeletalMuscleCellsD5- Skeletal Muscle Cells, donor5_CNhs12056_11455-119A6_reverse Regulation 
SkeletalMuscleCellsDonor5_CNhs12056_tpm_fwd SkeletalMuscleCellsD5+ Skeletal Muscle Cells, donor5_CNhs12056_11455-119A6_forward Regulation 
SkeletalMuscleCellsDonor4_CNhs12053_tpm_rev SkeletalMuscleCellsD4- Skeletal Muscle Cells, donor4_CNhs12053_11451-119A2_reverse Regulation 
SkeletalMuscleCellsDonor4_CNhs12053_tpm_fwd SkeletalMuscleCellsD4+ Skeletal Muscle Cells, donor4_CNhs12053_11451-119A2_forward Regulation 
SkeletalMuscleCellsDonor3_CNhs12040_tpm_rev SkeletalMuscleCellsD3- Skeletal Muscle Cells, donor3_CNhs12040_11430-118G8_reverse Regulation 
SkeletalMuscleCellsDonor3_CNhs12040_tpm_fwd SkeletalMuscleCellsD3+ Skeletal Muscle Cells, donor3_CNhs12040_11430-118G8_forward Regulation 
SkeletalMuscleCellsDonor2_CNhs11983_tpm_rev SkeletalMuscleCellsD2- Skeletal Muscle Cells, donor2_CNhs11983_11358-117H8_reverse Regulation 
SkeletalMuscleCellsDonor2_CNhs11983_tpm_fwd SkeletalMuscleCellsD2+ Skeletal Muscle Cells, donor2_CNhs11983_11358-117H8_forward Regulation 
SkeletalMuscleCellsDonor1_CNhs11083_tpm_rev SkeletalMuscleCellsD1- Skeletal Muscle Cells, donor1_CNhs11083_11281-116I3_reverse Regulation 
SkeletalMuscleCellsDonor1_CNhs11083_tpm_fwd SkeletalMuscleCellsD1+ Skeletal Muscle Cells, donor1_CNhs11083_11281-116I3_forward Regulation 
SertoliCellsDonor2_CNhs11974_tpm_rev SertoliCellsD2- Sertoli Cells, donor2_CNhs11974_11333-117F1_reverse Regulation 
SertoliCellsDonor2_CNhs11974_tpm_fwd SertoliCellsD2+ Sertoli Cells, donor2_CNhs11974_11333-117F1_forward Regulation 
SertoliCellsDonor1_CNhs10851_tpm_rev SertoliCellsD1- Sertoli Cells, donor1_CNhs10851_11255-116F4_reverse Regulation 
SertoliCellsDonor1_CNhs10851_tpm_fwd SertoliCellsD1+ Sertoli Cells, donor1_CNhs10851_11255-116F4_forward Regulation 
SebocyteDonor3_CNhs11995_tpm_rev SebocyteD3- Sebocyte, donor3_CNhs11995_11378-118B1_reverse Regulation 
SebocyteDonor3_CNhs11995_tpm_fwd SebocyteD3+ Sebocyte, donor3_CNhs11995_11378-118B1_forward Regulation 
SebocyteDonor2_CNhs11951_tpm_rev SebocyteD2- Sebocyte, donor2_CNhs11951_11301-117B5_reverse Regulation 
SebocyteDonor2_CNhs11951_tpm_fwd SebocyteD2+ Sebocyte, donor2_CNhs11951_11301-117B5_forward Regulation 
SebocyteDonor1_CNhs10847_tpm_rev SebocyteD1- Sebocyte, donor1_CNhs10847_11220-116B5_reverse Regulation 
SebocyteDonor1_CNhs10847_tpm_fwd SebocyteD1+ Sebocyte, donor1_CNhs10847_11220-116B5_forward Regulation 
SchwannCellsDonor3_CNhs12621_tpm_rev SchwannCellsD3- Schwann Cells, donor3_CNhs12621_11659-122F3_reverse Regulation 
SchwannCellsDonor3_CNhs12621_tpm_fwd SchwannCellsD3+ Schwann Cells, donor3_CNhs12621_11659-122F3_forward Regulation 
SchwannCellsDonor2_CNhs12345_tpm_rev SchwannCellsD2- Schwann Cells, donor2_CNhs12345_11578-120F3_reverse Regulation 
SchwannCellsDonor2_CNhs12345_tpm_fwd SchwannCellsD2+ Schwann Cells, donor2_CNhs12345_11578-120F3_forward Regulation 
SchwannCellsDonor1_CNhs12073_tpm_rev SchwannCellsD1- Schwann Cells, donor1_CNhs12073_11498-119F4_reverse Regulation 
SchwannCellsDonor1_CNhs12073_tpm_fwd SchwannCellsD1+ Schwann Cells, donor1_CNhs12073_11498-119F4_forward Regulation 
SalivaryAcinarCellsDonor3_CNhs12812_tpm_rev SalivaryAcinarCellsD3- salivary acinar cells, donor3_CNhs12812_11773-123I9_reverse Regulation 
SalivaryAcinarCellsDonor3_CNhs12812_tpm_fwd SalivaryAcinarCellsD3+ salivary acinar cells, donor3_CNhs12812_11773-123I9_forward Regulation 
SalivaryAcinarCellsDonor2_CNhs12811_tpm_rev SalivaryAcinarCellsD2- salivary acinar cells, donor2_CNhs12811_11772-123I8_reverse Regulation 
SalivaryAcinarCellsDonor2_CNhs12811_tpm_fwd SalivaryAcinarCellsD2+ salivary acinar cells, donor2_CNhs12811_11772-123I8_forward Regulation 
SalivaryAcinarCellsDonor1_CNhs12810_tpm_rev SalivaryAcinarCellsD1- salivary acinar cells, donor1_CNhs12810_11771-123I7_reverse Regulation 
SalivaryAcinarCellsDonor1_CNhs12810_tpm_fwd SalivaryAcinarCellsD1+ salivary acinar cells, donor1_CNhs12810_11771-123I7_forward Regulation 
RenalProximalTubularEpithelialCellDonor3_CNhs12120_tpm_rev RptecD3- Renal Proximal Tubular Epithelial Cell, donor3_CNhs12120_11676-122H2_reverse Regulation 
RenalProximalTubularEpithelialCellDonor3_CNhs12120_tpm_fwd RptecD3+ Renal Proximal Tubular Epithelial Cell, donor3_CNhs12120_11676-122H2_forward Regulation 
RenalProximalTubularEpithelialCellDonor2_CNhs12087_tpm_rev RptecD2- Renal Proximal Tubular Epithelial Cell, donor2_CNhs12087_11595-120H2_reverse Regulation 
RenalProximalTubularEpithelialCellDonor2_CNhs12087_tpm_fwd RptecD2+ Renal Proximal Tubular Epithelial Cell, donor2_CNhs12087_11595-120H2_forward Regulation 
RenalProximalTubularEpithelialCellDonor1_CNhs11330_tpm_rev RptecD1- Renal Proximal Tubular Epithelial Cell, donor1_CNhs11330_11515-119H3_reverse Regulation 
RenalProximalTubularEpithelialCellDonor1_CNhs11330_tpm_fwd RptecD1+ Renal Proximal Tubular Epithelial Cell, donor1_CNhs11330_11515-119H3_forward Regulation 
RetinalPigmentEpithelialCellsDonor3_CNhs12733_tpm_rev RpecD3- Retinal Pigment Epithelial Cells, donor3_CNhs12733_11689-122I6_reverse Regulation 
RetinalPigmentEpithelialCellsDonor3_CNhs12733_tpm_fwd RpecD3+ Retinal Pigment Epithelial Cells, donor3_CNhs12733_11689-122I6_forward Regulation 
RetinalPigmentEpithelialCellsDonor2_CNhs12096_tpm_rev RpecD2- Retinal Pigment Epithelial Cells, donor2_CNhs12096_11608-120I6_reverse Regulation 
RetinalPigmentEpithelialCellsDonor2_CNhs12096_tpm_fwd RpecD2+ Retinal Pigment Epithelial Cells, donor2_CNhs12096_11608-120I6_forward Regulation 
RetinalPigmentEpithelialCellsDonor1_CNhs11338_tpm_rev RpecD1- Retinal Pigment Epithelial Cells, donor1_CNhs11338_11528-119I7_reverse Regulation 
RetinalPigmentEpithelialCellsDonor1_CNhs11338_tpm_fwd RpecD1+ Retinal Pigment Epithelial Cells, donor1_CNhs11338_11528-119I7_forward Regulation 
RetinalPigmentEpithelialCellsDonor0_CNhs10842_tpm_rev RpecD0- Retinal Pigment Epithelial Cells, donor0_CNhs10842_11215-116A9_reverse Regulation 
RetinalPigmentEpithelialCellsDonor0_CNhs10842_tpm_fwd RpecD0+ Retinal Pigment Epithelial Cells, donor0_CNhs10842_11215-116A9_forward Regulation 
RenalGlomerularEndothelialCellsDonor4_CNhs13080_tpm_rev RgecD4- Renal Glomerular Endothelial Cells, donor4_CNhs13080_11783-124B1_reverse Regulation 
RenalGlomerularEndothelialCellsDonor4_CNhs13080_tpm_fwd RgecD4+ Renal Glomerular Endothelial Cells, donor4_CNhs13080_11783-124B1_forward Regulation 
RenalGlomerularEndothelialCellsDonor3_CNhs12624_tpm_rev RgecD3- Renal Glomerular Endothelial Cells, donor3_CNhs12624_11675-122H1_reverse Regulation 
RenalGlomerularEndothelialCellsDonor3_CNhs12624_tpm_fwd RgecD3+ Renal Glomerular Endothelial Cells, donor3_CNhs12624_11675-122H1_forward Regulation 
RenalGlomerularEndothelialCellsDonor2_CNhs12086_tpm_rev RgecD2- Renal Glomerular Endothelial Cells, donor2_CNhs12086_11594-120H1_reverse Regulation 
RenalGlomerularEndothelialCellsDonor2_CNhs12086_tpm_fwd RgecD2+ Renal Glomerular Endothelial Cells, donor2_CNhs12086_11594-120H1_forward Regulation 
RenalGlomerularEndothelialCellsDonor1_CNhs12074_tpm_rev RgecD1- Renal Glomerular Endothelial Cells, donor1_CNhs12074_11514-119H2_reverse Regulation 
RenalGlomerularEndothelialCellsDonor1_CNhs12074_tpm_fwd RgecD1+ Renal Glomerular Endothelial Cells, donor1_CNhs12074_11514-119H2_forward Regulation 
RenalMesangialCellsDonor3_CNhs12121_tpm_rev RenalMesangialCellsD3- Renal Mesangial Cells, donor3_CNhs12121_11679-122H5_reverse Regulation 
RenalMesangialCellsDonor3_CNhs12121_tpm_fwd RenalMesangialCellsD3+ Renal Mesangial Cells, donor3_CNhs12121_11679-122H5_forward Regulation 
RenalMesangialCellsDonor2_CNhs12089_tpm_rev RenalMesangialCellsD2- Renal Mesangial Cells, donor2_CNhs12089_11598-120H5_reverse Regulation 
RenalMesangialCellsDonor2_CNhs12089_tpm_fwd RenalMesangialCellsD2+ Renal Mesangial Cells, donor2_CNhs12089_11598-120H5_forward Regulation 
RenalMesangialCellsDonor1_CNhs11333_tpm_rev RenalMesangialCellsD1- Renal Mesangial Cells, donor1_CNhs11333_11518-119H6_reverse Regulation 
RenalMesangialCellsDonor1_CNhs11333_tpm_fwd RenalMesangialCellsD1+ Renal Mesangial Cells, donor1_CNhs11333_11518-119H6_forward Regulation 
RenalEpithelialCellsDonor3_CNhs12732_tpm_rev RenalEpithelialCellsD3- Renal Epithelial Cells, donor3_CNhs12732_11678-122H4_reverse Regulation 
RenalEpithelialCellsDonor3_CNhs12732_tpm_fwd RenalEpithelialCellsD3+ Renal Epithelial Cells, donor3_CNhs12732_11678-122H4_forward Regulation 
RenalEpithelialCellsDonor2_CNhs12088_tpm_rev RenalEpithelialCellsD2- Renal Epithelial Cells, donor2_CNhs12088_11597-120H4_reverse Regulation 
RenalEpithelialCellsDonor2_CNhs12088_tpm_fwd RenalEpithelialCellsD2+ Renal Epithelial Cells, donor2_CNhs12088_11597-120H4_forward Regulation 
RenalEpithelialCellsDonor1_CNhs11332_tpm_rev RenalEpithelialCellsD1- Renal Epithelial Cells, donor1_CNhs11332_11517-119H5_reverse Regulation 
RenalEpithelialCellsDonor1_CNhs11332_tpm_fwd RenalEpithelialCellsD1+ Renal Epithelial Cells, donor1_CNhs11332_11517-119H5_forward Regulation 
RenalCorticalEpithelialCellsDonor2_CNhs12728_tpm_rev RcecD2- Renal Cortical Epithelial Cells, donor2_CNhs12728_11596-120H3_reverse Regulation 
RenalCorticalEpithelialCellsDonor2_CNhs12728_tpm_fwd RcecD2+ Renal Cortical Epithelial Cells, donor2_CNhs12728_11596-120H3_forward Regulation 
RenalCorticalEpithelialCellsDonor1_CNhs11331_tpm_rev RcecD1- Renal Cortical Epithelial Cells, donor1_CNhs11331_11516-119H4_reverse Regulation 
RenalCorticalEpithelialCellsDonor1_CNhs11331_tpm_fwd RcecD1+ Renal Cortical Epithelial Cells, donor1_CNhs11331_11516-119H4_forward Regulation 
ProstateStromalCellsDonor3_CNhs12015_tpm_rev ProstateStromalCellsD3- Prostate Stromal Cells, donor3_CNhs12015_11405-118E1_reverse Regulation 
ProstateStromalCellsDonor3_CNhs12015_tpm_fwd ProstateStromalCellsD3+ Prostate Stromal Cells, donor3_CNhs12015_11405-118E1_forward Regulation 
ProstateStromalCellsDonor2_CNhs11973_tpm_rev ProstateStromalCellsD2- Prostate Stromal Cells, donor2_CNhs11973_11332-117E9_reverse Regulation 
ProstateStromalCellsDonor2_CNhs11973_tpm_fwd ProstateStromalCellsD2+ Prostate Stromal Cells, donor2_CNhs11973_11332-117E9_forward Regulation 
ProstateStromalCellsDonor1_CNhs10883_tpm_rev ProstateStromalCellsD1- Prostate Stromal Cells, donor1_CNhs10883_11254-116F3_reverse Regulation 
ProstateStromalCellsDonor1_CNhs10883_tpm_fwd ProstateStromalCellsD1+ Prostate Stromal Cells, donor1_CNhs10883_11254-116F3_forward Regulation 
ProstateEpithelialCellsDonor3_CNhs12014_tpm_rev ProstateEpithelialCellsD3- Prostate Epithelial Cells, donor3_CNhs12014_11404-118D9_reverse Regulation 
ProstateEpithelialCellsDonor3_CNhs12014_tpm_fwd ProstateEpithelialCellsD3+ Prostate Epithelial Cells, donor3_CNhs12014_11404-118D9_forward Regulation 
ProstateEpithelialCellsDonor2_CNhs11972_tpm_rev ProstateEpithelialCellsD2- Prostate Epithelial Cells, donor2_CNhs11972_11331-117E8_reverse Regulation 
ProstateEpithelialCellsDonor2_CNhs11972_tpm_fwd ProstateEpithelialCellsD2+ Prostate Epithelial Cells, donor2_CNhs11972_11331-117E8_forward Regulation 
ProstateEpithelialCellsPolarizedDonor1_CNhs10882_tpm_rev ProstateEpithelialCellsD1- Prostate Epithelial Cells (polarized), donor1_CNhs10882_11253-116F2_reverse Regulation 
ProstateEpithelialCellsPolarizedDonor1_CNhs10882_tpm_fwd ProstateEpithelialCellsD1+ Prostate Epithelial Cells (polarized), donor1_CNhs10882_11253-116F2_forward Regulation 
PreadipocyteVisceralDonor3_CNhs12039_tpm_rev PreadipocyteVisceralD3- Preadipocyte - visceral, donor3_CNhs12039_11429-118G7_reverse Regulation 
PreadipocyteVisceralDonor3_CNhs12039_tpm_fwd PreadipocyteVisceralD3+ Preadipocyte - visceral, donor3_CNhs12039_11429-118G7_forward Regulation 
PreadipocyteVisceralDonor2_CNhs11982_tpm_rev PreadipocyteVisceralD2- Preadipocyte - visceral, donor2_CNhs11982_11357-117H7_reverse Regulation 
PreadipocyteVisceralDonor2_CNhs11982_tpm_fwd PreadipocyteVisceralD2+ Preadipocyte - visceral, donor2_CNhs11982_11357-117H7_forward Regulation 
PreadipocyteVisceralDonor1_CNhs11082_tpm_rev PreadipocyteVisceralD1- Preadipocyte - visceral, donor1_CNhs11082_11280-116I2_reverse Regulation 
PreadipocyteVisceralDonor1_CNhs11082_tpm_fwd PreadipocyteVisceralD1+ Preadipocyte - visceral, donor1_CNhs11082_11280-116I2_forward Regulation 
PreadipocyteSubcutaneousDonor3_CNhs12038_tpm_rev PreadipocyteSubcutaneousD3- Preadipocyte - subcutaneous, donor3_CNhs12038_11428-118G6_reverse Regulation 
PreadipocyteSubcutaneousDonor3_CNhs12038_tpm_fwd PreadipocyteSubcutaneousD3+ Preadipocyte - subcutaneous, donor3_CNhs12038_11428-118G6_forward Regulation 
PreadipocyteSubcutaneousDonor2_CNhs11981_tpm_rev PreadipocyteSubcutaneousD2- Preadipocyte - subcutaneous, donor2_CNhs11981_11356-117H6_reverse Regulation 
PreadipocyteSubcutaneousDonor2_CNhs11981_tpm_fwd PreadipocyteSubcutaneousD2+ Preadipocyte - subcutaneous, donor2_CNhs11981_11356-117H6_forward Regulation 
PreadipocyteSubcutaneousDonor1_CNhs11081_tpm_rev PreadipocyteSubcutaneousD1- Preadipocyte - subcutaneous, donor1_CNhs11081_11279-116I1_reverse Regulation 
PreadipocyteSubcutaneousDonor1_CNhs11081_tpm_fwd PreadipocyteSubcutaneousD1+ Preadipocyte - subcutaneous, donor1_CNhs11081_11279-116I1_forward Regulation 
PreadipocytePerirenalDonor1_CNhs12065_tpm_rev PreadipocytePerirenalD1- Preadipocyte - perirenal, donor1_CNhs12065_11469-119C2_reverse Regulation 
PreadipocytePerirenalDonor1_CNhs12065_tpm_fwd PreadipocytePerirenalD1+ Preadipocyte - perirenal, donor1_CNhs12065_11469-119C2_forward Regulation 
PreadipocyteOmentalDonor3_CNhs12013_tpm_rev PreadipocyteOmentalD3- Preadipocyte - omental, donor3_CNhs12013_11403-118D8_reverse Regulation 
PreadipocyteOmentalDonor3_CNhs12013_tpm_fwd PreadipocyteOmentalD3+ Preadipocyte - omental, donor3_CNhs12013_11403-118D8_forward Regulation 
PreadipocyteOmentalDonor2_CNhs11902_tpm_rev PreadipocyteOmentalD2- Preadipocyte - omental, donor2_CNhs11902_11329-117E6_reverse Regulation 
PreadipocyteOmentalDonor2_CNhs11902_tpm_fwd PreadipocyteOmentalD2+ Preadipocyte - omental, donor2_CNhs11902_11329-117E6_forward Regulation 
PreadipocyteOmentalDonor1_CNhs11065_tpm_rev PreadipocyteOmentalD1- Preadipocyte - omental, donor1_CNhs11065_11468-119C1_reverse Regulation 
PreadipocyteOmentalDonor1_CNhs11065_tpm_fwd PreadipocyteOmentalD1+ Preadipocyte - omental, donor1_CNhs11065_11468-119C1_forward Regulation 
PreadipocyteBreastDonor2_CNhs11971_tpm_rev PreadipocyteBreastD2- Preadipocyte - breast, donor2_CNhs11971_11328-117E5_reverse Regulation 
PreadipocyteBreastDonor2_CNhs11971_tpm_fwd PreadipocyteBreastD2+ Preadipocyte - breast, donor2_CNhs11971_11328-117E5_forward Regulation 
PreadipocyteBreastDonor1_CNhs11052_tpm_rev PreadipocyteBreastD1- Preadipocyte - breast, donor1_CNhs11052_11467-119B9_reverse Regulation 
PreadipocyteBreastDonor1_CNhs11052_tpm_fwd PreadipocyteBreastD1+ Preadipocyte - breast, donor1_CNhs11052_11467-119B9_forward Regulation 
PlacentalEpithelialCellsDonor3_CNhs12037_tpm_rev PlacentalEpithelialCellsD3- Placental Epithelial Cells, donor3_CNhs12037_11427-118G5_reverse Regulation 
PlacentalEpithelialCellsDonor3_CNhs12037_tpm_fwd PlacentalEpithelialCellsD3+ Placental Epithelial Cells, donor3_CNhs12037_11427-118G5_forward Regulation 
PlacentalEpithelialCellsDonor2_CNhs11386_tpm_rev PlacentalEpithelialCellsD2- Placental Epithelial Cells, donor2_CNhs11386_11355-117H5_reverse Regulation 
PlacentalEpithelialCellsDonor2_CNhs11386_tpm_fwd PlacentalEpithelialCellsD2+ Placental Epithelial Cells, donor2_CNhs11386_11355-117H5_forward Regulation 
PlacentalEpithelialCellsDonor1_CNhs11079_tpm_rev PlacentalEpithelialCellsD1- Placental Epithelial Cells, donor1_CNhs11079_11278-116H9_reverse Regulation 
PlacentalEpithelialCellsDonor1_CNhs11079_tpm_fwd PlacentalEpithelialCellsD1+ Placental Epithelial Cells, donor1_CNhs11079_11278-116H9_forward Regulation 
PeripheralBloodMononuclearCellsDonor3_CNhs12002_tpm_rev PeripheralBloodMononuclearCellsD3- Peripheral Blood Mononuclear Cells, donor3_CNhs12002_11388-118C2_reverse Regulation 
PeripheralBloodMononuclearCellsDonor3_CNhs12002_tpm_fwd PeripheralBloodMononuclearCellsD3+ Peripheral Blood Mononuclear Cells, donor3_CNhs12002_11388-118C2_forward Regulation 
PeripheralBloodMononuclearCellsDonor2_CNhs11958_tpm_rev PeripheralBloodMononuclearCellsD2- Peripheral Blood Mononuclear Cells, donor2_CNhs11958_11312-117C7_reverse Regulation 
PeripheralBloodMononuclearCellsDonor2_CNhs11958_tpm_fwd PeripheralBloodMononuclearCellsD2+ Peripheral Blood Mononuclear Cells, donor2_CNhs11958_11312-117C7_forward Regulation 
PeripheralBloodMononuclearCellsDonor1_CNhs10860_tpm_rev PeripheralBloodMononuclearCellsD1- Peripheral Blood Mononuclear Cells, donor1_CNhs10860_11231-116C7_reverse Regulation 
PeripheralBloodMononuclearCellsDonor1_CNhs10860_tpm_fwd PeripheralBloodMononuclearCellsD1+ Peripheral Blood Mononuclear Cells, donor1_CNhs10860_11231-116C7_forward Regulation 
PerineurialCellsDonor2_CNhs12590_tpm_rev PerineurialCellsD2- Perineurial Cells, donor2_CNhs12590_11579-120F4_reverse Regulation 
PerineurialCellsDonor2_CNhs12590_tpm_fwd PerineurialCellsD2+ Perineurial Cells, donor2_CNhs12590_11579-120F4_forward Regulation 
PerineurialCellsDonor1_CNhs12587_tpm_rev PerineurialCellsD1- Perineurial Cells, donor1_CNhs12587_11499-119F5_reverse Regulation 
PerineurialCellsDonor1_CNhs12587_tpm_fwd PerineurialCellsD1+ Perineurial Cells, donor1_CNhs12587_11499-119F5_forward Regulation 
PericytesDonor3_CNhs12116_tpm_rev PericytesD3- Pericytes, donor3_CNhs12116_11652-122E5_reverse Regulation 
PericytesDonor3_CNhs12116_tpm_fwd PericytesD3+ Pericytes, donor3_CNhs12116_11652-122E5_forward Regulation 
PericytesDonor2_CNhs12079_tpm_rev PericytesD2- Pericytes, donor2_CNhs12079_11571-120E5_reverse Regulation 
PericytesDonor2_CNhs12079_tpm_fwd PericytesD2+ Pericytes, donor2_CNhs12079_11571-120E5_forward Regulation 
PericytesDonor1_CNhs11317_tpm_rev PericytesD1- Pericytes, donor1_CNhs11317_11491-119E6_reverse Regulation 
PericytesDonor1_CNhs11317_tpm_fwd PericytesD1+ Pericytes, donor1_CNhs11317_11491-119E6_forward Regulation 
PancreaticStromalCellsDonor1_CNhs10877_tpm_rev PancreaticStromalCellsD1- Pancreatic stromal cells, donor1_CNhs10877_11249-116E7_reverse Regulation 
PancreaticStromalCellsDonor1_CNhs10877_tpm_fwd PancreaticStromalCellsD1+ Pancreatic stromal cells, donor1_CNhs10877_11249-116E7_forward Regulation 
OsteoblastDifferentiatedDonor3_CNhs12035_tpm_rev OsteoblastDifferentiatedD3- Osteoblast - differentiated, donor3_CNhs12035_11425-118G3_reverse Regulation 
OsteoblastDifferentiatedDonor3_CNhs12035_tpm_fwd OsteoblastDifferentiatedD3+ Osteoblast - differentiated, donor3_CNhs12035_11425-118G3_forward Regulation 
OsteoblastDifferentiatedDonor2_CNhs11980_tpm_rev OsteoblastDifferentiatedD2- Osteoblast - differentiated, donor2_CNhs11980_11353-117H3_reverse Regulation 
OsteoblastDifferentiatedDonor2_CNhs11980_tpm_fwd OsteoblastDifferentiatedD2+ Osteoblast - differentiated, donor2_CNhs11980_11353-117H3_forward Regulation 
OsteoblastDifferentiatedDonor1_CNhs11311_tpm_rev OsteoblastDifferentiatedD1- Osteoblast - differentiated, donor1_CNhs11311_11276-116H7_reverse Regulation 
OsteoblastDifferentiatedDonor1_CNhs11311_tpm_fwd OsteoblastDifferentiatedD1+ Osteoblast - differentiated, donor1_CNhs11311_11276-116H7_forward Regulation 
OsteoblastDonor3_CNhs12036_tpm_rev OsteoblastD3- Osteoblast, donor3_CNhs12036_11426-118G4_reverse Regulation 
OsteoblastDonor3_CNhs12036_tpm_fwd OsteoblastD3+ Osteoblast, donor3_CNhs12036_11426-118G4_forward Regulation 
OsteoblastDonor2_CNhs11385_tpm_rev OsteoblastD2- Osteoblast, donor2_CNhs11385_11354-117H4_reverse Regulation 
OsteoblastDonor2_CNhs11385_tpm_fwd OsteoblastD2+ Osteoblast, donor2_CNhs11385_11354-117H4_forward Regulation 
OsteoblastDonor1_CNhs11078_tpm_rev OsteoblastD1- Osteoblast, donor1_CNhs11078_11277-116H8_reverse Regulation 
OsteoblastDonor1_CNhs11078_tpm_fwd OsteoblastD1+ Osteoblast, donor1_CNhs11078_11277-116H8_forward Regulation 
OligodendrocytePrecursorsDonor1_CNhs12586_tpm_rev OligodendrocytePrecursorsD1- Oligodendrocyte - precursors, donor1_CNhs12586_11496-119F2_reverse Regulation 
OligodendrocytePrecursorsDonor1_CNhs12586_tpm_fwd OligodendrocytePrecursorsD1+ Oligodendrocyte - precursors, donor1_CNhs12586_11496-119F2_forward Regulation 
OlfactoryEpithelialCellsDonor4_CNhs13819_tpm_rev OlfactoryEpithelialCellsD4- Olfactory epithelial cells, donor4_CNhs13819_11936-126A1_reverse Regulation 
OlfactoryEpithelialCellsDonor4_CNhs13819_tpm_fwd OlfactoryEpithelialCellsD4+ Olfactory epithelial cells, donor4_CNhs13819_11936-126A1_forward Regulation 
OlfactoryEpithelialCellsDonor3_CNhs13818_tpm_rev OlfactoryEpithelialCellsD3- Olfactory epithelial cells, donor3_CNhs13818_11935-125I9_reverse Regulation 
OlfactoryEpithelialCellsDonor3_CNhs13818_tpm_fwd OlfactoryEpithelialCellsD3+ Olfactory epithelial cells, donor3_CNhs13818_11935-125I9_forward Regulation 
OlfactoryEpithelialCellsDonor2_CNhs13817_tpm_rev OlfactoryEpithelialCellsD2- Olfactory epithelial cells, donor2_CNhs13817_11934-125I8_reverse Regulation 
OlfactoryEpithelialCellsDonor2_CNhs13817_tpm_fwd OlfactoryEpithelialCellsD2+ Olfactory epithelial cells, donor2_CNhs13817_11934-125I8_forward Regulation 
OlfactoryEpithelialCellsDonor1_CNhs13816_tpm_rev OlfactoryEpithelialCellsD1- Olfactory epithelial cells, donor1_CNhs13816_11933-125I7_reverse Regulation 
OlfactoryEpithelialCellsDonor1_CNhs13816_tpm_fwd OlfactoryEpithelialCellsD1+ Olfactory epithelial cells, donor1_CNhs13816_11933-125I7_forward Regulation 
NucleusPulposusCellDonor3_CNhs12063_tpm_rev NucleusPulposusCellD3- Nucleus Pulposus Cell, donor3_CNhs12063_11462-119B4_reverse Regulation 
NucleusPulposusCellDonor3_CNhs12063_tpm_fwd NucleusPulposusCellD3+ Nucleus Pulposus Cell, donor3_CNhs12063_11462-119B4_forward Regulation 
NucleusPulposusCellDonor2_CNhs12019_tpm_rev NucleusPulposusCellD2- Nucleus Pulposus Cell, donor2_CNhs12019_11409-118E5_reverse Regulation 
NucleusPulposusCellDonor2_CNhs12019_tpm_fwd NucleusPulposusCellD2+ Nucleus Pulposus Cell, donor2_CNhs12019_11409-118E5_forward Regulation 
NucleusPulposusCellDonor1_CNhs10881_tpm_rev NucleusPulposusCellD1- Nucleus Pulposus Cell, donor1_CNhs10881_11252-116F1_reverse Regulation 
NucleusPulposusCellDonor1_CNhs10881_tpm_fwd NucleusPulposusCellD1+ Nucleus Pulposus Cell, donor1_CNhs10881_11252-116F1_forward Regulation 
NeutrophilsDonor3_CNhs11905_tpm_rev NeutrophilsD3- Neutrophils, donor3_CNhs11905_11390-118C4_reverse Regulation 
NeutrophilsDonor3_CNhs11905_tpm_fwd NeutrophilsD3+ Neutrophils, donor3_CNhs11905_11390-118C4_forward Regulation 
NeutrophilsDonor2_CNhs11959_tpm_rev NeutrophilsD2- Neutrophils, donor2_CNhs11959_11314-117C9_reverse Regulation 
NeutrophilsDonor2_CNhs11959_tpm_fwd NeutrophilsD2+ Neutrophils, donor2_CNhs11959_11314-117C9_forward Regulation 
NeutrophilsDonor1_CNhs10862_tpm_rev NeutrophilsD1- Neutrophils, donor1_CNhs10862_11233-116C9_reverse Regulation 
NeutrophilsDonor1_CNhs10862_tpm_fwd NeutrophilsD1+ Neutrophils, donor1_CNhs10862_11233-116C9_forward Regulation 
NeuronsDonor3_CNhs13815_tpm_rev NeuronsD3- Neurons, donor3_CNhs13815_11655-122E8_reverse Regulation 
NeuronsDonor3_CNhs13815_tpm_fwd NeuronsD3+ Neurons, donor3_CNhs13815_11655-122E8_forward Regulation 
NeuronsDonor2_CNhs12726_tpm_rev NeuronsD2- Neurons, donor2_CNhs12726_11574-120E8_reverse Regulation 
NeuronsDonor2_CNhs12726_tpm_fwd NeuronsD2+ Neurons, donor2_CNhs12726_11574-120E8_forward Regulation 
NeuronsDonor1_CNhs12338_tpm_rev NeuronsD1- Neurons, donor1_CNhs12338_11494-119E9_reverse Regulation 
NeuronsDonor1_CNhs12338_tpm_fwd NeuronsD1+ Neurons, donor1_CNhs12338_11494-119E9_forward Regulation 
NeuralStemCellsDonor2_CNhs11384_tpm_rev NeuralStemCellsD2- Neural stem cells, donor2_CNhs11384_11352-117H2_reverse Regulation 
NeuralStemCellsDonor2_CNhs11384_tpm_fwd NeuralStemCellsD2+ Neural stem cells, donor2_CNhs11384_11352-117H2_forward Regulation 
NeuralStemCellsDonor1_CNhs11063_tpm_rev NeuralStemCellsD1- Neural stem cells, donor1_CNhs11063_11275-116H6_reverse Regulation 
NeuralStemCellsDonor1_CNhs11063_tpm_fwd NeuralStemCellsD1+ Neural stem cells, donor1_CNhs11063_11275-116H6_forward Regulation 
NaturalKillerCellsDonor3_CNhs12001_tpm_rev NaturalKillerCellsD3- Natural Killer Cells, donor3_CNhs12001_11387-118C1_reverse Regulation 
NaturalKillerCellsDonor3_CNhs12001_tpm_fwd NaturalKillerCellsD3+ Natural Killer Cells, donor3_CNhs12001_11387-118C1_forward Regulation 
NaturalKillerCellsDonor2_CNhs11957_tpm_rev NaturalKillerCellsD2- Natural Killer Cells, donor2_CNhs11957_11311-117C6_reverse Regulation 
NaturalKillerCellsDonor2_CNhs11957_tpm_fwd NaturalKillerCellsD2+ Natural Killer Cells, donor2_CNhs11957_11311-117C6_forward Regulation 
NaturalKillerCellsDonor1_CNhs10859_tpm_rev NaturalKillerCellsD1- Natural Killer Cells, donor1_CNhs10859_11230-116C6_reverse Regulation 
NaturalKillerCellsDonor1_CNhs10859_tpm_fwd NaturalKillerCellsD1+ Natural Killer Cells, donor1_CNhs10859_11230-116C6_forward Regulation 
NasalEpithelialCellsDonor2_CNhs12574_tpm_rev NasalEpithelialCellsD2- nasal epithelial cells, donor2_CNhs12574_12227-129F4_reverse Regulation 
NasalEpithelialCellsDonor2_CNhs12574_tpm_fwd NasalEpithelialCellsD2+ nasal epithelial cells, donor2_CNhs12574_12227-129F4_forward Regulation 
NasalEpithelialCellsDonor1TechRep1_CNhs12589_tpm_rev NasalEpithelialCellsD1Tr1- nasal epithelial cells, donor1, tech_rep1_CNhs12589_12226-129F3_reverse Regulation 
NasalEpithelialCellsDonor1TechRep1_CNhs12589_tpm_fwd NasalEpithelialCellsD1Tr1+ nasal epithelial cells, donor1, tech_rep1_CNhs12589_12226-129F3_forward Regulation 
MyoblastDonor3_CNhs11908_tpm_rev MyoblastD3- Myoblast, donor3_CNhs11908_11398-118D3_reverse Regulation 
MyoblastDonor3_CNhs11908_tpm_fwd MyoblastD3+ Myoblast, donor3_CNhs11908_11398-118D3_forward Regulation 
MyoblastDonor2_CNhs11965_tpm_rev MyoblastD2- Myoblast, donor2_CNhs11965_11322-117D8_reverse Regulation 
MyoblastDonor2_CNhs11965_tpm_fwd MyoblastD2+ Myoblast, donor2_CNhs11965_11322-117D8_forward Regulation 
MyoblastDonor1_CNhs10870_tpm_rev MyoblastD1- Myoblast, donor1_CNhs10870_11241-116D8_reverse Regulation 
MyoblastDonor1_CNhs10870_tpm_fwd MyoblastD1+ Myoblast, donor1_CNhs10870_11241-116D8_forward Regulation 
MesenchymalStemCellsWhartonsJellyDonor1_CNhs11057_tpm_rev MscWharton'sJellyD1- Mesenchymal Stem Cells - Wharton's Jelly, donor1_CNhs11057_11548-120B9_reverse Regulation 
MesenchymalStemCellsWhartonsJellyDonor1_CNhs11057_tpm_fwd MscWharton'sJellyD1+ Mesenchymal Stem Cells - Wharton's Jelly, donor1_CNhs11057_11548-120B9_forward Regulation 
MesenchymalStemCellsVertebralDonor1_CNhs10846_tpm_rev MscVertebralD1- Mesenchymal Stem Cells - Vertebral, donor1_CNhs10846_11219-116B4_reverse Regulation 
MesenchymalStemCellsVertebralDonor1_CNhs10846_tpm_fwd MscVertebralD1+ Mesenchymal Stem Cells - Vertebral, donor1_CNhs10846_11219-116B4_forward Regulation 
MesenchymalStemCellsUmbilicalDonor3_CNhs12127_tpm_rev MscUmbilicalD3- Mesenchymal Stem Cells - umbilical, donor3_CNhs12127_11700-123A8_reverse Regulation 
MesenchymalStemCellsUmbilicalDonor3_CNhs12127_tpm_fwd MscUmbilicalD3+ Mesenchymal Stem Cells - umbilical, donor3_CNhs12127_11700-123A8_forward Regulation 
MesenchymalStemCellsUmbilicalDonor2_CNhs12102_tpm_rev MscUmbilicalD2- Mesenchymal Stem Cells - umbilical, donor2_CNhs12102_11619-122A8_reverse Regulation 
MesenchymalStemCellsUmbilicalDonor2_CNhs12102_tpm_fwd MscUmbilicalD2+ Mesenchymal Stem Cells - umbilical, donor2_CNhs12102_11619-122A8_forward Regulation 
MesenchymalStemCellsUmbilicalDonor1_CNhs11347_tpm_rev MscUmbilicalD1- Mesenchymal Stem Cells - umbilical, donor1_CNhs11347_11539-120A9_reverse Regulation 
MesenchymalStemCellsUmbilicalDonor1_CNhs11347_tpm_fwd MscUmbilicalD1+ Mesenchymal Stem Cells - umbilical, donor1_CNhs11347_11539-120A9_forward Regulation 
MesenchymalStemCellsUmbilicalDonor0_CNhs12492_tpm_rev MscUmbilicalD0- Mesenchymal stem cells - umbilical, donor0_CNhs12492_11214-116A8_reverse Regulation 
MesenchymalStemCellsUmbilicalDonor0_CNhs12492_tpm_fwd MscUmbilicalD0+ Mesenchymal stem cells - umbilical, donor0_CNhs12492_11214-116A8_forward Regulation 
MesenchymalStemCellsHepaticDonor2_CNhs12730_tpm_rev MscHepaticD2- Mesenchymal Stem Cells - hepatic, donor2_CNhs12730_11618-122A7_reverse Regulation 
MesenchymalStemCellsHepaticDonor2_CNhs12730_tpm_fwd MscHepaticD2+ Mesenchymal Stem Cells - hepatic, donor2_CNhs12730_11618-122A7_forward Regulation 
MesenchymalStemCellsHepaticDonor1_CNhs11346_tpm_rev MscHepaticD1- Mesenchymal Stem Cells - hepatic, donor1_CNhs11346_11538-120A8_reverse Regulation 
MesenchymalStemCellsHepaticDonor1_CNhs11346_tpm_fwd MscHepaticD1+ Mesenchymal Stem Cells - hepatic, donor1_CNhs11346_11538-120A8_forward Regulation 
MesenchymalStemCellsHepaticDonor0_CNhs10845_tpm_rev MscHepaticD0- Mesenchymal stem cells - hepatic, donor0_CNhs10845_11218-116B3_reverse Regulation 
MesenchymalStemCellsHepaticDonor0_CNhs10845_tpm_fwd MscHepaticD0+ Mesenchymal stem cells - hepatic, donor0_CNhs10845_11218-116B3_forward Regulation 
MesenchymalStemCellsBoneMarrowDonor4_CNhs11316_tpm_rev MscBoneMarrowD4- Mesenchymal Stem Cells - bone marrow, donor4_CNhs11316_11464-119B6_reverse Regulation 
MesenchymalStemCellsBoneMarrowDonor4_CNhs11316_tpm_fwd MscBoneMarrowD4+ Mesenchymal Stem Cells - bone marrow, donor4_CNhs11316_11464-119B6_forward Regulation 
MesenchymalStemCellsBoneMarrowDonor3_CNhs12126_tpm_rev MscBoneMarrowD3- Mesenchymal Stem Cells - bone marrow, donor3_CNhs12126_11697-123A5_reverse Regulation 
MesenchymalStemCellsBoneMarrowDonor3_CNhs12126_tpm_fwd MscBoneMarrowD3+ Mesenchymal Stem Cells - bone marrow, donor3_CNhs12126_11697-123A5_forward Regulation 
MesenchymalStemCellsBoneMarrowDonor2_CNhs12100_tpm_rev MscBoneMarrowD2- Mesenchymal Stem Cells - bone marrow, donor2_CNhs12100_11616-122A5_reverse Regulation 
MesenchymalStemCellsBoneMarrowDonor2_CNhs12100_tpm_fwd MscBoneMarrowD2+ Mesenchymal Stem Cells - bone marrow, donor2_CNhs12100_11616-122A5_forward Regulation 
MesenchymalStemCellsBoneMarrowDonor1_CNhs11344_tpm_rev MscBoneMarrowD1- Mesenchymal Stem Cells - bone marrow, donor1_CNhs11344_11536-120A6_reverse Regulation 
MesenchymalStemCellsBoneMarrowDonor1_CNhs11344_tpm_fwd MscBoneMarrowD1+ Mesenchymal Stem Cells - bone marrow, donor1_CNhs11344_11536-120A6_forward Regulation 
MesenchymalStemCellsAmnioticMembraneDonor2_CNhs12104_tpm_rev MscAmnioticMembraneD2- Mesenchymal Stem Cells - amniotic membrane, donor2_CNhs12104_11627-122B7_reverse Regulation 
MesenchymalStemCellsAmnioticMembraneDonor2_CNhs12104_tpm_fwd MscAmnioticMembraneD2+ Mesenchymal Stem Cells - amniotic membrane, donor2_CNhs12104_11627-122B7_forward Regulation 
MesenchymalStemCellsAmnioticMembraneDonor1_CNhs11349_tpm_rev MscAmnioticMembraneD1- Mesenchymal Stem Cells - amniotic membrane, donor1_CNhs11349_11547-120B8_reverse Regulation 
MesenchymalStemCellsAmnioticMembraneDonor1_CNhs11349_tpm_fwd MscAmnioticMembraneD1+ Mesenchymal Stem Cells - amniotic membrane, donor1_CNhs11349_11547-120B8_forward Regulation 
MesenchymalStemCellsAdiposeDonor3_CNhs12922_tpm_rev MscAdiposeD3- Mesenchymal Stem Cells - adipose, donor3_CNhs12922_11698-123A6_reverse Regulation 
MesenchymalStemCellsAdiposeDonor3_CNhs12922_tpm_fwd MscAdiposeD3+ Mesenchymal Stem Cells - adipose, donor3_CNhs12922_11698-123A6_forward Regulation 
MesenchymalStemCellsAdiposeDonor2_CNhs12101_tpm_rev MscAdiposeD2- Mesenchymal Stem Cells - adipose, donor2_CNhs12101_11617-122A6_reverse Regulation 
MesenchymalStemCellsAdiposeDonor2_CNhs12101_tpm_fwd MscAdiposeD2+ Mesenchymal Stem Cells - adipose, donor2_CNhs12101_11617-122A6_forward Regulation 
MesenchymalStemCellsAdiposeDonor1_CNhs11345_tpm_rev MscAdiposeD1- Mesenchymal Stem Cells - adipose, donor1_CNhs11345_11537-120A7_reverse Regulation 
MesenchymalStemCellsAdiposeDonor1_CNhs11345_tpm_fwd MscAdiposeD1+ Mesenchymal Stem Cells - adipose, donor1_CNhs11345_11537-120A7_forward Regulation 
MesenchymalStemCellsAdiposeDonor0_CNhs10844_tpm_rev MscAdiposeD0- Mesenchymal stem cells - adipose, donor0_CNhs10844_11217-116B2_reverse Regulation 
MesenchymalStemCellsAdiposeDonor0_CNhs10844_tpm_fwd MscAdiposeD0+ Mesenchymal stem cells - adipose, donor0_CNhs10844_11217-116B2_forward Regulation 
MesenchymalPrecursorCellOvarianCancerRightOvaryDonor4_CNhs13096_tpm_rev MpcOvarianCancerRightOvaryD4- mesenchymal precursor cell - ovarian cancer right ovary, donor4_CNhs13096_11837-124H1_reverse Regulation 
MesenchymalPrecursorCellOvarianCancerRightOvaryDonor4_CNhs13096_tpm_fwd MpcOvarianCancerRightOvaryD4+ mesenchymal precursor cell - ovarian cancer right ovary, donor4_CNhs13096_11837-124H1_forward Regulation 
MesenchymalPrecursorCellOvarianCancerRightOvaryDonor3SOC5702_CNhs12377_tpm_rev MpcOvarianCancerRightOvaryD3- mesenchymal precursor cell - ovarian cancer right ovary, donor3 (SOC-57-02)_CNhs12377_11761-123H6_reverse Regulation 
MesenchymalPrecursorCellOvarianCancerRightOvaryDonor3SOC5702G_CNhs13507_tpm_rev MpcOvarianCancerRightOvaryD3- mesenchymal precursor cell - ovarian cancer right ovary, donor3 (SOC-57-02-G)_CNhs13507_11842-124H6_reverse Regulation 
MesenchymalPrecursorCellOvarianCancerRightOvaryDonor3SOC5702_CNhs12377_tpm_fwd MpcOvarianCancerRightOvaryD3+ mesenchymal precursor cell - ovarian cancer right ovary, donor3 (SOC-57-02)_CNhs12377_11761-123H6_forward Regulation 
MesenchymalPrecursorCellOvarianCancerRightOvaryDonor3SOC5702G_CNhs13507_tpm_fwd MpcOvarianCancerRightOvaryD3+ mesenchymal precursor cell - ovarian cancer right ovary, donor3 (SOC-57-02-G)_CNhs13507_11842-124H6_forward Regulation 
MesenchymalPrecursorCellOvarianCancerRightOvaryDonor2_CNhs12375_tpm_rev MpcOvarianCancerRightOvaryD2- mesenchymal precursor cell - ovarian cancer right ovary, donor2_CNhs12375_11759-123H4_reverse Regulation 
MesenchymalPrecursorCellOvarianCancerRightOvaryDonor2_CNhs12375_tpm_fwd MpcOvarianCancerRightOvaryD2+ mesenchymal precursor cell - ovarian cancer right ovary, donor2_CNhs12375_11759-123H4_forward Regulation 
MesenchymalPrecursorCellOvarianCancerRightOvaryDonor1_CNhs12373_tpm_rev MpcOvarianCancerRightOvaryD1- mesenchymal precursor cell - ovarian cancer right ovary, donor1_CNhs12373_11757-123H2_reverse Regulation 
MesenchymalPrecursorCellOvarianCancerRightOvaryDonor1_CNhs12373_tpm_fwd MpcOvarianCancerRightOvaryD1+ mesenchymal precursor cell - ovarian cancer right ovary, donor1_CNhs12373_11757-123H2_forward Regulation 
MesenchymalPrecursorCellOvarianCancerMetastasisDonor4_CNhs13097_tpm_rev MpcOvarianCancerMetastasisD4- mesenchymal precursor cell - ovarian cancer metastasis, donor4_CNhs13097_11838-124H2_reverse Regulation 
MesenchymalPrecursorCellOvarianCancerMetastasisDonor4_CNhs13097_tpm_fwd MpcOvarianCancerMetastasisD4+ mesenchymal precursor cell - ovarian cancer metastasis, donor4_CNhs13097_11838-124H2_forward Regulation 
MesenchymalPrecursorCellOvarianCancerMetastasisDonor3_CNhs12378_tpm_rev MpcOvarianCancerMetastasisD3- mesenchymal precursor cell - ovarian cancer metastasis, donor3_CNhs12378_11762-123H7_reverse Regulation 
MesenchymalPrecursorCellOvarianCancerMetastasisDonor3_CNhs12378_tpm_fwd MpcOvarianCancerMetastasisD3+ mesenchymal precursor cell - ovarian cancer metastasis, donor3_CNhs12378_11762-123H7_forward Regulation 
MesenchymalPrecursorCellOvarianCancerMetastasisDonor2_CNhs13093_tpm_rev MpcOvarianCancerMetastasisD2- mesenchymal precursor cell - ovarian cancer metastasis, donor2_CNhs13093_11835-124G8_reverse Regulation 
MesenchymalPrecursorCellOvarianCancerMetastasisDonor2_CNhs13093_tpm_fwd MpcOvarianCancerMetastasisD2+ mesenchymal precursor cell - ovarian cancer metastasis, donor2_CNhs13093_11835-124G8_forward Regulation 
MesenchymalPrecursorCellOvarianCancerMetastasisDonor1_CNhs12374_tpm_rev MpcOvarianCancerMetastasisD1- mesenchymal precursor cell - ovarian cancer metastasis, donor1_CNhs12374_11758-123H3_reverse Regulation 
MesenchymalPrecursorCellOvarianCancerMetastasisDonor1_CNhs12374_tpm_fwd MpcOvarianCancerMetastasisD1+ mesenchymal precursor cell - ovarian cancer metastasis, donor1_CNhs12374_11758-123H3_forward Regulation 
MesenchymalPrecursorCellOvarianCancerLeftOvaryDonor4_CNhs13094_tpm_rev MpcOvarianCancerLeftOvaryD4- mesenchymal precursor cell - ovarian cancer left ovary, donor4_CNhs13094_11836-124G9_reverse Regulation 
MesenchymalPrecursorCellOvarianCancerLeftOvaryDonor4_CNhs13094_tpm_fwd MpcOvarianCancerLeftOvaryD4+ mesenchymal precursor cell - ovarian cancer left ovary, donor4_CNhs13094_11836-124G9_forward Regulation 
MesenchymalPrecursorCellOvarianCancerLeftOvaryDonor3_CNhs12376_tpm_rev MpcOvarianCancerLeftOvaryD3- mesenchymal precursor cell - ovarian cancer left ovary, donor3_CNhs12376_11760-123H5_reverse Regulation 
MesenchymalPrecursorCellOvarianCancerLeftOvaryDonor3_CNhs12376_tpm_fwd MpcOvarianCancerLeftOvaryD3+ mesenchymal precursor cell - ovarian cancer left ovary, donor3_CNhs12376_11760-123H5_forward Regulation 
MesenchymalPrecursorCellOvarianCancerLeftOvaryDonor2_CNhs13092_tpm_rev MpcOvarianCancerLeftOvaryD2- mesenchymal precursor cell - ovarian cancer left ovary, donor2_CNhs13092_11833-124G6_reverse Regulation 
MesenchymalPrecursorCellOvarianCancerLeftOvaryDonor2_CNhs13092_tpm_fwd MpcOvarianCancerLeftOvaryD2+ mesenchymal precursor cell - ovarian cancer left ovary, donor2_CNhs13092_11833-124G6_forward Regulation 
MesenchymalPrecursorCellOvarianCancerLeftOvaryDonor1_CNhs12372_tpm_rev MpcOvarianCancerLeftOvaryD1- mesenchymal precursor cell - ovarian cancer left ovary, donor1_CNhs12372_11756-123H1_reverse Regulation 
MesenchymalPrecursorCellOvarianCancerLeftOvaryDonor1_CNhs12372_tpm_fwd MpcOvarianCancerLeftOvaryD1+ mesenchymal precursor cell - ovarian cancer left ovary, donor1_CNhs12372_11756-123H1_forward Regulation 
MesenchymalPrecursorCellCardiacDonor4_CNhs12371_tpm_rev MpcCardiacD4- mesenchymal precursor cell - cardiac, donor4_CNhs12371_11755-123G9_reverse Regulation 
MesenchymalPrecursorCellCardiacDonor4_CNhs12371_tpm_fwd MpcCardiacD4+ mesenchymal precursor cell - cardiac, donor4_CNhs12371_11755-123G9_forward Regulation 
MesenchymalPrecursorCellCardiacDonor3_CNhs12370_tpm_rev MpcCardiacD3- mesenchymal precursor cell - cardiac, donor3_CNhs12370_11754-123G8_reverse Regulation 
MesenchymalPrecursorCellCardiacDonor3_CNhs12370_tpm_fwd MpcCardiacD3+ mesenchymal precursor cell - cardiac, donor3_CNhs12370_11754-123G8_forward Regulation 
MesenchymalPrecursorCellCardiacDonor2_CNhs12369_tpm_rev MpcCardiacD2- mesenchymal precursor cell - cardiac, donor2_CNhs12369_11753-123G7_reverse Regulation 
MesenchymalPrecursorCellCardiacDonor2_CNhs12369_tpm_fwd MpcCardiacD2+ mesenchymal precursor cell - cardiac, donor2_CNhs12369_11753-123G7_forward Regulation 
MesenchymalPrecursorCellCardiacDonor1_CNhs12368_tpm_rev MpcCardiacD1- mesenchymal precursor cell - cardiac, donor1_CNhs12368_11752-123G6_reverse Regulation 
MesenchymalPrecursorCellCardiacDonor1_CNhs12368_tpm_fwd MpcCardiacD1+ mesenchymal precursor cell - cardiac, donor1_CNhs12368_11752-123G6_forward Regulation 
MesenchymalPrecursorCellBoneMarrowDonor3_CNhs13098_tpm_rev MpcBoneMarrowD3- mesenchymal precursor cell - bone marrow, donor3_CNhs13098_11840-124H4_reverse Regulation 
MesenchymalPrecursorCellBoneMarrowDonor3_CNhs13098_tpm_fwd MpcBoneMarrowD3+ mesenchymal precursor cell - bone marrow, donor3_CNhs13098_11840-124H4_forward Regulation 
MesenchymalPrecursorCellBoneMarrowDonor2_CNhs12367_tpm_rev MpcBoneMarrowD2- mesenchymal precursor cell - bone marrow, donor2_CNhs12367_11751-123G5_reverse Regulation 
MesenchymalPrecursorCellBoneMarrowDonor2_CNhs12367_tpm_fwd MpcBoneMarrowD2+ mesenchymal precursor cell - bone marrow, donor2_CNhs12367_11751-123G5_forward Regulation 
MesenchymalPrecursorCellBoneMarrowDonor1_CNhs12366_tpm_rev MpcBoneMarrowD1- mesenchymal precursor cell - bone marrow, donor1_CNhs12366_11750-123G4_reverse Regulation 
MesenchymalPrecursorCellBoneMarrowDonor1_CNhs12366_tpm_fwd MpcBoneMarrowD1+ mesenchymal precursor cell - bone marrow, donor1_CNhs12366_11750-123G4_forward Regulation 
MesenchymalPrecursorCellAdiposeDonor3_CNhs12365_tpm_rev MpcAdiposeD3- mesenchymal precursor cell - adipose, donor3_CNhs12365_11749-123G3_reverse Regulation 
MesenchymalPrecursorCellAdiposeDonor3_CNhs12365_tpm_fwd MpcAdiposeD3+ mesenchymal precursor cell - adipose, donor3_CNhs12365_11749-123G3_forward Regulation 
MesenchymalPrecursorCellAdiposeDonor2_CNhs12364_tpm_rev MpcAdiposeD2- mesenchymal precursor cell - adipose, donor2_CNhs12364_11748-123G2_reverse Regulation 
MesenchymalPrecursorCellAdiposeDonor2_CNhs12364_tpm_fwd MpcAdiposeD2+ mesenchymal precursor cell - adipose, donor2_CNhs12364_11748-123G2_forward Regulation 
MesenchymalPrecursorCellAdiposeDonor1_CNhs12363_tpm_rev MpcAdiposeD1- mesenchymal precursor cell - adipose, donor1_CNhs12363_11747-123G1_reverse Regulation 
MesenchymalPrecursorCellAdiposeDonor1_CNhs12363_tpm_fwd MpcAdiposeD1+ mesenchymal precursor cell - adipose, donor1_CNhs12363_11747-123G1_forward Regulation 
MigratoryLangerhansCellsDonor3_CNhs13547_tpm_rev MigratoryLangerhansCellsD3- migratory langerhans cells, donor3_CNhs13547_11903-125F4_reverse Regulation 
MigratoryLangerhansCellsDonor3_CNhs13547_tpm_fwd MigratoryLangerhansCellsD3+ migratory langerhans cells, donor3_CNhs13547_11903-125F4_forward Regulation 
MigratoryLangerhansCellsDonor2_CNhs13536_tpm_rev MigratoryLangerhansCellsD2- migratory langerhans cells, donor2_CNhs13536_11902-125F3_reverse Regulation 
MigratoryLangerhansCellsDonor2_CNhs13536_tpm_fwd MigratoryLangerhansCellsD2+ migratory langerhans cells, donor2_CNhs13536_11902-125F3_forward Regulation 
MigratoryLangerhansCellsDonor1_CNhs13535_tpm_rev MigratoryLangerhansCellsD1- migratory langerhans cells, donor1_CNhs13535_11901-125F2_reverse Regulation 
MigratoryLangerhansCellsDonor1_CNhs13535_tpm_fwd MigratoryLangerhansCellsD1+ migratory langerhans cells, donor1_CNhs13535_11901-125F2_forward Regulation 
MesothelialCellsDonor3_CNhs12012_tpm_rev MesothelialCellsD3- Mesothelial Cells, donor3_CNhs12012_11402-118D7_reverse Regulation 
MesothelialCellsDonor3_CNhs12012_tpm_fwd MesothelialCellsD3+ Mesothelial Cells, donor3_CNhs12012_11402-118D7_forward Regulation 
MesothelialCellsDonor1_CNhs10850_tpm_rev MesothelialCellsD1- Mesothelial Cells, donor1_CNhs10850_11247-116E5_reverse Regulation 
MesothelialCellsDonor1_CNhs10850_tpm_fwd MesothelialCellsD1+ Mesothelial Cells, donor1_CNhs10850_11247-116E5_forward Regulation 
MeningealCellsDonor3_CNhs12731_tpm_rev MeningealCellsD3- Meningeal Cells, donor3_CNhs12731_11654-122E7_reverse Regulation 
MeningealCellsDonor3_CNhs12731_tpm_fwd MeningealCellsD3+ Meningeal Cells, donor3_CNhs12731_11654-122E7_forward Regulation 
MeningealCellsDonor2_CNhs12080_tpm_rev MeningealCellsD2- Meningeal Cells, donor2_CNhs12080_11573-120E7_reverse Regulation 
MeningealCellsDonor2_CNhs12080_tpm_fwd MeningealCellsD2+ Meningeal Cells, donor2_CNhs12080_11573-120E7_forward Regulation 
MeningealCellsDonor1_CNhs11320_tpm_rev MeningealCellsD1- Meningeal Cells, donor1_CNhs11320_11493-119E8_reverse Regulation 
MeningealCellsDonor1_CNhs11320_tpm_fwd MeningealCellsD1+ Meningeal Cells, donor1_CNhs11320_11493-119E8_forward Regulation 
MelanocyteLightDonor3_CNhs12033_tpm_rev MelanocyteLightD3- Melanocyte - light, donor3_CNhs12033_11423-118G1_reverse Regulation 
MelanocyteLightDonor3_CNhs12033_tpm_fwd MelanocyteLightD3+ Melanocyte - light, donor3_CNhs12033_11423-118G1_forward Regulation 
MelanocyteLightDonor2_CNhs11383_tpm_rev MelanocyteLightD2- Melanocyte - light, donor2_CNhs11383_11351-117H1_reverse Regulation 
MelanocyteLightDonor2_CNhs11383_tpm_fwd MelanocyteLightD2+ Melanocyte - light, donor2_CNhs11383_11351-117H1_forward Regulation 
MelanocyteLightDonor1_CNhs11303_tpm_rev MelanocyteLightD1- Melanocyte - light, donor1_CNhs11303_11274-116H5_reverse Regulation 
MelanocyteLightDonor1_CNhs11303_tpm_fwd MelanocyteLightD1+ Melanocyte - light, donor1_CNhs11303_11274-116H5_forward Regulation 
MelanocyteDarkDonor3_CNhs12570_tpm_rev MelanocyteDarkD3- Melanocyte - dark, donor3_CNhs12570_11663-122F7_reverse Regulation 
MelanocyteDarkDonor3_CNhs12570_tpm_fwd MelanocyteDarkD3+ Melanocyte - dark, donor3_CNhs12570_11663-122F7_forward Regulation 
MelanocyteDarkDonor2_CNhs12346_tpm_rev MelanocyteDarkD2- Melanocyte - dark, donor2_CNhs12346_11582-120F7_reverse Regulation 
MelanocyteDarkDonor2_CNhs12346_tpm_fwd MelanocyteDarkD2+ Melanocyte - dark, donor2_CNhs12346_11582-120F7_forward Regulation 
MelanocyteDarkDonor1_CNhs12591_tpm_rev MelanocyteDarkD1- Melanocyte - dark, donor1_CNhs12591_11502-119F8_reverse Regulation 
MelanocyteDarkDonor1_CNhs12591_tpm_fwd MelanocyteDarkD1+ Melanocyte - dark, donor1_CNhs12591_11502-119F8_forward Regulation 
MastCellStimulatedDonor1_CNhs11073_tpm_rev MastCellStimulatedD1- Mast cell - stimulated, donor1_CNhs11073_11487-119E2_reverse Regulation 
MastCellStimulatedDonor1_CNhs11073_tpm_fwd MastCellStimulatedD1+ Mast cell - stimulated, donor1_CNhs11073_11487-119E2_forward Regulation 
MastCellExpandedAndStimulatedDonor8_CNhs13927_tpm_rev MastCellExpD8- Mast cell, expanded and stimulated, donor8_CNhs13927_11942-126A7_reverse Regulation 
MastCellExpandedDonor8_CNhs13926_tpm_rev MastCellExpD8- Mast cell, expanded, donor8_CNhs13926_11941-126A6_reverse Regulation 
MastCellExpandedAndStimulatedDonor8_CNhs13927_tpm_fwd MastCellExpD8+ Mast cell, expanded and stimulated, donor8_CNhs13927_11942-126A7_forward Regulation 
MastCellExpandedDonor8_CNhs13926_tpm_fwd MastCellExpD8+ Mast cell, expanded, donor8_CNhs13926_11941-126A6_forward Regulation 
MastCellExpandedAndStimulatedDonor5_CNhs13925_tpm_rev MastCellExpD5- Mast cell, expanded and stimulated, donor5_CNhs13925_11940-126A5_reverse Regulation 
MastCellExpandedDonor5_CNhs13924_tpm_rev MastCellExpD5- Mast cell, expanded, donor5_CNhs13924_11939-126A4_reverse Regulation 
MastCellExpandedAndStimulatedDonor5_CNhs13925_tpm_fwd MastCellExpD5+ Mast cell, expanded and stimulated, donor5_CNhs13925_11940-126A5_forward Regulation 
MastCellExpandedDonor5_CNhs13924_tpm_fwd MastCellExpD5+ Mast cell, expanded, donor5_CNhs13924_11939-126A4_forward Regulation 
MastCellDonor4_CNhs12592_tpm_rev MastCellD4- Mast cell, donor4_CNhs12592_11567-120E1_reverse Regulation 
MastCellDonor4_CNhs12592_tpm_fwd MastCellD4+ Mast cell, donor4_CNhs12592_11567-120E1_forward Regulation 
MastCellDonor3_CNhs12593_tpm_rev MastCellD3- Mast cell, donor3_CNhs12593_11566-120D9_reverse Regulation 
MastCellDonor3_CNhs12593_tpm_fwd MastCellD3+ Mast cell, donor3_CNhs12593_11566-120D9_forward Regulation 
MastCellDonor2_CNhs12594_tpm_rev MastCellD2- Mast cell, donor2_CNhs12594_11565-120D8_reverse Regulation 
MastCellDonor2_CNhs12594_tpm_fwd MastCellD2+ Mast cell, donor2_CNhs12594_11565-120D8_forward Regulation 
MastCellDonor1_CNhs12566_tpm_rev MastCellD1- Mast cell, donor1_CNhs12566_11563-120D6_reverse Regulation 
MastCellDonor1_CNhs12566_tpm_fwd MastCellD1+ Mast cell, donor1_CNhs12566_11563-120D6_forward Regulation 
MammaryEpithelialCellDonor3_CNhs12032_tpm_rev MammaryEpithelialCellD3- Mammary Epithelial Cell, donor3_CNhs12032_11422-118F9_reverse Regulation 
MammaryEpithelialCellDonor3_CNhs12032_tpm_fwd MammaryEpithelialCellD3+ Mammary Epithelial Cell, donor3_CNhs12032_11422-118F9_forward Regulation 
MammaryEpithelialCellDonor2_CNhs11382_tpm_rev MammaryEpithelialCellD2- Mammary Epithelial Cell, donor2_CNhs11382_11350-117G9_reverse Regulation 
MammaryEpithelialCellDonor2_CNhs11382_tpm_fwd MammaryEpithelialCellD2+ Mammary Epithelial Cell, donor2_CNhs11382_11350-117G9_forward Regulation 
MammaryEpithelialCellDonor1_CNhs11077_tpm_rev MammaryEpithelialCellD1- Mammary Epithelial Cell, donor1_CNhs11077_11273-116H4_reverse Regulation 
MammaryEpithelialCellDonor1_CNhs11077_tpm_fwd MammaryEpithelialCellD1+ Mammary Epithelial Cell, donor1_CNhs11077_11273-116H4_forward Regulation 
MallassezderivedCellsDonor3_CNhs13551_tpm_rev MallassezCellsD3- Mallassez-derived cells, donor3_CNhs13551_11930-125I4_reverse Regulation 
MallassezderivedCellsDonor3_CNhs13551_tpm_fwd MallassezCellsD3+ Mallassez-derived cells, donor3_CNhs13551_11930-125I4_forward Regulation 
MallassezderivedCellsDonor2_CNhs13550_tpm_rev MallassezCellsD2- Mallassez-derived cells, donor2_CNhs13550_11929-125I3_reverse Regulation 
MallassezderivedCellsDonor2_CNhs13550_tpm_fwd MallassezCellsD2+ Mallassez-derived cells, donor2_CNhs13550_11929-125I3_forward Regulation 
MacrophageMonocyteDerivedDonor3_CNhs12003_tpm_rev MacrophageMonocyteD3- Macrophage - monocyte derived, donor3_CNhs12003_11389-118C3_reverse Regulation 
MacrophageMonocyteDerivedDonor3_CNhs12003_tpm_fwd MacrophageMonocyteD3+ Macrophage - monocyte derived, donor3_CNhs12003_11389-118C3_forward Regulation 
MacrophageMonocyteDerivedDonor2_CNhs11899_tpm_rev MacrophageMonocyteD2- Macrophage - monocyte derived, donor2_CNhs11899_11313-117C8_reverse Regulation 
MacrophageMonocyteDerivedDonor2_CNhs11899_tpm_fwd MacrophageMonocyteD2+ Macrophage - monocyte derived, donor2_CNhs11899_11313-117C8_forward Regulation 
MacrophageMonocyteDerivedDonor1_CNhs10861_tpm_rev MacrophageMonocyteD1- Macrophage - monocyte derived, donor1_CNhs10861_11232-116C8_reverse Regulation 
MacrophageMonocyteDerivedDonor1_CNhs10861_tpm_fwd MacrophageMonocyteD1+ Macrophage - monocyte derived, donor1_CNhs10861_11232-116C8_forward Regulation 
LensEpithelialCellsDonor3_CNhs12572_tpm_rev LensEpithelialCellsD3- Lens Epithelial Cells, donor3_CNhs12572_11690-122I7_reverse Regulation 
LensEpithelialCellsDonor3_CNhs12572_tpm_fwd LensEpithelialCellsD3+ Lens Epithelial Cells, donor3_CNhs12572_11690-122I7_forward Regulation 
LensEpithelialCellsDonor2_CNhs12568_tpm_rev LensEpithelialCellsD2- Lens Epithelial Cells, donor2_CNhs12568_11609-120I7_reverse Regulation 
LensEpithelialCellsDonor2_CNhs12568_tpm_fwd LensEpithelialCellsD2+ Lens Epithelial Cells, donor2_CNhs12568_11609-120I7_forward Regulation 
LensEpithelialCellsDonor1_CNhs12342_tpm_rev LensEpithelialCellsD1- Lens Epithelial Cells, donor1_CNhs12342_11529-119I8_reverse Regulation 
LensEpithelialCellsDonor1_CNhs12342_tpm_fwd LensEpithelialCellsD1+ Lens Epithelial Cells, donor1_CNhs12342_11529-119I8_forward Regulation 
KeratocytesDonor3_CNhs12921_tpm_rev KeratocytesD3- Keratocytes, donor3_CNhs12921_11688-122I5_reverse Regulation 
KeratocytesDonor3_CNhs12921_tpm_fwd KeratocytesD3+ Keratocytes, donor3_CNhs12921_11688-122I5_forward Regulation 
KeratocytesDonor2_CNhs12095_tpm_rev KeratocytesD2- Keratocytes, donor2_CNhs12095_11607-120I5_reverse Regulation 
KeratocytesDonor2_CNhs12095_tpm_fwd KeratocytesD2+ Keratocytes, donor2_CNhs12095_11607-120I5_forward Regulation 
KeratocytesDonor1_CNhs11337_tpm_rev KeratocytesD1- Keratocytes, donor1_CNhs11337_11527-119I6_reverse Regulation 
KeratocytesDonor1_CNhs11337_tpm_fwd KeratocytesD1+ Keratocytes, donor1_CNhs11337_11527-119I6_forward Regulation 
KeratinocyteOralDonor1_CNhs10879_tpm_rev KeratinocyteOralD1- Keratinocyte - oral, donor1_CNhs10879_11251-116E9_reverse Regulation 
KeratinocyteOralDonor1_CNhs10879_tpm_fwd KeratinocyteOralD1+ Keratinocyte - oral, donor1_CNhs10879_11251-116E9_forward Regulation 
KeratinocyteEpidermalDonor3_CNhs12031_tpm_rev KeratinocyteEpidermalD3- Keratinocyte - epidermal, donor3_CNhs12031_11421-118F8_reverse Regulation 
KeratinocyteEpidermalDonor3_CNhs12031_tpm_fwd KeratinocyteEpidermalD3+ Keratinocyte - epidermal, donor3_CNhs12031_11421-118F8_forward Regulation 
KeratinocyteEpidermalDonor2_CNhs11381_tpm_rev KeratinocyteEpidermalD2- Keratinocyte - epidermal, donor2_CNhs11381_11349-117G8_reverse Regulation 
KeratinocyteEpidermalDonor2_CNhs11381_tpm_fwd KeratinocyteEpidermalD2+ Keratinocyte - epidermal, donor2_CNhs11381_11349-117G8_forward Regulation 
KeratinocyteEpidermalDonor1_CNhs11064_tpm_rev KeratinocyteEpidermalD1- Keratinocyte - epidermal, donor1_CNhs11064_11272-116H3_reverse Regulation 
KeratinocyteEpidermalDonor1_CNhs11064_tpm_fwd KeratinocyteEpidermalD1+ Keratinocyte - epidermal, donor1_CNhs11064_11272-116H3_forward Regulation 
IrisPigmentEpithelialCellsDonor1_CNhs12596_tpm_rev IrisPigmentEpithelialCellsD1- Iris Pigment Epithelial Cells, donor1_CNhs12596_11530-119I9_reverse Regulation 
IrisPigmentEpithelialCellsDonor1_CNhs12596_tpm_fwd IrisPigmentEpithelialCellsD1+ Iris Pigment Epithelial Cells, donor1_CNhs12596_11530-119I9_forward Regulation 
IntestinalEpithelialCellsPolarizedDonor1_CNhs10875_tpm_rev IntestinalEpithelialCellsD1- Intestinal epithelial cells (polarized), donor1_CNhs10875_11246-116E4_reverse Regulation 
IntestinalEpithelialCellsPolarizedDonor1_CNhs10875_tpm_fwd IntestinalEpithelialCellsD1+ Intestinal epithelial cells (polarized), donor1_CNhs10875_11246-116E4_forward Regulation 
ImmatureLangerhansCellsDonor2_CNhs13480_tpm_rev ImmatureLangerhansCellsD2- immature langerhans cells, donor2_CNhs13480_11905-125F6_reverse Regulation 
ImmatureLangerhansCellsDonor2_CNhs13480_tpm_fwd ImmatureLangerhansCellsD2+ immature langerhans cells, donor2_CNhs13480_11905-125F6_forward Regulation 
ImmatureLangerhansCellsDonor1_CNhs13537_tpm_rev ImmatureLangerhansCellsD1- immature langerhans cells, donor1_CNhs13537_11904-125F5_reverse Regulation 
ImmatureLangerhansCellsDonor1_CNhs13537_tpm_fwd ImmatureLangerhansCellsD1+ immature langerhans cells, donor1_CNhs13537_11904-125F5_forward Regulation 
HepatocyteDonor3_CNhs12626_tpm_rev HepatocyteD3- Hepatocyte, donor3_CNhs12626_11684-122I1_reverse Regulation 
HepatocyteDonor3_CNhs12626_tpm_fwd HepatocyteD3+ Hepatocyte, donor3_CNhs12626_11684-122I1_forward Regulation 
HepatocyteDonor2_CNhs12349_tpm_rev HepatocyteD2- Hepatocyte, donor2_CNhs12349_11603-120I1_reverse Regulation 
HepatocyteDonor2_CNhs12349_tpm_fwd HepatocyteD2+ Hepatocyte, donor2_CNhs12349_11603-120I1_forward Regulation 
HepatocyteDonor1_CNhs12340_tpm_rev HepatocyteD1- Hepatocyte, donor1_CNhs12340_11523-119I2_reverse Regulation 
HepatocyteDonor1_CNhs12340_tpm_fwd HepatocyteD1+ Hepatocyte, donor1_CNhs12340_11523-119I2_forward Regulation 
HepaticStellateCellsLipocyteDonor3_CNhs12627_tpm_rev HepaticStellateCellsD3- Hepatic Stellate Cells (lipocyte), donor3_CNhs12627_11685-122I2_reverse Regulation 
HepaticStellateCellsLipocyteDonor3_CNhs12627_tpm_fwd HepaticStellateCellsD3+ Hepatic Stellate Cells (lipocyte), donor3_CNhs12627_11685-122I2_forward Regulation 
HepaticStellateCellsLipocyteDonor2_CNhs12093_tpm_rev HepaticStellateCellsD2- Hepatic Stellate Cells (lipocyte), donor2_CNhs12093_11604-120I2_reverse Regulation 
HepaticStellateCellsLipocyteDonor2_CNhs12093_tpm_fwd HepaticStellateCellsD2+ Hepatic Stellate Cells (lipocyte), donor2_CNhs12093_11604-120I2_forward Regulation 
HepaticStellateCellsLipocyteDonor1_CNhs11335_tpm_rev HepaticStellateCellsD1- Hepatic Stellate Cells (lipocyte), donor1_CNhs11335_11524-119I3_reverse Regulation 
HepaticStellateCellsLipocyteDonor1_CNhs11335_tpm_fwd HepaticStellateCellsD1+ Hepatic Stellate Cells (lipocyte), donor1_CNhs11335_11524-119I3_forward Regulation 
HepaticSinusoidalEndothelialCellsDonor3_CNhs12625_tpm_rev HepaticSinusoidalEndothelialCellsD3- Hepatic Sinusoidal Endothelial Cells, donor3_CNhs12625_11682-122H8_reverse Regulation 
HepaticSinusoidalEndothelialCellsDonor3_CNhs12625_tpm_fwd HepaticSinusoidalEndothelialCellsD3+ Hepatic Sinusoidal Endothelial Cells, donor3_CNhs12625_11682-122H8_forward Regulation 
HepaticSinusoidalEndothelialCellsDonor2_CNhs12092_tpm_rev HepaticSinusoidalEndothelialCellsD2- Hepatic Sinusoidal Endothelial Cells, donor2_CNhs12092_11601-120H8_reverse Regulation 
HepaticSinusoidalEndothelialCellsDonor2_CNhs12092_tpm_fwd HepaticSinusoidalEndothelialCellsD2+ Hepatic Sinusoidal Endothelial Cells, donor2_CNhs12092_11601-120H8_forward Regulation 
HepaticSinusoidalEndothelialCellsDonor1_CNhs12075_tpm_rev HepaticSinusoidalEndothelialCellsD1- Hepatic Sinusoidal Endothelial Cells, donor1_CNhs12075_11521-119H9_reverse Regulation 
HepaticSinusoidalEndothelialCellsDonor1_CNhs12075_tpm_fwd HepaticSinusoidalEndothelialCellsD1+ Hepatic Sinusoidal Endothelial Cells, donor1_CNhs12075_11521-119H9_forward Regulation 
HairFollicleOuterRootSheathCellsDonor2_CNhs12347_tpm_rev HairFollicleOuterRootSheathCellsD2- Hair Follicle Outer Root Sheath Cells, donor2_CNhs12347_11584-120F9_reverse Regulation 
HairFollicleOuterRootSheathCellsDonor2_CNhs12347_tpm_fwd HairFollicleOuterRootSheathCellsD2+ Hair Follicle Outer Root Sheath Cells, donor2_CNhs12347_11584-120F9_forward Regulation 
HairFollicleOuterRootSheathCellsDonor1_CNhs12339_tpm_rev HairFollicleOuterRootSheathCellsD1- Hair Follicle Outer Root Sheath Cells, donor1_CNhs12339_11504-119G1_reverse Regulation 
HairFollicleOuterRootSheathCellsDonor1_CNhs12339_tpm_fwd HairFollicleOuterRootSheathCellsD1+ Hair Follicle Outer Root Sheath Cells, donor1_CNhs12339_11504-119G1_forward Regulation 
HairFollicleDermalPapillaCellsDonor3_CNhs12030_tpm_rev HairFollicleDermalPapillaCellsD3- Hair Follicle Dermal Papilla Cells, donor3_CNhs12030_11420-118F7_reverse Regulation 
HairFollicleDermalPapillaCellsDonor3_CNhs12030_tpm_fwd HairFollicleDermalPapillaCellsD3+ Hair Follicle Dermal Papilla Cells, donor3_CNhs12030_11420-118F7_forward Regulation 
HairFollicleDermalPapillaCellsDonor2_CNhs11979_tpm_rev HairFollicleDermalPapillaCellsD2- Hair Follicle Dermal Papilla Cells, donor2_CNhs11979_11348-117G7_reverse Regulation 
HairFollicleDermalPapillaCellsDonor2_CNhs11979_tpm_fwd HairFollicleDermalPapillaCellsD2+ Hair Follicle Dermal Papilla Cells, donor2_CNhs11979_11348-117G7_forward Regulation 
HairFollicleDermalPapillaCellsDonor1_CNhs12501_tpm_rev HairFollicleDermalPapillaCellsD1- Hair Follicle Dermal Papilla Cells, donor1_CNhs12501_11271-116H2_reverse Regulation 
HairFollicleDermalPapillaCellsDonor1_CNhs12501_tpm_fwd HairFollicleDermalPapillaCellsD1+ Hair Follicle Dermal Papilla Cells, donor1_CNhs12501_11271-116H2_forward Regulation 
GingivalEpithelialCellsDonor3GEA15_CNhs11903_tpm_rev GingivalEpithelialCellsD3- Gingival epithelial cells, donor3 (GEA15)_CNhs11903_11379-118B2_reverse Regulation 
GingivalEpithelialCellsDonor3GEA15_CNhs11903_tpm_fwd GingivalEpithelialCellsD3+ Gingival epithelial cells, donor3 (GEA15)_CNhs11903_11379-118B2_forward Regulation 
GingivalEpithelialCellsDonor2GEA14_CNhs11896_tpm_rev GingivalEpithelialCellsD2- Gingival epithelial cells, donor2 (GEA14)_CNhs11896_11302-117B6_reverse Regulation 
GingivalEpithelialCellsDonor2GEA14_CNhs11896_tpm_fwd GingivalEpithelialCellsD2+ Gingival epithelial cells, donor2 (GEA14)_CNhs11896_11302-117B6_forward Regulation 
GingivalEpithelialCellsDonor1GEA11_CNhs11061_tpm_rev GingivalEpithelialCellsD1- Gingival epithelial cells, donor1 (GEA11)_CNhs11061_11221-116B6_reverse Regulation 
GingivalEpithelialCellsDonor1GEA11_CNhs11061_tpm_fwd GingivalEpithelialCellsD1+ Gingival epithelial cells, donor1 (GEA11)_CNhs11061_11221-116B6_forward Regulation 
GammaDeltaPositiveTCellsDonor2_CNhs13915_tpm_rev GammaDeltaTcellsD2- gamma delta positive T cells, donor2_CNhs13915_11938-126A3_reverse Regulation 
GammaDeltaPositiveTCellsDonor2_CNhs13915_tpm_fwd GammaDeltaTcellsD2+ gamma delta positive T cells, donor2_CNhs13915_11938-126A3_forward Regulation 
GammaDeltaPositiveTCellsDonor1_CNhs13914_tpm_rev GammaDeltaTcellsD1- gamma delta positive T cells, donor1_CNhs13914_11937-126A2_reverse Regulation 
GammaDeltaPositiveTCellsDonor1_CNhs13914_tpm_fwd GammaDeltaTcellsD1+ gamma delta positive T cells, donor1_CNhs13914_11937-126A2_forward Regulation 
FibroblastVillousMesenchymalDonor3_CNhs12920_tpm_rev FibroVillousMesenchymalD3- Fibroblast - Villous Mesenchymal, donor3_CNhs12920_11696-123A4_reverse Regulation 
FibroblastVillousMesenchymalDonor3_CNhs12920_tpm_fwd FibroVillousMesenchymalD3+ Fibroblast - Villous Mesenchymal, donor3_CNhs12920_11696-123A4_forward Regulation 
FibroblastVillousMesenchymalDonor2_CNhs12099_tpm_rev FibroVillousMesenchymalD2- Fibroblast - Villous Mesenchymal, donor2_CNhs12099_11615-122A4_reverse Regulation 
FibroblastVillousMesenchymalDonor2_CNhs12099_tpm_fwd FibroVillousMesenchymalD2+ Fibroblast - Villous Mesenchymal, donor2_CNhs12099_11615-122A4_forward Regulation 
FibroblastVillousMesenchymalDonor1_CNhs11343_tpm_rev FibroVillousMesenchymalD1- Fibroblast - Villous Mesenchymal, donor1_CNhs11343_11535-120A5_reverse Regulation 
FibroblastVillousMesenchymalDonor1_CNhs11343_tpm_fwd FibroVillousMesenchymalD1+ Fibroblast - Villous Mesenchymal, donor1_CNhs11343_11535-120A5_forward Regulation 
FibroblastSkinWalkerWarburgDonor1_CNhs11352_tpm_rev FibroSkinWalkerWarburgD1- Fibroblast - skin walker warburg, donor1_CNhs11352_11554-120C6_reverse Regulation 
FibroblastSkinWalkerWarburgDonor1_CNhs11352_tpm_fwd FibroSkinWalkerWarburgD1+ Fibroblast - skin walker warburg, donor1_CNhs11352_11554-120C6_forward Regulation 
FibroblastSkinSpinalMuscularAtrophyDonor3_CNhs11912_tpm_rev FibroSkinSpinalMuscularAtrophyNucfracD3- Fibroblast - skin spinal muscular atrophy, donor3_CNhs11912_11559-120D2_reverse Regulation 
FibroblastSkinSpinalMuscularAtrophyDonor3_CNhs11912_tpm_fwd FibroSkinSpinalMuscularAtrophyNucfracD3+ Fibroblast - skin spinal muscular atrophy, donor3_CNhs11912_11559-120D2_forward Regulation 
FibroblastSkinSpinalMuscularAtrophyDonor2_CNhs11911_tpm_rev FibroSkinSpinalMuscularAtrophyNucfracD2- Fibroblast - skin spinal muscular atrophy, donor2_CNhs11911_11558-120D1_reverse Regulation 
FibroblastSkinSpinalMuscularAtrophyDonor2_CNhs11911_tpm_fwd FibroSkinSpinalMuscularAtrophyNucfracD2+ Fibroblast - skin spinal muscular atrophy, donor2_CNhs11911_11558-120D1_forward Regulation 
FibroblastSkinSpinalMuscularAtrophyDonor1_CNhs11074_tpm_rev FibroSkinSpinalMuscularAtrophyNucfracD1- Fibroblast - skin spinal muscular atrophy, donor1_CNhs11074_11555-120C7_reverse Regulation 
FibroblastSkinSpinalMuscularAtrophyDonor1_CNhs11074_tpm_fwd FibroSkinSpinalMuscularAtrophyNucfracD1+ Fibroblast - skin spinal muscular atrophy, donor1_CNhs11074_11555-120C7_forward Regulation 
FibroblastSkinNormalDonor2_CNhs11914_tpm_rev FibroSkinNormalNucfracD2- Fibroblast - skin normal, donor2_CNhs11914_11561-120D4_reverse Regulation 
FibroblastSkinNormalDonor2_CNhs11914_tpm_fwd FibroSkinNormalNucfracD2+ Fibroblast - skin normal, donor2_CNhs11914_11561-120D4_forward Regulation 
FibroblastSkinNormalDonor1_CNhs11351_tpm_rev FibroSkinNormalNucfracD1- Fibroblast - skin normal, donor1_CNhs11351_11553-120C5_reverse Regulation 
FibroblastSkinNormalDonor1_CNhs11351_tpm_fwd FibroSkinNormalNucfracD1+ Fibroblast - skin normal, donor1_CNhs11351_11553-120C5_forward Regulation 
FibroblastSkinDystrophiaMyotonicaDonor3_CNhs11913_tpm_rev FibroSkinDystrophiaMyotonicaNucfracD3- Fibroblast - skin dystrophia myotonica, donor3_CNhs11913_11560-120D3_reverse Regulation 
FibroblastSkinDystrophiaMyotonicaDonor3_CNhs11913_tpm_fwd FibroSkinDystrophiaMyotonicaNucfracD3+ Fibroblast - skin dystrophia myotonica, donor3_CNhs11913_11560-120D3_forward Regulation 
FibroblastSkinDystrophiaMyotonicaDonor2_CNhs11354_tpm_rev FibroSkinDystrophiaMyotonicaNucfracD2- Fibroblast - skin dystrophia myotonica, donor2_CNhs11354_11557-120C9_reverse Regulation 
FibroblastSkinDystrophiaMyotonicaDonor2_CNhs11354_tpm_fwd FibroSkinDystrophiaMyotonicaNucfracD2+ Fibroblast - skin dystrophia myotonica, donor2_CNhs11354_11557-120C9_forward Regulation 
FibroblastSkinDystrophiaMyotonicaDonor1_CNhs11353_tpm_rev FibroSkinDystrophiaMyotonicaNucfracD1- Fibroblast - skin dystrophia myotonica, donor1_CNhs11353_11556-120C8_reverse Regulation 
FibroblastSkinDystrophiaMyotonicaDonor1_CNhs11353_tpm_fwd FibroSkinDystrophiaMyotonicaNucfracD1+ Fibroblast - skin dystrophia myotonica, donor1_CNhs11353_11556-120C8_forward Regulation 
FibroblastPulmonaryArteryDonor1_CNhs10878_tpm_rev FibroPulmonaryArteryD1- Fibroblast - Pulmonary Artery, donor1_CNhs10878_11250-116E8_reverse Regulation 
FibroblastPulmonaryArteryDonor1_CNhs10878_tpm_fwd FibroPulmonaryArteryD1+ Fibroblast - Pulmonary Artery, donor1_CNhs10878_11250-116E8_forward Regulation 
FibroblastPeriodontalLigamentDonor6PLH3_CNhs11996_tpm_rev FibroPeriodontalLigamentD6- Fibroblast - Periodontal Ligament, donor6 (PLH3)_CNhs11996_11380-118B3_reverse Regulation 
FibroblastPeriodontalLigamentDonor6PLH3_CNhs11996_tpm_fwd FibroPeriodontalLigamentD6+ Fibroblast - Periodontal Ligament, donor6 (PLH3)_CNhs11996_11380-118B3_forward Regulation 
FibroblastPeriodontalLigamentDonor5PL30_CNhs11953_tpm_rev FibroPeriodontalLigamentD5- Fibroblast - Periodontal Ligament, donor5 (PL30)_CNhs11953_11304-117B8_reverse Regulation 
FibroblastPeriodontalLigamentDonor5PL30_CNhs11953_tpm_fwd FibroPeriodontalLigamentD5+ Fibroblast - Periodontal Ligament, donor5 (PL30)_CNhs11953_11304-117B8_forward Regulation 
FibroblastPeriodontalLigamentDonor4PL29_CNhs12493_tpm_rev FibroPeriodontalLigamentD4- Fibroblast - Periodontal Ligament, donor4 (PL29)_CNhs12493_11223-116B8_reverse Regulation 
FibroblastPeriodontalLigamentDonor4PL29_CNhs12493_tpm_fwd FibroPeriodontalLigamentD4+ Fibroblast - Periodontal Ligament, donor4 (PL29)_CNhs12493_11223-116B8_forward Regulation 
FibroblastPeriodontalLigamentDonor3_CNhs11907_tpm_rev FibroPeriodontalLigamentD3- Fibroblast - Periodontal Ligament, donor3_CNhs11907_11395-118C9_reverse Regulation 
FibroblastPeriodontalLigamentDonor3_CNhs11907_tpm_fwd FibroPeriodontalLigamentD3+ Fibroblast - Periodontal Ligament, donor3_CNhs11907_11395-118C9_forward Regulation 
FibroblastPeriodontalLigamentDonor2_CNhs11962_tpm_rev FibroPeriodontalLigamentD2- Fibroblast - Periodontal Ligament, donor2_CNhs11962_11319-117D5_reverse Regulation 
FibroblastPeriodontalLigamentDonor2_CNhs11962_tpm_fwd FibroPeriodontalLigamentD2+ Fibroblast - Periodontal Ligament, donor2_CNhs11962_11319-117D5_forward Regulation 
FibroblastPeriodontalLigamentDonor1_CNhs10867_tpm_rev FibroPeriodontalLigamentD1- Fibroblast - Periodontal Ligament, donor1_CNhs10867_11238-116D5_reverse Regulation 
FibroblastPeriodontalLigamentDonor1_CNhs10867_tpm_fwd FibroPeriodontalLigamentD1+ Fibroblast - Periodontal Ligament, donor1_CNhs10867_11238-116D5_forward Regulation 
FibroblastMammaryDonor3_CNhs12128_tpm_rev FibroMammaryD3- Fibroblast - Mammary, donor3_CNhs12128_11701-123A9_reverse Regulation 
FibroblastMammaryDonor3_CNhs12128_tpm_fwd FibroMammaryD3+ Fibroblast - Mammary, donor3_CNhs12128_11701-123A9_forward Regulation 
FibroblastMammaryDonor2_CNhs12103_tpm_rev FibroMammaryD2- Fibroblast - Mammary, donor2_CNhs12103_11620-122A9_reverse Regulation 
FibroblastMammaryDonor2_CNhs12103_tpm_fwd FibroMammaryD2+ Fibroblast - Mammary, donor2_CNhs12103_11620-122A9_forward Regulation 
FibroblastMammaryDonor1_CNhs11348_tpm_rev FibroMammaryD1- Fibroblast - Mammary, donor1_CNhs11348_11540-120B1_reverse Regulation 
FibroblastMammaryDonor1_CNhs11348_tpm_fwd FibroMammaryD1+ Fibroblast - Mammary, donor1_CNhs11348_11540-120B1_forward Regulation 
FibroblastLymphaticDonor3_CNhs12118_tpm_rev FibroLymphaticD3- Fibroblast - Lymphatic, donor3_CNhs12118_11667-122G2_reverse Regulation 
FibroblastLymphaticDonor3_CNhs12118_tpm_fwd FibroLymphaticD3+ Fibroblast - Lymphatic, donor3_CNhs12118_11667-122G2_forward Regulation 
FibroblastLymphaticDonor2_CNhs12082_tpm_rev FibroLymphaticD2- Fibroblast - Lymphatic, donor2_CNhs12082_11586-120G2_reverse Regulation 
FibroblastLymphaticDonor2_CNhs12082_tpm_fwd FibroLymphaticD2+ Fibroblast - Lymphatic, donor2_CNhs12082_11586-120G2_forward Regulation 
FibroblastLymphaticDonor1_CNhs11322_tpm_rev FibroLymphaticD1- Fibroblast - Lymphatic, donor1_CNhs11322_11506-119G3_reverse Regulation 
FibroblastLymphaticDonor1_CNhs11322_tpm_fwd FibroLymphaticD1+ Fibroblast - Lymphatic, donor1_CNhs11322_11506-119G3_forward Regulation 
FibroblastLungDonor3_CNhs12029_tpm_rev FibroLungD3- Fibroblast - Lung, donor3_CNhs12029_11419-118F6_reverse Regulation 
FibroblastLungDonor3_CNhs12029_tpm_fwd FibroLungD3+ Fibroblast - Lung, donor3_CNhs12029_11419-118F6_forward Regulation 
FibroblastLungDonor2_CNhs11380_tpm_rev FibroLungD2- Fibroblast - Lung, donor2_CNhs11380_11347-117G6_reverse Regulation 
FibroblastLungDonor2_CNhs11380_tpm_fwd FibroLungD2+ Fibroblast - Lung, donor2_CNhs11380_11347-117G6_forward Regulation 
FibroblastLungDonor1_CNhs12500_tpm_rev FibroLungD1- Fibroblast - Lung, donor1_CNhs12500_11270-116H1_reverse Regulation 
FibroblastLungDonor1_CNhs12500_tpm_fwd FibroLungD1+ Fibroblast - Lung, donor1_CNhs12500_11270-116H1_forward Regulation 
FibroblastGingivalDonor9Control_CNhs14134_tpm_rev FibroGingivalD9- Fibroblast - Gingival, donor9 (control)_CNhs14134_11927-125I1_reverse Regulation 
FibroblastGingivalDonor9Control_CNhs14134_tpm_fwd FibroGingivalD9+ Fibroblast - Gingival, donor9 (control)_CNhs14134_11927-125I1_forward Regulation 
FibroblastGingivalDonor8Control_CNhs14133_tpm_rev FibroGingivalD8- Fibroblast - Gingival, donor8 (control)_CNhs14133_11926-125H9_reverse Regulation 
FibroblastGingivalDonor8ChronicPeriodontitis_CNhs14132_tpm_rev FibroGingivalD8- Fibroblast - Gingival, donor8 (chronic periodontitis)_CNhs14132_11925-125H8_reverse Regulation 
FibroblastGingivalDonor8Control_CNhs14133_tpm_fwd FibroGingivalD8+ Fibroblast - Gingival, donor8 (control)_CNhs14133_11926-125H9_forward Regulation 
FibroblastGingivalDonor8ChronicPeriodontitis_CNhs14132_tpm_fwd FibroGingivalD8+ Fibroblast - Gingival, donor8 (chronic periodontitis)_CNhs14132_11925-125H8_forward Regulation 
FibroblastGingivalDonor7Control_CNhs14131_tpm_rev FibroGingivalD7- Fibroblast - Gingival, donor7 (control)_CNhs14131_11924-125H7_reverse Regulation 
FibroblastGingivalDonor7AggressivePeriodontitis_CNhs14130_tpm_rev FibroGingivalD7- Fibroblast - Gingival, donor7 (aggressive periodontitis)_CNhs14130_11923-125H6_reverse Regulation 
FibroblastGingivalDonor7Control_CNhs14131_tpm_fwd FibroGingivalD7+ Fibroblast - Gingival, donor7 (control)_CNhs14131_11924-125H7_forward Regulation 
FibroblastGingivalDonor7AggressivePeriodontitis_CNhs14130_tpm_fwd FibroGingivalD7+ Fibroblast - Gingival, donor7 (aggressive periodontitis)_CNhs14130_11923-125H6_forward Regulation 
FibroblastGingivalDonor6AggressivePeriodontitis_CNhs14128_tpm_rev FibroGingivalD6- Fibroblast - Gingival, donor6 (aggressive periodontitis)_CNhs14128_11921-125H4_reverse Regulation 
FibroblastGingivalDonor6Control_CNhs14129_tpm_rev FibroGingivalD6- Fibroblast - Gingival, donor6 (control)_CNhs14129_11922-125H5_reverse Regulation 
FibroblastGingivalDonor6AggressivePeriodontitis_CNhs14128_tpm_fwd FibroGingivalD6+ Fibroblast - Gingival, donor6 (aggressive periodontitis)_CNhs14128_11921-125H4_forward Regulation 
FibroblastGingivalDonor6Control_CNhs14129_tpm_fwd FibroGingivalD6+ Fibroblast - Gingival, donor6 (control)_CNhs14129_11922-125H5_forward Regulation 
FibroblastGingivalDonor5GFH3_CNhs11952_tpm_rev FibroGingivalD5- Fibroblast - Gingival, donor5 (GFH3)_CNhs11952_11303-117B7_reverse Regulation 
FibroblastGingivalDonor5GFH3_CNhs11952_tpm_fwd FibroGingivalD5+ Fibroblast - Gingival, donor5 (GFH3)_CNhs11952_11303-117B7_forward Regulation 
FibroblastGingivalDonor4GFH2_CNhs10848_tpm_rev FibroGingivalD4- Fibroblast - Gingival, donor4 (GFH2)_CNhs10848_11222-116B7_reverse Regulation 
FibroblastGingivalDonor4GFH2_CNhs10848_tpm_fwd FibroGingivalD4+ Fibroblast - Gingival, donor4 (GFH2)_CNhs10848_11222-116B7_forward Regulation 
FibroblastGingivalDonor3_CNhs12006_tpm_rev FibroGingivalD3- Fibroblast - Gingival, donor3_CNhs12006_11394-118C8_reverse Regulation 
FibroblastGingivalDonor3_CNhs12006_tpm_fwd FibroGingivalD3+ Fibroblast - Gingival, donor3_CNhs12006_11394-118C8_forward Regulation 
FibroblastGingivalDonor2_CNhs11961_tpm_rev FibroGingivalD2- Fibroblast - Gingival, donor2_CNhs11961_11318-117D4_reverse Regulation 
FibroblastGingivalDonor2_CNhs11961_tpm_fwd FibroGingivalD2+ Fibroblast - Gingival, donor2_CNhs11961_11318-117D4_forward Regulation 
FibroblastGingivalDonor10Periodontitis_CNhs14135_tpm_rev FibroGingivalD10 (p- Fibroblast - Gingival, donor10 (periodontitis)_CNhs14135_11928-125I2_reverse Regulation 
FibroblastGingivalDonor10Periodontitis_CNhs14135_tpm_fwd FibroGingivalD10 (p+ Fibroblast - Gingival, donor10 (periodontitis)_CNhs14135_11928-125I2_forward Regulation 
FibroblastGingivalDonor1_CNhs10866_tpm_rev FibroGingivalD1- Fibroblast - Gingival, donor1_CNhs10866_11237-116D4_reverse Regulation 
FibroblastGingivalDonor1_CNhs10866_tpm_fwd FibroGingivalD1+ Fibroblast - Gingival, donor1_CNhs10866_11237-116D4_forward Regulation 
FibroblastDermalDonor6_CNhs12059_tpm_rev FibroDermalD6- Fibroblast - Dermal, donor6_CNhs12059_11458-119A9_reverse Regulation 
FibroblastDermalDonor6_CNhs12059_tpm_fwd FibroDermalD6+ Fibroblast - Dermal, donor6_CNhs12059_11458-119A9_forward Regulation 
FibroblastDermalDonor5_CNhs12055_tpm_rev FibroDermalD5- Fibroblast - Dermal, donor5_CNhs12055_11454-119A5_reverse Regulation 
FibroblastDermalDonor5_CNhs12055_tpm_fwd FibroDermalD5+ Fibroblast - Dermal, donor5_CNhs12055_11454-119A5_forward Regulation 
FibroblastDermalDonor4_CNhs12052_tpm_rev FibroDermalD4- Fibroblast - Dermal, donor4_CNhs12052_11450-119A1_reverse Regulation 
FibroblastDermalDonor4_CNhs12052_tpm_fwd FibroDermalD4+ Fibroblast - Dermal, donor4_CNhs12052_11450-119A1_forward Regulation 
FibroblastDermalDonor3_CNhs12028_tpm_rev FibroDermalD3- Fibroblast - Dermal, donor3_CNhs12028_11418-118F5_reverse Regulation 
FibroblastDermalDonor3_CNhs12028_tpm_fwd FibroDermalD3+ Fibroblast - Dermal, donor3_CNhs12028_11418-118F5_forward Regulation 
FibroblastDermalDonor2_CNhs11379_tpm_rev FibroDermalD2- Fibroblast - Dermal, donor2_CNhs11379_11346-117G5_reverse Regulation 
FibroblastDermalDonor2_CNhs11379_tpm_fwd FibroDermalD2+ Fibroblast - Dermal, donor2_CNhs11379_11346-117G5_forward Regulation 
FibroblastDermalDonor1_CNhs12499_tpm_rev FibroDermalD1- Fibroblast - Dermal, donor1_CNhs12499_11269-116G9_reverse Regulation 
FibroblastDermalDonor1_CNhs12499_tpm_fwd FibroDermalD1+ Fibroblast - Dermal, donor1_CNhs12499_11269-116G9_forward Regulation 
FibroblastConjunctivalDonor3_CNhs12734_tpm_rev FibroConjunctivalD3- Fibroblast - Conjunctival, donor3_CNhs12734_11692-122I9_reverse Regulation 
FibroblastConjunctivalDonor3_CNhs12734_tpm_fwd FibroConjunctivalD3+ Fibroblast - Conjunctival, donor3_CNhs12734_11692-122I9_forward Regulation 
FibroblastConjunctivalDonor1_CNhs11339_tpm_rev FibroConjunctivalD1- Fibroblast - Conjunctival, donor1_CNhs11339_11531-120A1_reverse Regulation 
FibroblastConjunctivalDonor1_CNhs11339_tpm_fwd FibroConjunctivalD1+ Fibroblast - Conjunctival, donor1_CNhs11339_11531-120A1_forward Regulation 
FibroblastChoroidPlexusDonor3_CNhs12620_tpm_rev FibroChoroidPlexusD3- Fibroblast - Choroid Plexus, donor3_CNhs12620_11653-122E6_reverse Regulation 
FibroblastChoroidPlexusDonor3_CNhs12620_tpm_fwd FibroChoroidPlexusD3+ Fibroblast - Choroid Plexus, donor3_CNhs12620_11653-122E6_forward Regulation 
FibroblastChoroidPlexusDonor2_CNhs12344_tpm_rev FibroChoroidPlexusD2- Fibroblast - Choroid Plexus, donor2_CNhs12344_11572-120E6_reverse Regulation 
FibroblastChoroidPlexusDonor2_CNhs12344_tpm_fwd FibroChoroidPlexusD2+ Fibroblast - Choroid Plexus, donor2_CNhs12344_11572-120E6_forward Regulation 
FibroblastChoroidPlexusDonor1_CNhs11319_tpm_rev FibroChoroidPlexusD1- Fibroblast - Choroid Plexus, donor1_CNhs11319_11492-119E7_reverse Regulation 
FibroblastChoroidPlexusDonor1_CNhs11319_tpm_fwd FibroChoroidPlexusD1+ Fibroblast - Choroid Plexus, donor1_CNhs11319_11492-119E7_forward Regulation 
FibroblastCardiacDonor6_CNhs12061_tpm_rev FibroCardiacD6- Fibroblast - Cardiac, donor6_CNhs12061_11460-119B2_reverse Regulation 
FibroblastCardiacDonor6_CNhs12061_tpm_fwd FibroCardiacD6+ Fibroblast - Cardiac, donor6_CNhs12061_11460-119B2_forward Regulation 
FibroblastCardiacDonor5_CNhs12057_tpm_rev FibroCardiacD5- Fibroblast - Cardiac, donor5_CNhs12057_11456-119A7_reverse Regulation 
FibroblastCardiacDonor5_CNhs12057_tpm_fwd FibroCardiacD5+ Fibroblast - Cardiac, donor5_CNhs12057_11456-119A7_forward Regulation 
FibroblastCardiacDonor4_CNhs11909_tpm_rev FibroCardiacD4- Fibroblast - Cardiac, donor4_CNhs11909_11452-119A3_reverse Regulation 
FibroblastCardiacDonor4_CNhs11909_tpm_fwd FibroCardiacD4+ Fibroblast - Cardiac, donor4_CNhs11909_11452-119A3_forward Regulation 
FibroblastCardiacDonor3_CNhs12027_tpm_rev FibroCardiacD3- Fibroblast - Cardiac, donor3_CNhs12027_11417-118F4_reverse Regulation 
FibroblastCardiacDonor3_CNhs12027_tpm_fwd FibroCardiacD3+ Fibroblast - Cardiac, donor3_CNhs12027_11417-118F4_forward Regulation 
FibroblastCardiacDonor2_CNhs11378_tpm_rev FibroCardiacD2- Fibroblast - Cardiac, donor2_CNhs11378_11345-117G4_reverse Regulation 
FibroblastCardiacDonor2_CNhs11378_tpm_fwd FibroCardiacD2+ Fibroblast - Cardiac, donor2_CNhs11378_11345-117G4_forward Regulation 
FibroblastCardiacDonor1_CNhs12498_tpm_rev FibroCardiacD1- Fibroblast - Cardiac, donor1_CNhs12498_11268-116G8_reverse Regulation 
FibroblastCardiacDonor1_CNhs12498_tpm_fwd FibroCardiacD1+ Fibroblast - Cardiac, donor1_CNhs12498_11268-116G8_forward Regulation 
FibroblastAorticAdventitialDonor3_CNhs12011_tpm_rev FibroAorticAdventitialD3- Fibroblast - Aortic Adventitial, donor3_CNhs12011_11401-118D6_reverse Regulation 
FibroblastAorticAdventitialDonor3_CNhs12011_tpm_fwd FibroAorticAdventitialD3+ Fibroblast - Aortic Adventitial, donor3_CNhs12011_11401-118D6_forward Regulation 
FibroblastAorticAdventitialDonor2_CNhs11968_tpm_rev FibroAorticAdventitialD2- Fibroblast - Aortic Adventitial, donor2_CNhs11968_11326-117E3_reverse Regulation 
FibroblastAorticAdventitialDonor2_CNhs11968_tpm_fwd FibroAorticAdventitialD2+ Fibroblast - Aortic Adventitial, donor2_CNhs11968_11326-117E3_forward Regulation 
FibroblastAorticAdventitialDonor1_CNhs10874_tpm_rev FibroAorticAdventitialD1- Fibroblast - Aortic Adventitial, donor1_CNhs10874_11245-116E3_reverse Regulation 
FibroblastAorticAdventitialDonor1_CNhs10874_tpm_fwd FibroAorticAdventitialD1+ Fibroblast - Aortic Adventitial, donor1_CNhs10874_11245-116E3_forward Regulation 
EsophagealEpithelialCellsDonor3_CNhs12622_tpm_rev EsophagealEpithelialCellsD3- Esophageal Epithelial Cells, donor3_CNhs12622_11668-122G3_reverse Regulation 
EsophagealEpithelialCellsDonor3_CNhs12622_tpm_fwd EsophagealEpithelialCellsD3+ Esophageal Epithelial Cells, donor3_CNhs12622_11668-122G3_forward Regulation 
EsophagealEpithelialCellsDonor2_CNhs12083_tpm_rev EsophagealEpithelialCellsD2- Esophageal Epithelial Cells, donor2_CNhs12083_11587-120G3_reverse Regulation 
EsophagealEpithelialCellsDonor2_CNhs12083_tpm_fwd EsophagealEpithelialCellsD2+ Esophageal Epithelial Cells, donor2_CNhs12083_11587-120G3_forward Regulation 
EsophagealEpithelialCellsDonor1_CNhs11323_tpm_rev EsophagealEpithelialCellsD1- Esophageal Epithelial Cells, donor1_CNhs11323_11507-119G4_reverse Regulation 
EsophagealEpithelialCellsDonor1_CNhs11323_tpm_fwd EsophagealEpithelialCellsD1+ Esophageal Epithelial Cells, donor1_CNhs11323_11507-119G4_forward Regulation 
EndothelialCellsVeinDonor3_CNhs12026_tpm_rev EndothelialCellsVeinD3- Endothelial Cells - Vein, donor3_CNhs12026_11416-118F3_reverse Regulation 
EndothelialCellsVeinDonor3_CNhs12026_tpm_fwd EndothelialCellsVeinD3+ Endothelial Cells - Vein, donor3_CNhs12026_11416-118F3_forward Regulation 
EndothelialCellsVeinDonor2_CNhs11377_tpm_rev EndothelialCellsVeinD2- Endothelial Cells - Vein, donor2_CNhs11377_11344-117G3_reverse Regulation 
EndothelialCellsVeinDonor2_CNhs11377_tpm_fwd EndothelialCellsVeinD2+ Endothelial Cells - Vein, donor2_CNhs11377_11344-117G3_forward Regulation 
EndothelialCellsVeinDonor1_CNhs12497_tpm_rev EndothelialCellsVeinD1- Endothelial Cells - Vein, donor1_CNhs12497_11267-116G7_reverse Regulation 
EndothelialCellsVeinDonor1_CNhs12497_tpm_fwd EndothelialCellsVeinD1+ Endothelial Cells - Vein, donor1_CNhs12497_11267-116G7_forward Regulation 
EndothelialCellsUmbilicalVeinDonor3_CNhs12010_tpm_rev EndothelialCellsUmbilicalVeinD3- Endothelial Cells - Umbilical vein, donor3_CNhs12010_11400-118D5_reverse Regulation 
EndothelialCellsUmbilicalVeinDonor3_CNhs12010_tpm_fwd EndothelialCellsUmbilicalVeinD3+ Endothelial Cells - Umbilical vein, donor3_CNhs12010_11400-118D5_forward Regulation 
EndothelialCellsUmbilicalVeinDonor2_CNhs11967_tpm_rev EndothelialCellsUmbilicalVeinD2- Endothelial Cells - Umbilical vein, donor2_CNhs11967_11324-117E1_reverse Regulation 
EndothelialCellsUmbilicalVeinDonor2_CNhs11967_tpm_fwd EndothelialCellsUmbilicalVeinD2+ Endothelial Cells - Umbilical vein, donor2_CNhs11967_11324-117E1_forward Regulation 
EndothelialCellsUmbilicalVeinDonor1_CNhs10872_tpm_rev EndothelialCellsUmbilicalVeinD1- Endothelial Cells - Umbilical vein, donor1_CNhs10872_11243-116E1_reverse Regulation 
EndothelialCellsUmbilicalVeinDonor1_CNhs10872_tpm_fwd EndothelialCellsUmbilicalVeinD1+ Endothelial Cells - Umbilical vein, donor1_CNhs10872_11243-116E1_forward Regulation 
EndothelialCellsThoracicDonor2_CNhs11978_tpm_rev EndothelialCellsThoracicD2- Endothelial Cells - Thoracic, donor2_CNhs11978_11343-117G2_reverse Regulation 
EndothelialCellsThoracicDonor2_CNhs11978_tpm_fwd EndothelialCellsThoracicD2+ Endothelial Cells - Thoracic, donor2_CNhs11978_11343-117G2_forward Regulation 
EndothelialCellsThoracicDonor1_CNhs11926_tpm_rev EndothelialCellsThoracicD1- Endothelial Cells - Thoracic, donor1_CNhs11926_11266-116G6_reverse Regulation 
EndothelialCellsThoracicDonor1_CNhs11926_tpm_fwd EndothelialCellsThoracicD1+ Endothelial Cells - Thoracic, donor1_CNhs11926_11266-116G6_forward Regulation 
EndothelialCellsMicrovascularDonor3_CNhs12024_tpm_rev EndothelialCellsMicrovascularD3- Endothelial Cells - Microvascular, donor3_CNhs12024_11414-118F1_reverse Regulation 
EndothelialCellsMicrovascularDonor3_CNhs12024_tpm_fwd EndothelialCellsMicrovascularD3+ Endothelial Cells - Microvascular, donor3_CNhs12024_11414-118F1_forward Regulation 
EndothelialCellsMicrovascularDonor2_CNhs11376_tpm_rev EndothelialCellsMicrovascularD2- Endothelial Cells - Microvascular, donor2_CNhs11376_11342-117G1_reverse Regulation 
EndothelialCellsMicrovascularDonor2_CNhs11376_tpm_fwd EndothelialCellsMicrovascularD2+ Endothelial Cells - Microvascular, donor2_CNhs11376_11342-117G1_forward Regulation 
EndothelialCellsMicrovascularDonor1_CNhs11925_tpm_rev EndothelialCellsMicrovascularD1- Endothelial Cells - Microvascular, donor1_CNhs11925_11265-116G5_reverse Regulation 
EndothelialCellsMicrovascularDonor1_CNhs11925_tpm_fwd EndothelialCellsMicrovascularD1+ Endothelial Cells - Microvascular, donor1_CNhs11925_11265-116G5_forward Regulation 
EndothelialCellsLymphaticDonor3_CNhs11906_tpm_rev EndothelialCellsLymphaticD3- Endothelial Cells - Lymphatic, donor3_CNhs11906_11393-118C7_reverse Regulation 
EndothelialCellsLymphaticDonor3_CNhs11906_tpm_fwd EndothelialCellsLymphaticD3+ Endothelial Cells - Lymphatic, donor3_CNhs11906_11393-118C7_forward Regulation 
EndothelialCellsLymphaticDonor2_CNhs11901_tpm_rev EndothelialCellsLymphaticD2- Endothelial Cells - Lymphatic, donor2_CNhs11901_11317-117D3_reverse Regulation 
EndothelialCellsLymphaticDonor2_CNhs11901_tpm_fwd EndothelialCellsLymphaticD2+ Endothelial Cells - Lymphatic, donor2_CNhs11901_11317-117D3_forward Regulation 
EndothelialCellsLymphaticDonor1_CNhs10865_tpm_rev EndothelialCellsLymphaticD1- Endothelial Cells - Lymphatic, donor1_CNhs10865_11236-116D3_reverse Regulation 
EndothelialCellsLymphaticDonor1_CNhs10865_tpm_fwd EndothelialCellsLymphaticD1+ Endothelial Cells - Lymphatic, donor1_CNhs10865_11236-116D3_forward Regulation 
EndothelialCellsArteryDonor3_CNhs12023_tpm_rev EndothelialCellsArteryD3- Endothelial Cells - Artery, donor3_CNhs12023_11413-118E9_reverse Regulation 
EndothelialCellsArteryDonor3_CNhs12023_tpm_fwd EndothelialCellsArteryD3+ Endothelial Cells - Artery, donor3_CNhs12023_11413-118E9_forward Regulation 
EndothelialCellsArteryDonor2_CNhs11977_tpm_rev EndothelialCellsArteryD2- Endothelial Cells - Artery, donor2_CNhs11977_11341-117F9_reverse Regulation 
EndothelialCellsArteryDonor2_CNhs11977_tpm_fwd EndothelialCellsArteryD2+ Endothelial Cells - Artery, donor2_CNhs11977_11341-117F9_forward Regulation 
EndothelialCellsArteryDonor1_CNhs12496_tpm_rev EndothelialCellsArteryD1- Endothelial Cells - Artery, donor1_CNhs12496_11264-116G4_reverse Regulation 
EndothelialCellsArteryDonor1_CNhs12496_tpm_fwd EndothelialCellsArteryD1+ Endothelial Cells - Artery, donor1_CNhs12496_11264-116G4_forward Regulation 
EndothelialCellsAorticDonor3_CNhs12022_tpm_rev EndothelialCellsAorticD3- Endothelial Cells - Aortic, donor3_CNhs12022_11412-118E8_reverse Regulation 
EndothelialCellsAorticDonor3_CNhs12022_tpm_fwd EndothelialCellsAorticD3+ Endothelial Cells - Aortic, donor3_CNhs12022_11412-118E8_forward Regulation 
EndothelialCellsAorticDonor2_CNhs11375_tpm_rev EndothelialCellsAorticD2- Endothelial Cells - Aortic, donor2_CNhs11375_11340-117F8_reverse Regulation 
EndothelialCellsAorticDonor2_CNhs11375_tpm_fwd EndothelialCellsAorticD2+ Endothelial Cells - Aortic, donor2_CNhs11375_11340-117F8_forward Regulation 
EndothelialCellsAorticDonor1_CNhs12495_tpm_rev EndothelialCellsAorticD1- Endothelial Cells - Aortic, donor1_CNhs12495_11263-116G3_reverse Regulation 
EndothelialCellsAorticDonor1_CNhs12495_tpm_fwd EndothelialCellsAorticD1+ Endothelial Cells - Aortic, donor1_CNhs12495_11263-116G3_forward Regulation 
EndothelialCellsAorticDonor0_CNhs10837_tpm_rev EndothelialCellsAorticD0- Endothelial Cells - Aortic, donor0_CNhs10837_11207-116A1_reverse Regulation 
EndothelialCellsAorticDonor0_CNhs10837_tpm_fwd EndothelialCellsAorticD0+ Endothelial Cells - Aortic, donor0_CNhs10837_11207-116A1_forward Regulation 
DendriticCellsPlasmacytoidDonor1_CNhs10857_tpm_rev DendriticCellsPlasmacytoidD1- Dendritic Cells - plasmacytoid, donor1_CNhs10857_11228-116C4_reverse Regulation 
DendriticCellsPlasmacytoidDonor1_CNhs10857_tpm_fwd DendriticCellsPlasmacytoidD1+ Dendritic Cells - plasmacytoid, donor1_CNhs10857_11228-116C4_forward Regulation 
DendriticCellsMonocyteImmatureDerivedDonor3_CNhs12000_tpm_rev DendriticCellsMonocyteImmatureD3- Dendritic Cells - monocyte immature derived, donor3_CNhs12000_11384-118B7_reverse Regulation 
DendriticCellsMonocyteImmatureDerivedDonor3_CNhs12000_tpm_fwd DendriticCellsMonocyteImmatureD3+ Dendritic Cells - monocyte immature derived, donor3_CNhs12000_11384-118B7_forward Regulation 
DendriticCellsMonocyteImmatureDerivedDonor1TechRep1_CNhs10855_tpm_rev DendriticCellsMonocyteImmatureD1Tr1- Dendritic Cells - monocyte immature derived, donor1, tech_rep1_CNhs10855_11227-116C3_reverse Regulation 
DendriticCellsMonocyteImmatureDerivedDonor1TechRep1_CNhs10855_tpm_fwd DendriticCellsMonocyteImmatureD1Tr1+ Dendritic Cells - monocyte immature derived, donor1, tech_rep1_CNhs10855_11227-116C3_forward Regulation 
CornealEpithelialCellsDonor3_CNhs12123_tpm_rev CornealEpithelialCellsD3- Corneal Epithelial Cells, donor3_CNhs12123_11687-122I4_reverse Regulation 
CornealEpithelialCellsDonor3_CNhs12123_tpm_fwd CornealEpithelialCellsD3+ Corneal Epithelial Cells, donor3_CNhs12123_11687-122I4_forward Regulation 
CornealEpithelialCellsDonor2_CNhs12094_tpm_rev CornealEpithelialCellsD2- Corneal Epithelial Cells, donor2_CNhs12094_11606-120I4_reverse Regulation 
CornealEpithelialCellsDonor2_CNhs12094_tpm_fwd CornealEpithelialCellsD2+ Corneal Epithelial Cells, donor2_CNhs12094_11606-120I4_forward Regulation 
CornealEpithelialCellsDonor1_CNhs11336_tpm_rev CornealEpithelialCellsD1- Corneal Epithelial Cells, donor1_CNhs11336_11526-119I5_reverse Regulation 
CornealEpithelialCellsDonor1_CNhs11336_tpm_fwd CornealEpithelialCellsD1+ Corneal Epithelial Cells, donor1_CNhs11336_11526-119I5_forward Regulation 
CiliaryEpithelialCellsDonor3_CNhs12009_tpm_rev CiliaryEpithelialCellsD3- Ciliary Epithelial Cells, donor3_CNhs12009_11399-118D4_reverse Regulation 
CiliaryEpithelialCellsDonor3_CNhs12009_tpm_fwd CiliaryEpithelialCellsD3+ Ciliary Epithelial Cells, donor3_CNhs12009_11399-118D4_forward Regulation 
CiliaryEpithelialCellsDonor2_CNhs11966_tpm_rev CiliaryEpithelialCellsD2- Ciliary Epithelial Cells, donor2_CNhs11966_11323-117D9_reverse Regulation 
CiliaryEpithelialCellsDonor2_CNhs11966_tpm_fwd CiliaryEpithelialCellsD2+ Ciliary Epithelial Cells, donor2_CNhs11966_11323-117D9_forward Regulation 
CiliaryEpithelialCellsDonor1_CNhs10871_tpm_rev CiliaryEpithelialCellsD1- Ciliary Epithelial Cells, donor1_CNhs10871_11242-116D9_reverse Regulation 
CiliaryEpithelialCellsDonor1_CNhs10871_tpm_fwd CiliaryEpithelialCellsD1+ Ciliary Epithelial Cells, donor1_CNhs10871_11242-116D9_forward Regulation 
ChorionicMembraneCellsDonor3_CNhs12380_tpm_rev ChorionicMembraneCellsD3- chorionic membrane cells, donor3_CNhs12380_12240-129G8_reverse Regulation 
ChorionicMembraneCellsDonor3_CNhs12380_tpm_fwd ChorionicMembraneCellsD3+ chorionic membrane cells, donor3_CNhs12380_12240-129G8_forward Regulation 
ChorionicMembraneCellsDonor2_CNhs12506_tpm_rev ChorionicMembraneCellsD2- chorionic membrane cells, donor2_CNhs12506_12239-129G7_reverse Regulation 
ChorionicMembraneCellsDonor2_CNhs12506_tpm_fwd ChorionicMembraneCellsD2+ chorionic membrane cells, donor2_CNhs12506_12239-129G7_forward Regulation 
ChorionicMembraneCellsDonor1_CNhs12504_tpm_rev ChorionicMembraneCellsD1- chorionic membrane cells, donor1_CNhs12504_12238-129G6_reverse Regulation 
ChorionicMembraneCellsDonor1_CNhs12504_tpm_fwd ChorionicMembraneCellsD1+ chorionic membrane cells, donor1_CNhs12504_12238-129G6_forward Regulation 
ChondrocyteReDiffDonor3_CNhs12021_tpm_rev ChondrocyteReDiffD3- Chondrocyte - re diff, donor3_CNhs12021_11411-118E7_reverse Regulation 
ChondrocyteReDiffDonor3_CNhs12021_tpm_fwd ChondrocyteReDiffD3+ Chondrocyte - re diff, donor3_CNhs12021_11411-118E7_forward Regulation 
ChondrocyteReDiffDonor2_CNhs11373_tpm_rev ChondrocyteReDiffD2- Chondrocyte - re diff, donor2_CNhs11373_11339-117F7_reverse Regulation 
ChondrocyteReDiffDonor2_CNhs11373_tpm_fwd ChondrocyteReDiffD2+ Chondrocyte - re diff, donor2_CNhs11373_11339-117F7_forward Regulation 
ChondrocyteDeDiffDonor3_CNhs12020_tpm_rev ChondrocyteDeDiffD3- Chondrocyte - de diff, donor3_CNhs12020_11410-118E6_reverse Regulation 
ChondrocyteDeDiffDonor3_CNhs12020_tpm_fwd ChondrocyteDeDiffD3+ Chondrocyte - de diff, donor3_CNhs12020_11410-118E6_forward Regulation 
ChondrocyteDeDiffDonor2_CNhs11372_tpm_rev ChondrocyteDeDiffD2- Chondrocyte - de diff, donor2_CNhs11372_11338-117F6_reverse Regulation 
ChondrocyteDeDiffDonor2_CNhs11372_tpm_fwd ChondrocyteDeDiffD2+ Chondrocyte - de diff, donor2_CNhs11372_11338-117F6_forward Regulation 
ChondrocyteDeDiffDonor1_CNhs11923_tpm_rev ChondrocyteDeDiffD1- Chondrocyte - de diff, donor1_CNhs11923_11261-116G1_reverse Regulation 
ChondrocyteDeDiffDonor1_CNhs11923_tpm_fwd ChondrocyteDeDiffD1+ Chondrocyte - de diff, donor1_CNhs11923_11261-116G1_forward Regulation 
CD8TCellsDonor3_CNhs11999_tpm_rev Cd8+TCellsD3- CD8+ T Cells, donor3_CNhs11999_11383-118B6_reverse Regulation 
CD8TCellsDonor3_CNhs11999_tpm_fwd Cd8+TCellsD3+ CD8+ T Cells, donor3_CNhs11999_11383-118B6_forward Regulation 
CD8TCellsDonor2_CNhs11956_tpm_rev Cd8+TCellsD2- CD8+ T Cells, donor2_CNhs11956_11307-117C2_reverse Regulation 
CD8TCellsDonor2_CNhs11956_tpm_fwd Cd8+TCellsD2+ CD8+ T Cells, donor2_CNhs11956_11307-117C2_forward Regulation 
CD8TCellsDonor1_CNhs10854_tpm_rev Cd8+TCellsD1- CD8+ T Cells, donor1_CNhs10854_11226-116C2_reverse Regulation 
CD8TCellsDonor1_CNhs10854_tpm_fwd Cd8+TCellsD1+ CD8+ T Cells, donor1_CNhs10854_11226-116C2_forward Regulation 
CD4TCellsDonor3_CNhs11998_tpm_rev Cd4+TCellsD3- CD4+ T Cells, donor3_CNhs11998_11382-118B5_reverse Regulation 
CD4TCellsDonor3_CNhs11998_tpm_fwd Cd4+TCellsD3+ CD4+ T Cells, donor3_CNhs11998_11382-118B5_forward Regulation 
CD4TCellsDonor2_CNhs11955_tpm_rev Cd4+TCellsD2- CD4+ T Cells, donor2_CNhs11955_11306-117C1_reverse Regulation 
CD4TCellsDonor2_CNhs11955_tpm_fwd Cd4+TCellsD2+ CD4+ T Cells, donor2_CNhs11955_11306-117C1_forward Regulation 
CD4TCellsDonor1_CNhs10853_tpm_rev Cd4+TCellsD1- CD4+ T Cells, donor1_CNhs10853_11225-116C1_reverse Regulation 
CD4TCellsDonor1_CNhs10853_tpm_fwd Cd4+TCellsD1+ CD4+ T Cells, donor1_CNhs10853_11225-116C1_forward Regulation 
CD4CD25CD45RAMemoryConventionalTCellsExpandedDonor3_CNhs13921_tpm_rev Cd4+cd25-cd45ra-ExpdD3- CD4+CD25-CD45RA- memory conventional T cells expanded, donor3_CNhs13921_11918-125H1_reverse Regulation 
CD4CD25CD45RAMemoryConventionalTCellsExpandedDonor3_CNhs13921_tpm_fwd Cd4+cd25-cd45ra-ExpdD3+ CD4+CD25-CD45RA- memory conventional T cells expanded, donor3_CNhs13921_11918-125H1_forward Regulation 
CD4CD25CD45RAMemoryConventionalTCellsExpandedDonor2_CNhs13920_tpm_rev Cd4+cd25-cd45ra-ExpdD2- CD4+CD25-CD45RA- memory conventional T cells expanded, donor2_CNhs13920_11914-125G6_reverse Regulation 
CD4CD25CD45RAMemoryConventionalTCellsExpandedDonor2_CNhs13920_tpm_fwd Cd4+cd25-cd45ra-ExpdD2+ CD4+CD25-CD45RA- memory conventional T cells expanded, donor2_CNhs13920_11914-125G6_forward Regulation 
CD4CD25CD45RAMemoryConventionalTCellsExpandedDonor1_CNhs13215_tpm_rev Cd4+cd25-cd45ra-ExpdD1- CD4+CD25-CD45RA- memory conventional T cells expanded, donor1_CNhs13215_11792-124C1_reverse Regulation 
CD4CD25CD45RAMemoryConventionalTCellsExpandedDonor1_CNhs13215_tpm_fwd Cd4+cd25-cd45ra-ExpdD1+ CD4+CD25-CD45RA- memory conventional T cells expanded, donor1_CNhs13215_11792-124C1_forward Regulation 
CD4CD25CD45RAMemoryConventionalTCellsDonor3_CNhs13539_tpm_rev Cd4+cd25-cd45ra-D3- CD4+CD25-CD45RA- memory conventional T cells, donor3_CNhs13539_11909-125G1_reverse Regulation 
CD4CD25CD45RAMemoryConventionalTCellsDonor3_CNhs13539_tpm_fwd Cd4+cd25-cd45ra-D3+ CD4+CD25-CD45RA- memory conventional T cells, donor3_CNhs13539_11909-125G1_forward Regulation 
CD4CD25CD45RANaiveConventionalTCellsExpandedDonor3_CNhs13814_tpm_rev Cd4+cd25-cd45ra+ExpdD3- CD4+CD25-CD45RA+ naive conventional T cells expanded, donor3_CNhs13814_11917-125G9_reverse Regulation 
CD4CD25CD45RANaiveConventionalTCellsExpandedDonor3_CNhs13814_tpm_fwd Cd4+cd25-cd45ra+ExpdD3+ CD4+CD25-CD45RA+ naive conventional T cells expanded, donor3_CNhs13814_11917-125G9_forward Regulation 
CD4CD25CD45RANaiveConventionalTCellsExpandedDonor2_CNhs13813_tpm_rev Cd4+cd25-cd45ra+ExpdD2- CD4+CD25-CD45RA+ naive conventional T cells expanded, donor2_CNhs13813_11913-125G5_reverse Regulation 
CD4CD25CD45RANaiveConventionalTCellsExpandedDonor2_CNhs13813_tpm_fwd Cd4+cd25-cd45ra+ExpdD2+ CD4+CD25-CD45RA+ naive conventional T cells expanded, donor2_CNhs13813_11913-125G5_forward Regulation 
CD4CD25CD45RANaiveConventionalTCellsExpandedDonor1_CNhs13202_tpm_rev Cd4+cd25-cd45ra+ExpdD1- CD4+CD25-CD45RA+ naive conventional T cells expanded, donor1_CNhs13202_11791-124B9_reverse Regulation 
CD4CD25CD45RANaiveConventionalTCellsExpandedDonor1_CNhs13202_tpm_fwd Cd4+cd25-cd45ra+ExpdD1+ CD4+CD25-CD45RA+ naive conventional T cells expanded, donor1_CNhs13202_11791-124B9_forward Regulation 
CD4CD25CD45RANaiveConventionalTCellsDonor3_CNhs13512_tpm_rev Cd4+cd25-cd45ra+D3- CD4+CD25-CD45RA+ naive conventional T cells, donor3_CNhs13512_11906-125F7_reverse Regulation 
CD4CD25CD45RANaiveConventionalTCellsDonor3_CNhs13512_tpm_fwd Cd4+cd25-cd45ra+D3+ CD4+CD25-CD45RA+ naive conventional T cells, donor3_CNhs13512_11906-125F7_forward Regulation 
CD4CD25CD45RANaiveConventionalTCellsDonor2_CNhs13205_tpm_rev Cd4+cd25-cd45ra+D2- CD4+CD25-CD45RA+ naive conventional T cells, donor2_CNhs13205_11795-124C4_reverse Regulation 
CD4CD25CD45RANaiveConventionalTCellsDonor2_CNhs13205_tpm_fwd Cd4+cd25-cd45ra+D2+ CD4+CD25-CD45RA+ naive conventional T cells, donor2_CNhs13205_11795-124C4_forward Regulation 
CD4CD25CD45RANaiveConventionalTCellsDonor1_CNhs13223_tpm_rev Cd4+cd25-cd45ra+D1- CD4+CD25-CD45RA+ naive conventional T cells, donor1_CNhs13223_11784-124B2_reverse Regulation 
CD4CD25CD45RANaiveConventionalTCellsDonor1_CNhs13223_tpm_fwd Cd4+cd25-cd45ra+D1+ CD4+CD25-CD45RA+ naive conventional T cells, donor1_CNhs13223_11784-124B2_forward Regulation 
CD4CD25CD45RAMemoryRegulatoryTCellsExpandedDonor3_CNhs13812_tpm_rev Cd4+cd25+cd45ra-ExpdD3- CD4+CD25+CD45RA- memory regulatory T cells expanded, donor3_CNhs13812_11920-125H3_reverse Regulation 
CD4CD25CD45RAMemoryRegulatoryTCellsExpandedDonor3_CNhs13812_tpm_fwd Cd4+cd25+cd45ra-ExpdD3+ CD4+CD25+CD45RA- memory regulatory T cells expanded, donor3_CNhs13812_11920-125H3_forward Regulation 
CD4CD25CD45RAMemoryRegulatoryTCellsExpandedDonor2_CNhs13811_tpm_rev Cd4+cd25+cd45ra-ExpdD2- CD4+CD25+CD45RA- memory regulatory T cells expanded, donor2_CNhs13811_11916-125G8_reverse Regulation 
CD4CD25CD45RAMemoryRegulatoryTCellsExpandedDonor2_CNhs13811_tpm_fwd Cd4+cd25+cd45ra-ExpdD2+ CD4+CD25+CD45RA- memory regulatory T cells expanded, donor2_CNhs13811_11916-125G8_forward Regulation 
CD4CD25CD45RAMemoryRegulatoryTCellsExpandedDonor1_CNhs13204_tpm_rev Cd4+cd25+cd45ra-ExpdD1- CD4+CD25+CD45RA- memory regulatory T cells expanded, donor1_CNhs13204_11794-124C3_reverse Regulation 
CD4CD25CD45RAMemoryRegulatoryTCellsExpandedDonor1_CNhs13204_tpm_fwd Cd4+cd25+cd45ra-ExpdD1+ CD4+CD25+CD45RA- memory regulatory T cells expanded, donor1_CNhs13204_11794-124C3_forward Regulation 
CD4CD25CD45RAMemoryRegulatoryTCellsDonor3_CNhs13538_tpm_rev Cd4+cd25+cd45ra-D3- CD4+CD25+CD45RA- memory regulatory T cells, donor3_CNhs13538_11908-125F9_reverse Regulation 
CD4CD25CD45RAMemoryRegulatoryTCellsDonor3_CNhs13538_tpm_fwd Cd4+cd25+cd45ra-D3+ CD4+CD25+CD45RA- memory regulatory T cells, donor3_CNhs13538_11908-125F9_forward Regulation 
CD4CD25CD45RAMemoryRegulatoryTCellsDonor2_CNhs13206_tpm_rev Cd4+cd25+cd45ra-D2- CD4+CD25+CD45RA- memory regulatory T cells, donor2_CNhs13206_11797-124C6_reverse Regulation 
CD4CD25CD45RAMemoryRegulatoryTCellsDonor2_CNhs13206_tpm_fwd Cd4+cd25+cd45ra-D2+ CD4+CD25+CD45RA- memory regulatory T cells, donor2_CNhs13206_11797-124C6_forward Regulation 
CD4CD25CD45RAMemoryRegulatoryTCellsDonor1_CNhs13195_tpm_rev Cd4+cd25+cd45ra-D1- CD4+CD25+CD45RA- memory regulatory T cells, donor1_CNhs13195_11782-124A9_reverse Regulation 
CD4CD25CD45RAMemoryRegulatoryTCellsDonor1_CNhs13195_tpm_fwd Cd4+cd25+cd45ra-D1+ CD4+CD25+CD45RA- memory regulatory T cells, donor1_CNhs13195_11782-124A9_forward Regulation 
CD4CD25CD45RANaiveRegulatoryTCellsExpandedDonor3_CNhs13919_tpm_rev Cd4+cd25+cd45ra+ExpdD3- CD4+CD25+CD45RA+ naive regulatory T cells expanded, donor3_CNhs13919_11919-125H2_reverse Regulation 
CD4CD25CD45RANaiveRegulatoryTCellsExpandedDonor3_CNhs13919_tpm_fwd Cd4+cd25+cd45ra+ExpdD3+ CD4+CD25+CD45RA+ naive regulatory T cells expanded, donor3_CNhs13919_11919-125H2_forward Regulation 
CD4CD25CD45RANaiveRegulatoryTCellsExpandedDonor2_CNhs13918_tpm_rev Cd4+cd25+cd45ra+ExpdD2- CD4+CD25+CD45RA+ naive regulatory T cells expanded, donor2_CNhs13918_11915-125G7_reverse Regulation 
CD4CD25CD45RANaiveRegulatoryTCellsExpandedDonor2_CNhs13918_tpm_fwd Cd4+cd25+cd45ra+ExpdD2+ CD4+CD25+CD45RA+ naive regulatory T cells expanded, donor2_CNhs13918_11915-125G7_forward Regulation 
CD4CD25CD45RANaiveRegulatoryTCellsExpandedDonor1_CNhs13203_tpm_rev Cd4+cd25+cd45ra+ExpdD1- CD4+CD25+CD45RA+ naive regulatory T cells expanded, donor1_CNhs13203_11793-124C2_reverse Regulation 
CD4CD25CD45RANaiveRegulatoryTCellsExpandedDonor1_CNhs13203_tpm_fwd Cd4+cd25+cd45ra+ExpdD1+ CD4+CD25+CD45RA+ naive regulatory T cells expanded, donor1_CNhs13203_11793-124C2_forward Regulation 
CD4CD25CD45RANaiveRegulatoryTCellsDonor3_CNhs13513_tpm_rev Cd4+cd25+cd45ra+D3- CD4+CD25+CD45RA+ naive regulatory T cells, donor3_CNhs13513_11907-125F8_reverse Regulation 
CD4CD25CD45RANaiveRegulatoryTCellsDonor3_CNhs13513_tpm_fwd Cd4+cd25+cd45ra+D3+ CD4+CD25+CD45RA+ naive regulatory T cells, donor3_CNhs13513_11907-125F8_forward Regulation 
CD34CellsDifferentiatedToErythrocyteLineageBiol_Rep2_CNhs13553_tpm_rev Cd34ErythrocyteBr2- CD34 cells differentiated to erythrocyte lineage, biol_ rep2_CNhs13553_11932-125I6_reverse Regulation 
CD34CellsDifferentiatedToErythrocyteLineageBiol_Rep2_CNhs13553_tpm_fwd Cd34ErythrocyteBr2+ CD34 cells differentiated to erythrocyte lineage, biol_ rep2_CNhs13553_11932-125I6_forward Regulation 
CD34CellsDifferentiatedToErythrocyteLineageBiol_Rep1_CNhs13552_tpm_rev Cd34ErythrocyteBr1- CD34 cells differentiated to erythrocyte lineage, biol_ rep1_CNhs13552_11931-125I5_reverse Regulation 
CD34CellsDifferentiatedToErythrocyteLineageBiol_Rep1_CNhs13552_tpm_fwd Cd34ErythrocyteBr1+ CD34 cells differentiated to erythrocyte lineage, biol_ rep1_CNhs13552_11931-125I5_forward Regulation 
CD34StemCellsAdultBoneMarrowDerivedDonor1TechRep1_CNhs12588_tpm_rev Cd34+StemCellsAdultBoneMarrowD1Tr1- CD34+ stem cells - adult bone marrow derived, donor1, tech_rep1_CNhs12588_12225-129F2_reverse Regulation 
CD34StemCellsAdultBoneMarrowDerivedDonor1TechRep1_CNhs12588_tpm_fwd Cd34+StemCellsAdultBoneMarrowD1Tr1+ CD34+ stem cells - adult bone marrow derived, donor1, tech_rep1_CNhs12588_12225-129F2_forward Regulation 
CD19BCellsDonor3_CNhs12354_tpm_rev Cd19+BCellsD3- CD19+ B Cells, donor3_CNhs12354_11705-123B4_reverse Regulation 
CD19BCellsDonor3_CNhs12354_tpm_fwd Cd19+BCellsD3+ CD19+ B Cells, donor3_CNhs12354_11705-123B4_forward Regulation 
CD19BCellsDonor2_CNhs12352_tpm_rev Cd19+BCellsD2- CD19+ B Cells, donor2_CNhs12352_11624-122B4_reverse Regulation 
CD19BCellsDonor2_CNhs12352_tpm_fwd Cd19+BCellsD2+ CD19+ B Cells, donor2_CNhs12352_11624-122B4_forward Regulation 
CD19BCellsDonor1_CNhs12343_tpm_rev Cd19+BCellsD1- CD19+ B Cells, donor1_CNhs12343_11544-120B5_reverse Regulation 
CD19BCellsDonor1_CNhs12343_tpm_fwd Cd19+BCellsD1+ CD19+ B Cells, donor1_CNhs12343_11544-120B5_forward Regulation 
CD14CD16MonocytesDonor3_CNhs13548_tpm_rev Cd14-cd16+MonocytesD3- CD14-CD16+ Monocytes, donor3_CNhs13548_11911-125G3_reverse Regulation 
CD14CD16MonocytesDonor3_CNhs13548_tpm_fwd Cd14-cd16+MonocytesD3+ CD14-CD16+ Monocytes, donor3_CNhs13548_11911-125G3_forward Regulation 
CD14CD16MonocytesDonor2_CNhs13207_tpm_rev Cd14-cd16+MonocytesD2- CD14-CD16+ Monocytes, donor2_CNhs13207_11800-124C9_reverse Regulation 
CD14CD16MonocytesDonor2_CNhs13207_tpm_fwd Cd14-cd16+MonocytesD2+ CD14-CD16+ Monocytes, donor2_CNhs13207_11800-124C9_forward Regulation 
CD14MonocytesTreatedWithTrehaloseDimycolateTDMDonor3_CNhs13544_tpm_rev Cd14+MoW/TrehaloseDimycolateD3- CD14+ monocytes - treated with Trehalose dimycolate (TDM), donor3_CNhs13544_11882-125D1_reverse Regulation 
CD14MonocytesTreatedWithTrehaloseDimycolateTDMDonor3_CNhs13544_tpm_fwd Cd14+MoW/TrehaloseDimycolateD3+ CD14+ monocytes - treated with Trehalose dimycolate (TDM), donor3_CNhs13544_11882-125D1_forward Regulation 
CD14MonocytesTreatedWithTrehaloseDimycolateTDMDonor2_CNhs13483_tpm_rev Cd14+MoW/TrehaloseDimycolateD2- CD14+ monocytes - treated with Trehalose dimycolate (TDM), donor2_CNhs13483_11872-125B9_reverse Regulation 
CD14MonocytesTreatedWithTrehaloseDimycolateTDMDonor2_CNhs13483_tpm_fwd Cd14+MoW/TrehaloseDimycolateD2+ CD14+ monocytes - treated with Trehalose dimycolate (TDM), donor2_CNhs13483_11872-125B9_forward Regulation 
CD14MonocytesTreatedWithTrehaloseDimycolateTDMDonor1_CNhs13467_tpm_rev Cd14+MoW/TrehaloseDimycolateD1- CD14+ monocytes - treated with Trehalose dimycolate (TDM), donor1_CNhs13467_11862-125A8_reverse Regulation 
CD14MonocytesTreatedWithTrehaloseDimycolateTDMDonor1_CNhs13467_tpm_fwd Cd14+MoW/TrehaloseDimycolateD1+ CD14+ monocytes - treated with Trehalose dimycolate (TDM), donor1_CNhs13467_11862-125A8_forward Regulation 
CD14MonocytesTreatedWithSalmonellaDonor3_CNhs13493_tpm_rev Cd14+MoW/SalmonellaD3- CD14+ monocytes - treated with Salmonella, donor3_CNhs13493_11886-125D5_reverse Regulation 
CD14MonocytesTreatedWithSalmonellaDonor3_CNhs13493_tpm_fwd Cd14+MoW/SalmonellaD3+ CD14+ monocytes - treated with Salmonella, donor3_CNhs13493_11886-125D5_forward Regulation 
CD14MonocytesTreatedWithSalmonellaDonor2_CNhs13485_tpm_rev Cd14+MoW/SalmonellaD2- CD14+ monocytes - treated with Salmonella, donor2_CNhs13485_11876-125C4_reverse Regulation 
CD14MonocytesTreatedWithSalmonellaDonor2_CNhs13485_tpm_fwd Cd14+MoW/SalmonellaD2+ CD14+ monocytes - treated with Salmonella, donor2_CNhs13485_11876-125C4_forward Regulation 
CD14MonocytesTreatedWithSalmonellaDonor1_CNhs13471_tpm_rev Cd14+MoW/SalmonellaD1- CD14+ monocytes - treated with Salmonella, donor1_CNhs13471_11866-125B3_reverse Regulation 
CD14MonocytesTreatedWithSalmonellaDonor1_CNhs13471_tpm_fwd Cd14+MoW/SalmonellaD1+ CD14+ monocytes - treated with Salmonella, donor1_CNhs13471_11866-125B3_forward Regulation 
CD14MonocytesTreatedWithLipopolysaccharideDonor3_CNhs13545_tpm_rev Cd14+MoW/LipopolysaccharideD3- CD14+ monocytes - treated with lipopolysaccharide, donor3_CNhs13545_11885-125D4_reverse Regulation 
CD14MonocytesTreatedWithLipopolysaccharideDonor3_CNhs13545_tpm_fwd Cd14+MoW/LipopolysaccharideD3+ CD14+ monocytes - treated with lipopolysaccharide, donor3_CNhs13545_11885-125D4_forward Regulation 
CD14MonocytesTreatedWithLipopolysaccharideDonor2_CNhs13533_tpm_rev Cd14+MoW/LipopolysaccharideD2- CD14+ monocytes - treated with lipopolysaccharide, donor2_CNhs13533_11875-125C3_reverse Regulation 
CD14MonocytesTreatedWithLipopolysaccharideDonor2_CNhs13533_tpm_fwd Cd14+MoW/LipopolysaccharideD2+ CD14+ monocytes - treated with lipopolysaccharide, donor2_CNhs13533_11875-125C3_forward Regulation 
CD14MonocytesTreatedWithLipopolysaccharideDonor1_CNhs13470_tpm_rev Cd14+MoW/LipopolysaccharideD1- CD14+ monocytes - treated with lipopolysaccharide, donor1_CNhs13470_11865-125B2_reverse Regulation 
CD14MonocytesTreatedWithLipopolysaccharideDonor1_CNhs13470_tpm_fwd Cd14+MoW/LipopolysaccharideD1+ CD14+ monocytes - treated with lipopolysaccharide, donor1_CNhs13470_11865-125B2_forward Regulation 
CD14MonocytesTreatedWithIFNNhexaneDonor3_CNhs13490_tpm_rev Cd14+MoW/Ifn+N-hexaneD3- CD14+ monocytes - treated with IFN + N-hexane, donor3_CNhs13490_11881-125C9_reverse Regulation 
CD14MonocytesTreatedWithIFNNhexaneDonor3_CNhs13490_tpm_fwd Cd14+MoW/Ifn+N-hexaneD3+ CD14+ monocytes - treated with IFN + N-hexane, donor3_CNhs13490_11881-125C9_forward Regulation 
CD14MonocytesTreatedWithIFNNhexaneDonor2_CNhs13476_tpm_rev Cd14+MoW/Ifn+N-hexaneD2- CD14+ monocytes - treated with IFN + N-hexane, donor2_CNhs13476_11871-125B8_reverse Regulation 
CD14MonocytesTreatedWithIFNNhexaneDonor2_CNhs13476_tpm_fwd Cd14+MoW/Ifn+N-hexaneD2+ CD14+ monocytes - treated with IFN + N-hexane, donor2_CNhs13476_11871-125B8_forward Regulation 
CD14MonocytesTreatedWithIFNNhexaneDonor1_CNhs13466_tpm_rev Cd14+MoW/Ifn+N-hexaneD1- CD14+ monocytes - treated with IFN + N-hexane, donor1_CNhs13466_11861-125A7_reverse Regulation 
CD14MonocytesTreatedWithIFNNhexaneDonor1_CNhs13466_tpm_fwd Cd14+MoW/Ifn+N-hexaneD1+ CD14+ monocytes - treated with IFN + N-hexane, donor1_CNhs13466_11861-125A7_forward Regulation 
CD14MonocytesTreatedWithGroupAStreptococciDonor3_CNhs13492_tpm_rev Cd14+MoW/GroupAStreptococciD3- CD14+ monocytes - treated with Group A streptococci, donor3_CNhs13492_11884-125D3_reverse Regulation 
CD14MonocytesTreatedWithGroupAStreptococciDonor3_CNhs13492_tpm_fwd Cd14+MoW/GroupAStreptococciD3+ CD14+ monocytes - treated with Group A streptococci, donor3_CNhs13492_11884-125D3_forward Regulation 
CD14MonocytesTreatedWithGroupAStreptococciDonor2_CNhs13532_tpm_rev Cd14+MoW/GroupAStreptococciD2- CD14+ monocytes - treated with Group A streptococci, donor2_CNhs13532_11874-125C2_reverse Regulation 
CD14MonocytesTreatedWithGroupAStreptococciDonor2_CNhs13532_tpm_fwd Cd14+MoW/GroupAStreptococciD2+ CD14+ monocytes - treated with Group A streptococci, donor2_CNhs13532_11874-125C2_forward Regulation 
CD14MonocytesTreatedWithGroupAStreptococciDonor1_CNhs13469_tpm_rev Cd14+MoW/GroupAStreptococciD1- CD14+ monocytes - treated with Group A streptococci, donor1_CNhs13469_11864-125B1_reverse Regulation 
CD14MonocytesTreatedWithGroupAStreptococciDonor1_CNhs13469_tpm_fwd Cd14+MoW/GroupAStreptococciD1+ CD14+ monocytes - treated with Group A streptococci, donor1_CNhs13469_11864-125B1_forward Regulation 
CD14MonocytesTreatedWithCryptococcusDonor3_CNhs13546_tpm_rev Cd14+MoW/CryptococcusD3- CD14+ monocytes - treated with Cryptococcus, donor3_CNhs13546_11887-125D6_reverse Regulation 
CD14MonocytesTreatedWithCryptococcusDonor3_CNhs13546_tpm_fwd Cd14+MoW/CryptococcusD3+ CD14+ monocytes - treated with Cryptococcus, donor3_CNhs13546_11887-125D6_forward Regulation 
CD14MonocytesTreatedWithCryptococcusDonor2_CNhs13487_tpm_rev Cd14+MoW/CryptococcusD2- CD14+ monocytes - treated with Cryptococcus, donor2_CNhs13487_11877-125C5_reverse Regulation 
CD14MonocytesTreatedWithCryptococcusDonor2_CNhs13487_tpm_fwd Cd14+MoW/CryptococcusD2+ CD14+ monocytes - treated with Cryptococcus, donor2_CNhs13487_11877-125C5_forward Regulation 
CD14MonocytesTreatedWithCryptococcusDonor1_CNhs13472_tpm_rev Cd14+MoW/CryptococcusD1- CD14+ monocytes - treated with Cryptococcus, donor1_CNhs13472_11867-125B4_reverse Regulation 
CD14MonocytesTreatedWithCryptococcusDonor1_CNhs13472_tpm_fwd Cd14+MoW/CryptococcusD1+ CD14+ monocytes - treated with Cryptococcus, donor1_CNhs13472_11867-125B4_forward Regulation 
CD14MonocytesTreatedWithCandidaDonor3_CNhs13494_tpm_rev Cd14+MoW/CandidaD3- CD14+ monocytes - treated with Candida, donor3_CNhs13494_11888-125D7_reverse Regulation 
CD14MonocytesTreatedWithCandidaDonor3_CNhs13494_tpm_fwd Cd14+MoW/CandidaD3+ CD14+ monocytes - treated with Candida, donor3_CNhs13494_11888-125D7_forward Regulation 
CD14MonocytesTreatedWithCandidaDonor2_CNhs13488_tpm_rev Cd14+MoW/CandidaD2- CD14+ monocytes - treated with Candida, donor2_CNhs13488_11878-125C6_reverse Regulation 
CD14MonocytesTreatedWithCandidaDonor2_CNhs13488_tpm_fwd Cd14+MoW/CandidaD2+ CD14+ monocytes - treated with Candida, donor2_CNhs13488_11878-125C6_forward Regulation 
CD14MonocytesTreatedWithCandidaDonor1_CNhs13473_tpm_rev Cd14+MoW/CandidaD1- CD14+ monocytes - treated with Candida, donor1_CNhs13473_11868-125B5_reverse Regulation 
CD14MonocytesTreatedWithCandidaDonor1_CNhs13473_tpm_fwd Cd14+MoW/CandidaD1+ CD14+ monocytes - treated with Candida, donor1_CNhs13473_11868-125B5_forward Regulation 
CD14MonocytesTreatedWithBCGDonor3_CNhs13543_tpm_rev Cd14+MoW/BcgD3- CD14+ monocytes - treated with BCG, donor3_CNhs13543_11880-125C8_reverse Regulation 
CD14MonocytesTreatedWithBCGDonor3_CNhs13543_tpm_fwd Cd14+MoW/BcgD3+ CD14+ monocytes - treated with BCG, donor3_CNhs13543_11880-125C8_forward Regulation 
CD14MonocytesTreatedWithBCGDonor2_CNhs13475_tpm_rev Cd14+MoW/BcgD2- CD14+ monocytes - treated with BCG, donor2_CNhs13475_11870-125B7_reverse Regulation 
CD14MonocytesTreatedWithBCGDonor2_CNhs13475_tpm_fwd Cd14+MoW/BcgD2+ CD14+ monocytes - treated with BCG, donor2_CNhs13475_11870-125B7_forward Regulation 
CD14MonocytesTreatedWithBCGDonor1_CNhs13465_tpm_rev Cd14+MoW/BcgD1- CD14+ monocytes - treated with BCG, donor1_CNhs13465_11860-125A6_reverse Regulation 
CD14MonocytesTreatedWithBCGDonor1_CNhs13465_tpm_fwd Cd14+MoW/BcgD1+ CD14+ monocytes - treated with BCG, donor1_CNhs13465_11860-125A6_forward Regulation 
CD14MonocytesTreatedWithBglucanDonor3_CNhs13495_tpm_rev Cd14+MoW/B-glucanD3- CD14+ monocytes - treated with B-glucan, donor3_CNhs13495_11889-125D8_reverse Regulation 
CD14MonocytesTreatedWithBglucanDonor3_CNhs13495_tpm_fwd Cd14+MoW/B-glucanD3+ CD14+ monocytes - treated with B-glucan, donor3_CNhs13495_11889-125D8_forward Regulation 
CD14MonocytesTreatedWithBglucanDonor2_CNhs13489_tpm_rev Cd14+MoW/B-glucanD2- CD14+ monocytes - treated with B-glucan, donor2_CNhs13489_11879-125C7_reverse Regulation 
CD14MonocytesTreatedWithBglucanDonor2_CNhs13489_tpm_fwd Cd14+MoW/B-glucanD2+ CD14+ monocytes - treated with B-glucan, donor2_CNhs13489_11879-125C7_forward Regulation 
CD14MonocytesTreatedWithBglucanDonor1_CNhs13474_tpm_rev Cd14+MoW/B-glucanD1- CD14+ monocytes - treated with B-glucan, donor1_CNhs13474_11869-125B6_reverse Regulation 
CD14MonocytesTreatedWithBglucanDonor1_CNhs13474_tpm_fwd Cd14+MoW/B-glucanD1+ CD14+ monocytes - treated with B-glucan, donor1_CNhs13474_11869-125B6_forward Regulation 
CD14MonocytesMockTreatedDonor3_CNhs13491_tpm_rev Cd14+MoMockTreatedD3- CD14+ monocytes - mock treated, donor3_CNhs13491_11883-125D2_reverse Regulation 
CD14MonocytesMockTreatedDonor3_CNhs13491_tpm_fwd Cd14+MoMockTreatedD3+ CD14+ monocytes - mock treated, donor3_CNhs13491_11883-125D2_forward Regulation 
CD14MonocytesMockTreatedDonor2_CNhs13484_tpm_rev Cd14+MoMockTreatedD2- CD14+ monocytes - mock treated, donor2_CNhs13484_11873-125C1_reverse Regulation 
CD14MonocytesMockTreatedDonor2_CNhs13484_tpm_fwd Cd14+MoMockTreatedD2+ CD14+ monocytes - mock treated, donor2_CNhs13484_11873-125C1_forward Regulation 
CD14MonocytesMockTreatedDonor1_CNhs13468_tpm_rev Cd14+MoMockTreatedD1- CD14+ monocytes - mock treated, donor1_CNhs13468_11863-125A9_reverse Regulation 
CD14MonocytesMockTreatedDonor1_CNhs13468_tpm_fwd Cd14+MoMockTreatedD1+ CD14+ monocytes - mock treated, donor1_CNhs13468_11863-125A9_forward Regulation 
CD14MonocyteDerivedEndothelialProgenitorCellsDonor3_CNhs11904_tpm_rev Cd14+MoEndothelialProgenitorCellsD3- CD14+ monocyte derived endothelial progenitor cells, donor3_CNhs11904_11386-118B9_reverse Regulation 
CD14MonocyteDerivedEndothelialProgenitorCellsDonor3_CNhs11904_tpm_fwd Cd14+MoEndothelialProgenitorCellsD3+ CD14+ monocyte derived endothelial progenitor cells, donor3_CNhs11904_11386-118B9_forward Regulation 
CD14MonocyteDerivedEndothelialProgenitorCellsDonor2_CNhs11897_tpm_rev Cd14+MoEndothelialProgenitorCellsD2- CD14+ monocyte derived endothelial progenitor cells, donor2_CNhs11897_11310-117C5_reverse Regulation 
CD14MonocyteDerivedEndothelialProgenitorCellsDonor2_CNhs11897_tpm_fwd Cd14+MoEndothelialProgenitorCellsD2+ CD14+ monocyte derived endothelial progenitor cells, donor2_CNhs11897_11310-117C5_forward Regulation 
CD14MonocyteDerivedEndothelialProgenitorCellsDonor1_CNhs10858_tpm_rev Cd14+MoEndothelialProgenitorCellsD1- CD14+ monocyte derived endothelial progenitor cells, donor1_CNhs10858_11229-116C5_reverse Regulation 
CD14MonocyteDerivedEndothelialProgenitorCellsDonor1_CNhs10858_tpm_fwd Cd14+MoEndothelialProgenitorCellsD1+ CD14+ monocyte derived endothelial progenitor cells, donor1_CNhs10858_11229-116C5_forward Regulation 
CD14MonocytesDonor3_CNhs11997_tpm_rev Cd14+MoD3- CD14+ Monocytes, donor3_CNhs11997_11381-118B4_reverse Regulation 
CD14MonocytesDonor3_CNhs11997_tpm_fwd Cd14+MoD3+ CD14+ Monocytes, donor3_CNhs11997_11381-118B4_forward Regulation 
CD14MonocytesDonor2_CNhs11954_tpm_rev Cd14+MoD2- CD14+ Monocytes, donor2_CNhs11954_11305-117B9_reverse Regulation 
CD14MonocytesDonor2_CNhs11954_tpm_fwd Cd14+MoD2+ CD14+ Monocytes, donor2_CNhs11954_11305-117B9_forward Regulation 
CD14MonocytesDonor1_CNhs10852_tpm_rev Cd14+MoD1- CD14+ Monocytes, donor1_CNhs10852_11224-116B9_reverse Regulation 
CD14MonocytesDonor1_CNhs10852_tpm_fwd Cd14+MoD1+ CD14+ Monocytes, donor1_CNhs10852_11224-116B9_forward Regulation 
CD14CD16MonocytesDonor3_CNhs13540_tpm_rev Cd14+cd16-MonocytesD3- CD14+CD16- Monocytes, donor3_CNhs13540_11910-125G2_reverse Regulation 
CD14CD16MonocytesDonor3_CNhs13540_tpm_fwd Cd14+cd16-MonocytesD3+ CD14+CD16- Monocytes, donor3_CNhs13540_11910-125G2_forward Regulation 
CD14CD16MonocytesDonor2_CNhs13216_tpm_rev Cd14+cd16-MonocytesD2- CD14+CD16- Monocytes, donor2_CNhs13216_11799-124C8_reverse Regulation 
CD14CD16MonocytesDonor2_CNhs13216_tpm_fwd Cd14+cd16-MonocytesD2+ CD14+CD16- Monocytes, donor2_CNhs13216_11799-124C8_forward Regulation 
CD14CD16MonocytesDonor1_CNhs13224_tpm_rev Cd14+cd16-MonocytesD1- CD14+CD16- Monocytes, donor1_CNhs13224_11788-124B6_reverse Regulation 
CD14CD16MonocytesDonor1_CNhs13224_tpm_fwd Cd14+cd16-MonocytesD1+ CD14+CD16- Monocytes, donor1_CNhs13224_11788-124B6_forward Regulation 
CD14CD16MonocytesDonor3_CNhs13549_tpm_rev Cd14+cd16+MonocytesD3- CD14+CD16+ Monocytes, donor3_CNhs13549_11912-125G4_reverse Regulation 
CD14CD16MonocytesDonor3_CNhs13549_tpm_fwd Cd14+cd16+MonocytesD3+ CD14+CD16+ Monocytes, donor3_CNhs13549_11912-125G4_forward Regulation 
CD14CD16MonocytesDonor2_CNhs13208_tpm_rev Cd14+cd16+MonocytesD2- CD14+CD16+ Monocytes, donor2_CNhs13208_11801-124D1_reverse Regulation 
CD14CD16MonocytesDonor2_CNhs13208_tpm_fwd Cd14+cd16+MonocytesD2+ CD14+CD16+ Monocytes, donor2_CNhs13208_11801-124D1_forward Regulation 
CD14CD16MonocytesDonor1_CNhs13541_tpm_rev Cd14+cd16+MonocytesD1- CD14+CD16+ Monocytes, donor1_CNhs13541_11789-124B7_reverse Regulation 
CD14CD16MonocytesDonor1_CNhs13541_tpm_fwd Cd14+cd16+MonocytesD1+ CD14+CD16+ Monocytes, donor1_CNhs13541_11789-124B7_forward Regulation 
MultipotentCordBloodUnrestrictedSomaticStemCellsDonor2_CNhs12105_tpm_rev CbStemCellsD2- Multipotent Cord Blood Unrestricted Somatic Stem Cells, donor2_CNhs12105_11629-122B9_reverse Regulation 
MultipotentCordBloodUnrestrictedSomaticStemCellsDonor2_CNhs12105_tpm_fwd CbStemCellsD2+ Multipotent Cord Blood Unrestricted Somatic Stem Cells, donor2_CNhs12105_11629-122B9_forward Regulation 
MultipotentCordBloodUnrestrictedSomaticStemCellsDonor1_CNhs11350_tpm_rev CbStemCellsD1- Multipotent Cord Blood Unrestricted Somatic Stem Cells, donor1_CNhs11350_11549-120C1_reverse Regulation 
MultipotentCordBloodUnrestrictedSomaticStemCellsDonor1_CNhs11350_tpm_fwd CbStemCellsD1+ Multipotent Cord Blood Unrestricted Somatic Stem Cells, donor1_CNhs11350_11549-120C1_forward Regulation 
CardiacMyocyteDonor3_CNhs12571_tpm_rev CardiacMyocyteD3- Cardiac Myocyte, donor3_CNhs12571_11686-122I3_reverse Regulation 
CardiacMyocyteDonor3_CNhs12571_tpm_fwd CardiacMyocyteD3+ Cardiac Myocyte, donor3_CNhs12571_11686-122I3_forward Regulation 
CardiacMyocyteDonor2_CNhs12350_tpm_rev CardiacMyocyteD2- Cardiac Myocyte, donor2_CNhs12350_11605-120I3_reverse Regulation 
CardiacMyocyteDonor2_CNhs12350_tpm_fwd CardiacMyocyteD2+ Cardiac Myocyte, donor2_CNhs12350_11605-120I3_forward Regulation 
CardiacMyocyteDonor1_CNhs12341_tpm_rev CardiacMyocyteD1- Cardiac Myocyte, donor1_CNhs12341_11525-119I4_reverse Regulation 
CardiacMyocyteDonor1_CNhs12341_tpm_fwd CardiacMyocyteD1+ Cardiac Myocyte, donor1_CNhs12341_11525-119I4_forward Regulation 
BronchialEpithelialCellDonor7_CNhs12642_tpm_rev BronchialEpithelialCellD7- Bronchial Epithelial Cell, donor7_CNhs12642_11769-123I5_reverse Regulation 
BronchialEpithelialCellDonor7_CNhs12642_tpm_fwd BronchialEpithelialCellD7+ Bronchial Epithelial Cell, donor7_CNhs12642_11769-123I5_forward Regulation 
BronchialEpithelialCellDonor6_CNhs12062_tpm_rev BronchialEpithelialCellD6- Bronchial Epithelial Cell, donor6_CNhs12062_11461-119B3_reverse Regulation 
BronchialEpithelialCellDonor6_CNhs12062_tpm_fwd BronchialEpithelialCellD6+ Bronchial Epithelial Cell, donor6_CNhs12062_11461-119B3_forward Regulation 
BronchialEpithelialCellDonor5_CNhs12058_tpm_rev BronchialEpithelialCellD5- Bronchial Epithelial Cell, donor5_CNhs12058_11457-119A8_reverse Regulation 
BronchialEpithelialCellDonor5_CNhs12058_tpm_fwd BronchialEpithelialCellD5+ Bronchial Epithelial Cell, donor5_CNhs12058_11457-119A8_forward Regulation 
BronchialEpithelialCellDonor4_CNhs12054_tpm_rev BronchialEpithelialCellD4- Bronchial Epithelial Cell, donor4_CNhs12054_11453-119A4_reverse Regulation 
BronchialEpithelialCellDonor4_CNhs12054_tpm_fwd BronchialEpithelialCellD4+ Bronchial Epithelial Cell, donor4_CNhs12054_11453-119A4_forward Regulation 
BronchialEpithelialCellDonor3_CNhs12623_tpm_rev BronchialEpithelialCellD3- Bronchial Epithelial Cell, donor3_CNhs12623_11672-122G7_reverse Regulation 
BronchialEpithelialCellDonor3_CNhs12623_tpm_fwd BronchialEpithelialCellD3+ Bronchial Epithelial Cell, donor3_CNhs12623_11672-122G7_forward Regulation 
BronchialEpithelialCellDonor2_CNhs12085_tpm_rev BronchialEpithelialCellD2- Bronchial Epithelial Cell, donor2_CNhs12085_11591-120G7_reverse Regulation 
BronchialEpithelialCellDonor2_CNhs12085_tpm_fwd BronchialEpithelialCellD2+ Bronchial Epithelial Cell, donor2_CNhs12085_11591-120G7_forward Regulation 
BronchialEpithelialCellDonor1_CNhs11327_tpm_rev BronchialEpithelialCellD1- Bronchial Epithelial Cell, donor1_CNhs11327_11511-119G8_reverse Regulation 
BronchialEpithelialCellDonor1_CNhs11327_tpm_fwd BronchialEpithelialCellD1+ Bronchial Epithelial Cell, donor1_CNhs11327_11511-119G8_forward Regulation 
BasophilsDonor3_CNhs12575_tpm_rev BasophilsD3- Basophils, donor3_CNhs12575_12243-129H2_reverse Regulation 
BasophilsDonor3_CNhs12575_tpm_fwd BasophilsD3+ Basophils, donor3_CNhs12575_12243-129H2_forward Regulation 
AstrocyteCerebralCortexDonor3_CNhs12005_tpm_rev AstrocyteCerebralCortexD3- Astrocyte - cerebral cortex, donor3_CNhs12005_11392-118C6_reverse Regulation 
AstrocyteCerebralCortexDonor3_CNhs12005_tpm_fwd AstrocyteCerebralCortexD3+ Astrocyte - cerebral cortex, donor3_CNhs12005_11392-118C6_forward Regulation 
AstrocyteCerebralCortexDonor2_CNhs11960_tpm_rev AstrocyteCerebralCortexD2- Astrocyte - cerebral cortex, donor2_CNhs11960_11316-117D2_reverse Regulation 
AstrocyteCerebralCortexDonor2_CNhs11960_tpm_fwd AstrocyteCerebralCortexD2+ Astrocyte - cerebral cortex, donor2_CNhs11960_11316-117D2_forward Regulation 
AstrocyteCerebralCortexDonor1_CNhs10864_tpm_rev AstrocyteCerebralCortexD1- Astrocyte - cerebral cortex, donor1_CNhs10864_11235-116D2_reverse Regulation 
AstrocyteCerebralCortexDonor1_CNhs10864_tpm_fwd AstrocyteCerebralCortexD1+ Astrocyte - cerebral cortex, donor1_CNhs10864_11235-116D2_forward Regulation 
AstrocyteCerebellumDonor3_CNhs12117_tpm_rev AstrocyteCerebellumD3- Astrocyte - cerebellum, donor3_CNhs12117_11661-122F5_reverse Regulation 
AstrocyteCerebellumDonor3_CNhs12117_tpm_fwd AstrocyteCerebellumD3+ Astrocyte - cerebellum, donor3_CNhs12117_11661-122F5_forward Regulation 
AstrocyteCerebellumDonor2_CNhs12081_tpm_rev AstrocyteCerebellumD2- Astrocyte - cerebellum, donor2_CNhs12081_11580-120F5_reverse Regulation 
AstrocyteCerebellumDonor2_CNhs12081_tpm_fwd AstrocyteCerebellumD2+ Astrocyte - cerebellum, donor2_CNhs12081_11580-120F5_forward Regulation 
AstrocyteCerebellumDonor1_CNhs11321_tpm_rev AstrocyteCerebellumD1- Astrocyte - cerebellum, donor1_CNhs11321_11500-119F6_reverse Regulation 
AstrocyteCerebellumDonor1_CNhs11321_tpm_fwd AstrocyteCerebellumD1+ Astrocyte - cerebellum, donor1_CNhs11321_11500-119F6_forward Regulation 
AnulusPulposusCellDonor2_CNhs12064_tpm_rev AnulusPulposusCellD2- Anulus Pulposus Cell, donor2_CNhs12064_11463-119B5_reverse Regulation 
AnulusPulposusCellDonor2_CNhs12064_tpm_fwd AnulusPulposusCellD2+ Anulus Pulposus Cell, donor2_CNhs12064_11463-119B5_forward Regulation 
AnulusPulposusCellDonor1_CNhs10876_tpm_rev AnulusPulposusCellD1- Anulus Pulposus Cell, donor1_CNhs10876_11248-116E6_reverse Regulation 
AnulusPulposusCellDonor1_CNhs10876_tpm_fwd AnulusPulposusCellD1+ Anulus Pulposus Cell, donor1_CNhs10876_11248-116E6_forward Regulation 
AmnioticMembraneCellsDonor3_CNhs12379_tpm_rev AmnioticMembraneCellsD3- amniotic membrane cells, donor3_CNhs12379_12237-129G5_reverse Regulation 
AmnioticMembraneCellsDonor3_CNhs12379_tpm_fwd AmnioticMembraneCellsD3+ amniotic membrane cells, donor3_CNhs12379_12237-129G5_forward Regulation 
AmnioticMembraneCellsDonor2_CNhs12503_tpm_rev AmnioticMembraneCellsD2- amniotic membrane cells, donor2_CNhs12503_12236-129G4_reverse Regulation 
AmnioticMembraneCellsDonor2_CNhs12503_tpm_fwd AmnioticMembraneCellsD2+ amniotic membrane cells, donor2_CNhs12503_12236-129G4_forward Regulation 
AmnioticMembraneCellsDonor1_CNhs12502_tpm_rev AmnioticMembraneCellsD1- amniotic membrane cells, donor1_CNhs12502_12235-129G3_reverse Regulation 
AmnioticMembraneCellsDonor1_CNhs12502_tpm_fwd AmnioticMembraneCellsD1+ amniotic membrane cells, donor1_CNhs12502_12235-129G3_forward Regulation 
AmnioticEpithelialCellsDonor3_CNhs12125_tpm_rev AmnioticEpithelialCellsD3- Amniotic Epithelial Cells, donor3_CNhs12125_11694-123A2_reverse Regulation 
AmnioticEpithelialCellsDonor3_CNhs12125_tpm_fwd AmnioticEpithelialCellsD3+ Amniotic Epithelial Cells, donor3_CNhs12125_11694-123A2_forward Regulation 
AmnioticEpithelialCellsDonor2_CNhs12098_tpm_rev AmnioticEpithelialCellsD2- Amniotic Epithelial Cells, donor2_CNhs12098_11613-122A2_reverse Regulation 
AmnioticEpithelialCellsDonor2_CNhs12098_tpm_fwd AmnioticEpithelialCellsD2+ Amniotic Epithelial Cells, donor2_CNhs12098_11613-122A2_forward Regulation 
AmnioticEpithelialCellsDonor1_CNhs11341_tpm_rev AmnioticEpithelialCellsD1- Amniotic Epithelial Cells, donor1_CNhs11341_11533-120A3_reverse Regulation 
AmnioticEpithelialCellsDonor1_CNhs11341_tpm_fwd AmnioticEpithelialCellsD1+ Amniotic Epithelial Cells, donor1_CNhs11341_11533-120A3_forward Regulation 
AlveolarEpithelialCellsDonor3_CNhs12119_tpm_rev AlveolarEpithelialCellsD3- Alveolar Epithelial Cells, donor3_CNhs12119_11671-122G6_reverse Regulation 
AlveolarEpithelialCellsDonor3_CNhs12119_tpm_fwd AlveolarEpithelialCellsD3+ Alveolar Epithelial Cells, donor3_CNhs12119_11671-122G6_forward Regulation 
AlveolarEpithelialCellsDonor2_CNhs12084_tpm_rev AlveolarEpithelialCellsD2- Alveolar Epithelial Cells, donor2_CNhs12084_11590-120G6_reverse Regulation 
AlveolarEpithelialCellsDonor2_CNhs12084_tpm_fwd AlveolarEpithelialCellsD2+ Alveolar Epithelial Cells, donor2_CNhs12084_11590-120G6_forward Regulation 
AlveolarEpithelialCellsDonor1_CNhs11325_tpm_rev AlveolarEpithelialCellsD1- Alveolar Epithelial Cells, donor1_CNhs11325_11510-119G7_reverse Regulation 
AlveolarEpithelialCellsDonor1_CNhs11325_tpm_fwd AlveolarEpithelialCellsD1+ Alveolar Epithelial Cells, donor1_CNhs11325_11510-119G7_forward Regulation 
AdipocyteSubcutaneousDonor3_CNhs12017_tpm_rev AdipocyteSubcutaneousD3- Adipocyte - subcutaneous, donor3_CNhs12017_11408-118E4_reverse Regulation 
AdipocyteSubcutaneousDonor3_CNhs12017_tpm_fwd AdipocyteSubcutaneousD3+ Adipocyte - subcutaneous, donor3_CNhs12017_11408-118E4_forward Regulation 
AdipocyteSubcutaneousDonor2_CNhs11371_tpm_rev AdipocyteSubcutaneousD2- Adipocyte - subcutaneous, donor2_CNhs11371_11336-117F4_reverse Regulation 
AdipocyteSubcutaneousDonor2_CNhs11371_tpm_fwd AdipocyteSubcutaneousD2+ Adipocyte - subcutaneous, donor2_CNhs11371_11336-117F4_forward Regulation 
AdipocyteSubcutaneousDonor1_CNhs12494_tpm_rev AdipocyteSubcutaneousD1- Adipocyte - subcutaneous, donor1_CNhs12494_11259-116F8_reverse Regulation 
AdipocyteSubcutaneousDonor1_CNhs12494_tpm_fwd AdipocyteSubcutaneousD1+ Adipocyte - subcutaneous, donor1_CNhs12494_11259-116F8_forward Regulation 
AdipocytePerirenalDonor1_CNhs12069_tpm_rev AdipocytePerirenalD1- Adipocyte - perirenal, donor1_CNhs12069_11476-119C9_reverse Regulation 
AdipocytePerirenalDonor1_CNhs12069_tpm_fwd AdipocytePerirenalD1+ Adipocyte - perirenal, donor1_CNhs12069_11476-119C9_forward Regulation 
AdipocyteOmentalDonor3_CNhs12068_tpm_rev AdipocyteOmentalD3- Adipocyte - omental, donor3_CNhs12068_11475-119C8_reverse Regulation 
AdipocyteOmentalDonor3_CNhs12068_tpm_fwd AdipocyteOmentalD3+ Adipocyte - omental, donor3_CNhs12068_11475-119C8_forward Regulation 
AdipocyteOmentalDonor2_CNhs12067_tpm_rev AdipocyteOmentalD2- Adipocyte - omental, donor2_CNhs12067_11474-119C7_reverse Regulation 
AdipocyteOmentalDonor2_CNhs12067_tpm_fwd AdipocyteOmentalD2+ Adipocyte - omental, donor2_CNhs12067_11474-119C7_forward Regulation 
AdipocyteOmentalDonor1_CNhs11054_tpm_rev AdipocyteOmentalD1- Adipocyte - omental, donor1_CNhs11054_11473-119C6_reverse Regulation 
AdipocyteOmentalDonor1_CNhs11054_tpm_fwd AdipocyteOmentalD1+ Adipocyte - omental, donor1_CNhs11054_11473-119C6_forward Regulation 
AdipocyteBreastDonor2_CNhs11969_tpm_rev AdipocyteBreastD2- Adipocyte - breast, donor2_CNhs11969_11327-117E4_reverse Regulation 
AdipocyteBreastDonor2_CNhs11969_tpm_fwd AdipocyteBreastD2+ Adipocyte - breast, donor2_CNhs11969_11327-117E4_forward Regulation 
AdipocyteBreastDonor1_CNhs11051_tpm_rev AdipocyteBreastD1- Adipocyte - breast, donor1_CNhs11051_11376-118A8_reverse Regulation 
AdipocyteBreastDonor1_CNhs11051_tpm_fwd AdipocyteBreastD1+ Adipocyte - breast, donor1_CNhs11051_11376-118A8_forward Regulation 
PromyelocytesmyelocytesPMCDonor3_CNhs12529_tpm_rev Promyelocytes/myelocytesPmcD3- promyelocytes/myelocytes PMC, donor3_CNhs12529_12140-128E7_reverse Regulation 
PromyelocytesmyelocytesPMCDonor3_CNhs12529_tpm_fwd Promyelocytes/myelocytesPmcD3+ promyelocytes/myelocytes PMC, donor3_CNhs12529_12140-128E7_forward Regulation 
PromyelocytesmyelocytesPMCDonor2_CNhs12525_tpm_rev Promyelocytes/myelocytesPmcD2- promyelocytes/myelocytes PMC, donor2_CNhs12525_12136-128E3_reverse Regulation 
PromyelocytesmyelocytesPMCDonor2_CNhs12525_tpm_fwd Promyelocytes/myelocytesPmcD2+ promyelocytes/myelocytes PMC, donor2_CNhs12525_12136-128E3_forward Regulation 
PromyelocytesmyelocytesPMCDonor1_CNhs12520_tpm_rev Promyelocytes/myelocytesPmcD1- promyelocytes/myelocytes PMC, donor1_CNhs12520_12132-128D8_reverse Regulation 
PromyelocytesmyelocytesPMCDonor1_CNhs12520_tpm_fwd Promyelocytes/myelocytesPmcD1+ promyelocytes/myelocytes PMC, donor1_CNhs12520_12132-128D8_forward Regulation 
NeutrophilPMNDonor3_CNhs12530_tpm_rev NeutrophilPmnD3- neutrophil PMN, donor3_CNhs12530_12141-128E8_reverse Regulation 
NeutrophilPMNDonor3_CNhs12530_tpm_fwd NeutrophilPmnD3+ neutrophil PMN, donor3_CNhs12530_12141-128E8_forward Regulation 
NeutrophilPMNDonor2_CNhs12526_tpm_rev NeutrophilPmnD2- neutrophil PMN, donor2_CNhs12526_12137-128E4_reverse Regulation 
NeutrophilPMNDonor2_CNhs12526_tpm_fwd NeutrophilPmnD2+ neutrophil PMN, donor2_CNhs12526_12137-128E4_forward Regulation 
NeutrophilPMNDonor1_CNhs12522_tpm_rev NeutrophilPmnD1- neutrophil PMN, donor1_CNhs12522_12133-128D9_reverse Regulation 
NeutrophilPMNDonor1_CNhs12522_tpm_fwd NeutrophilPmnD1+ neutrophil PMN, donor1_CNhs12522_12133-128D9_forward Regulation 
NasalEpithelialCellsDonor1TechRep2_CNhs12554_tpm_rev NasalEpithelialCellsD1Tr2- nasal epithelial cells, donor1, tech_rep2_CNhs12554_12226-129F3_reverse Regulation 
NasalEpithelialCellsDonor1TechRep2_CNhs12554_tpm_fwd NasalEpithelialCellsD1Tr2+ nasal epithelial cells, donor1, tech_rep2_CNhs12554_12226-129F3_forward Regulation 
MesothelialCellsDonor2_CNhs12197_tpm_rev MesothelialCellsD2- Mesothelial Cells, donor2_CNhs12197_12156-128G5_reverse Regulation 
MesothelialCellsDonor2_CNhs12197_tpm_fwd MesothelialCellsD2+ Mesothelial Cells, donor2_CNhs12197_12156-128G5_forward Regulation 
MatureAdipocyteDonor4_CNhs12562_tpm_rev MatureAdipocyteD4- mature adipocyte, donor4_CNhs12562_12234-129G2_reverse Regulation 
MatureAdipocyteDonor4_CNhs12562_tpm_fwd MatureAdipocyteD4+ mature adipocyte, donor4_CNhs12562_12234-129G2_forward Regulation 
MatureAdipocyteDonor3_CNhs12560_tpm_rev MatureAdipocyteD3- mature adipocyte, donor3_CNhs12560_12233-129G1_reverse Regulation 
MatureAdipocyteDonor3_CNhs12560_tpm_fwd MatureAdipocyteD3+ mature adipocyte, donor3_CNhs12560_12233-129G1_forward Regulation 
MatureAdipocyteDonor2_CNhs12559_tpm_rev MatureAdipocyteD2- mature adipocyte, donor2_CNhs12559_12232-129F9_reverse Regulation 
MatureAdipocyteDonor2_CNhs12559_tpm_fwd MatureAdipocyteD2+ mature adipocyte, donor2_CNhs12559_12232-129F9_forward Regulation 
MatureAdipocyteDonor1_CNhs12558_tpm_rev MatureAdipocyteD1- mature adipocyte, donor1_CNhs12558_12231-129F8_reverse Regulation 
MatureAdipocyteDonor1_CNhs12558_tpm_fwd MatureAdipocyteD1+ mature adipocyte, donor1_CNhs12558_12231-129F8_forward Regulation 
MallassezderivedCellsDonor1MZH3_CNhs12538_tpm_rev MallassezCellsD1- Mallassez-derived cells, donor1 (MZH3)_CNhs12538_12142-128E9_reverse Regulation 
MallassezderivedCellsDonor1MZH3_CNhs12538_tpm_fwd MallassezCellsD1+ Mallassez-derived cells, donor1 (MZH3)_CNhs12538_12142-128E9_forward Regulation 
GranulocyteMacrophageProgenitorDonor3_CNhs12528_tpm_rev GranulocyteMacrophageProgenitorD3- granulocyte macrophage progenitor, donor3_CNhs12528_12139-128E6_reverse Regulation 
GranulocyteMacrophageProgenitorDonor3_CNhs12528_tpm_fwd GranulocyteMacrophageProgenitorD3+ granulocyte macrophage progenitor, donor3_CNhs12528_12139-128E6_forward Regulation 
GranulocyteMacrophageProgenitorDonor2_CNhs12524_tpm_rev GranulocyteMacrophageProgenitorD2- granulocyte macrophage progenitor, donor2_CNhs12524_12135-128E2_reverse Regulation 
GranulocyteMacrophageProgenitorDonor2_CNhs12524_tpm_fwd GranulocyteMacrophageProgenitorD2+ granulocyte macrophage progenitor, donor2_CNhs12524_12135-128E2_forward Regulation 
GranulocyteMacrophageProgenitorDonor1_CNhs12519_tpm_rev GranulocyteMacrophageProgenitorD1- granulocyte macrophage progenitor, donor1_CNhs12519_12131-128D7_reverse Regulation 
GranulocyteMacrophageProgenitorDonor1_CNhs12519_tpm_fwd GranulocyteMacrophageProgenitorD1+ granulocyte macrophage progenitor, donor1_CNhs12519_12131-128D7_forward Regulation 
EosinophilsDonor3_CNhs12549_tpm_rev EosinophilsD3- Eosinophils, donor3_CNhs12549_12246-129H5_reverse Regulation 
EosinophilsDonor3_CNhs12549_tpm_fwd EosinophilsD3+ Eosinophils, donor3_CNhs12549_12246-129H5_forward Regulation 
EosinophilsDonor2_CNhs12548_tpm_rev EosinophilsD2- Eosinophils, donor2_CNhs12548_12245-129H4_reverse Regulation 
EosinophilsDonor2_CNhs12548_tpm_fwd EosinophilsD2+ Eosinophils, donor2_CNhs12548_12245-129H4_forward Regulation 
EosinophilsDonor1_CNhs12547_tpm_rev EosinophilsD1- Eosinophils, donor1_CNhs12547_12244-129H3_reverse Regulation 
EosinophilsDonor1_CNhs12547_tpm_fwd EosinophilsD1+ Eosinophils, donor1_CNhs12547_12244-129H3_forward Regulation 
DendriticCellsPlasmacytoidDonor3_CNhs12200_tpm_rev DendriticCellsPlasmacytoidD3- Dendritic Cells - plasmacytoid, donor3_CNhs12200_11385-118B8_reverse Regulation 
DendriticCellsPlasmacytoidDonor3_CNhs12200_tpm_fwd DendriticCellsPlasmacytoidD3+ Dendritic Cells - plasmacytoid, donor3_CNhs12200_11385-118B8_forward Regulation 
DendriticCellsPlasmacytoidDonor2_CNhs12196_tpm_rev DendriticCellsPlasmacytoidD2- Dendritic Cells - plasmacytoid, donor2_CNhs12196_11309-117C4_reverse Regulation 
DendriticCellsPlasmacytoidDonor2_CNhs12196_tpm_fwd DendriticCellsPlasmacytoidD2+ Dendritic Cells - plasmacytoid, donor2_CNhs12196_11309-117C4_forward Regulation 
DendriticCellsMonocyteImmatureDerivedDonor2_CNhs12195_tpm_rev DendriticCellsMonocyteImmatureD2- Dendritic Cells - monocyte immature derived, donor2_CNhs12195_11308-117C3_reverse Regulation 
DendriticCellsMonocyteImmatureDerivedDonor2_CNhs12195_tpm_fwd DendriticCellsMonocyteImmatureD2+ Dendritic Cells - monocyte immature derived, donor2_CNhs12195_11308-117C3_forward Regulation 
CommonMyeloidProgenitorCMPDonor2_CNhs12523_tpm_rev CommonMyeloidProgenitorCmpD2- common myeloid progenitor CMP, donor2_CNhs12523_12134-128E1_reverse Regulation 
CommonMyeloidProgenitorCMPDonor2_CNhs12523_tpm_fwd CommonMyeloidProgenitorCmpD2+ common myeloid progenitor CMP, donor2_CNhs12523_12134-128E1_forward Regulation 
CommonMyeloidProgenitorCMPDonor1_CNhs12518_tpm_rev CommonMyeloidProgenitorCmpD1- common myeloid progenitor CMP, donor1_CNhs12518_12130-128D6_reverse Regulation 
CommonMyeloidProgenitorCMPDonor1_CNhs12518_tpm_fwd CommonMyeloidProgenitorCmpD1+ common myeloid progenitor CMP, donor1_CNhs12518_12130-128D6_forward Regulation 
CD8TCellsPluriselectDonor090612Donation3_CNhs12187_tpm_rev Cd8+TCellsPluriD090612Dn3- CD8+ T Cells (pluriselect), donor090612, donation3_CNhs12187_12211-129D6_reverse Regulation 
CD8TCellsPluriselectDonor090612Donation3_CNhs12187_tpm_fwd Cd8+TCellsPluriD090612Dn3+ CD8+ T Cells (pluriselect), donor090612, donation3_CNhs12187_12211-129D6_forward Regulation 
CD8TCellsPluriselectDonor090612Donation2_CNhs12184_tpm_rev Cd8+TCellsPluriD090612Dn2- CD8+ T Cells (pluriselect), donor090612, donation2_CNhs12184_12206-129D1_reverse Regulation 
CD8TCellsPluriselectDonor090612Donation2_CNhs12184_tpm_fwd Cd8+TCellsPluriD090612Dn2+ CD8+ T Cells (pluriselect), donor090612, donation2_CNhs12184_12206-129D1_forward Regulation 
CD8TCellsPluriselectDonor090612Donation1_CNhs12182_tpm_rev Cd8+TCellsPluriD090612Dn1- CD8+ T Cells (pluriselect), donor090612, donation1_CNhs12182_12201-129C5_reverse Regulation 
CD8TCellsPluriselectDonor090612Donation1_CNhs12182_tpm_fwd Cd8+TCellsPluriD090612Dn1+ CD8+ T Cells (pluriselect), donor090612, donation1_CNhs12182_12201-129C5_forward Regulation 
CD8TCellsPluriselectDonor090325Donation2_CNhs12199_tpm_rev Cd8+TCellsPluriD090325Dn2- CD8+ T Cells (pluriselect), donor090325, donation2_CNhs12199_12171-128I2_reverse Regulation 
CD8TCellsPluriselectDonor090325Donation2_CNhs12199_tpm_fwd Cd8+TCellsPluriD090325Dn2+ CD8+ T Cells (pluriselect), donor090325, donation2_CNhs12199_12171-128I2_forward Regulation 
CD8TCellsPluriselectDonor090325Donation1_CNhs12201_tpm_rev Cd8+TCellsPluriD090325Dn1- CD8+ T Cells (pluriselect), donor090325, donation1_CNhs12201_12148-128F6_reverse Regulation 
CD8TCellsPluriselectDonor090325Donation1_CNhs12201_tpm_fwd Cd8+TCellsPluriD090325Dn1+ CD8+ T Cells (pluriselect), donor090325, donation1_CNhs12201_12148-128F6_forward Regulation 
CD8TCellsPluriselectDonor090309Donation3_CNhs12180_tpm_rev Cd8+TCellsPluriD090309Dn3- CD8+ T Cells (pluriselect), donor090309, donation3_CNhs12180_12196-129B9_reverse Regulation 
CD8TCellsPluriselectDonor090309Donation3_CNhs12180_tpm_fwd Cd8+TCellsPluriD090309Dn3+ CD8+ T Cells (pluriselect), donor090309, donation3_CNhs12180_12196-129B9_forward Regulation 
CD8TCellsPluriselectDonor090309Donation2_CNhs12178_tpm_rev Cd8+TCellsPluriD090309Dn2- CD8+ T Cells (pluriselect), donor090309, donation2_CNhs12178_12191-129B4_reverse Regulation 
CD8TCellsPluriselectDonor090309Donation2_CNhs12178_tpm_fwd Cd8+TCellsPluriD090309Dn2+ CD8+ T Cells (pluriselect), donor090309, donation2_CNhs12178_12191-129B4_forward Regulation 
CD8TCellsPluriselectDonor090309Donation1_CNhs12176_tpm_rev Cd8+TCellsPluriD090309Dn1- CD8+ T Cells (pluriselect), donor090309, donation1_CNhs12176_12186-129A8_reverse Regulation 
CD8TCellsPluriselectDonor090309Donation1_CNhs12176_tpm_fwd Cd8+TCellsPluriD090309Dn1+ CD8+ T Cells (pluriselect), donor090309, donation1_CNhs12176_12186-129A8_forward Regulation 
CD4CD25CD45RAMemoryConventionalTCellsDonor2_CNhs13237_tpm_rev Cd4+cd25-cd45ra-D2- CD4+CD25-CD45RA- memory conventional T cells, donor2_CNhs13237_11798-124C7_reverse Regulation 
CD4CD25CD45RAMemoryConventionalTCellsDonor2_CNhs13237_tpm_fwd Cd4+cd25-cd45ra-D2+ CD4+CD25-CD45RA- memory conventional T cells, donor2_CNhs13237_11798-124C7_forward Regulation 
CD4CD25CD45RAMemoryConventionalTCellsDonor1_CNhs13239_tpm_rev Cd4+cd25-cd45ra-D1- CD4+CD25-CD45RA- memory conventional T cells, donor1_CNhs13239_11786-124B4_reverse Regulation 
CD4CD25CD45RAMemoryConventionalTCellsDonor1_CNhs13239_tpm_fwd Cd4+cd25-cd45ra-D1+ CD4+CD25-CD45RA- memory conventional T cells, donor1_CNhs13239_11786-124B4_forward Regulation 
CD4CD25CD45RANaiveRegulatoryTCellsDonor2_CNhs13235_tpm_rev Cd4+cd25+cd45ra+D2- CD4+CD25+CD45RA+ naive regulatory T cells, donor2_CNhs13235_11796-124C5_reverse Regulation 
CD4CD25CD45RANaiveRegulatoryTCellsDonor2_CNhs13235_tpm_fwd Cd4+cd25+cd45ra+D2+ CD4+CD25+CD45RA+ naive regulatory T cells, donor2_CNhs13235_11796-124C5_forward Regulation 
CD4CD25CD45RANaiveRegulatoryTCellsDonor1_CNhs13238_tpm_rev Cd4+cd25+cd45ra+D1- CD4+CD25+CD45RA+ naive regulatory T cells, donor1_CNhs13238_11780-124A7_reverse Regulation 
CD4CD25CD45RANaiveRegulatoryTCellsDonor1_CNhs13238_tpm_fwd Cd4+cd25+cd45ra+D1+ CD4+CD25+CD45RA+ naive regulatory T cells, donor1_CNhs13238_11780-124A7_forward Regulation 
CD34StemCellsAdultBoneMarrowDerivedDonor1TechRep2_CNhs12553_tpm_rev Cd34+StemCellsAdultBoneMarrowD1Tr2- CD34+ stem cells - adult bone marrow derived, donor1, tech_rep2_CNhs12553_12225-129F2_reverse Regulation 
CD34StemCellsAdultBoneMarrowDerivedDonor1TechRep2_CNhs12553_tpm_fwd Cd34+StemCellsAdultBoneMarrowD1Tr2+ CD34+ stem cells - adult bone marrow derived, donor1, tech_rep2_CNhs12553_12225-129F2_forward Regulation 
CD34ProgenitorsDonor2_CNhs12205_tpm_rev Cd34+ProgenitorsD2- CD34+ Progenitors, donor2_CNhs12205_11625-122B5_reverse Regulation 
CD34ProgenitorsDonor2_CNhs12205_tpm_fwd Cd34+ProgenitorsD2+ CD34+ Progenitors, donor2_CNhs12205_11625-122B5_forward Regulation 
CD34ProgenitorsDonor1_CNhs13227_tpm_rev Cd34+ProgenitorsD1- CD34+ Progenitors, donor1_CNhs13227_11545-120B6_reverse Regulation 
CD34ProgenitorsDonor1_CNhs13227_tpm_fwd Cd34+ProgenitorsD1+ CD34+ Progenitors, donor1_CNhs13227_11545-120B6_forward Regulation 
CD19BCellsPluriselectDonor090612Donation3_CNhs12188_tpm_rev Cd19+BCellsPluriD090612Dn3- CD19+ B Cells (pluriselect), donor090612, donation3_CNhs12188_12214-129D9_reverse Regulation 
CD19BCellsPluriselectDonor090612Donation3_CNhs12188_tpm_fwd Cd19+BCellsPluriD090612Dn3+ CD19+ B Cells (pluriselect), donor090612, donation3_CNhs12188_12214-129D9_forward Regulation 
CD19BCellsPluriselectDonor090612Donation2_CNhs12185_tpm_rev Cd19+BCellsPluriD090612Dn2- CD19+ B Cells (pluriselect), donor090612, donation2_CNhs12185_12209-129D4_reverse Regulation 
CD19BCellsPluriselectDonor090612Donation2_CNhs12185_tpm_fwd Cd19+BCellsPluriD090612Dn2+ CD19+ B Cells (pluriselect), donor090612, donation2_CNhs12185_12209-129D4_forward Regulation 
CD19BCellsPluriselectDonor090612Donation1_CNhs12183_tpm_rev Cd19+BCellsPluriD090612Dn1- CD19+ B Cells (pluriselect), donor090612, donation1_CNhs12183_12204-129C8_reverse Regulation 
CD19BCellsPluriselectDonor090612Donation1_CNhs12183_tpm_fwd Cd19+BCellsPluriD090612Dn1+ CD19+ B Cells (pluriselect), donor090612, donation1_CNhs12183_12204-129C8_forward Regulation 
CD19BCellsPluriselectDonor090325Donation2_CNhs12175_tpm_rev Cd19+BCellsPluriD090325Dn2- CD19+ B Cells (pluriselect), donor090325, donation2_CNhs12175_12174-128I5_reverse Regulation 
CD19BCellsPluriselectDonor090325Donation2_CNhs12175_tpm_fwd Cd19+BCellsPluriD090325Dn2+ CD19+ B Cells (pluriselect), donor090325, donation2_CNhs12175_12174-128I5_forward Regulation 
CD19BCellsPluriselectDonor090325Donation1_CNhs12531_tpm_rev Cd19+BCellsPluriD090325Dn1- CD19+ B Cells (pluriselect), donor090325, donation1_CNhs12531_12151-128F9_reverse Regulation 
CD19BCellsPluriselectDonor090325Donation1_CNhs12531_tpm_fwd Cd19+BCellsPluriD090325Dn1+ CD19+ B Cells (pluriselect), donor090325, donation1_CNhs12531_12151-128F9_forward Regulation 
CD19BCellsPluriselectDonor090309Donation3_CNhs12181_tpm_rev Cd19+BCellsPluriD090309Dn3- CD19+ B Cells (pluriselect), donor090309, donation3_CNhs12181_12199-129C3_reverse Regulation 
CD19BCellsPluriselectDonor090309Donation3_CNhs12181_tpm_fwd Cd19+BCellsPluriD090309Dn3+ CD19+ B Cells (pluriselect), donor090309, donation3_CNhs12181_12199-129C3_forward Regulation 
CD19BCellsPluriselectDonor090309Donation2_CNhs12179_tpm_rev Cd19+BCellsPluriD090309Dn2- CD19+ B Cells (pluriselect), donor090309, donation2_CNhs12179_12194-129B7_reverse Regulation 
CD19BCellsPluriselectDonor090309Donation2_CNhs12179_tpm_fwd Cd19+BCellsPluriD090309Dn2+ CD19+ B Cells (pluriselect), donor090309, donation2_CNhs12179_12194-129B7_forward Regulation 
CD19BCellsPluriselectDonor090309Donation1_CNhs12177_tpm_rev Cd19+BCellsPluriD090309Dn1- CD19+ B Cells (pluriselect), donor090309, donation1_CNhs12177_12189-129B2_reverse Regulation 
CD19BCellsPluriselectDonor090309Donation1_CNhs12177_tpm_fwd Cd19+BCellsPluriD090309Dn1+ CD19+ B Cells (pluriselect), donor090309, donation1_CNhs12177_12189-129B2_forward Regulation 
CD14CD16MonocytesDonor1_CNhs13229_tpm_rev Cd14-cd16+MonocytesD1- CD14-CD16+ Monocytes, donor1_CNhs13229_11790-124B8_reverse Regulation 
CD14CD16MonocytesDonor1_CNhs13229_tpm_fwd Cd14-cd16+MonocytesD1+ CD14-CD16+ Monocytes, donor1_CNhs13229_11790-124B8_forward Regulation 
CD133StemCellsCordBloodDerivedPool1_CNhs12545_tpm_rev Cd133+StemCellsCordBloodPl1- CD133+ stem cells - cord blood derived, pool1_CNhs12545_12223-129E9_reverse Regulation 
CD133StemCellsCordBloodDerivedPool1_CNhs12545_tpm_fwd Cd133+StemCellsCordBloodPl1+ CD133+ stem cells - cord blood derived, pool1_CNhs12545_12223-129E9_forward Regulation 
CD133StemCellsAdultBoneMarrowDerivedPool1_CNhs12552_tpm_rev Cd133+StemCellsAdultBoneMarrowPl1- CD133+ stem cells - adult bone marrow derived, pool1_CNhs12552_12224-129F1_reverse Regulation 
CD133StemCellsAdultBoneMarrowDerivedPool1_CNhs12552_tpm_fwd Cd133+StemCellsAdultBoneMarrowPl1+ CD133+ stem cells - adult bone marrow derived, pool1_CNhs12552_12224-129F1_forward Regulation 
BasophilsDonor2_CNhs12563_tpm_rev BasophilsD2- Basophils, donor2_CNhs12563_12242-129H1_reverse Regulation 
BasophilsDonor2_CNhs12563_tpm_fwd BasophilsD2+ Basophils, donor2_CNhs12563_12242-129H1_forward Regulation 
BasophilsDonor1_CNhs12546_tpm_rev BasophilsD1- Basophils, donor1_CNhs12546_12241-129G9_reverse Regulation 
BasophilsDonor1_CNhs12546_tpm_fwd BasophilsD1+ Basophils, donor1_CNhs12546_12241-129G9_forward Regulation 
SmoothMuscleCellsAorticDonor0CytoplasmicFraction_CNhs12401_tpm_rev SmcAorticCytofracD0- Smooth Muscle Cells - Aortic, donor0 (cytoplasmic fraction)_CNhs12401_14313-155D2_reverse Regulation 
SmoothMuscleCellsAorticDonor0NuclearFraction_CNhs12402_tpm_rev SmcAorticCytofracD0- Smooth Muscle Cells - Aortic, donor0 (nuclear fraction)_CNhs12402_14314-155D3_reverse Regulation 
SmoothMuscleCellsAorticDonor0CytoplasmicFraction_CNhs12401_tpm_fwd SmcAorticCytofracD0+ Smooth Muscle Cells - Aortic, donor0 (cytoplasmic fraction)_CNhs12401_14313-155D2_forward Regulation 
SmoothMuscleCellsAorticDonor0NuclearFraction_CNhs12402_tpm_fwd SmcAorticCytofracD0+ Smooth Muscle Cells - Aortic, donor0 (nuclear fraction)_CNhs12402_14314-155D3_forward Regulation 
SmallAirwayEpithelialCellsDonor3NuclearFraction_CNhs12583_tpm_rev SmallAirwayEpithelialCellsD3- Small Airway Epithelial Cells, donor3 (nuclear fraction)_CNhs12583_14317-155D6_reverse Regulation 
SmallAirwayEpithelialCellsDonor3CytoplasmicFraction_CNhs14563_tpm_rev SmallAirwayEpithelialCellsD3- Small Airway Epithelial Cells donor3 (cytoplasmic fraction)_CNhs14563_14316-155D5_reverse Regulation 
SmallAirwayEpithelialCellsDonor3NuclearFraction_CNhs12583_tpm_fwd SmallAirwayEpithelialCellsD3+ Small Airway Epithelial Cells, donor3 (nuclear fraction)_CNhs12583_14317-155D6_forward Regulation 
SmallAirwayEpithelialCellsDonor3CytoplasmicFraction_CNhs14563_tpm_fwd SmallAirwayEpithelialCellsD3+ Small Airway Epithelial Cells donor3 (cytoplasmic fraction)_CNhs14563_14316-155D5_forward Regulation 
SmallAirwayEpithelialCellsDonor2CytoplasmicFraction_CNhs14564_tpm_rev SmallAirwayEpithelialCellsD2- Small Airway Epithelial Cells donor2 (cytoplasmic fraction)_CNhs14564_14334-155F5_reverse Regulation 
SmallAirwayEpithelialCellsDonor2NuclearFraction_CNhs14565_tpm_rev SmallAirwayEpithelialCellsD2- Small Airway Epithelial Cells donor2 (nuclear fraction)_CNhs14565_14335-155F6_reverse Regulation 
SmallAirwayEpithelialCellsDonor2CytoplasmicFraction_CNhs14564_tpm_fwd SmallAirwayEpithelialCellsD2+ Small Airway Epithelial Cells donor2 (cytoplasmic fraction)_CNhs14564_14334-155F5_forward Regulation 
SmallAirwayEpithelialCellsDonor2NuclearFraction_CNhs14565_tpm_fwd SmallAirwayEpithelialCellsD2+ Small Airway Epithelial Cells donor2 (nuclear fraction)_CNhs14565_14335-155F6_forward Regulation 
PreadipocyteBreastDonor2CytoplasmicFraction_CNhs14562_tpm_rev PreadipocyteBreastD2- Preadipocyte - breast donor2 (cytoplasmic fraction)_CNhs14562_14319-155D8_reverse Regulation 
PreadipocyteBreastDonor2NuclearFraction_CNhs12584_tpm_rev PreadipocyteBreastD2- Preadipocyte - breast, donor2 (nuclear fraction)_CNhs12584_14320-155D9_reverse Regulation 
PreadipocyteBreastDonor2CytoplasmicFraction_CNhs14562_tpm_fwd PreadipocyteBreastD2+ Preadipocyte - breast donor2 (cytoplasmic fraction)_CNhs14562_14319-155D8_forward Regulation 
PreadipocyteBreastDonor2NuclearFraction_CNhs12584_tpm_fwd PreadipocyteBreastD2+ Preadipocyte - breast, donor2 (nuclear fraction)_CNhs12584_14320-155D9_forward Regulation 
FibroblastSkinNormalDonor2CytoplasmicFraction_CNhs14561_tpm_rev FibrosSkinD2- Fibroblast - skin, normal donor2 (cytoplasmic fraction)_CNhs14561_14301-155B8_reverse Regulation 
FibroblastSkinNormalDonor2CytoplasmicFraction_CNhs14561_tpm_fwd FibrosSkinD2+ Fibroblast - skin, normal donor2 (cytoplasmic fraction)_CNhs14561_14301-155B8_forward Regulation 
FibroblastSkinNormalDonor1CytoplasmicFraction_CNhs14560_tpm_rev FibrosSkinD1- Fibroblast - skin, normal donor1 (cytoplasmic fraction)_CNhs14560_14322-155E2_reverse Regulation 
FibroblastSkinNormalDonor1CytoplasmicFraction_CNhs14560_tpm_fwd FibrosSkinD1+ Fibroblast - skin, normal donor1 (cytoplasmic fraction)_CNhs14560_14322-155E2_forward Regulation 
FibroblastSkinSpinalMuscularAtrophyDonor3NuclearFraction_CNhs12398_tpm_rev FibroSkinSpinalMuscularAtrophyNucfracD3- Fibroblast - skin spinal muscular atrophy, donor3 (nuclear fraction)_CNhs12398_14305-155C3_reverse Regulation 
FibroblastSkinSpinalMuscularAtrophyDonor3NuclearFraction_CNhs12398_tpm_fwd FibroSkinSpinalMuscularAtrophyNucfracD3+ Fibroblast - skin spinal muscular atrophy, donor3 (nuclear fraction)_CNhs12398_14305-155C3_forward Regulation 
FibroblastSkinSpinalMuscularAtrophyDonor1NuclearFraction_CNhs12404_tpm_rev FibroSkinSpinalMuscularAtrophyNucfracD1- Fibroblast - skin spinal muscular atrophy, donor1 (nuclear fraction)_CNhs12404_14326-155E6_reverse Regulation 
FibroblastSkinSpinalMuscularAtrophyDonor1NuclearFraction_CNhs12404_tpm_fwd FibroSkinSpinalMuscularAtrophyNucfracD1+ Fibroblast - skin spinal muscular atrophy, donor1 (nuclear fraction)_CNhs12404_14326-155E6_forward Regulation 
FibroblastSkinNormalDonor2NuclearFraction_CNhs12582_tpm_rev FibroSkinNormalNucfracD2- Fibroblast - skin normal, donor2 (nuclear fraction)_CNhs12582_14302-155B9_reverse Regulation 
FibroblastSkinNormalDonor2NuclearFraction_CNhs12582_tpm_fwd FibroSkinNormalNucfracD2+ Fibroblast - skin normal, donor2 (nuclear fraction)_CNhs12582_14302-155B9_forward Regulation 
FibroblastSkinNormalDonor1NuclearFraction_CNhs12403_tpm_rev FibroSkinNormalNucfracD1- Fibroblast - skin normal, donor1 (nuclear fraction)_CNhs12403_14323-155E3_reverse Regulation 
FibroblastSkinNormalDonor1NuclearFraction_CNhs12403_tpm_fwd FibroSkinNormalNucfracD1+ Fibroblast - skin normal, donor1 (nuclear fraction)_CNhs12403_14323-155E3_forward Regulation 
FibroblastSkinDystrophiaMyotonicaDonor3NuclearFraction_CNhs12399_tpm_rev FibroSkinDystrophiaMyotonicaNucfracD3- Fibroblast - skin dystrophia myotonica, donor3 (nuclear fraction)_CNhs12399_14308-155C6_reverse Regulation 
FibroblastSkinDystrophiaMyotonicaDonor3NuclearFraction_CNhs12399_tpm_fwd FibroSkinDystrophiaMyotonicaNucfracD3+ Fibroblast - skin dystrophia myotonica, donor3 (nuclear fraction)_CNhs12399_14308-155C6_forward Regulation 
FibroblastSkinDystrophiaMyotonicaDonor1NuclearFraction_CNhs12405_tpm_rev FibroSkinDystrophiaMyotonicaNucfracD1- Fibroblast - skin dystrophia myotonica, donor1 (nuclear fraction)_CNhs12405_14329-155E9_reverse Regulation 
FibroblastSkinDystrophiaMyotonicaDonor1NuclearFraction_CNhs12405_tpm_fwd FibroSkinDystrophiaMyotonicaNucfracD1+ Fibroblast - skin dystrophia myotonica, donor1 (nuclear fraction)_CNhs12405_14329-155E9_forward Regulation 
FibroblastAorticAdventitialDonor3NuclearFraction_CNhs12400_tpm_rev FibroAorticAdventitialD3- Fibroblast - Aortic Adventitial, donor3 (nuclear fraction)_CNhs12400_14311-155C9_reverse Regulation 
FibroblastAorticAdventitialDonor3CytoplasmicFraction_CNhs14559_tpm_rev FibroAorticAdventitialD3- Fibroblast - Aortic Adventitial donor3 (cytoplasmic fraction)_CNhs14559_14310-155C8_reverse Regulation 
FibroblastAorticAdventitialDonor3NuclearFraction_CNhs12400_tpm_fwd FibroAorticAdventitialD3+ Fibroblast - Aortic Adventitial, donor3 (nuclear fraction)_CNhs12400_14311-155C9_forward Regulation 
FibroblastAorticAdventitialDonor3CytoplasmicFraction_CNhs14559_tpm_fwd FibroAorticAdventitialD3+ Fibroblast - Aortic Adventitial donor3 (cytoplasmic fraction)_CNhs14559_14310-155C8_forward Regulation 
FibroblastAorticAdventitialDonor2CytoplasmicFraction_CNhs14558_tpm_rev FibroAorticAdventitialD2- Fibroblast - Aortic Adventitial donor2 (cytoplasmic fraction)_CNhs14558_14331-155F2_reverse Regulation 
FibroblastAorticAdventitialDonor2NuclearFraction_CNhs12581_tpm_rev FibroAorticAdventitialD2- Fibroblast - Aortic Adventitial, donor2 (nuclear fraction)_CNhs12581_14332-155F3_reverse Regulation 
FibroblastAorticAdventitialDonor2CytoplasmicFraction_CNhs14558_tpm_fwd FibroAorticAdventitialD2+ Fibroblast - Aortic Adventitial donor2 (cytoplasmic fraction)_CNhs14558_14331-155F2_forward Regulation 
FibroblastAorticAdventitialDonor2NuclearFraction_CNhs12581_tpm_fwd FibroAorticAdventitialD2+ Fibroblast - Aortic Adventitial, donor2 (nuclear fraction)_CNhs12581_14332-155F3_forward Regulation 
AcuteMyeloidLeukemiaFABM5CellLineTHP1CytoplasmicFraction_CNhs14556_tpm_rev Cl:THP-1cyto- acute myeloid leukemia (FAB M5) cell line:THP-1 (cytoplasmic fraction)_CNhs14556_14298-155B5_reverse Regulation 
AcuteMyeloidLeukemiaFABM5CellLineTHP1CytoplasmicFraction_CNhs14556_tpm_fwd Cl:THP-1cyto+ acute myeloid leukemia (FAB M5) cell line:THP-1 (cytoplasmic fraction)_CNhs14556_14298-155B5_forward Regulation 
Hep2CellsTreatedWithStreptococciStrainJRS4BiolRep3_CNhs13499_tpm_rev Hep2W/StreptococciJrs4Br3- Hep-2 cells treated with Streptococci strain JRS4, biol_rep3_CNhs13499_11896-125E6_reverse Regulation 
Hep2CellsTreatedWithStreptococciStrainJRS4BiolRep3_CNhs13499_tpm_fwd Hep2W/StreptococciJrs4Br3+ Hep-2 cells treated with Streptococci strain JRS4, biol_rep3_CNhs13499_11896-125E6_forward Regulation 
Hep2CellsTreatedWithStreptococciStrainJRS4BiolRep2_CNhs13498_tpm_rev Hep2W/StreptococciJrs4Br2- Hep-2 cells treated with Streptococci strain JRS4, biol_rep2_CNhs13498_11895-125E5_reverse Regulation 
Hep2CellsTreatedWithStreptococciStrainJRS4BiolRep2_CNhs13498_tpm_fwd Hep2W/StreptococciJrs4Br2+ Hep-2 cells treated with Streptococci strain JRS4, biol_rep2_CNhs13498_11895-125E5_forward Regulation 
Hep2CellsTreatedWithStreptococciStrainJRS4BiolRep1_CNhs13478_tpm_rev Hep2W/StreptococciJrs4Br1- Hep-2 cells treated with Streptococci strain JRS4, biol_rep1_CNhs13478_11894-125E4_reverse Regulation 
Hep2CellsTreatedWithStreptococciStrainJRS4BiolRep1_CNhs13478_tpm_fwd Hep2W/StreptococciJrs4Br1+ Hep-2 cells treated with Streptococci strain JRS4, biol_rep1_CNhs13478_11894-125E4_forward Regulation 
Hep2CellsTreatedWithStreptococciStrain5448BiolRep3_CNhs13497_tpm_rev Hep2W/Streptococci5448Br3- Hep-2 cells treated with Streptococci strain 5448, biol_rep3_CNhs13497_11892-125E2_reverse Regulation 
Hep2CellsTreatedWithStreptococciStrain5448BiolRep3_CNhs13497_tpm_fwd Hep2W/Streptococci5448Br3+ Hep-2 cells treated with Streptococci strain 5448, biol_rep3_CNhs13497_11892-125E2_forward Regulation 
Hep2CellsTreatedWithStreptococciStrain5448BiolRep2_CNhs13496_tpm_rev Hep2W/Streptococci5448Br2- Hep-2 cells treated with Streptococci strain 5448, biol_rep2_CNhs13496_11891-125E1_reverse Regulation 
Hep2CellsTreatedWithStreptococciStrain5448BiolRep2_CNhs13496_tpm_fwd Hep2W/Streptococci5448Br2+ Hep-2 cells treated with Streptococci strain 5448, biol_rep2_CNhs13496_11891-125E1_forward Regulation 
Hep2CellsTreatedWithStreptococciStrain5448BiolRep1_CNhs13477_tpm_rev Hep2W/Streptococci5448Br1- Hep-2 cells treated with Streptococci strain 5448, biol_rep1_CNhs13477_11890-125D9_reverse Regulation 
Hep2CellsTreatedWithStreptococciStrain5448BiolRep1_CNhs13477_tpm_fwd Hep2W/Streptococci5448Br1+ Hep-2 cells treated with Streptococci strain 5448, biol_rep1_CNhs13477_11890-125D9_forward Regulation 
Hep2CellsMockTreatedBiolRep3_CNhs13501_tpm_rev Hep2MockTreatedBr3- Hep-2 cells mock treated, biol_rep3_CNhs13501_11900-125F1_reverse Regulation 
Hep2CellsMockTreatedBiolRep3_CNhs13501_tpm_fwd Hep2MockTreatedBr3+ Hep-2 cells mock treated, biol_rep3_CNhs13501_11900-125F1_forward Regulation 
Hep2CellsMockTreatedBiolRep2_CNhs13500_tpm_rev Hep2MockTreatedBr2- Hep-2 cells mock treated, biol_rep2_CNhs13500_11899-125E9_reverse Regulation 
Hep2CellsMockTreatedBiolRep2_CNhs13500_tpm_fwd Hep2MockTreatedBr2+ Hep-2 cells mock treated, biol_rep2_CNhs13500_11899-125E9_forward Regulation 
Hep2CellsMockTreatedBiolRep1_CNhs13479_tpm_rev Hep2MockTreatedBr1- Hep-2 cells mock treated, biol_rep1_CNhs13479_11898-125E8_reverse Regulation 
Hep2CellsMockTreatedBiolRep1_CNhs13479_tpm_fwd Hep2MockTreatedBr1+ Hep-2 cells mock treated, biol_rep1_CNhs13479_11898-125E8_forward Regulation 
RetinoblastomaCellLineY79_CNhs11267_tpm_rev Cl:Y79- retinoblastoma cell line:Y79_CNhs11267_10475-106I7_reverse Regulation 
RetinoblastomaCellLineY79_CNhs11267_tpm_fwd Cl:Y79+ retinoblastoma cell line:Y79_CNhs11267_10475-106I7_forward Regulation 
XerodermaPigentosumBCellLineXPL17_CNhs11813_tpm_rev Cl:XPL17- xeroderma pigentosum b cell line:XPL 17_CNhs11813_10563-108A5_reverse Regulation 
XerodermaPigentosumBCellLineXPL17_CNhs11813_tpm_fwd Cl:XPL17+ xeroderma pigentosum b cell line:XPL 17_CNhs11813_10563-108A5_forward Regulation 
HereditarySpherocyticAnemiaCellLineWIL2NS_CNhs11891_tpm_rev Cl:WIL2-NS- hereditary spherocytic anemia cell line:WIL2-NS_CNhs11891_10808-111A7_reverse Regulation 
HereditarySpherocyticAnemiaCellLineWIL2NS_CNhs11891_tpm_fwd Cl:WIL2-NS+ hereditary spherocytic anemia cell line:WIL2-NS_CNhs11891_10808-111A7_forward Regulation 
SmallCellLungCarcinomaCellLineWAhT_CNhs11812_tpm_rev Cl:WA-hT- small cell lung carcinoma cell line:WA-hT_CNhs11812_10562-108A4_reverse Regulation 
SmallCellLungCarcinomaCellLineWAhT_CNhs11812_tpm_fwd Cl:WA-hT+ small cell lung carcinoma cell line:WA-hT_CNhs11812_10562-108A4_forward Regulation 
AcuteMyeloidLeukemiaFABM5CellLineU937DE4_CNhs13058_tpm_rev Cl:U-937DE-4- acute myeloid leukemia (FAB M5) cell line:U-937 DE-4_CNhs13058_10834-111D6_reverse Regulation 
AcuteMyeloidLeukemiaFABM5CellLineU937DE4_CNhs13058_tpm_fwd Cl:U-937DE-4+ acute myeloid leukemia (FAB M5) cell line:U-937 DE-4_CNhs13058_10834-111D6_forward Regulation 
ThymicCarcinomaCellLineTy82_CNhs14139_tpm_rev Cl:Ty-82- thymic carcinoma cell line:Ty-82_CNhs14139_10803-111A2_reverse Regulation 
ThymicCarcinomaCellLineTy82_CNhs14139_tpm_fwd Cl:Ty-82+ thymic carcinoma cell line:Ty-82_CNhs14139_10803-111A2_forward Regulation 
RenalCellCarcinomaCellLineTUHR10TKB_CNhs11257_tpm_rev Cl:TUHR10TKB- renal cell carcinoma cell line:TUHR10TKB_CNhs11257_10471-106I3_reverse Regulation 
RenalCellCarcinomaCellLineTUHR10TKB_CNhs11257_tpm_fwd Cl:TUHR10TKB+ renal cell carcinoma cell line:TUHR10TKB_CNhs11257_10471-106I3_forward Regulation 
RectalCancerCellLineTT1TKB_CNhs11255_tpm_rev Cl:TT1TKB- rectal cancer cell line:TT1TKB_CNhs11255_10469-106I1_reverse Regulation 
RectalCancerCellLineTT1TKB_CNhs11255_tpm_fwd Cl:TT1TKB+ rectal cancer cell line:TT1TKB_CNhs11255_10469-106I1_forward Regulation 
AstrocytomaCellLineTM31_CNhs10742_tpm_rev Cl:TM-31- astrocytoma cell line:TM-31_CNhs10742_10425-106D2_reverse Regulation 
AstrocytomaCellLineTM31_CNhs10742_tpm_fwd Cl:TM-31+ astrocytoma cell line:TM-31_CNhs10742_10425-106D2_forward Regulation 
AcuteMyeloidLeukemiaFABM5CellLineTHP1Thawed_CNhs10724_tpm_rev Cl:THP-1thawed- acute myeloid leukemia (FAB M5) cell line:THP-1 (thawed)_CNhs10724_10405-106A9_reverse Regulation 
AcuteMyeloidLeukemiaFABM5CellLineTHP1Thawed_CNhs10724_tpm_fwd Cl:THP-1thawed+ acute myeloid leukemia (FAB M5) cell line:THP-1 (thawed)_CNhs10724_10405-106A9_forward Regulation 
AcuteMyeloidLeukemiaFABM5CellLineTHP1Revived_CNhs10723_tpm_rev Cl:THP-1revived- acute myeloid leukemia (FAB M5) cell line:THP-1 (revived)_CNhs10723_10400-106A4_reverse Regulation 
AcuteMyeloidLeukemiaFABM5CellLineTHP1Revived_CNhs10723_tpm_fwd Cl:THP-1revived+ acute myeloid leukemia (FAB M5) cell line:THP-1 (revived)_CNhs10723_10400-106A4_forward Regulation 
AcuteMyeloidLeukemiaFABM5CellLineTHP1Fresh_CNhs10722_tpm_rev Cl:THP-1fresh- acute myeloid leukemia (FAB M5) cell line:THP-1 (fresh)_CNhs10722_10399-106A3_reverse Regulation 
AcuteMyeloidLeukemiaFABM5CellLineTHP1Fresh_CNhs10722_tpm_fwd Cl:THP-1fresh+ acute myeloid leukemia (FAB M5) cell line:THP-1 (fresh)_CNhs10722_10399-106A3_forward Regulation 
GallBladderCarcinomaCellLineTGBC2TKB_CNhs10733_tpm_rev Cl:TGBC2TKB- gall bladder carcinoma cell line:TGBC2TKB_CNhs10733_10415-106C1_reverse Regulation 
GallBladderCarcinomaCellLineTGBC2TKB_CNhs10733_tpm_fwd Cl:TGBC2TKB+ gall bladder carcinoma cell line:TGBC2TKB_CNhs10733_10415-106C1_forward Regulation 
PapillotubularAdenocarcinomaCellLineTGBC18TKB_CNhs10734_tpm_rev Cl:TGBC18TKB- papillotubular adenocarcinoma cell line:TGBC18TKB_CNhs10734_10417-106C3_reverse Regulation 
PapillotubularAdenocarcinomaCellLineTGBC18TKB_CNhs10734_tpm_fwd Cl:TGBC18TKB+ papillotubular adenocarcinoma cell line:TGBC18TKB_CNhs10734_10417-106C3_forward Regulation 
GallBladderCarcinomaCellLineTGBC14TKB_CNhs11256_tpm_rev Cl:TGBC14TKB- gall bladder carcinoma cell line:TGBC14TKB_CNhs11256_10470-106I2_reverse Regulation 
GallBladderCarcinomaCellLineTGBC14TKB_CNhs11256_tpm_fwd Cl:TGBC14TKB+ gall bladder carcinoma cell line:TGBC14TKB_CNhs11256_10470-106I2_forward Regulation 
BileDuctCarcinomaCellLineTFK1_CNhs11265_tpm_rev Cl:TFK-1- bile duct carcinoma cell line:TFK-1_CNhs11265_10496-107C1_reverse Regulation 
BileDuctCarcinomaCellLineTFK1_CNhs11265_tpm_fwd Cl:TFK-1+ bile duct carcinoma cell line:TFK-1_CNhs11265_10496-107C1_forward Regulation 
ClearCellCarcinomaCellLineTEN_CNhs11930_tpm_rev Cl:TEN- clear cell carcinoma cell line:TEN_CNhs11930_10636-108I6_reverse Regulation 
ClearCellCarcinomaCellLineTEN_CNhs11930_tpm_fwd Cl:TEN+ clear cell carcinoma cell line:TEN_CNhs11930_10636-108I6_forward Regulation 
BasalCellCarcinomaCellLineTE354_T_CNhs11932_tpm_rev Cl:TE354_T- basal cell carcinoma cell line:TE 354_T_CNhs11932_10702-109G9_reverse Regulation 
BasalCellCarcinomaCellLineTE354_T_CNhs11932_tpm_fwd Cl:TE354_T+ basal cell carcinoma cell line:TE 354_T_CNhs11932_10702-109G9_forward Regulation 
ThyroidCarcinomaCellLineTCO1_CNhs11872_tpm_rev Cl:TCO-1- thyroid carcinoma cell line:TCO-1_CNhs11872_10783-110G9_reverse Regulation 
ThyroidCarcinomaCellLineTCO1_CNhs11872_tpm_fwd Cl:TCO-1+ thyroid carcinoma cell line:TCO-1_CNhs11872_10783-110G9_forward Regulation 
ArgyrophilSmallCellCarcinomaCellLineTCYIK_CNhs11725_tpm_rev Cl:TC-YIK- argyrophil small cell carcinoma cell line:TC-YIK_CNhs11725_10589-108D4_reverse Regulation 
ArgyrophilSmallCellCarcinomaCellLineTCYIK_CNhs11725_tpm_fwd Cl:TC-YIK+ argyrophil small cell carcinoma cell line:TC-YIK_CNhs11725_10589-108D4_forward Regulation 
NeuroectodermalTumorCellLineTASK1_CNhs11866_tpm_rev Cl:TASK1- neuroectodermal tumor cell line:TASK1_CNhs11866_10774-110F9_reverse Regulation 
NeuroectodermalTumorCellLineTASK1_CNhs11866_tpm_fwd Cl:TASK1+ neuroectodermal tumor cell line:TASK1_CNhs11866_10774-110F9_forward Regulation 
GlioblastomaCellLineT98G_CNhs11272_tpm_rev Cl:T98G- glioblastoma cell line:T98G_CNhs11272_10485-107A8_reverse Regulation 
GlioblastomaCellLineT98G_CNhs11272_tpm_fwd Cl:T98G+ glioblastoma cell line:T98G_CNhs11272_10485-107A8_forward Regulation 
SquamousCellCarcinomaCellLineT3M5_CNhs11739_tpm_rev Cl:T3M-5- squamous cell carcinoma cell line:T3M-5_CNhs11739_10616-108G4_reverse Regulation 
SquamousCellCarcinomaCellLineT3M5_CNhs11739_tpm_fwd Cl:T3M-5+ squamous cell carcinoma cell line:T3M-5_CNhs11739_10616-108G4_forward Regulation 
ChoriocarcinomaCellLineT3M3_CNhs11820_tpm_rev Cl:T3M-3- choriocarcinoma cell line:T3M-3_CNhs11820_10618-108G6_reverse Regulation 
ChoriocarcinomaCellLineT3M3_CNhs11820_tpm_fwd Cl:T3M-3+ choriocarcinoma cell line:T3M-3_CNhs11820_10618-108G6_forward Regulation 
LiposarcomaCellLineSW872_CNhs11851_tpm_rev Cl:SW872- liposarcoma cell line:SW 872_CNhs11851_10726-110A6_reverse Regulation 
LiposarcomaCellLineSW872_CNhs11851_tpm_fwd Cl:SW872+ liposarcoma cell line:SW 872_CNhs11851_10726-110A6_forward Regulation 
AlveolarCellCarcinomaCellLineSW1573_CNhs11838_tpm_rev Cl:SW1573- alveolar cell carcinoma cell line:SW 1573_CNhs11838_10708-109H6_reverse Regulation 
AlveolarCellCarcinomaCellLineSW1573_CNhs11838_tpm_fwd Cl:SW1573+ alveolar cell carcinoma cell line:SW 1573_CNhs11838_10708-109H6_forward Regulation 
ChondrosarcomaCellLineSW1353_CNhs11833_tpm_rev Cl:SW1353- chondrosarcoma cell line:SW 1353_CNhs11833_10700-109G7_reverse Regulation 
ChondrosarcomaCellLineSW1353_CNhs11833_tpm_fwd Cl:SW1353+ chondrosarcoma cell line:SW 1353_CNhs11833_10700-109G7_forward Regulation 
AdrenalCortexAdenocarcinomaCellLineSW13_CNhs11893_tpm_rev Cl:SW-13- adrenal cortex adenocarcinoma cell line:SW-13_CNhs11893_10810-111A9_reverse Regulation 
AdrenalCortexAdenocarcinomaCellLineSW13_CNhs11893_tpm_fwd Cl:SW-13+ adrenal cortex adenocarcinoma cell line:SW-13_CNhs11893_10810-111A9_forward Regulation 
TubularAdenocarcinomaCellLineSUIT2_CNhs11883_tpm_rev Cl:SUIT-2- tubular adenocarcinoma cell line:SUIT-2_CNhs11883_10797-110I5_reverse Regulation 
TubularAdenocarcinomaCellLineSUIT2_CNhs11883_tpm_fwd Cl:SUIT-2+ tubular adenocarcinoma cell line:SUIT-2_CNhs11883_10797-110I5_forward Regulation 
BoneMarrowStromalCellLineStromaNKtert_CNhs11931_tpm_rev Cl:StromaNKtert- bone marrow stromal cell line:StromaNKtert_CNhs11931_10686-109F2_reverse Regulation 
BoneMarrowStromalCellLineStromaNKtert_CNhs11931_tpm_fwd Cl:StromaNKtert+ bone marrow stromal cell line:StromaNKtert_CNhs11931_10686-109F2_forward Regulation 
LensEpithelialCellLineSRA0104_CNhs11750_tpm_rev Cl:SRA01/04- lens epithelial cell line:SRA 01/04_CNhs11750_10647-109A8_reverse Regulation 
LensEpithelialCellLineSRA0104_CNhs11750_tpm_fwd Cl:SRA01/04+ lens epithelial cell line:SRA 01/04_CNhs11750_10647-109A8_forward Regulation 
PleomorphicHepatocellularCarcinomaCellLineSNU387_CNhs11933_tpm_rev Cl:SNU-387- pleomorphic hepatocellular carcinoma cell line:SNU-387_CNhs11933_10706-109H4_reverse Regulation 
PleomorphicHepatocellularCarcinomaCellLineSNU387_CNhs11933_tpm_fwd Cl:SNU-387+ pleomorphic hepatocellular carcinoma cell line:SNU-387_CNhs11933_10706-109H4_forward Regulation 
SplenicLymphomaWithVillousLymphocytesCellLineSLVL_CNhs10741_tpm_rev Cl:SLVL- splenic lymphoma with villous lymphocytes cell line:SLVL_CNhs10741_10424-106D1_reverse Regulation 
SplenicLymphomaWithVillousLymphocytesCellLineSLVL_CNhs10741_tpm_fwd Cl:SLVL+ splenic lymphoma with villous lymphocytes cell line:SLVL_CNhs10741_10424-106D1_forward Regulation 
ChronicLymphocyticLeukemiaTCLLCellLineSKW3_CNhs11714_tpm_rev Cl:SKW-3- chronic lymphocytic leukemia (T-CLL) cell line:SKW-3_CNhs11714_10416-106C2_reverse Regulation 
ChronicLymphocyticLeukemiaTCLLCellLineSKW3_CNhs11714_tpm_fwd Cl:SKW-3+ chronic lymphocytic leukemia (T-CLL) cell line:SKW-3_CNhs11714_10416-106C2_forward Regulation 
MyelodysplasticSyndromeCellLineSKM1_CNhs11934_tpm_rev Cl:SKM-1- myelodysplastic syndrome cell line:SKM-1_CNhs11934_10772-110F7_reverse Regulation 
MyelodysplasticSyndromeCellLineSKM1_CNhs11934_tpm_fwd Cl:SKM-1+ myelodysplastic syndrome cell line:SKM-1_CNhs11934_10772-110F7_forward Regulation 
LargeCellNonkeratinizingSquamousCarcinomaCellLineSKGIISF_CNhs11825_tpm_rev Cl:SKG-II-SF- large cell non-keratinizing squamous carcinoma cell line:SKG-II-SF_CNhs11825_10692-109F8_reverse Regulation 
LargeCellNonkeratinizingSquamousCarcinomaCellLineSKGIISF_CNhs11825_tpm_fwd Cl:SKG-II-SF+ large cell non-keratinizing squamous carcinoma cell line:SKG-II-SF_CNhs11825_10692-109F8_forward Regulation 
CarcinoidCellLineSKPNDW_CNhs11846_tpm_rev Cl:SK-PN-DW- carcinoid cell line:SK-PN-DW_CNhs11846_10719-109I8_reverse Regulation 
CarcinoidCellLineSKPNDW_CNhs11846_tpm_fwd Cl:SK-PN-DW+ carcinoid cell line:SK-PN-DW_CNhs11846_10719-109I8_forward Regulation 
SerousAdenocarcinomaCellLineSKOV3RAfterCocultureWithSOC5702GBiolRep1_CNhs13508_tpm_rev Cl:SK-OV-3-RwithSOC-57-02-GBr1- serous adenocarcinoma cell line:SK-OV-3-R after co-culture with SOC-57-02-G, biol_rep1_CNhs13508_11843-124H7_reverse Regulation 
SerousAdenocarcinomaCellLineSKOV3RAfterCocultureWithSOC5702GBiolRep1_CNhs13508_tpm_fwd Cl:SK-OV-3-RwithSOC-57-02-GBr1+ serous adenocarcinoma cell line:SK-OV-3-R after co-culture with SOC-57-02-G, biol_rep1_CNhs13508_11843-124H7_forward Regulation 
SerousAdenocarcinomaCellLineSKOV3RBiolRep1_CNhs13099_tpm_rev Cl:SK-OV-3-RBr1- serous adenocarcinoma cell line:SK-OV-3-R, biol_rep1_CNhs13099_11841-124H5_reverse Regulation 
SerousAdenocarcinomaCellLineSKOV3RBiolRep1_CNhs13099_tpm_fwd Cl:SK-OV-3-RBr1+ serous adenocarcinoma cell line:SK-OV-3-R, biol_rep1_CNhs13099_11841-124H5_forward Regulation 
NeuroepitheliomaCellLineSKNMC_CNhs11853_tpm_rev Cl:SK-N-MC- neuroepithelioma cell line:SK-N-MC_CNhs11853_10728-110A8_reverse Regulation 
NeuroepitheliomaCellLineSKNMC_CNhs11853_tpm_fwd Cl:SK-N-MC+ neuroepithelioma cell line:SK-N-MC_CNhs11853_10728-110A8_forward Regulation 
ChoriocarcinomaCellLineSCH_CNhs11875_tpm_rev Cl:SCH- choriocarcinoma cell line:SCH_CNhs11875_10785-110H2_reverse Regulation 
ChoriocarcinomaCellLineSCH_CNhs11875_tpm_fwd Cl:SCH+ choriocarcinoma cell line:SCH_CNhs11875_10785-110H2_forward Regulation 
OralSquamousCellCarcinomaCellLineSAS_CNhs11810_tpm_rev Cl:SAS- oral squamous cell carcinoma cell line:SAS_CNhs11810_10544-107H4_reverse Regulation 
OralSquamousCellCarcinomaCellLineSAS_CNhs11810_tpm_fwd Cl:SAS+ oral squamous cell carcinoma cell line:SAS_CNhs11810_10544-107H4_forward Regulation 
AnaplasticSquamousCellCarcinomaCellLineRPMI2650_CNhs11889_tpm_rev Cl:RPMI2650- anaplastic squamous cell carcinoma cell line:RPMI 2650_CNhs11889_10805-111A4_reverse Regulation 
AnaplasticSquamousCellCarcinomaCellLineRPMI2650_CNhs11889_tpm_fwd Cl:RPMI2650+ anaplastic squamous cell carcinoma cell line:RPMI 2650_CNhs11889_10805-111A4_forward Regulation 
BCellLineRPMI1788_CNhs10744_tpm_rev Cl:RPMI1788- b cell line:RPMI1788_CNhs10744_10427-106D4_reverse Regulation 
BCellLineRPMI1788_CNhs10744_tpm_fwd Cl:RPMI1788+ b cell line:RPMI1788_CNhs10744_10427-106D4_forward Regulation 
RhabdomyosarcomaCellLineRMSYM_CNhs11269_tpm_rev Cl:RMS-YM- rhabdomyosarcoma cell line:RMS-YM_CNhs11269_10477-106I9_reverse Regulation 
RhabdomyosarcomaCellLineRMSYM_CNhs11269_tpm_fwd Cl:RMS-YM+ rhabdomyosarcoma cell line:RMS-YM_CNhs11269_10477-106I9_forward Regulation 
SquamousCellLungCarcinomaCellLineRERFLCAI_CNhs14240_tpm_rev Cl:RERF-LC-AI- squamous cell lung carcinoma cell line:RERF-LC-AI_CNhs14240_10501-107C6_reverse Regulation 
SquamousCellLungCarcinomaCellLineRERFLCAI_CNhs14240_tpm_fwd Cl:RERF-LC-AI+ squamous cell lung carcinoma cell line:RERF-LC-AI_CNhs14240_10501-107C6_forward Regulation 
BurkittsLymphomaCellLineRAJI_CNhs11268_tpm_rev Cl:RAJI- Burkitt's lymphoma cell line:RAJI_CNhs11268_10476-106I8_reverse Regulation 
BurkittsLymphomaCellLineRAJI_CNhs11268_tpm_fwd Cl:RAJI+ Burkitt's lymphoma cell line:RAJI_CNhs11268_10476-106I8_forward Regulation 
SomatostatinomaCellLineQGP1_CNhs11869_tpm_rev Cl:QGP-1- somatostatinoma cell line:QGP-1_CNhs11869_10781-110G7_reverse Regulation 
SomatostatinomaCellLineQGP1_CNhs11869_tpm_fwd Cl:QGP-1+ somatostatinoma cell line:QGP-1_CNhs11869_10781-110G7_forward Regulation 
MyelomaCellLinePCM6_CNhs11258_tpm_rev Cl:PCM6- myeloma cell line:PCM6_CNhs11258_10474-106I6_reverse Regulation 
MyelomaCellLinePCM6_CNhs11258_tpm_fwd Cl:PCM6+ myeloma cell line:PCM6_CNhs11258_10474-106I6_forward Regulation 
ProstateCancerCellLinePC3_CNhs11243_tpm_rev Cl:PC-3- prostate cancer cell line:PC-3_CNhs11243_10439-106E7_reverse Regulation 
ProstateCancerCellLinePC3_CNhs11243_tpm_fwd Cl:PC-3+ prostate cancer cell line:PC-3_CNhs11243_10439-106E7_forward Regulation 
LungAdenocarcinomaCellLinePC14_CNhs10726_tpm_rev Cl:PC-14- lung adenocarcinoma cell line:PC-14_CNhs10726_10408-106B3_reverse Regulation 
LungAdenocarcinomaCellLinePC14_CNhs10726_tpm_fwd Cl:PC-14+ lung adenocarcinoma cell line:PC-14_CNhs10726_10408-106B3_forward Regulation 
TeratocarcinomaCellLinePA1_CNhs11890_tpm_rev Cl:PA-1- teratocarcinoma cell line:PA-1_CNhs11890_10807-111A6_reverse Regulation 
TeratocarcinomaCellLinePA1_CNhs11890_tpm_fwd Cl:PA-1+ teratocarcinoma cell line:PA-1_CNhs11890_10807-111A6_forward Regulation 
AcuteMyeloidLeukemiaFABM5CellLineP31FUJ_CNhs13051_tpm_rev Cl:P31/FUJ- acute myeloid leukemia (FAB M5) cell line:P31/FUJ_CNhs13051_10770-110F5_reverse Regulation 
AcuteMyeloidLeukemiaFABM5CellLineP31FUJ_CNhs13051_tpm_fwd Cl:P31/FUJ+ acute myeloid leukemia (FAB M5) cell line:P31/FUJ_CNhs13051_10770-110F5_forward Regulation 
NonTNonBAcuteLymphoblasticLeukemiaALLCellLineP30OHK_CNhs10747_tpm_rev Cl:P30/OHK- non T non B acute lymphoblastic leukemia (ALL) cell line:P30/OHK_CNhs10747_10430-106D7_reverse Regulation 
NonTNonBAcuteLymphoblasticLeukemiaALLCellLineP30OHK_CNhs10747_tpm_fwd Cl:P30/OHK+ non T non B acute lymphoblastic leukemia (ALL) cell line:P30/OHK_CNhs10747_10430-106D7_forward Regulation 
RenalCellCarcinomaCellLineOSRC2_CNhs10729_tpm_rev Cl:OS-RC-2- renal cell carcinoma cell line:OS-RC-2_CNhs10729_10411-106B6_reverse Regulation 
RenalCellCarcinomaCellLineOSRC2_CNhs10729_tpm_fwd Cl:OS-RC-2+ renal cell carcinoma cell line:OS-RC-2_CNhs10729_10411-106B6_forward Regulation 
MedulloblastomaCellLineONS76_CNhs11861_tpm_rev Cl:ONS-76- medulloblastoma cell line:ONS-76_CNhs11861_10759-110E3_reverse Regulation 
MedulloblastomaCellLineONS76_CNhs11861_tpm_fwd Cl:ONS-76+ medulloblastoma cell line:ONS-76_CNhs11861_10759-110E3_forward Regulation 
MesotheliomaCellLineONE58_CNhs13075_tpm_rev Cl:ONE58- mesothelioma cell line:ONE58_CNhs13075_10858-111G3_reverse Regulation 
MesotheliomaCellLineONE58_CNhs13075_tpm_fwd Cl:ONE58+ mesothelioma cell line:ONE58_CNhs13075_10858-111G3_forward Regulation 
EndometrialStromalSarcomaCellLineOMC9_CNhs11249_tpm_rev Cl:OMC-9- endometrial stromal sarcoma cell line:OMC-9_CNhs11249_10448-106F7_reverse Regulation 
EndometrialStromalSarcomaCellLineOMC9_CNhs11249_tpm_fwd Cl:OMC-9+ endometrial stromal sarcoma cell line:OMC-9_CNhs11249_10448-106F7_forward Regulation 
EndometrialCarcinomaCellLineOMC2_CNhs11266_tpm_rev Cl:OMC-2- endometrial carcinoma cell line:OMC-2_CNhs11266_10497-107C2_reverse Regulation 
EndometrialCarcinomaCellLineOMC2_CNhs11266_tpm_fwd Cl:OMC-2+ endometrial carcinoma cell line:OMC-2_CNhs11266_10497-107C2_forward Regulation 
SignetRingCarcinomaCellLineNUGC4_CNhs11270_tpm_rev Cl:NUGC-4- signet ring carcinoma cell line:NUGC-4_CNhs11270_10483-107A6_reverse Regulation 
SignetRingCarcinomaCellLineNUGC4_CNhs11270_tpm_fwd Cl:NUGC-4+ signet ring carcinoma cell line:NUGC-4_CNhs11270_10483-107A6_forward Regulation 
PancreaticCarcinomaCellLineNORP1_CNhs11832_tpm_rev Cl:NOR-P1- pancreatic carcinoma cell line:NOR-P1_CNhs11832_10698-109G5_reverse Regulation 
PancreaticCarcinomaCellLineNORP1_CNhs11832_tpm_fwd Cl:NOR-P1+ pancreatic carcinoma cell line:NOR-P1_CNhs11832_10698-109G5_forward Regulation 
AcuteMyeloidLeukemiaFABM5CellLineNOMO1_CNhs13050_tpm_rev Cl:NOMO-1- acute myeloid leukemia (FAB M5) cell line:NOMO-1_CNhs13050_10764-110E8_reverse Regulation 
AcuteMyeloidLeukemiaFABM5CellLineNOMO1_CNhs13050_tpm_fwd Cl:NOMO-1+ acute myeloid leukemia (FAB M5) cell line:NOMO-1_CNhs13050_10764-110E8_forward Regulation 
MesotheliomaCellLineNo36_CNhs13074_tpm_rev Cl:No36- mesothelioma cell line:No36_CNhs13074_10857-111G2_reverse Regulation 
MesotheliomaCellLineNo36_CNhs13074_tpm_fwd Cl:No36+ mesothelioma cell line:No36_CNhs13074_10857-111G2_forward Regulation 
MyxofibrosarcomaCellLineNMFH1_CNhs11821_tpm_rev Cl:NMFH-1- myxofibrosarcoma cell line:NMFH-1_CNhs11821_10684-109E9_reverse Regulation 
MyxofibrosarcomaCellLineNMFH1_CNhs11821_tpm_fwd Cl:NMFH-1+ myxofibrosarcoma cell line:NMFH-1_CNhs11821_10684-109E9_forward Regulation 
AcuteMyeloidLeukemiaFABM2CellLineNKM1_CNhs11864_tpm_rev Cl:NKM-1- acute myeloid leukemia (FAB M2) cell line:NKM-1_CNhs11864_10765-110E9_reverse Regulation 
AcuteMyeloidLeukemiaFABM2CellLineNKM1_CNhs11864_tpm_fwd Cl:NKM-1+ acute myeloid leukemia (FAB M2) cell line:NKM-1_CNhs11864_10765-110E9_forward Regulation 
NeuroblastomaCellLineNH12_CNhs11811_tpm_rev Cl:NH-12- neuroblastoma cell line:NH-12_CNhs11811_10555-107I6_reverse Regulation 
NeuroblastomaCellLineNH12_CNhs11811_tpm_fwd Cl:NH-12+ neuroblastoma cell line:NH-12_CNhs11811_10555-107I6_forward Regulation 
TesticularGermCellEmbryonalCarcinomaCellLineNEC8_CNhs11726_tpm_rev Cl:NEC8- testicular germ cell embryonal carcinoma cell line:NEC8_CNhs11726_10590-108D5_reverse Regulation 
TesticularGermCellEmbryonalCarcinomaCellLineNEC8_CNhs11726_tpm_fwd Cl:NEC8+ testicular germ cell embryonal carcinoma cell line:NEC8_CNhs11726_10590-108D5_forward Regulation 
TesticularGermCellEmbryonalCarcinomaCellLineNEC15_CNhs12362_tpm_rev Cl:NEC15- testicular germ cell embryonal carcinoma cell line:NEC15_CNhs12362_10593-108D8_reverse Regulation 
TesticularGermCellEmbryonalCarcinomaCellLineNEC15_CNhs12362_tpm_fwd Cl:NEC15+ testicular germ cell embryonal carcinoma cell line:NEC15_CNhs12362_10593-108D8_forward Regulation 
TesticularGermCellEmbryonalCarcinomaCellLineNEC14_CNhs12351_tpm_rev Cl:NEC14- testicular germ cell embryonal carcinoma cell line:NEC14_CNhs12351_10591-108D6_reverse Regulation 
TesticularGermCellEmbryonalCarcinomaCellLineNEC14_CNhs12351_tpm_fwd Cl:NEC14+ testicular germ cell embryonal carcinoma cell line:NEC14_CNhs12351_10591-108D6_forward Regulation 
TeratocarcinomaCellLineNCRG1_CNhs11884_tpm_rev Cl:NCR-G1- teratocarcinoma cell line:NCR-G1_CNhs11884_10798-110I6_reverse Regulation 
TeratocarcinomaCellLineNCRG1_CNhs11884_tpm_fwd Cl:NCR-G1+ teratocarcinoma cell line:NCR-G1_CNhs11884_10798-110I6_forward Regulation 
SmallCellLungCarcinomaCellLineNCIH82_CNhs12809_tpm_rev Cl:NCI-H82- small cell lung carcinoma cell line:NCI-H82_CNhs12809_10842-111E5_reverse Regulation 
SmallCellLungCarcinomaCellLineNCIH82_CNhs12809_tpm_fwd Cl:NCI-H82+ small cell lung carcinoma cell line:NCI-H82_CNhs12809_10842-111E5_forward Regulation 
CarcinoidCellLineNCIH727_CNhs14244_tpm_rev Cl:NCI-H727- carcinoid cell line:NCI-H727_CNhs14244_10735-110B6_reverse Regulation 
CarcinoidCellLineNCIH727_CNhs14244_tpm_fwd Cl:NCI-H727+ carcinoid cell line:NCI-H727_CNhs14244_10735-110B6_forward Regulation 
BronchioalveolarCarcinomaCellLineNCIH650_CNhs14138_tpm_rev Cl:NCI-H650- bronchioalveolar carcinoma cell line:NCI-H650_CNhs14138_10715-109I4_reverse Regulation 
BronchioalveolarCarcinomaCellLineNCIH650_CNhs14138_tpm_fwd Cl:NCI-H650+ bronchioalveolar carcinoma cell line:NCI-H650_CNhs14138_10715-109I4_forward Regulation 
LargeCellLungCarcinomaCellLineNCIH460_CNhs12806_tpm_rev Cl:NCI-H460- large cell lung carcinoma cell line:NCI-H460_CNhs12806_10839-111E2_reverse Regulation 
LargeCellLungCarcinomaCellLineNCIH460_CNhs12806_tpm_fwd Cl:NCI-H460+ large cell lung carcinoma cell line:NCI-H460_CNhs12806_10839-111E2_forward Regulation 
LungAdenocarcinomaPapillaryCellLineNCIH441_CNhs14245_tpm_rev Cl:NCI-H441- lung adenocarcinoma, papillary cell line:NCI-H441_CNhs14245_10742-110C4_reverse Regulation 
LungAdenocarcinomaPapillaryCellLineNCIH441_CNhs14245_tpm_fwd Cl:NCI-H441+ lung adenocarcinoma, papillary cell line:NCI-H441_CNhs14245_10742-110C4_forward Regulation 
BronchioalveolarCarcinomaCellLineNCIH358_CNhs11840_tpm_rev Cl:NCI-H358- bronchioalveolar carcinoma cell line:NCI-H358_CNhs11840_10709-109H7_reverse Regulation 
BronchioalveolarCarcinomaCellLineNCIH358_CNhs11840_tpm_fwd Cl:NCI-H358+ bronchioalveolar carcinoma cell line:NCI-H358_CNhs11840_10709-109H7_forward Regulation 
MesotheliomaCellLineNCIH28_CNhs13061_tpm_rev Cl:NCI-H28- mesothelioma cell line:NCI-H28_CNhs13061_10845-111E8_reverse Regulation 
MesotheliomaCellLineNCIH28_CNhs13061_tpm_fwd Cl:NCI-H28+ mesothelioma cell line:NCI-H28_CNhs13061_10845-111E8_forward Regulation 
MesotheliomaCellLineNCIH2452_CNhs13064_tpm_rev Cl:NCI-H2452- mesothelioma cell line:NCI-H2452_CNhs13064_10848-111F2_reverse Regulation 
MesotheliomaCellLineNCIH2452_CNhs13064_tpm_fwd Cl:NCI-H2452+ mesothelioma cell line:NCI-H2452_CNhs13064_10848-111F2_forward Regulation 
MesotheliomaCellLineNCIH226_CNhs13062_tpm_rev Cl:NCI-H226- mesothelioma cell line:NCI-H226_CNhs13062_10846-111E9_reverse Regulation 
MesotheliomaCellLineNCIH226_CNhs13062_tpm_fwd Cl:NCI-H226+ mesothelioma cell line:NCI-H226_CNhs13062_10846-111E9_forward Regulation 
MesotheliomaCellLineNCIH2052_CNhs13063_tpm_rev Cl:NCI-H2052- mesothelioma cell line:NCI-H2052_CNhs13063_10847-111F1_reverse Regulation 
MesotheliomaCellLineNCIH2052_CNhs13063_tpm_fwd Cl:NCI-H2052+ mesothelioma cell line:NCI-H2052_CNhs13063_10847-111F1_forward Regulation 
CarcinoidCellLineNCIH1770_CNhs11834_tpm_rev Cl:NCI-H1770- carcinoid cell line:NCI-H1770_CNhs11834_10703-109H1_reverse Regulation 
CarcinoidCellLineNCIH1770_CNhs11834_tpm_fwd Cl:NCI-H1770+ carcinoid cell line:NCI-H1770_CNhs11834_10703-109H1_forward Regulation 
TeratocarcinomaCellLineNCCITA3_CNhs11878_tpm_rev Cl:NCC-IT-A3- teratocarcinoma cell line:NCC-IT-A3_CNhs11878_10790-110H7_reverse Regulation 
TeratocarcinomaCellLineNCCITA3_CNhs11878_tpm_fwd Cl:NCC-IT-A3+ teratocarcinoma cell line:NCC-IT-A3_CNhs11878_10790-110H7_forward Regulation 
NeuroblastomaCellLineNBsusSR_CNhs11818_tpm_rev Cl:NBsusSR- neuroblastoma cell line:NBsusSR_CNhs11818_10607-108F4_reverse Regulation 
NeuroblastomaCellLineNBsusSR_CNhs11818_tpm_fwd Cl:NBsusSR+ neuroblastoma cell line:NBsusSR_CNhs11818_10607-108F4_forward Regulation 
NeuroblastomaCellLineNB1_CNhs11284_tpm_rev Cl:NB-1- neuroblastoma cell line:NB-1_CNhs11284_10539-107G8_reverse Regulation 
NeuroblastomaCellLineNB1_CNhs11284_tpm_fwd Cl:NB-1+ neuroblastoma cell line:NB-1_CNhs11284_10539-107G8_forward Regulation 
AcuteLymphoblasticLeukemiaBALLCellLineNALM6_CNhs11282_tpm_rev Cl:NALM-6- acute lymphoblastic leukemia (B-ALL) cell line:NALM-6_CNhs11282_10534-107G3_reverse Regulation 
AcuteLymphoblasticLeukemiaBALLCellLineNALM6_CNhs11282_tpm_fwd Cl:NALM-6+ acute lymphoblastic leukemia (B-ALL) cell line:NALM-6_CNhs11282_10534-107G3_forward Regulation 
BiphenotypicBMyelomonocyticLeukemiaCellLineMV411_CNhs11845_tpm_rev Cl:MV-4-11- biphenotypic B myelomonocytic leukemia cell line:MV-4-11_CNhs11845_10718-109I7_reverse Regulation 
BiphenotypicBMyelomonocyticLeukemiaCellLineMV411_CNhs11845_tpm_fwd Cl:MV-4-11+ biphenotypic B myelomonocytic leukemia cell line:MV-4-11_CNhs11845_10718-109I7_forward Regulation 
MerkelCellCarcinomaCellLineMS1_CNhs12839_tpm_rev Cl:MS-1- merkel cell carcinoma cell line:MS-1_CNhs12839_10844-111E7_reverse Regulation 
MerkelCellCarcinomaCellLineMS1_CNhs12839_tpm_fwd Cl:MS-1+ merkel cell carcinoma cell line:MS-1_CNhs12839_10844-111E7_forward Regulation 
HairyCellLeukemiaCellLineMo_CNhs11843_tpm_rev Cl:Mo- hairy cell leukemia cell line:Mo_CNhs11843_10712-109I1_reverse Regulation 
HairyCellLeukemiaCellLineMo_CNhs11843_tpm_fwd Cl:Mo+ hairy cell leukemia cell line:Mo_CNhs11843_10712-109I1_forward Regulation 
LymphomaMalignantHairyBcellCellLineMLMA_CNhs11935_tpm_rev Cl:MLMA- lymphoma, malignant, hairy B-cell cell line:MLMA_CNhs11935_10775-110G1_reverse Regulation 
LymphomaMalignantHairyBcellCellLineMLMA_CNhs11935_tpm_fwd Cl:MLMA+ lymphoma, malignant, hairy B-cell cell line:MLMA_CNhs11935_10775-110G1_forward Regulation 
AcuteMyeloidLeukemiaFABM7CellLineMKPL1_CNhs11888_tpm_rev Cl:MKPL-1- acute myeloid leukemia (FAB M7) cell line:MKPL-1_CNhs11888_10802-111A1_reverse Regulation 
AcuteMyeloidLeukemiaFABM7CellLineMKPL1_CNhs11888_tpm_fwd Cl:MKPL-1+ acute myeloid leukemia (FAB M7) cell line:MKPL-1_CNhs11888_10802-111A1_forward Regulation 
GastricAdenocarcinomaCellLineMKN45_CNhs11819_tpm_rev Cl:MKN45- gastric adenocarcinoma cell line:MKN45_CNhs11819_10612-108F9_reverse Regulation 
GastricAdenocarcinomaCellLineMKN45_CNhs11819_tpm_fwd Cl:MKN45+ gastric adenocarcinoma cell line:MKN45_CNhs11819_10612-108F9_forward Regulation 
GastricAdenocarcinomaCellLineMKN1_CNhs11737_tpm_rev Cl:MKN1- gastric adenocarcinoma cell line:MKN1_CNhs11737_10614-108G2_reverse Regulation 
GastricAdenocarcinomaCellLineMKN1_CNhs11737_tpm_fwd Cl:MKN1+ gastric adenocarcinoma cell line:MKN1_CNhs11737_10614-108G2_forward Regulation 
MerkelCellCarcinomaCellLineMKL1_CNhs12838_tpm_rev Cl:MKL-1- merkel cell carcinoma cell line:MKL-1_CNhs12838_10843-111E6_reverse Regulation 
MerkelCellCarcinomaCellLineMKL1_CNhs12838_tpm_fwd Cl:MKL-1+ merkel cell carcinoma cell line:MKL-1_CNhs12838_10843-111E6_forward Regulation 
DuctalCellCarcinomaCellLineMIAPaca2_CNhs11259_tpm_rev Cl:MIAPaca2- ductal cell carcinoma cell line:MIA Paca2_CNhs11259_10488-107B2_reverse Regulation 
DuctalCellCarcinomaCellLineMIAPaca2_CNhs11259_tpm_fwd Cl:MIAPaca2+ ductal cell carcinoma cell line:MIA Paca2_CNhs11259_10488-107B2_forward Regulation 
MyxofibrosarcomaCellLineMFHino_CNhs11729_tpm_rev Cl:MFH-ino- myxofibrosarcoma cell line:MFH-ino_CNhs11729_10600-108E6_reverse Regulation 
MyxofibrosarcomaCellLineMFHino_CNhs11729_tpm_fwd Cl:MFH-ino+ myxofibrosarcoma cell line:MFH-ino_CNhs11729_10600-108E6_forward Regulation 
MesotheliomaCellLineMero95_CNhs13073_tpm_rev Cl:Mero-95- mesothelioma cell line:Mero-95_CNhs13073_10856-111G1_reverse Regulation 
MesotheliomaCellLineMero95_CNhs13073_tpm_fwd Cl:Mero-95+ mesothelioma cell line:Mero-95_CNhs13073_10856-111G1_forward Regulation 
MesotheliomaCellLineMero84_CNhs13072_tpm_rev Cl:Mero-84- mesothelioma cell line:Mero-84_CNhs13072_10855-111F9_reverse Regulation 
MesotheliomaCellLineMero84_CNhs13072_tpm_fwd Cl:Mero-84+ mesothelioma cell line:Mero-84_CNhs13072_10855-111F9_forward Regulation 
MesotheliomaCellLineMero83_CNhs13070_tpm_rev Cl:Mero-83- mesothelioma cell line:Mero-83_CNhs13070_10854-111F8_reverse Regulation 
MesotheliomaCellLineMero83_CNhs13070_tpm_fwd Cl:Mero-83+ mesothelioma cell line:Mero-83_CNhs13070_10854-111F8_forward Regulation 
MesotheliomaCellLineMero82_CNhs13069_tpm_rev Cl:Mero-82- mesothelioma cell line:Mero-82_CNhs13069_10853-111F7_reverse Regulation 
MesotheliomaCellLineMero82_CNhs13069_tpm_fwd Cl:Mero-82+ mesothelioma cell line:Mero-82_CNhs13069_10853-111F7_forward Regulation 
MesotheliomaCellLineMero48a_CNhs13068_tpm_rev Cl:Mero-48a- mesothelioma cell line:Mero-48a_CNhs13068_10852-111F6_reverse Regulation 
MesotheliomaCellLineMero48a_CNhs13068_tpm_fwd Cl:Mero-48a+ mesothelioma cell line:Mero-48a_CNhs13068_10852-111F6_forward Regulation 
MesotheliomaCellLineMero41_CNhs13067_tpm_rev Cl:Mero-41- mesothelioma cell line:Mero-41_CNhs13067_10851-111F5_reverse Regulation 
MesotheliomaCellLineMero41_CNhs13067_tpm_fwd Cl:Mero-41+ mesothelioma cell line:Mero-41_CNhs13067_10851-111F5_forward Regulation 
MesotheliomaCellLineMero25_CNhs13066_tpm_rev Cl:Mero-25- mesothelioma cell line:Mero-25_CNhs13066_10850-111F4_reverse Regulation 
MesotheliomaCellLineMero25_CNhs13066_tpm_fwd Cl:Mero-25+ mesothelioma cell line:Mero-25_CNhs13066_10850-111F4_forward Regulation 
MesotheliomaCellLineMero14TechRep1_CNhs13065_tpm_rev Cl:Mero-14Tr1- mesothelioma cell line:Mero-14, tech_rep1_CNhs13065_10849-111F3_reverse Regulation 
MesotheliomaCellLineMero14TechRep1_CNhs13065_tpm_fwd Cl:Mero-14Tr1+ mesothelioma cell line:Mero-14, tech_rep1_CNhs13065_10849-111F3_forward Regulation 
ChronicMyelogenousLeukemiaCMLCellLineMEGA2_CNhs11865_tpm_rev Cl:MEG-A2- chronic myelogenous leukemia (CML) cell line:MEG-A2_CNhs11865_10766-110F1_reverse Regulation 
ChronicMyelogenousLeukemiaCMLCellLineMEGA2_CNhs11865_tpm_fwd Cl:MEG-A2+ chronic myelogenous leukemia (CML) cell line:MEG-A2_CNhs11865_10766-110F1_forward Regulation 
LeukemiaChronicMegakaryoblasticCellLineMEG01_CNhs11859_tpm_rev Cl:MEG-01- leukemia, chronic megakaryoblastic cell line:MEG-01_CNhs11859_10752-110D5_reverse Regulation 
LeukemiaChronicMegakaryoblasticCellLineMEG01_CNhs11859_tpm_fwd Cl:MEG-01+ leukemia, chronic megakaryoblastic cell line:MEG-01_CNhs11859_10752-110D5_forward Regulation 
CervicalCancerCellLineME180_CNhs11289_tpm_rev Cl:ME-180- cervical cancer cell line:ME-180_CNhs11289_10553-107I4_reverse Regulation 
CervicalCancerCellLineME180_CNhs11289_tpm_fwd Cl:ME-180+ cervical cancer cell line:ME-180_CNhs11289_10553-107I4_forward Regulation 
BreastCarcinomaCellLineMDAMB453_CNhs10736_tpm_rev Cl:MDA-MB-453- breast carcinoma cell line:MDA-MB-453_CNhs10736_10419-106C5_reverse Regulation 
BreastCarcinomaCellLineMDAMB453_CNhs10736_tpm_fwd Cl:MDA-MB-453+ breast carcinoma cell line:MDA-MB-453_CNhs10736_10419-106C5_forward Regulation 
BreastCarcinomaCellLineMCF7_CNhs11943_tpm_rev Cl:MCF7- breast carcinoma cell line:MCF7_CNhs11943_10482-107A5_reverse Regulation 
BreastCarcinomaCellLineMCF7_CNhs11943_tpm_fwd Cl:MCF7+ breast carcinoma cell line:MCF7_CNhs11943_10482-107A5_forward Regulation 
MucinousCystadenocarcinomaCellLineMCAS_CNhs11873_tpm_rev Cl:MCAS- mucinous cystadenocarcinoma cell line:MCAS_CNhs11873_10784-110H1_reverse Regulation 
MucinousCystadenocarcinomaCellLineMCAS_CNhs11873_tpm_fwd Cl:MCAS+ mucinous cystadenocarcinoma cell line:MCAS_CNhs11873_10784-110H1_forward Regulation 
AcuteMyeloidLeukemiaFABM7CellLineMMOK_CNhs13049_tpm_rev Cl:M-MOK- acute myeloid leukemia (FAB M7) cell line:M-MOK_CNhs13049_10699-109G6_reverse Regulation 
AcuteMyeloidLeukemiaFABM7CellLineMMOK_CNhs13049_tpm_fwd Cl:M-MOK+ acute myeloid leukemia (FAB M7) cell line:M-MOK_CNhs13049_10699-109G6_forward Regulation 
GiantCellCarcinomaCellLineLu99B_CNhs10751_tpm_rev Cl:Lu99B- giant cell carcinoma cell line:Lu99B_CNhs10751_10433-106E1_reverse Regulation 
GiantCellCarcinomaCellLineLu99B_CNhs10751_tpm_fwd Cl:Lu99B+ giant cell carcinoma cell line:Lu99B_CNhs10751_10433-106E1_forward Regulation 
GiantCellCarcinomaCellLineLU65_CNhs11274_tpm_rev Cl:LU65- giant cell carcinoma cell line:LU65_CNhs11274_10487-107B1_reverse Regulation 
GiantCellCarcinomaCellLineLU65_CNhs11274_tpm_fwd Cl:LU65+ giant cell carcinoma cell line:LU65_CNhs11274_10487-107B1_forward Regulation 
SmallCellLungCarcinomaCellLineLK2_CNhs11285_tpm_rev Cl:LK-2- small cell lung carcinoma cell line:LK-2_CNhs11285_10541-107H1_reverse Regulation 
SmallCellLungCarcinomaCellLineLK2_CNhs11285_tpm_fwd Cl:LK-2+ small cell lung carcinoma cell line:LK-2_CNhs11285_10541-107H1_forward Regulation 
HepaticMesenchymalTumorCellLineLI90_CNhs11868_tpm_rev Cl:LI90- hepatic mesenchymal tumor cell line:LI90_CNhs11868_10778-110G4_reverse Regulation 
HepaticMesenchymalTumorCellLineLI90_CNhs11868_tpm_fwd Cl:LI90+ hepatic mesenchymal tumor cell line:LI90_CNhs11868_10778-110G4_forward Regulation 
HepatomaCellLineLi7_CNhs11271_tpm_rev Cl:Li-7- hepatoma cell line:Li-7_CNhs11271_10484-107A7_reverse Regulation 
HepatomaCellLineLi7_CNhs11271_tpm_fwd Cl:Li-7+ hepatoma cell line:Li-7_CNhs11271_10484-107A7_forward Regulation 
SquamousCellLungCarcinomaCellLineLC1F_CNhs14238_tpm_rev Cl:LC-1F- squamous cell lung carcinoma cell line:LC-1F_CNhs14238_10457-106G7_reverse Regulation 
SquamousCellLungCarcinomaCellLineLC1F_CNhs14238_tpm_fwd Cl:LC-1F+ squamous cell lung carcinoma cell line:LC-1F_CNhs14238_10457-106G7_forward Regulation 
RhabdomyosarcomaCellLineKYM1_CNhs11877_tpm_rev Cl:KYM-1- rhabdomyosarcoma cell line:KYM-1_CNhs11877_10787-110H4_reverse Regulation 
RhabdomyosarcomaCellLineKYM1_CNhs11877_tpm_fwd Cl:KYM-1+ rhabdomyosarcoma cell line:KYM-1_CNhs11877_10787-110H4_forward Regulation 
ChronicMyelogenousLeukemiaCellLineKU812_CNhs10727_tpm_rev Cl:KU812- chronic myelogenous leukemia cell line:KU812_CNhs10727_10409-106B4_reverse Regulation 
ChronicMyelogenousLeukemiaCellLineKU812_CNhs10727_tpm_fwd Cl:KU812+ chronic myelogenous leukemia cell line:KU812_CNhs10727_10409-106B4_forward Regulation 
PeripheralNeuroectodermalTumorCellLineKUSN_CNhs11830_tpm_rev Cl:KU-SN- peripheral neuroectodermal tumor cell line:KU-SN_CNhs11830_10697-109G4_reverse Regulation 
PeripheralNeuroectodermalTumorCellLineKUSN_CNhs11830_tpm_fwd Cl:KU-SN+ peripheral neuroectodermal tumor cell line:KU-SN_CNhs11830_10697-109G4_forward Regulation 
BronchialSquamousCellCarcinomaCellLineKNS62_CNhs11862_tpm_rev Cl:KNS-62- bronchial squamous cell carcinoma cell line:KNS-62_CNhs11862_10760-110E4_reverse Regulation 
BronchialSquamousCellCarcinomaCellLineKNS62_CNhs11862_tpm_fwd Cl:KNS-62+ bronchial squamous cell carcinoma cell line:KNS-62_CNhs11862_10760-110E4_forward Regulation 
LiposarcomaCellLineKMLS1_CNhs11870_tpm_rev Cl:KMLS-1- liposarcoma cell line:KMLS-1_CNhs11870_10782-110G8_reverse Regulation 
LiposarcomaCellLineKMLS1_CNhs11870_tpm_fwd Cl:KMLS-1+ liposarcoma cell line:KMLS-1_CNhs11870_10782-110G8_forward Regulation 
DuctalCellCarcinomaCellLineKLM1_CNhs11100_tpm_rev Cl:KLM-1- ductal cell carcinoma cell line:KLM-1_CNhs11100_10438-106E6_reverse Regulation 
DuctalCellCarcinomaCellLineKLM1_CNhs11100_tpm_fwd Cl:KLM-1+ ductal cell carcinoma cell line:KLM-1_CNhs11100_10438-106E6_forward Regulation 
AnaplasticLargeCellLymphomaCellLineKiJK_CNhs11881_tpm_rev Cl:Ki-JK- anaplastic large cell lymphoma cell line:Ki-JK_CNhs11881_10795-110I3_reverse Regulation 
AnaplasticLargeCellLymphomaCellLineKiJK_CNhs11881_tpm_fwd Cl:Ki-JK+ anaplastic large cell lymphoma cell line:Ki-JK_CNhs11881_10795-110I3_forward Regulation 
NKTCellLeukemiaCellLineKHYG1_CNhs11867_tpm_rev Cl:KHYG-1- NK T cell leukemia cell line:KHYG-1_CNhs11867_10777-110G3_reverse Regulation 
NKTCellLeukemiaCellLineKHYG1_CNhs11867_tpm_fwd Cl:KHYG-1+ NK T cell leukemia cell line:KHYG-1_CNhs11867_10777-110G3_forward Regulation 
ThyroidCarcinomaCellLineKHM5M_CNhs14140_tpm_rev Cl:KHM-5M- thyroid carcinoma cell line:KHM-5M_CNhs14140_10776-110G2_reverse Regulation 
ThyroidCarcinomaCellLineKHM5M_CNhs14140_tpm_fwd Cl:KHM-5M+ thyroid carcinoma cell line:KHM-5M_CNhs14140_10776-110G2_forward Regulation 
GranulosaCellTumorCellLineKGN_CNhs11740_tpm_rev Cl:KGN- granulosa cell tumor cell line:KGN_CNhs11740_10624-108H3_reverse Regulation 
GranulosaCellTumorCellLineKGN_CNhs11740_tpm_fwd Cl:KGN+ granulosa cell tumor cell line:KGN_CNhs11740_10624-108H3_forward Regulation 
AcuteMyeloidLeukemiaFABM0CellLineKG1_CNhs13053_tpm_rev Cl:KG-1- acute myeloid leukemia (FAB M0) cell line:KG-1_CNhs13053_10827-111C8_reverse Regulation 
AcuteMyeloidLeukemiaFABM0CellLineKG1_CNhs13053_tpm_fwd Cl:KG-1+ acute myeloid leukemia (FAB M0) cell line:KG-1_CNhs13053_10827-111C8_forward Regulation 
ChronicMyeloblasticLeukemiaCMLCellLineKCL22_CNhs11886_tpm_rev Cl:KCL-22- chronic myeloblastic leukemia (CML) cell line:KCL-22_CNhs11886_10801-110I9_reverse Regulation 
ChronicMyeloblasticLeukemiaCMLCellLineKCL22_CNhs11886_tpm_fwd Cl:KCL-22+ chronic myeloblastic leukemia (CML) cell line:KCL-22_CNhs11886_10801-110I9_forward Regulation 
SignetRingCarcinomaCellLineKatoIII_CNhs10753_tpm_rev Cl:KatoIII- signet ring carcinoma cell line:Kato III_CNhs10753_10436-106E4_reverse Regulation 
SignetRingCarcinomaCellLineKatoIII_CNhs10753_tpm_fwd Cl:KatoIII+ signet ring carcinoma cell line:Kato III_CNhs10753_10436-106E4_forward Regulation 
AcuteMyeloidLeukemiaFABM2CellLineKasumi6_CNhs13052_tpm_rev Cl:Kasumi-6- acute myeloid leukemia (FAB M2) cell line:Kasumi-6_CNhs13052_10792-110H9_reverse Regulation 
AcuteMyeloidLeukemiaFABM2CellLineKasumi6_CNhs13052_tpm_fwd Cl:Kasumi-6+ acute myeloid leukemia (FAB M2) cell line:Kasumi-6_CNhs13052_10792-110H9_forward Regulation 
AcuteMyeloidLeukemiaFABM2CellLineKasumi1_CNhs13502_tpm_rev Cl:Kasumi-1- acute myeloid leukemia (FAB M2) cell line:Kasumi-1_CNhs13502_10788-110H5_reverse Regulation 
AcuteMyeloidLeukemiaFABM2CellLineKasumi1_CNhs13502_tpm_fwd Cl:Kasumi-1+ acute myeloid leukemia (FAB M2) cell line:Kasumi-1_CNhs13502_10788-110H5_forward Regulation 
ChronicMyelogenousLeukemiaCellLineK562ENCODEBiolRep3_CNhs12336_tpm_rev Cl:K562Br3- chronic myelogenous leukemia cell line:K562 ENCODE, biol_rep3_CNhs12336_10826-111C7_reverse Regulation 
ChronicMyelogenousLeukemiaCellLineK562ENCODEBiolRep3_CNhs12336_tpm_fwd Cl:K562Br3+ chronic myelogenous leukemia cell line:K562 ENCODE, biol_rep3_CNhs12336_10826-111C7_forward Regulation 
ChronicMyelogenousLeukemiaCellLineK562ENCODEBiolRep2_CNhs12335_tpm_rev Cl:K562Br2- chronic myelogenous leukemia cell line:K562 ENCODE, biol_rep2_CNhs12335_10825-111C6_reverse Regulation 
ChronicMyelogenousLeukemiaCellLineK562ENCODEBiolRep2_CNhs12335_tpm_fwd Cl:K562Br2+ chronic myelogenous leukemia cell line:K562 ENCODE, biol_rep2_CNhs12335_10825-111C6_forward Regulation 
ChronicMyelogenousLeukemiaCellLineK562ENCODEBiolRep1_CNhs12334_tpm_rev Cl:K562Br1- chronic myelogenous leukemia cell line:K562 ENCODE, biol_rep1_CNhs12334_10824-111C5_reverse Regulation 
ChronicMyelogenousLeukemiaCellLineK562ENCODEBiolRep1_CNhs12334_tpm_fwd Cl:K562Br1+ chronic myelogenous leukemia cell line:K562 ENCODE, biol_rep1_CNhs12334_10824-111C5_forward Regulation 
ChronicMyelogenousLeukemiaCellLineK562_CNhs11250_tpm_rev Cl:K562- chronic myelogenous leukemia cell line:K562_CNhs11250_10454-106G4_reverse Regulation 
ChronicMyelogenousLeukemiaCellLineK562_CNhs11250_tpm_fwd Cl:K562+ chronic myelogenous leukemia cell line:K562_CNhs11250_10454-106G4_forward Regulation 
AcuteLymphoblasticLeukemiaTALLCellLineJurkat_CNhs11253_tpm_rev Cl:Jurkat- acute lymphoblastic leukemia (T-ALL) cell line:Jurkat_CNhs11253_10464-106H5_reverse Regulation 
AcuteLymphoblasticLeukemiaTALLCellLineJurkat_CNhs11253_tpm_fwd Cl:Jurkat+ acute lymphoblastic leukemia (T-ALL) cell line:Jurkat_CNhs11253_10464-106H5_forward Regulation 
TransitionalcellCarcinomaCellLineJMSU1_CNhs11261_tpm_rev Cl:JMSU1- transitional-cell carcinoma cell line:JMSU1_CNhs11261_10492-107B6_reverse Regulation 
TransitionalcellCarcinomaCellLineJMSU1_CNhs11261_tpm_fwd Cl:JMSU1+ transitional-cell carcinoma cell line:JMSU1_CNhs11261_10492-107B6_forward Regulation 
SquamousCellCarcinomaCellLineJHUSnk1_CNhs11749_tpm_rev Cl:JHUS-nk1- squamous cell carcinoma cell line:JHUS-nk1_CNhs11749_10646-109A7_reverse Regulation 
SquamousCellCarcinomaCellLineJHUSnk1_CNhs11749_tpm_fwd Cl:JHUS-nk1+ squamous cell carcinoma cell line:JHUS-nk1_CNhs11749_10646-109A7_forward Regulation 
EndometrioidAdenocarcinomaCellLineJHUEM1_CNhs11748_tpm_rev Cl:JHUEM-1- endometrioid adenocarcinoma cell line:JHUEM-1_CNhs11748_10643-109A4_reverse Regulation 
EndometrioidAdenocarcinomaCellLineJHUEM1_CNhs11748_tpm_fwd Cl:JHUEM-1+ endometrioid adenocarcinoma cell line:JHUEM-1_CNhs11748_10643-109A4_forward Regulation 
CarcinosarcomaCellLineJHUCS1_CNhs11747_tpm_rev Cl:JHUCS-1- carcinosarcoma cell line:JHUCS-1_CNhs11747_10642-109A3_reverse Regulation 
CarcinosarcomaCellLineJHUCS1_CNhs11747_tpm_fwd Cl:JHUCS-1+ carcinosarcoma cell line:JHUCS-1_CNhs11747_10642-109A3_forward Regulation 
SerousAdenocarcinomaCellLineJHOS2_CNhs11746_tpm_rev Cl:JHOS-2- serous adenocarcinoma cell line:JHOS-2_CNhs11746_10639-108I9_reverse Regulation 
SerousAdenocarcinomaCellLineJHOS2_CNhs11746_tpm_fwd Cl:JHOS-2+ serous adenocarcinoma cell line:JHOS-2_CNhs11746_10639-108I9_forward Regulation 
MucinousAdenocarcinomaCellLineJHOM1_CNhs11752_tpm_rev Cl:JHOM-1- mucinous adenocarcinoma cell line:JHOM-1_CNhs11752_10648-109A9_reverse Regulation 
MucinousAdenocarcinomaCellLineJHOM1_CNhs11752_tpm_fwd Cl:JHOM-1+ mucinous adenocarcinoma cell line:JHOM-1_CNhs11752_10648-109A9_forward Regulation 
ClearCellCarcinomaCellLineJHOC5_CNhs11745_tpm_rev Cl:JHOC-5- clear cell carcinoma cell line:JHOC-5_CNhs11745_10638-108I8_reverse Regulation 
ClearCellCarcinomaCellLineJHOC5_CNhs11745_tpm_fwd Cl:JHOC-5+ clear cell carcinoma cell line:JHOC-5_CNhs11745_10638-108I8_forward Regulation 
TesticularGermCellEmbryonalCarcinomaCellLineITOII_CNhs11876_tpm_rev Cl:ITO-II- testicular germ cell embryonal carcinoma cell line:ITO-II_CNhs11876_10786-110H3_reverse Regulation 
TesticularGermCellEmbryonalCarcinomaCellLineITOII_CNhs11876_tpm_fwd Cl:ITO-II+ testicular germ cell embryonal carcinoma cell line:ITO-II_CNhs11876_10786-110H3_forward Regulation 
AdenocarcinomaCellLineIM95m_CNhs11882_tpm_rev Cl:IM95m- adenocarcinoma cell line:IM95m_CNhs11882_10796-110I4_reverse Regulation 
AdenocarcinomaCellLineIM95m_CNhs11882_tpm_fwd Cl:IM95m+ adenocarcinoma cell line:IM95m_CNhs11882_10796-110I4_forward Regulation 
LargeCellLungCarcinomaCellLineIALM_CNhs11277_tpm_rev Cl:IA-LM- large cell lung carcinoma cell line:IA-LM_CNhs11277_10509-107D5_reverse Regulation 
LargeCellLungCarcinomaCellLineIALM_CNhs11277_tpm_fwd Cl:IA-LM+ large cell lung carcinoma cell line:IA-LM_CNhs11277_10509-107D5_forward Regulation 
AcuteMyeloidLeukemiaFABM1CellLineHYT1_CNhs13054_tpm_rev Cl:HYT-1- acute myeloid leukemia (FAB M1) cell line:HYT-1_CNhs13054_10828-111C9_reverse Regulation 
AcuteMyeloidLeukemiaFABM1CellLineHYT1_CNhs13054_tpm_fwd Cl:HYT-1+ acute myeloid leukemia (FAB M1) cell line:HYT-1_CNhs13054_10828-111C9_forward Regulation 
MycosisFungoidesTCellLymphomaCellLineHuT102TIB162_CNhs11858_tpm_rev Cl:HuT102TIB-162- mycosis fungoides, T cell lymphoma cell line:HuT 102 TIB-162_CNhs11858_10744-110C6_reverse Regulation 
MycosisFungoidesTCellLymphomaCellLineHuT102TIB162_CNhs11858_tpm_fwd Cl:HuT102TIB-162+ mycosis fungoides, T cell lymphoma cell line:HuT 102 TIB-162_CNhs11858_10744-110C6_forward Regulation 
HepatoblastomaCellLineHuH6_CNhs11742_tpm_rev Cl:HuH-6- hepatoblastoma cell line:HuH-6_CNhs11742_10633-108I3_reverse Regulation 
HepatoblastomaCellLineHuH6_CNhs11742_tpm_fwd Cl:HuH-6+ hepatoblastoma cell line:HuH-6_CNhs11742_10633-108I3_forward Regulation 
CholangiocellularCarcinomaCellLineHuH28_CNhs11283_tpm_rev Cl:HuH-28- cholangiocellular carcinoma cell line:HuH-28_CNhs11283_10536-107G5_reverse Regulation 
CholangiocellularCarcinomaCellLineHuH28_CNhs11283_tpm_fwd Cl:HuH-28+ cholangiocellular carcinoma cell line:HuH-28_CNhs11283_10536-107G5_forward Regulation 
BileDuctCarcinomaCellLineHuCCT1_CNhs10750_tpm_rev Cl:HuCCT1- bile duct carcinoma cell line:HuCCT1_CNhs10750_10432-106D9_reverse Regulation 
BileDuctCarcinomaCellLineHuCCT1_CNhs10750_tpm_fwd Cl:HuCCT1+ bile duct carcinoma cell line:HuCCT1_CNhs10750_10432-106D9_forward Regulation 
MesenchymalStemCellLineHu5E18_CNhs11718_tpm_rev Cl:Hu5/E18- mesenchymal stem cell line:Hu5/E18_CNhs11718_10568-108B1_reverse Regulation 
MesenchymalStemCellLineHu5E18_CNhs11718_tpm_fwd Cl:Hu5/E18+ mesenchymal stem cell line:Hu5/E18_CNhs11718_10568-108B1_forward Regulation 
SacrococcigealTeratomaCellLineHTST_CNhs11829_tpm_rev Cl:HTST- sacrococcigeal teratoma cell line:HTST_CNhs11829_10695-109G2_reverse Regulation 
SacrococcigealTeratomaCellLineHTST_CNhs11829_tpm_fwd Cl:HTST+ sacrococcigeal teratoma cell line:HTST_CNhs11829_10695-109G2_forward Regulation 
SerousCystadenocarcinomaCellLineHTOA_CNhs11827_tpm_rev Cl:HTOA- serous cystadenocarcinoma cell line:HTOA_CNhs11827_10693-109F9_reverse Regulation 
SerousCystadenocarcinomaCellLineHTOA_CNhs11827_tpm_fwd Cl:HTOA+ serous cystadenocarcinoma cell line:HTOA_CNhs11827_10693-109F9_forward Regulation 
MixedMullerianTumorCellLineHTMMT_CNhs11944_tpm_rev Cl:HTMMT- mixed mullerian tumor cell line:HTMMT_CNhs11944_10689-109F5_reverse Regulation 
MixedMullerianTumorCellLineHTMMT_CNhs11944_tpm_fwd Cl:HTMMT+ mixed mullerian tumor cell line:HTMMT_CNhs11944_10689-109F5_forward Regulation 
FibrosarcomaCellLineHT1080_CNhs11860_tpm_rev Cl:HT-1080- fibrosarcoma cell line:HT-1080_CNhs11860_10758-110E2_reverse Regulation 
FibrosarcomaCellLineHT1080_CNhs11860_tpm_fwd Cl:HT-1080+ fibrosarcoma cell line:HT-1080_CNhs11860_10758-110E2_forward Regulation 
MaxillarySinusTumorCellLineHSQ89_CNhs10732_tpm_rev Cl:HSQ-89- maxillary sinus tumor cell line:HSQ-89_CNhs10732_10414-106B9_reverse Regulation 
MaxillarySinusTumorCellLineHSQ89_CNhs10732_tpm_fwd Cl:HSQ-89+ maxillary sinus tumor cell line:HSQ-89_CNhs10732_10414-106B9_forward Regulation 
KrukenbergTumorCellLineHSKTC_CNhs11822_tpm_rev Cl:HSKTC- Krukenberg tumor cell line:HSKTC_CNhs11822_10687-109F3_reverse Regulation 
KrukenbergTumorCellLineHSKTC_CNhs11822_tpm_fwd Cl:HSKTC+ Krukenberg tumor cell line:HSKTC_CNhs11822_10687-109F3_forward Regulation 
OralSquamousCellCarcinomaCellLineHSC3_CNhs11717_tpm_rev Cl:HSC-3- oral squamous cell carcinoma cell line:HSC-3_CNhs11717_10545-107H5_reverse Regulation 
OralSquamousCellCarcinomaCellLineHSC3_CNhs11717_tpm_fwd Cl:HSC-3+ oral squamous cell carcinoma cell line:HSC-3_CNhs11717_10545-107H5_forward Regulation 
PagetoidSarcomaCellLineHs925_T_CNhs11856_tpm_rev Cl:Hs925_T- pagetoid sarcoma cell line:Hs 925_T_CNhs11856_10732-110B3_reverse Regulation 
PagetoidSarcomaCellLineHs925_T_CNhs11856_tpm_fwd Cl:Hs925_T+ pagetoid sarcoma cell line:Hs 925_T_CNhs11856_10732-110B3_forward Regulation 
EwingsSarcomaCellLineHs863_T_CNhs11836_tpm_rev Cl:Hs863_T- Ewing's sarcoma cell line:Hs 863_T_CNhs11836_10705-109H3_reverse Regulation 
EwingsSarcomaCellLineHs863_T_CNhs11836_tpm_fwd Cl:Hs863_T+ Ewing's sarcoma cell line:Hs 863_T_CNhs11836_10705-109H3_forward Regulation 
TransitionalCellCarcinomaCellLineHs769_T_CNhs11837_tpm_rev Cl:Hs769_T- transitional cell carcinoma cell line:Hs 769_T_CNhs11837_10707-109H5_reverse Regulation 
TransitionalCellCarcinomaCellLineHs769_T_CNhs11837_tpm_fwd Cl:Hs769_T+ transitional cell carcinoma cell line:Hs 769_T_CNhs11837_10707-109H5_forward Regulation 
OsteoclastomaCellLineHs706_T_CNhs11835_tpm_rev Cl:Hs706_T- osteoclastoma cell line:Hs 706_T_CNhs11835_10704-109H2_reverse Regulation 
OsteoclastomaCellLineHs706_T_CNhs11835_tpm_fwd Cl:Hs706_T+ osteoclastoma cell line:Hs 706_T_CNhs11835_10704-109H2_forward Regulation 
NeurofibromaCellLineHs53_T_CNhs11854_tpm_rev Cl:Hs53_T- neurofibroma cell line:Hs 53_T_CNhs11854_10729-110A9_reverse Regulation 
NeurofibromaCellLineHs53_T_CNhs11854_tpm_fwd Cl:Hs53_T+ neurofibroma cell line:Hs 53_T_CNhs11854_10729-110A9_forward Regulation 
SpindleCellSarcomaCellLineHs132_T_CNhs11857_tpm_rev Cl:Hs132_T- spindle cell sarcoma cell line:Hs 132_T_CNhs11857_10737-110B8_reverse Regulation 
SpindleCellSarcomaCellLineHs132_T_CNhs11857_tpm_fwd Cl:Hs132_T+ spindle cell sarcoma cell line:Hs 132_T_CNhs11857_10737-110B8_forward Regulation 
SynovialSarcomaCellLineHSSYII_CNhs11244_tpm_rev Cl:HS-SY-II- synovial sarcoma cell line:HS-SY-II_CNhs11244_10441-106E9_reverse Regulation 
SynovialSarcomaCellLineHSSYII_CNhs11244_tpm_fwd Cl:HS-SY-II+ synovial sarcoma cell line:HS-SY-II_CNhs11244_10441-106E9_forward Regulation 
SchwannomaCellLineHSPSSTechRep2_CNhs11245_tpm_rev Cl:HS-PSSTr2- schwannoma cell line:HS-PSS, tech_rep2_CNhs11245_10442-106F1_reverse Regulation 
SchwannomaCellLineHSPSSTechRep2_CNhs11245_tpm_fwd Cl:HS-PSSTr2+ schwannoma cell line:HS-PSS, tech_rep2_CNhs11245_10442-106F1_forward Regulation 
OsteosarcomaCellLineHSOs1_CNhs11290_tpm_rev Cl:HS-Os-1- osteosarcoma cell line:HS-Os-1_CNhs11290_10558-107I9_reverse Regulation 
OsteosarcomaCellLineHSOs1_CNhs11290_tpm_fwd Cl:HS-Os-1+ osteosarcoma cell line:HS-Os-1_CNhs11290_10558-107I9_forward Regulation 
EpithelioidSarcomaCellLineHSES2R_CNhs14239_tpm_rev Cl:HS-ES-2R- epithelioid sarcoma cell line:HS-ES-2R_CNhs14239_10495-107B9_reverse Regulation 
EpithelioidSarcomaCellLineHSES2R_CNhs14239_tpm_fwd Cl:HS-ES-2R+ epithelioid sarcoma cell line:HS-ES-2R_CNhs14239_10495-107B9_forward Regulation 
EpithelioidSarcomaCellLineHSES1_CNhs11247_tpm_rev Cl:HS-ES-1- epithelioid sarcoma cell line:HS-ES-1_CNhs11247_10443-106F2_reverse Regulation 
EpithelioidSarcomaCellLineHSES1_CNhs11247_tpm_fwd Cl:HS-ES-1+ epithelioid sarcoma cell line:HS-ES-1_CNhs11247_10443-106F2_forward Regulation 
AcuteLymphoblasticLeukemiaTALLCellLineHPBALL_CNhs10746_tpm_rev Cl:HPB-ALL- acute lymphoblastic leukemia (T-ALL) cell line:HPB-ALL_CNhs10746_10429-106D6_reverse Regulation 
AcuteLymphoblasticLeukemiaTALLCellLineHPBALL_CNhs10746_tpm_fwd Cl:HPB-ALL+ acute lymphoblastic leukemia (T-ALL) cell line:HPB-ALL_CNhs10746_10429-106D6_forward Regulation 
GlassyCellCarcinomaCellLineHOKUG_CNhs11824_tpm_rev Cl:HOKUG- glassy cell carcinoma cell line:HOKUG_CNhs11824_10688-109F4_reverse Regulation 
GlassyCellCarcinomaCellLineHOKUG_CNhs11824_tpm_fwd Cl:HOKUG+ glassy cell carcinoma cell line:HOKUG_CNhs11824_10688-109F4_forward Regulation 
OralSquamousCellCarcinomaCellLineHO1u1_CNhs11287_tpm_rev Cl:HO-1-u-1- oral squamous cell carcinoma cell line:HO-1-u-1_CNhs11287_10550-107I1_reverse Regulation 
OralSquamousCellCarcinomaCellLineHO1u1_CNhs11287_tpm_fwd Cl:HO-1-u-1+ oral squamous cell carcinoma cell line:HO-1-u-1_CNhs11287_10550-107I1_forward Regulation 
AcuteMyeloidLeukemiaFABM4CellLineHNT34_CNhs13504_tpm_rev Cl:HNT-34- acute myeloid leukemia (FAB M4) cell line:HNT-34_CNhs13504_10831-111D3_reverse Regulation 
AcuteMyeloidLeukemiaFABM4CellLineHNT34_CNhs13504_tpm_fwd Cl:HNT-34+ acute myeloid leukemia (FAB M4) cell line:HNT-34_CNhs13504_10831-111D3_forward Regulation 
AcuteMyeloidLeukemiaFABM3CellLineHL60_CNhs13055_tpm_rev Cl:HL60- acute myeloid leukemia (FAB M3) cell line:HL60_CNhs13055_10829-111D1_reverse Regulation 
AcuteMyeloidLeukemiaFABM3CellLineHL60_CNhs13055_tpm_fwd Cl:HL60+ acute myeloid leukemia (FAB M3) cell line:HL60_CNhs13055_10829-111D1_forward Regulation 
MeningiomaCellLineHKBMM_CNhs11945_tpm_rev Cl:HKBMM- meningioma cell line:HKBMM_CNhs11945_10691-109F7_reverse Regulation 
MeningiomaCellLineHKBMM_CNhs11945_tpm_fwd Cl:HKBMM+ meningioma cell line:HKBMM_CNhs11945_10691-109F7_forward Regulation 
KeratoacanthomaCellLineHKA1_CNhs11880_tpm_rev Cl:HKA-1- keratoacanthoma cell line:HKA-1_CNhs11880_10791-110H8_reverse Regulation 
KeratoacanthomaCellLineHKA1_CNhs11880_tpm_fwd Cl:HKA-1+ keratoacanthoma cell line:HKA-1_CNhs11880_10791-110H8_forward Regulation 
TridermalTeratomaCellLineHGRT_CNhs11828_tpm_rev Cl:HGRT- tridermal teratoma cell line:HGRT_CNhs11828_10694-109G1_reverse Regulation 
TridermalTeratomaCellLineHGRT_CNhs11828_tpm_fwd Cl:HGRT+ tridermal teratoma cell line:HGRT_CNhs11828_10694-109G1_forward Regulation 
WilmsTumorCellLineHFWT_CNhs11728_tpm_rev Cl:HFWT- Wilms' tumor cell line:HFWT_CNhs11728_10597-108E3_reverse Regulation 
WilmsTumorCellLineHFWT_CNhs11728_tpm_fwd Cl:HFWT+ Wilms' tumor cell line:HFWT_CNhs11728_10597-108E3_forward Regulation 
NormalEmbryonicPalatalMesenchymalCellLineHEPM_CNhs11894_tpm_rev Cl:HEPM- normal embryonic palatal mesenchymal cell line:HEPM_CNhs11894_10813-111B3_reverse Regulation 
NormalEmbryonicPalatalMesenchymalCellLineHEPM_CNhs11894_tpm_fwd Cl:HEPM+ normal embryonic palatal mesenchymal cell line:HEPM_CNhs11894_10813-111B3_forward Regulation 
HepatocellularCarcinomaCellLineHepG2ENCODEBiolRep3_CNhs12330_tpm_rev Cl:HepG2Br3- hepatocellular carcinoma cell line: HepG2 ENCODE, biol_rep3_CNhs12330_10820-111C1_reverse Regulation 
HepatocellularCarcinomaCellLineHepG2ENCODEBiolRep3_CNhs12330_tpm_fwd Cl:HepG2Br3+ hepatocellular carcinoma cell line: HepG2 ENCODE, biol_rep3_CNhs12330_10820-111C1_forward Regulation 
HepatocellularCarcinomaCellLineHepG2ENCODEBiolRep2_CNhs12329_tpm_rev Cl:HepG2Br2- hepatocellular carcinoma cell line: HepG2 ENCODE, biol_rep2_CNhs12329_10819-111B9_reverse Regulation 
HepatocellularCarcinomaCellLineHepG2ENCODEBiolRep2_CNhs12329_tpm_fwd Cl:HepG2Br2+ hepatocellular carcinoma cell line: HepG2 ENCODE, biol_rep2_CNhs12329_10819-111B9_forward Regulation 
HepatocellularCarcinomaCellLineHepG2ENCODEBiolRep1_CNhs12328_tpm_rev Cl:HepG2Br1- hepatocellular carcinoma cell line: HepG2 ENCODE, biol_rep1_CNhs12328_10818-111B8_reverse Regulation 
HepatocellularCarcinomaCellLineHepG2ENCODEBiolRep1_CNhs12328_tpm_fwd Cl:HepG2Br1+ hepatocellular carcinoma cell line: HepG2 ENCODE, biol_rep1_CNhs12328_10818-111B8_forward Regulation 
EpitheloidCarcinomaCellLineHelaS3ENCODEBiolRep3_CNhs12327_tpm_rev Cl:HelaS3Br3- epitheloid carcinoma cell line: HelaS3 ENCODE, biol_rep3_CNhs12327_10817-111B7_reverse Regulation 
EpitheloidCarcinomaCellLineHelaS3ENCODEBiolRep3_CNhs12327_tpm_fwd Cl:HelaS3Br3+ epitheloid carcinoma cell line: HelaS3 ENCODE, biol_rep3_CNhs12327_10817-111B7_forward Regulation 
EpitheloidCarcinomaCellLineHelaS3ENCODEBiolRep2_CNhs12326_tpm_rev Cl:HelaS3Br2- epitheloid carcinoma cell line: HelaS3 ENCODE, biol_rep2_CNhs12326_10816-111B6_reverse Regulation 
EpitheloidCarcinomaCellLineHelaS3ENCODEBiolRep2_CNhs12326_tpm_fwd Cl:HelaS3Br2+ epitheloid carcinoma cell line: HelaS3 ENCODE, biol_rep2_CNhs12326_10816-111B6_forward Regulation 
EpitheloidCarcinomaCellLineHelaS3ENCODEBiolRep1_CNhs12325_tpm_rev Cl:HelaS3Br1- epitheloid carcinoma cell line: HelaS3 ENCODE, biol_rep1_CNhs12325_10815-111B5_reverse Regulation 
EpitheloidCarcinomaCellLineHelaS3ENCODEBiolRep1_CNhs12325_tpm_fwd Cl:HelaS3Br1+ epitheloid carcinoma cell line: HelaS3 ENCODE, biol_rep1_CNhs12325_10815-111B5_forward Regulation 
EmbryonicKidneyCellLineHEK293SLAMUntreated_CNhs11046_tpm_rev Cl:HEK293/SLAMuntreated- embryonic kidney cell line: HEK293/SLAM untreated_CNhs11046_10450-106F9_reverse Regulation 
EmbryonicKidneyCellLineHEK293SLAMUntreated_CNhs11046_tpm_fwd Cl:HEK293/SLAMuntreated+ embryonic kidney cell line: HEK293/SLAM untreated_CNhs11046_10450-106F9_forward Regulation 
EmbryonicKidneyCellLineHEK293SLAMInfection24hr_CNhs11047_tpm_rev Cl:HEK293/SLAMinfection,24hr- embryonic kidney cell line: HEK293/SLAM infection, 24hr_CNhs11047_10451-106G1_reverse Regulation 
EmbryonicKidneyCellLineHEK293SLAMInfection24hr_CNhs11047_tpm_fwd Cl:HEK293/SLAMinfection,24hr+ embryonic kidney cell line: HEK293/SLAM infection, 24hr_CNhs11047_10451-106G1_forward Regulation 
HodgkinsLymphomaCellLineHDMar2_CNhs11715_tpm_rev Cl:HD-Mar2- Hodgkin's lymphoma cell line:HD-Mar2_CNhs11715_10435-106E3_reverse Regulation 
HodgkinsLymphomaCellLineHDMar2_CNhs11715_tpm_fwd Cl:HD-Mar2+ Hodgkin's lymphoma cell line:HD-Mar2_CNhs11715_10435-106E3_forward Regulation 
SmallCellCervicalCancerCellLineHCSC1_CNhs11885_tpm_rev Cl:HCSC-1- small cell cervical cancer cell line:HCSC-1_CNhs11885_10800-110I8_reverse Regulation 
SmallCellCervicalCancerCellLineHCSC1_CNhs11885_tpm_fwd Cl:HCSC-1+ small cell cervical cancer cell line:HCSC-1_CNhs11885_10800-110I8_forward Regulation 
AcantholyticSquamousCarcinomaCellLineHCC1806_CNhs11844_tpm_rev Cl:HCC1806- acantholytic squamous carcinoma cell line:HCC1806_CNhs11844_10717-109I6_reverse Regulation 
AcantholyticSquamousCarcinomaCellLineHCC1806_CNhs11844_tpm_fwd Cl:HCC1806+ acantholytic squamous carcinoma cell line:HCC1806_CNhs11844_10717-109I6_forward Regulation 
ExtraskeletalMyxoidChondrosarcomaCellLineHEMCSS_CNhs10728_tpm_rev Cl:H-EMC-SS- extraskeletal myxoid chondrosarcoma cell line:H-EMC-SS_CNhs10728_10410-106B5_reverse Regulation 
ExtraskeletalMyxoidChondrosarcomaCellLineHEMCSS_CNhs10728_tpm_fwd Cl:H-EMC-SS+ extraskeletal myxoid chondrosarcoma cell line:H-EMC-SS_CNhs10728_10410-106B5_forward Regulation 
GastricCancerCellLineGSS_CNhs14241_tpm_rev Cl:GSS- gastric cancer cell line:GSS_CNhs14241_10560-108A2_reverse Regulation 
GastricCancerCellLineGSS_CNhs14241_tpm_fwd Cl:GSS+ gastric cancer cell line:GSS_CNhs14241_10560-108A2_forward Regulation 
BLymphoblastoidCellLineGM12878ENCODEBiolRep3_CNhs12333_tpm_rev Cl:GM12878Br3- B lymphoblastoid cell line: GM12878 ENCODE, biol_rep3_CNhs12333_10823-111C4_reverse Regulation 
BLymphoblastoidCellLineGM12878ENCODEBiolRep3_CNhs12333_tpm_fwd Cl:GM12878Br3+ B lymphoblastoid cell line: GM12878 ENCODE, biol_rep3_CNhs12333_10823-111C4_forward Regulation 
BLymphoblastoidCellLineGM12878ENCODEBiolRep2_CNhs12332_tpm_rev Cl:GM12878Br2- B lymphoblastoid cell line: GM12878 ENCODE, biol_rep2_CNhs12332_10822-111C3_reverse Regulation 
BLymphoblastoidCellLineGM12878ENCODEBiolRep2_CNhs12332_tpm_fwd Cl:GM12878Br2+ B lymphoblastoid cell line: GM12878 ENCODE, biol_rep2_CNhs12332_10822-111C3_forward Regulation 
BLymphoblastoidCellLineGM12878ENCODEBiolRep1_CNhs12331_tpm_rev Cl:GM12878Br1- B lymphoblastoid cell line: GM12878 ENCODE, biol_rep1_CNhs12331_10821-111C2_reverse Regulation 
BLymphoblastoidCellLineGM12878ENCODEBiolRep1_CNhs12331_tpm_fwd Cl:GM12878Br1+ B lymphoblastoid cell line: GM12878 ENCODE, biol_rep1_CNhs12331_10821-111C2_forward Regulation 
GliomaCellLineGI1_CNhs10731_tpm_rev Cl:GI-1- glioma cell line:GI-1_CNhs10731_10413-106B8_reverse Regulation 
GliomaCellLineGI1_CNhs10731_tpm_fwd Cl:GI-1+ glioma cell line:GI-1_CNhs10731_10413-106B8_forward Regulation 
FibrousHistiocytomaCellLineGCTTIB223_CNhs11842_tpm_rev Cl:GCTTIB-223- fibrous histiocytoma cell line:GCT TIB-223_CNhs11842_10711-109H9_reverse Regulation 
FibrousHistiocytomaCellLineGCTTIB223_CNhs11842_tpm_fwd Cl:GCTTIB-223+ fibrous histiocytoma cell line:GCT TIB-223_CNhs11842_10711-109H9_forward Regulation 
LeiomyoblastomaCellLineG402_CNhs11848_tpm_rev Cl:G-402- leiomyoblastoma cell line:G-402_CNhs11848_10721-110A1_reverse Regulation 
LeiomyoblastomaCellLineG402_CNhs11848_tpm_fwd Cl:G-402+ leiomyoblastoma cell line:G-402_CNhs11848_10721-110A1_forward Regulation 
WilmsTumorCellLineG401_CNhs11892_tpm_rev Cl:G-401- Wilms' tumor cell line:G-401_CNhs11892_10809-111A8_reverse Regulation 
WilmsTumorCellLineG401_CNhs11892_tpm_fwd Cl:G-401+ Wilms' tumor cell line:G-401_CNhs11892_10809-111A8_forward Regulation 
MelanomaCellLineG361_CNhs11254_tpm_rev Cl:G-361- melanoma cell line:G-361_CNhs11254_10465-106H6_reverse Regulation 
MelanomaCellLineG361_CNhs11254_tpm_fwd Cl:G-361+ melanoma cell line:G-361_CNhs11254_10465-106H6_forward Regulation 
NeuroectodermalTumorCellLineFURPNT2_CNhs11753_tpm_rev Cl:FU-RPNT-2- neuroectodermal tumor cell line:FU-RPNT-2_CNhs11753_10663-109C6_reverse Regulation 
NeuroectodermalTumorCellLineFURPNT2_CNhs11753_tpm_fwd Cl:FU-RPNT-2+ neuroectodermal tumor cell line:FU-RPNT-2_CNhs11753_10663-109C6_forward Regulation 
NeuroectodermalTumorCellLineFURPNT1_CNhs11744_tpm_rev Cl:FU-RPNT-1- neuroectodermal tumor cell line:FU-RPNT-1_CNhs11744_10637-108I7_reverse Regulation 
NeuroectodermalTumorCellLineFURPNT1_CNhs11744_tpm_fwd Cl:FU-RPNT-1+ neuroectodermal tumor cell line:FU-RPNT-1_CNhs11744_10637-108I7_forward Regulation 
AcuteMyeloidLeukemiaFABM4CellLineFKH1_CNhs13503_tpm_rev Cl:FKH-1- acute myeloid leukemia (FAB M4) cell line:FKH-1_CNhs13503_10830-111D2_reverse Regulation 
AcuteMyeloidLeukemiaFABM4CellLineFKH1_CNhs13503_tpm_fwd Cl:FKH-1+ acute myeloid leukemia (FAB M4) cell line:FKH-1_CNhs13503_10830-111D2_forward Regulation 
NormalIntestinalEpithelialCellLineFHs74Int_CNhs11950_tpm_rev Cl:FHs74Int- normal intestinal epithelial cell line:FHs 74 Int_CNhs11950_10812-111B2_reverse Regulation 
NormalIntestinalEpithelialCellLineFHs74Int_CNhs11950_tpm_fwd Cl:FHs74Int+ normal intestinal epithelial cell line:FHs 74 Int_CNhs11950_10812-111B2_forward Regulation 
AcuteMyeloidLeukemiaFABM6CellLineF36P_CNhs13505_tpm_rev Cl:F-36P- acute myeloid leukemia (FAB M6) cell line:F-36P_CNhs13505_10837-111D9_reverse Regulation 
AcuteMyeloidLeukemiaFABM6CellLineF36P_CNhs13505_tpm_fwd Cl:F-36P+ acute myeloid leukemia (FAB M6) cell line:F-36P_CNhs13505_10837-111D9_forward Regulation 
AcuteMyeloidLeukemiaFABM6CellLineF36E_CNhs13060_tpm_rev Cl:F-36E- acute myeloid leukemia (FAB M6) cell line:F-36E_CNhs13060_10836-111D8_reverse Regulation 
AcuteMyeloidLeukemiaFABM6CellLineF36E_CNhs13060_tpm_fwd Cl:F-36E+ acute myeloid leukemia (FAB M6) cell line:F-36E_CNhs13060_10836-111D8_forward Regulation 
AcuteMyeloidLeukemiaFABM4eoCellLineEoL3_CNhs13057_tpm_rev Cl:EoL-3- acute myeloid leukemia (FAB M4eo) cell line:EoL-3_CNhs13057_10833-111D5_reverse Regulation 
AcuteMyeloidLeukemiaFABM4eoCellLineEoL3_CNhs13057_tpm_fwd Cl:EoL-3+ acute myeloid leukemia (FAB M4eo) cell line:EoL-3_CNhs13057_10833-111D5_forward Regulation 
AcuteMyeloidLeukemiaFABM4eoCellLineEoL1_CNhs13056_tpm_rev Cl:EoL-1- acute myeloid leukemia (FAB M4eo) cell line:EoL-1_CNhs13056_10832-111D4_reverse Regulation 
AcuteMyeloidLeukemiaFABM4eoCellLineEoL1_CNhs13056_tpm_fwd Cl:EoL-1+ acute myeloid leukemia (FAB M4eo) cell line:EoL-1_CNhs13056_10832-111D4_forward Regulation 
AcuteMyeloidLeukemiaFABM6CellLineEEB_CNhs13059_tpm_rev Cl:EEB- acute myeloid leukemia (FAB M6) cell line:EEB_CNhs13059_10835-111D7_reverse Regulation 
AcuteMyeloidLeukemiaFABM6CellLineEEB_CNhs13059_tpm_fwd Cl:EEB+ acute myeloid leukemia (FAB M6) cell line:EEB_CNhs13059_10835-111D7_forward Regulation 
SmallcellGastrointestinalCarcinomaCellLineECC4_CNhs11734_tpm_rev Cl:ECC4- small-cell gastrointestinal carcinoma cell line:ECC4_CNhs11734_10609-108F6_reverse Regulation 
SmallcellGastrointestinalCarcinomaCellLineECC4_CNhs11734_tpm_fwd Cl:ECC4+ small-cell gastrointestinal carcinoma cell line:ECC4_CNhs11734_10609-108F6_forward Regulation 
GastrointestinalCarcinomaCellLineECC12_CNhs11738_tpm_rev Cl:ECC12- gastrointestinal carcinoma cell line:ECC12_CNhs11738_10615-108G3_reverse Regulation 
GastrointestinalCarcinomaCellLineECC12_CNhs11738_tpm_fwd Cl:ECC12+ gastrointestinal carcinoma cell line:ECC12_CNhs11738_10615-108G3_forward Regulation 
SmallCellGastrointestinalCarcinomaCellLineECC10_CNhs11736_tpm_rev Cl:ECC10- small cell gastrointestinal carcinoma cell line:ECC10_CNhs11736_10610-108F7_reverse Regulation 
SmallCellGastrointestinalCarcinomaCellLineECC10_CNhs11736_tpm_fwd Cl:ECC10+ small cell gastrointestinal carcinoma cell line:ECC10_CNhs11736_10610-108F7_forward Regulation 
SquamousCellCarcinomaCellLineECGI10_CNhs11252_tpm_rev Cl:EC-GI-10- squamous cell carcinoma cell line:EC-GI-10_CNhs11252_10463-106H4_reverse Regulation 
SquamousCellCarcinomaCellLineECGI10_CNhs11252_tpm_fwd Cl:EC-GI-10+ squamous cell carcinoma cell line:EC-GI-10_CNhs11252_10463-106H4_forward Regulation 
SquamousCellLungCarcinomaCellLineEBC1_CNhs11273_tpm_rev Cl:EBC-1- squamous cell lung carcinoma cell line:EBC-1_CNhs11273_10486-107A9_reverse Regulation 
SquamousCellLungCarcinomaCellLineEBC1_CNhs11273_tpm_fwd Cl:EBC-1+ squamous cell lung carcinoma cell line:EBC-1_CNhs11273_10486-107A9_forward Regulation 
ProstateCancerCellLineDU145_CNhs11260_tpm_rev Cl:DU145- prostate cancer cell line:DU145_CNhs11260_10490-107B4_reverse Regulation 
ProstateCancerCellLineDU145_CNhs11260_tpm_fwd Cl:DU145+ prostate cancer cell line:DU145_CNhs11260_10490-107B4_forward Regulation 
LymphangiectasiaCellLineDS1_CNhs11852_tpm_rev Cl:DS-1- lymphangiectasia cell line:DS-1_CNhs11852_10727-110A7_reverse Regulation 
LymphangiectasiaCellLineDS1_CNhs11852_tpm_fwd Cl:DS-1+ lymphangiectasia cell line:DS-1_CNhs11852_10727-110A7_forward Regulation 
SmallCellLungCarcinomaCellLineDMS144_CNhs12808_tpm_rev Cl:DMS144- small cell lung carcinoma cell line:DMS 144_CNhs12808_10841-111E4_reverse Regulation 
SmallCellLungCarcinomaCellLineDMS144_CNhs12808_tpm_fwd Cl:DMS144+ small cell lung carcinoma cell line:DMS 144_CNhs12808_10841-111E4_forward Regulation 
MalignantTrichilemmalCystCellLineDJM1_CNhs10730_tpm_rev Cl:DJM-1- malignant trichilemmal cyst cell line:DJM-1_CNhs10730_10412-106B7_reverse Regulation 
MalignantTrichilemmalCystCellLineDJM1_CNhs10730_tpm_fwd Cl:DJM-1+ malignant trichilemmal cyst cell line:DJM-1_CNhs10730_10412-106B7_forward Regulation 
PharyngealCarcinomaCellLineDetroit562_CNhs11849_tpm_rev Cl:Detroit562- pharyngeal carcinoma cell line:Detroit 562_CNhs11849_10723-110A3_reverse Regulation 
PharyngealCarcinomaCellLineDetroit562_CNhs11849_tpm_fwd Cl:Detroit562+ pharyngeal carcinoma cell line:Detroit 562_CNhs11849_10723-110A3_forward Regulation 
BurkittsLymphomaCellLineDAUDI_CNhs10739_tpm_rev Cl:DAUDI- Burkitt's lymphoma cell line:DAUDI_CNhs10739_10422-106C8_reverse Regulation 
BurkittsLymphomaCellLineDAUDI_CNhs10739_tpm_fwd Cl:DAUDI+ Burkitt's lymphoma cell line:DAUDI_CNhs10739_10422-106C8_forward Regulation 
CervicalCancerCellLineD98AH2_CNhs11288_tpm_rev Cl:D98-AH2- cervical cancer cell line:D98-AH2_CNhs11288_10552-107I3_reverse Regulation 
CervicalCancerCellLineD98AH2_CNhs11288_tpm_fwd Cl:D98-AH2+ cervical cancer cell line:D98-AH2_CNhs11288_10552-107I3_forward Regulation 
MedulloblastomaCellLineD283Med_CNhs12805_tpm_rev Cl:D283Med- medulloblastoma cell line:D283 Med_CNhs12805_10838-111E1_reverse Regulation 
MedulloblastomaCellLineD283Med_CNhs12805_tpm_fwd Cl:D283Med+ medulloblastoma cell line:D283 Med_CNhs12805_10838-111E1_forward Regulation 
DiffuseLargeBcellLymphomaCellLineCTB1_CNhs11741_tpm_rev Cl:CTB-1- diffuse large B-cell lymphoma cell line:CTB-1_CNhs11741_10631-108I1_reverse Regulation 
DiffuseLargeBcellLymphomaCellLineCTB1_CNhs11741_tpm_fwd Cl:CTB-1+ diffuse large B-cell lymphoma cell line:CTB-1_CNhs11741_10631-108I1_forward Regulation 
MelanomaCellLineCOLO679_CNhs11281_tpm_rev Cl:COLO679- melanoma cell line:COLO 679_CNhs11281_10514-107E1_reverse Regulation 
MelanomaCellLineCOLO679_CNhs11281_tpm_fwd Cl:COLO679+ melanoma cell line:COLO 679_CNhs11281_10514-107E1_forward Regulation 
ColonCarcinomaCellLineCOLO320_CNhs10737_tpm_rev Cl:COLO-320- colon carcinoma cell line:COLO-320_CNhs10737_10420-106C6_reverse Regulation 
ColonCarcinomaCellLineCOLO320_CNhs10737_tpm_fwd Cl:COLO-320+ colon carcinoma cell line:COLO-320_CNhs10737_10420-106C6_forward Regulation 
CordBloodDerivedCellLineCOBLaUntreated_CNhs11045_tpm_rev Cl:COBL-auntreated- cord blood derived cell line:COBL-a untreated_CNhs11045_10449-106F8_reverse Regulation 
CordBloodDerivedCellLineCOBLaUntreated_CNhs11045_tpm_fwd Cl:COBL-auntreated+ cord blood derived cell line:COBL-a untreated_CNhs11045_10449-106F8_forward Regulation 
CordBloodDerivedCellLineCOBLa24hInfection_CNhs11050_tpm_rev Cl:COBL-a24hinfection- cord blood derived cell line:COBL-a 24h infection_CNhs11050_10453-106G3_reverse Regulation 
CordBloodDerivedCellLineCOBLa24hInfection_CNhs11050_tpm_fwd Cl:COBL-a24hinfection+ cord blood derived cell line:COBL-a 24h infection_CNhs11050_10453-106G3_forward Regulation 
CordBloodDerivedCellLineCOBLa24hInfectionC_CNhs11049_tpm_rev Cl:COBL-a24hinfection(-C)- cord blood derived cell line:COBL-a 24h infection(-C)_CNhs11049_10452-106G2_reverse Regulation 
CordBloodDerivedCellLineCOBLa24hInfectionC_CNhs11049_tpm_fwd Cl:COBL-a24hinfection(-C)+ cord blood derived cell line:COBL-a 24h infection(-C)_CNhs11049_10452-106G2_forward Regulation 
NeuroblastomaCellLineCHP134_CNhs11276_tpm_rev Cl:CHP-134- neuroblastoma cell line:CHP-134_CNhs11276_10508-107D4_reverse Regulation 
NeuroblastomaCellLineCHP134_CNhs11276_tpm_fwd Cl:CHP-134+ neuroblastoma cell line:CHP-134_CNhs11276_10508-107D4_forward Regulation 
BronchogenicCarcinomaCellLineChaGoK1_CNhs11841_tpm_rev Cl:ChaGo-K-1- bronchogenic carcinoma cell line:ChaGo-K-1_CNhs11841_10710-109H8_reverse Regulation 
BronchogenicCarcinomaCellLineChaGoK1_CNhs11841_tpm_fwd Cl:ChaGo-K-1+ bronchogenic carcinoma cell line:ChaGo-K-1_CNhs11841_10710-109H8_forward Regulation 
EpidermoidCarcinomaCellLineCaSki_CNhs10748_tpm_rev Cl:CaSki- epidermoid carcinoma cell line:Ca Ski_CNhs10748_10431-106D8_reverse Regulation 
EpidermoidCarcinomaCellLineCaSki_CNhs10748_tpm_fwd Cl:CaSki+ epidermoid carcinoma cell line:Ca Ski_CNhs10748_10431-106D8_forward Regulation 
ColonCarcinomaCellLineCACO2_CNhs11280_tpm_rev Cl:CACO-2- colon carcinoma cell line:CACO-2_CNhs11280_10513-107D9_reverse Regulation 
ColonCarcinomaCellLineCACO2_CNhs11280_tpm_fwd Cl:CACO-2+ colon carcinoma cell line:CACO-2_CNhs11280_10513-107D9_forward Regulation 
OralSquamousCellCarcinomaCellLineCa922_CNhs10752_tpm_rev Cl:Ca9-22- oral squamous cell carcinoma cell line:Ca9-22_CNhs10752_10434-106E2_reverse Regulation 
OralSquamousCellCarcinomaCellLineCa922_CNhs10752_tpm_fwd Cl:Ca9-22+ oral squamous cell carcinoma cell line:Ca9-22_CNhs10752_10434-106E2_forward Regulation 
ChoriocarcinomaCellLineBeWo_CNhs10740_tpm_rev Cl:BeWo- choriocarcinoma cell line:BeWo_CNhs10740_10423-106C9_reverse Regulation 
ChoriocarcinomaCellLineBeWo_CNhs10740_tpm_fwd Cl:BeWo+ choriocarcinoma cell line:BeWo_CNhs10740_10423-106C9_forward Regulation 
AcuteLymphoblasticLeukemiaBALLCellLineBALL1_CNhs11251_tpm_rev Cl:BALL-1- acute lymphoblastic leukemia (B-ALL) cell line:BALL-1_CNhs11251_10455-106G5_reverse Regulation 
AcuteLymphoblasticLeukemiaBALLCellLineBALL1_CNhs11251_tpm_fwd Cl:BALL-1+ acute lymphoblastic leukemia (B-ALL) cell line:BALL-1_CNhs11251_10455-106G5_forward Regulation 
GastricCancerCellLineAZ521_CNhs11286_tpm_rev Cl:AZ521- gastric cancer cell line:AZ521_CNhs11286_10549-107H9_reverse Regulation 
GastricCancerCellLineAZ521_CNhs11286_tpm_fwd Cl:AZ521+ gastric cancer cell line:AZ521_CNhs11286_10549-107H9_forward Regulation 
AdultTcellLeukemiaCellLineATN1_CNhs10738_tpm_rev Cl:ATN-1- adult T-cell leukemia cell line:ATN-1_CNhs10738_10421-106C7_reverse Regulation 
AdultTcellLeukemiaCellLineATN1_CNhs10738_tpm_fwd Cl:ATN-1+ adult T-cell leukemia cell line:ATN-1_CNhs10738_10421-106C7_forward Regulation 
PlasmaCellLeukemiaCellLineARH77_CNhs12807_tpm_rev Cl:ARH-77- plasma cell leukemia cell line:ARH-77_CNhs12807_10840-111E3_reverse Regulation 
PlasmaCellLeukemiaCellLineARH77_CNhs12807_tpm_fwd Cl:ARH-77+ plasma cell leukemia cell line:ARH-77_CNhs12807_10840-111E3_forward Regulation 
MesotheliomaCellLineACCMESO4_CNhs11264_tpm_rev Cl:ACC-MESO-4- mesothelioma cell line:ACC-MESO-4_CNhs11264_10494-107B8_reverse Regulation 
MesotheliomaCellLineACCMESO4_CNhs11264_tpm_fwd Cl:ACC-MESO-4+ mesothelioma cell line:ACC-MESO-4_CNhs11264_10494-107B8_forward Regulation 
MesotheliomaCellLineACCMESO1_CNhs11263_tpm_rev Cl:ACC-MESO-1- mesothelioma cell line:ACC-MESO-1_CNhs11263_10493-107B7_reverse Regulation 
MesotheliomaCellLineACCMESO1_CNhs11263_tpm_fwd Cl:ACC-MESO-1+ mesothelioma cell line:ACC-MESO-1_CNhs11263_10493-107B7_forward Regulation 
LungAdenocarcinomaCellLineA549_CNhs11275_tpm_rev Cl:A549- lung adenocarcinoma cell line:A549_CNhs11275_10499-107C4_reverse Regulation 
LungAdenocarcinomaCellLineA549_CNhs11275_tpm_fwd Cl:A549+ lung adenocarcinoma cell line:A549_CNhs11275_10499-107C4_forward Regulation 
EpidermoidCarcinomaCellLineA431_CNhs10743_tpm_rev Cl:A431- epidermoid carcinoma cell line:A431_CNhs10743_10426-106D3_reverse Regulation 
EpidermoidCarcinomaCellLineA431_CNhs10743_tpm_fwd Cl:A431+ epidermoid carcinoma cell line:A431_CNhs10743_10426-106D3_forward Regulation 
GlioblastomaCellLineA172TechRep2_CNhs11248_tpm_rev Cl:A172Tr2- glioblastoma cell line:A172, tech_rep2_CNhs11248_10444-106F3_reverse Regulation 
GlioblastomaCellLineA172TechRep2_CNhs11248_tpm_fwd Cl:A172Tr2+ glioblastoma cell line:A172, tech_rep2_CNhs11248_10444-106F3_forward Regulation 
PapillaryAdenocarcinomaCellLine8505C_CNhs11716_tpm_rev Cl:8505C- papillary adenocarcinoma cell line:8505C_CNhs11716_10437-106E5_reverse Regulation 
PapillaryAdenocarcinomaCellLine8505C_CNhs11716_tpm_fwd Cl:8505C+ papillary adenocarcinoma cell line:8505C_CNhs11716_10437-106E5_forward Regulation 
AnaplasticCarcinomaCellLine8305C_CNhs10745_tpm_rev Cl:8305C- anaplastic carcinoma cell line:8305C_CNhs10745_10428-106D5_reverse Regulation 
AnaplasticCarcinomaCellLine8305C_CNhs10745_tpm_fwd Cl:8305C+ anaplastic carcinoma cell line:8305C_CNhs10745_10428-106D5_forward Regulation 
TransitionalcellCarcinomaCellLine5637_CNhs10735_tpm_rev Cl:5637- transitional-cell carcinoma cell line:5637_CNhs10735_10418-106C4_reverse Regulation 
TransitionalcellCarcinomaCellLine5637_CNhs10735_tpm_fwd Cl:5637+ transitional-cell carcinoma cell line:5637_CNhs10735_10418-106C4_forward Regulation 
EmbryonicPancreasCellLine2C6_CNhs11814_tpm_rev Cl:2C6- embryonic pancreas cell line:2C6_CNhs11814_10603-108E9_reverse Regulation 
EmbryonicPancreasCellLine2C6_CNhs11814_tpm_fwd Cl:2C6+ embryonic pancreas cell line:2C6_CNhs11814_10603-108E9_forward Regulation 
EmbryonicPancreasCellLine1C3IKEI_CNhs11733_tpm_rev Cl:1C3IKEI- embryonic pancreas cell line:1C3IKEI_CNhs11733_10606-108F3_reverse Regulation 
EmbryonicPancreasCellLine1C3IKEI_CNhs11733_tpm_fwd Cl:1C3IKEI+ embryonic pancreas cell line:1C3IKEI_CNhs11733_10606-108F3_forward Regulation 
EmbryonicPancreasCellLine1C3D3_CNhs11732_tpm_rev Cl:1C3D3- embryonic pancreas cell line:1C3D3_CNhs11732_10605-108F2_reverse Regulation 
EmbryonicPancreasCellLine1C3D3_CNhs11732_tpm_fwd Cl:1C3D3+ embryonic pancreas cell line:1C3D3_CNhs11732_10605-108F2_forward Regulation 
EmbryonicPancreasCellLine1B2C6_CNhs11731_tpm_rev Cl:1B2C6- embryonic pancreas cell line:1B2C6_CNhs11731_10604-108F1_reverse Regulation 
EmbryonicPancreasCellLine1B2C6_CNhs11731_tpm_fwd Cl:1B2C6+ embryonic pancreas cell line:1B2C6_CNhs11731_10604-108F1_forward Regulation 
LeiomyomaCellLine15425_CNhs11724_tpm_rev Cl:15425- leiomyoma cell line:15425_CNhs11724_10571-108B4_reverse Regulation 
LeiomyomaCellLine15425_CNhs11724_tpm_fwd Cl:15425+ leiomyoma cell line:15425_CNhs11724_10571-108B4_forward Regulation 
LeiomyomaCellLine15242A_CNhs11723_tpm_rev Cl:15242A- leiomyoma cell line:15242A_CNhs11723_10570-108B3_reverse Regulation 
LeiomyomaCellLine15242A_CNhs11723_tpm_fwd Cl:15242A+ leiomyoma cell line:15242A_CNhs11723_10570-108B3_forward Regulation 
OsteosarcomaCellLine143BTKneoR_CNhs11279_tpm_rev Cl:143B/TK^(-)neo^(R)- osteosarcoma cell line:143B/TK^(-)neo^(R)_CNhs11279_10510-107D6_reverse Regulation 
OsteosarcomaCellLine143BTKneoR_CNhs11279_tpm_fwd Cl:143B/TK^(-)neo^(R)+ osteosarcoma cell line:143B/TK^(-)neo^(R)_CNhs11279_10510-107D6_forward Regulation 
LeiomyomaCellLine10964C_CNhs11722_tpm_rev Cl:10964C- leiomyoma cell line:10964C_CNhs11722_10569-108B2_reverse Regulation 
LeiomyomaCellLine10964C_CNhs11722_tpm_fwd Cl:10964C+ leiomyoma cell line:10964C_CNhs11722_10569-108B2_forward Regulation 
NonsmallCellLungCancerCellLineNCIH1385_CNhs12193_tpm_rev Cl:NCI-H1385- non-small cell lung cancer cell line:NCI-H1385_CNhs12193_10730-110B1_reverse Regulation 
NonsmallCellLungCancerCellLineNCIH1385_CNhs12193_tpm_fwd Cl:NCI-H1385+ non-small cell lung cancer cell line:NCI-H1385_CNhs12193_10730-110B1_forward Regulation 
MesotheliomaCellLineMero14TechRep2_CNhs14376_tpm_rev Cl:Mero-14Tr2- mesothelioma cell line:Mero-14, tech_rep2_CNhs14376_10849-111F3_reverse Regulation 
MesotheliomaCellLineMero14TechRep2_CNhs14376_tpm_fwd Cl:Mero-14Tr2+ mesothelioma cell line:Mero-14, tech_rep2_CNhs14376_10849-111F3_forward Regulation 
AcuteMyeloidLeukemiaFABM0CellLineKasumi3_CNhs13241_tpm_rev Cl:Kasumi-3- acute myeloid leukemia (FAB M0) cell line:Kasumi-3_CNhs13241_10789-110H6_reverse Regulation 
AcuteMyeloidLeukemiaFABM0CellLineKasumi3_CNhs13241_tpm_fwd Cl:Kasumi-3+ acute myeloid leukemia (FAB M0) cell line:Kasumi-3_CNhs13241_10789-110H6_forward Regulation 
LeiomyosarcomaCellLineHs5_T_CNhs12192_tpm_rev Cl:Hs5_T- leiomyosarcoma cell line:Hs 5_T_CNhs12192_10722-110A2_reverse Regulation 
LeiomyosarcomaCellLineHs5_T_CNhs12192_tpm_fwd Cl:Hs5_T+ leiomyosarcoma cell line:Hs 5_T_CNhs12192_10722-110A2_forward Regulation 
MesodermalTumorCellLineHIRSBM_CNhs12191_tpm_rev Cl:HIRS-BM- mesodermal tumor cell line:HIRS-BM_CNhs12191_10696-109G3_reverse Regulation 
MesodermalTumorCellLineHIRSBM_CNhs12191_tpm_fwd Cl:HIRS-BM+ mesodermal tumor cell line:HIRS-BM_CNhs12191_10696-109G3_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcificationDay28BiolRep3A3T17_CNhs12892_tpm_rev Saos-2W/AscorbicAcidBgp_Day28Br3- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, day28, biol_rep3 (A3 T17)_CNhs12892_12875-137F4_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcificationDay28BiolRep3A3T17_CNhs12892_tpm_fwd Saos-2W/AscorbicAcidBgp_Day28Br3+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, day28, biol_rep3 (A3 T17)_CNhs12892_12875-137F4_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcificationDay28BiolRep2A2T17_CNhs12876_tpm_rev Saos-2W/AscorbicAcidBgp_Day28Br2- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, day28, biol_rep2 (A2 T17)_CNhs12876_12777-136D5_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcificationDay28BiolRep2A2T17_CNhs12876_tpm_fwd Saos-2W/AscorbicAcidBgp_Day28Br2+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, day28, biol_rep2 (A2 T17)_CNhs12876_12777-136D5_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcificationDay28BiolRep1A1T17_CNhs11919_tpm_rev Saos-2W/AscorbicAcidBgp_Day28Br1- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, day28, biol_rep1 (A1 T17)_CNhs11919_12679-135B6_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcificationDay28BiolRep1A1T17_CNhs11919_tpm_fwd Saos-2W/AscorbicAcidBgp_Day28Br1+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, day28, biol_rep1 (A1 T17)_CNhs11919_12679-135B6_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcificationDay21BiolRep3A3T16_CNhs12891_tpm_rev Saos-2W/AscorbicAcidBgp_Day21Br3- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, day21, biol_rep3 (A3 T16)_CNhs12891_12874-137F3_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcificationDay21BiolRep3A3T16_CNhs12891_tpm_fwd Saos-2W/AscorbicAcidBgp_Day21Br3+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, day21, biol_rep3 (A3 T16)_CNhs12891_12874-137F3_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcificationDay21BiolRep2A2T16_CNhs12875_tpm_rev Saos-2W/AscorbicAcidBgp_Day21Br2- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, day21, biol_rep2 (A2 T16)_CNhs12875_12776-136D4_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcificationDay21BiolRep2A2T16_CNhs12875_tpm_fwd Saos-2W/AscorbicAcidBgp_Day21Br2+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, day21, biol_rep2 (A2 T16)_CNhs12875_12776-136D4_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcificationDay21BiolRep1A1T16_CNhs12397_tpm_rev Saos-2W/AscorbicAcidBgp_Day21Br1- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, day21, biol_rep1 (A1 T16)_CNhs12397_12678-135B5_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcificationDay21BiolRep1A1T16_CNhs12397_tpm_fwd Saos-2W/AscorbicAcidBgp_Day21Br1+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, day21, biol_rep1 (A1 T16)_CNhs12397_12678-135B5_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcificationDay14BiolRep3A3T15_CNhs12890_tpm_rev Saos-2W/AscorbicAcidBgp_Day14Br3- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, day14, biol_rep3 (A3 T15)_CNhs12890_12873-137F2_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcificationDay14BiolRep3A3T15_CNhs12890_tpm_fwd Saos-2W/AscorbicAcidBgp_Day14Br3+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, day14, biol_rep3 (A3 T15)_CNhs12890_12873-137F2_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcificationDay14BiolRep2A2T15_CNhs12953_tpm_rev Saos-2W/AscorbicAcidBgp_Day14Br2- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, day14, biol_rep2 (A2 T15)_CNhs12953_12775-136D3_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcificationDay14BiolRep2A2T15_CNhs12953_tpm_fwd Saos-2W/AscorbicAcidBgp_Day14Br2+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, day14, biol_rep2 (A2 T15)_CNhs12953_12775-136D3_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcificationDay14BiolRep1A1T15_CNhs12396_tpm_rev Saos-2W/AscorbicAcidBgp_Day14Br1- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, day14, biol_rep1 (A1 T15)_CNhs12396_12677-135B4_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcificationDay14BiolRep1A1T15_CNhs12396_tpm_fwd Saos-2W/AscorbicAcidBgp_Day14Br1+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, day14, biol_rep1 (A1 T15)_CNhs12396_12677-135B4_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcificationDay07BiolRep3A3T14_CNhs12888_tpm_rev Saos-2W/AscorbicAcidBgp_Day07Br3- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, day07, biol_rep3 (A3 T14)_CNhs12888_12872-137F1_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcificationDay07BiolRep3A3T14_CNhs12888_tpm_fwd Saos-2W/AscorbicAcidBgp_Day07Br3+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, day07, biol_rep3 (A3 T14)_CNhs12888_12872-137F1_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcificationDay07BiolRep2A2T14_CNhs12874_tpm_rev Saos-2W/AscorbicAcidBgp_Day07Br2- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, day07, biol_rep2 (A2 T14)_CNhs12874_12774-136D2_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcificationDay07BiolRep2A2T14_CNhs12874_tpm_fwd Saos-2W/AscorbicAcidBgp_Day07Br2+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, day07, biol_rep2 (A2 T14)_CNhs12874_12774-136D2_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcificationDay07BiolRep1A1T14_CNhs12395_tpm_rev Saos-2W/AscorbicAcidBgp_Day07Br1- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, day07, biol_rep1 (A1 T14)_CNhs12395_12676-135B3_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcificationDay07BiolRep1A1T14_CNhs12395_tpm_fwd Saos-2W/AscorbicAcidBgp_Day07Br1+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, day07, biol_rep1 (A1 T14)_CNhs12395_12676-135B3_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcificationDay04BiolRep3A3T13_CNhs12887_tpm_rev Saos-2W/AscorbicAcidBgp_Day04Br3- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, day04, biol_rep3 (A3 T13)_CNhs12887_12871-137E9_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcificationDay04BiolRep3A3T13_CNhs12887_tpm_fwd Saos-2W/AscorbicAcidBgp_Day04Br3+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, day04, biol_rep3 (A3 T13)_CNhs12887_12871-137E9_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcificationDay04BiolRep2A2T13_CNhs12873_tpm_rev Saos-2W/AscorbicAcidBgp_Day04Br2- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, day04, biol_rep2 (A2 T13)_CNhs12873_12773-136D1_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcificationDay04BiolRep2A2T13_CNhs12873_tpm_fwd Saos-2W/AscorbicAcidBgp_Day04Br2+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, day04, biol_rep2 (A2 T13)_CNhs12873_12773-136D1_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcificationDay04BiolRep1A1T13_CNhs12394_tpm_rev Saos-2W/AscorbicAcidBgp_Day04Br1- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, day04, biol_rep1 (A1 T13)_CNhs12394_12675-135B2_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcificationDay04BiolRep1A1T13_CNhs12394_tpm_fwd Saos-2W/AscorbicAcidBgp_Day04Br1+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, day04, biol_rep1 (A1 T13)_CNhs12394_12675-135B2_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification24hrBiolRep3A3T12_CNhs12886_tpm_rev Saos-2W/AscorbicAcidBgp_24hrBr3- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 24hr, biol_rep3 (A3 T12)_CNhs12886_12870-137E8_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification24hrBiolRep3A3T12_CNhs12886_tpm_fwd Saos-2W/AscorbicAcidBgp_24hrBr3+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 24hr, biol_rep3 (A3 T12)_CNhs12886_12870-137E8_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification24hrBiolRep2A2T12_CNhs12872_tpm_rev Saos-2W/AscorbicAcidBgp_24hrBr2- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 24hr, biol_rep2 (A2 T12)_CNhs12872_12772-136C9_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification24hrBiolRep2A2T12_CNhs12872_tpm_fwd Saos-2W/AscorbicAcidBgp_24hrBr2+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 24hr, biol_rep2 (A2 T12)_CNhs12872_12772-136C9_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification24hrBiolRep1A1T12_CNhs12393_tpm_rev Saos-2W/AscorbicAcidBgp_24hrBr1- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 24hr, biol_rep1 (A1 T12)_CNhs12393_12674-135B1_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification24hrBiolRep1A1T12_CNhs12393_tpm_fwd Saos-2W/AscorbicAcidBgp_24hrBr1+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 24hr, biol_rep1 (A1 T12)_CNhs12393_12674-135B1_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification08hrBiolRep3A3T11_CNhs12885_tpm_rev Saos-2W/AscorbicAcidBgp_08hrBr3- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 08hr, biol_rep3 (A3 T11)_CNhs12885_12869-137E7_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification08hrBiolRep3A3T11_CNhs12885_tpm_fwd Saos-2W/AscorbicAcidBgp_08hrBr3+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 08hr, biol_rep3 (A3 T11)_CNhs12885_12869-137E7_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification08hrBiolRep2A2T11_CNhs12871_tpm_rev Saos-2W/AscorbicAcidBgp_08hrBr2- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 08hr, biol_rep2 (A2 T11)_CNhs12871_12771-136C8_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification08hrBiolRep2A2T11_CNhs12871_tpm_fwd Saos-2W/AscorbicAcidBgp_08hrBr2+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 08hr, biol_rep2 (A2 T11)_CNhs12871_12771-136C8_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification08hrBiolRep1A1T11_CNhs12392_tpm_rev Saos-2W/AscorbicAcidBgp_08hrBr1- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 08hr, biol_rep1 (A1 T11)_CNhs12392_12673-135A9_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification08hrBiolRep1A1T11_CNhs12392_tpm_fwd Saos-2W/AscorbicAcidBgp_08hrBr1+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 08hr, biol_rep1 (A1 T11)_CNhs12392_12673-135A9_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification04hrBiolRep3A3T10_CNhs12884_tpm_rev Saos-2W/AscorbicAcidBgp_04hrBr3- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 04hr, biol_rep3 (A3 T10)_CNhs12884_12868-137E6_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification04hrBiolRep3A3T10_CNhs12884_tpm_fwd Saos-2W/AscorbicAcidBgp_04hrBr3+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 04hr, biol_rep3 (A3 T10)_CNhs12884_12868-137E6_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification04hrBiolRep2A2T10_CNhs12870_tpm_rev Saos-2W/AscorbicAcidBgp_04hrBr2- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 04hr, biol_rep2 (A2 T10)_CNhs12870_12770-136C7_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification04hrBiolRep2A2T10_CNhs12870_tpm_fwd Saos-2W/AscorbicAcidBgp_04hrBr2+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 04hr, biol_rep2 (A2 T10)_CNhs12870_12770-136C7_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification04hrBiolRep1A1T10_CNhs12391_tpm_rev Saos-2W/AscorbicAcidBgp_04hrBr1- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 04hr, biol_rep1 (A1 T10)_CNhs12391_12672-135A8_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification04hrBiolRep1A1T10_CNhs12391_tpm_fwd Saos-2W/AscorbicAcidBgp_04hrBr1+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 04hr, biol_rep1 (A1 T10)_CNhs12391_12672-135A8_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification03hrBiolRep3A3T9_CNhs12883_tpm_rev Saos-2W/AscorbicAcidBgp_03hrBr3- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 03hr, biol_rep3 (A3 T9)_CNhs12883_12867-137E5_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification03hrBiolRep3A3T9_CNhs12883_tpm_fwd Saos-2W/AscorbicAcidBgp_03hrBr3+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 03hr, biol_rep3 (A3 T9)_CNhs12883_12867-137E5_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification03hrBiolRep2A2T9_CNhs12869_tpm_rev Saos-2W/AscorbicAcidBgp_03hrBr2- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 03hr, biol_rep2 (A2 T9)_CNhs12869_12769-136C6_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification03hrBiolRep2A2T9_CNhs12869_tpm_fwd Saos-2W/AscorbicAcidBgp_03hrBr2+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 03hr, biol_rep2 (A2 T9)_CNhs12869_12769-136C6_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification03hrBiolRep1A1T9_CNhs12390_tpm_rev Saos-2W/AscorbicAcidBgp_03hrBr1- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 03hr, biol_rep1 (A1 T9)_CNhs12390_12671-135A7_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification03hrBiolRep1A1T9_CNhs12390_tpm_fwd Saos-2W/AscorbicAcidBgp_03hrBr1+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 03hr, biol_rep1 (A1 T9)_CNhs12390_12671-135A7_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification02hr30minBiolRep3A3T8_CNhs12882_tpm_rev Saos-2W/AscorbicAcidBgp_02hr30minBr3- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 02hr30min, biol_rep3 (A3 T8)_CNhs12882_12866-137E4_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification02hr30minBiolRep3A3T8_CNhs12882_tpm_fwd Saos-2W/AscorbicAcidBgp_02hr30minBr3+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 02hr30min, biol_rep3 (A3 T8)_CNhs12882_12866-137E4_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification02hr30minBiolRep2A2T8_CNhs12868_tpm_rev Saos-2W/AscorbicAcidBgp_02hr30minBr2- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 02hr30min, biol_rep2 (A2 T8)_CNhs12868_12768-136C5_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification02hr30minBiolRep2A2T8_CNhs12868_tpm_fwd Saos-2W/AscorbicAcidBgp_02hr30minBr2+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 02hr30min, biol_rep2 (A2 T8)_CNhs12868_12768-136C5_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification02hr30minBiolRep1A1T8_CNhs12389_tpm_rev Saos-2W/AscorbicAcidBgp_02hr30minBr1- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 02hr30min, biol_rep1 (A1 T8)_CNhs12389_12670-135A6_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification02hr30minBiolRep1A1T8_CNhs12389_tpm_fwd Saos-2W/AscorbicAcidBgp_02hr30minBr1+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 02hr30min, biol_rep1 (A1 T8)_CNhs12389_12670-135A6_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification02hr00minBiolRep3A3T7_CNhs12881_tpm_rev Saos-2W/AscorbicAcidBgp_02hr00minBr3- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 02hr00min, biol_rep3 (A3 T7)_CNhs12881_12865-137E3_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification02hr00minBiolRep3A3T7_CNhs12881_tpm_fwd Saos-2W/AscorbicAcidBgp_02hr00minBr3+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 02hr00min, biol_rep3 (A3 T7)_CNhs12881_12865-137E3_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification02hr00minBiolRep2A2T7_CNhs12867_tpm_rev Saos-2W/AscorbicAcidBgp_02hr00minBr2- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 02hr00min, biol_rep2 (A2 T7)_CNhs12867_12767-136C4_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification02hr00minBiolRep2A2T7_CNhs12867_tpm_fwd Saos-2W/AscorbicAcidBgp_02hr00minBr2+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 02hr00min, biol_rep2 (A2 T7)_CNhs12867_12767-136C4_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification02hr00minBiolRep1A1T7_CNhs12388_tpm_rev Saos-2W/AscorbicAcidBgp_02hr00minBr1- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 02hr00min, biol_rep1 (A1 T7)_CNhs12388_12669-135A5_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification02hr00minBiolRep1A1T7_CNhs12388_tpm_fwd Saos-2W/AscorbicAcidBgp_02hr00minBr1+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 02hr00min, biol_rep1 (A1 T7)_CNhs12388_12669-135A5_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification01hr40minBiolRep3A3T6_CNhs12880_tpm_rev Saos-2W/AscorbicAcidBgp_01hr40minBr3- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 01hr40min, biol_rep3 (A3 T6)_CNhs12880_12864-137E2_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification01hr40minBiolRep3A3T6_CNhs12880_tpm_fwd Saos-2W/AscorbicAcidBgp_01hr40minBr3+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 01hr40min, biol_rep3 (A3 T6)_CNhs12880_12864-137E2_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification01hr40minBiolRep2A2T6_CNhs12866_tpm_rev Saos-2W/AscorbicAcidBgp_01hr40minBr2- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 01hr40min, biol_rep2 (A2 T6)_CNhs12866_12766-136C3_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification01hr40minBiolRep2A2T6_CNhs12866_tpm_fwd Saos-2W/AscorbicAcidBgp_01hr40minBr2+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 01hr40min, biol_rep2 (A2 T6)_CNhs12866_12766-136C3_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification01hr40minBiolRep1A1T6_CNhs12387_tpm_rev Saos-2W/AscorbicAcidBgp_01hr40minBr1- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 01hr40min, biol_rep1 (A1 T6)_CNhs12387_12668-135A4_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification01hr40minBiolRep1A1T6_CNhs12387_tpm_fwd Saos-2W/AscorbicAcidBgp_01hr40minBr1+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 01hr40min, biol_rep1 (A1 T6)_CNhs12387_12668-135A4_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification01hr20minBiolRep3A3T5_CNhs12879_tpm_rev Saos-2W/AscorbicAcidBgp_01hr20minBr3- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 01hr20min, biol_rep3 (A3 T5)_CNhs12879_12863-137E1_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification01hr20minBiolRep3A3T5_CNhs12879_tpm_fwd Saos-2W/AscorbicAcidBgp_01hr20minBr3+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 01hr20min, biol_rep3 (A3 T5)_CNhs12879_12863-137E1_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification01hr20minBiolRep2A2T5_CNhs12864_tpm_rev Saos-2W/AscorbicAcidBgp_01hr20minBr2- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 01hr20min, biol_rep2 (A2 T5)_CNhs12864_12765-136C2_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification01hr20minBiolRep2A2T5_CNhs12864_tpm_fwd Saos-2W/AscorbicAcidBgp_01hr20minBr2+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 01hr20min, biol_rep2 (A2 T5)_CNhs12864_12765-136C2_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification01hr20minBiolRep1A1T5_CNhs12386_tpm_rev Saos-2W/AscorbicAcidBgp_01hr20minBr1- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 01hr20min, biol_rep1 (A1 T5)_CNhs12386_12667-135A3_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification01hr20minBiolRep1A1T5_CNhs12386_tpm_fwd Saos-2W/AscorbicAcidBgp_01hr20minBr1+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 01hr20min, biol_rep1 (A1 T5)_CNhs12386_12667-135A3_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification01hr00minBiolRep3A3T4_CNhs12955_tpm_rev Saos-2W/AscorbicAcidBgp_01hr00minBr3- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 01hr00min, biol_rep3 (A3 T4)_CNhs12955_12862-137D9_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification01hr00minBiolRep3A3T4_CNhs12955_tpm_fwd Saos-2W/AscorbicAcidBgp_01hr00minBr3+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 01hr00min, biol_rep3 (A3 T4)_CNhs12955_12862-137D9_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification01hr00minBiolRep2A2T4_CNhs12863_tpm_rev Saos-2W/AscorbicAcidBgp_01hr00minBr2- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 01hr00min, biol_rep2 (A2 T4)_CNhs12863_12764-136C1_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification01hr00minBiolRep2A2T4_CNhs12863_tpm_fwd Saos-2W/AscorbicAcidBgp_01hr00minBr2+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 01hr00min, biol_rep2 (A2 T4)_CNhs12863_12764-136C1_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification01hr00minBiolRep1A1T4_CNhs12384_tpm_rev Saos-2W/AscorbicAcidBgp_01hr00minBr1- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 01hr00min, biol_rep1 (A1 T4)_CNhs12384_12666-135A2_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification01hr00minBiolRep1A1T4_CNhs12384_tpm_fwd Saos-2W/AscorbicAcidBgp_01hr00minBr1+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 01hr00min, biol_rep1 (A1 T4)_CNhs12384_12666-135A2_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification00hr45minBiolRep3A3T3_CNhs12878_tpm_rev Saos-2W/AscorbicAcidBgp_00hr45minBr3- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 00hr45min, biol_rep3 (A3 T3)_CNhs12878_12861-137D8_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification00hr45minBiolRep3A3T3_CNhs12878_tpm_fwd Saos-2W/AscorbicAcidBgp_00hr45minBr3+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 00hr45min, biol_rep3 (A3 T3)_CNhs12878_12861-137D8_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification00hr45minBiolRep2A2T3_CNhs12862_tpm_rev Saos-2W/AscorbicAcidBgp_00hr45minBr2- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 00hr45min, biol_rep2 (A2 T3)_CNhs12862_12763-136B9_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification00hr45minBiolRep2A2T3_CNhs12862_tpm_fwd Saos-2W/AscorbicAcidBgp_00hr45minBr2+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 00hr45min, biol_rep2 (A2 T3)_CNhs12862_12763-136B9_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification00hr45minBiolRep1A1T3_CNhs12383_tpm_rev Saos-2W/AscorbicAcidBgp_00hr45minBr1- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 00hr45min, biol_rep1 (A1 T3)_CNhs12383_12665-135A1_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification00hr45minBiolRep1A1T3_CNhs12383_tpm_fwd Saos-2W/AscorbicAcidBgp_00hr45minBr1+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 00hr45min, biol_rep1 (A1 T3)_CNhs12383_12665-135A1_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification00hr30minBiolRep3A3T2_CNhs12954_tpm_rev Saos-2W/AscorbicAcidBgp_00hr30minBr3- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 00hr30min, biol_rep3 (A3 T2)_CNhs12954_12860-137D7_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification00hr30minBiolRep3A3T2_CNhs12954_tpm_fwd Saos-2W/AscorbicAcidBgp_00hr30minBr3+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 00hr30min, biol_rep3 (A3 T2)_CNhs12954_12860-137D7_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification00hr30minBiolRep2A2T2_CNhs12861_tpm_rev Saos-2W/AscorbicAcidBgp_00hr30minBr2- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 00hr30min, biol_rep2 (A2 T2)_CNhs12861_12762-136B8_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification00hr30minBiolRep2A2T2_CNhs12861_tpm_fwd Saos-2W/AscorbicAcidBgp_00hr30minBr2+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 00hr30min, biol_rep2 (A2 T2)_CNhs12861_12762-136B8_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification00hr30minBiolRep1A1T2_CNhs12382_tpm_rev Saos-2W/AscorbicAcidBgp_00hr30minBr1- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 00hr30min, biol_rep1 (A1 T2)_CNhs12382_12664-134I9_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification00hr30minBiolRep1A1T2_CNhs12382_tpm_fwd Saos-2W/AscorbicAcidBgp_00hr30minBr1+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 00hr30min, biol_rep1 (A1 T2)_CNhs12382_12664-134I9_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification00hr15minBiolRep3A3T1_CNhs12877_tpm_rev Saos-2W/AscorbicAcidBgp_00hr15minBr3- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 00hr15min, biol_rep3 (A3 T1)_CNhs12877_12859-137D6_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification00hr15minBiolRep3A3T1_CNhs12877_tpm_fwd Saos-2W/AscorbicAcidBgp_00hr15minBr3+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 00hr15min, biol_rep3 (A3 T1)_CNhs12877_12859-137D6_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification00hr15minBiolRep2A2T1_CNhs12860_tpm_rev Saos-2W/AscorbicAcidBgp_00hr15minBr2- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 00hr15min, biol_rep2 (A2 T1)_CNhs12860_12761-136B7_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification00hr15minBiolRep2A2T1_CNhs12860_tpm_fwd Saos-2W/AscorbicAcidBgp_00hr15minBr2+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 00hr15min, biol_rep2 (A2 T1)_CNhs12860_12761-136B7_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification00hr15minBiolRep1A1T1_CNhs12381_tpm_rev Saos-2W/AscorbicAcidBgp_00hr15minBr1- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 00hr15min, biol_rep1 (A1 T1)_CNhs12381_12663-134I8_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification00hr15minBiolRep1A1T1_CNhs12381_tpm_fwd Saos-2W/AscorbicAcidBgp_00hr15minBr1+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 00hr15min, biol_rep1 (A1 T1)_CNhs12381_12663-134I8_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification00hr00minBiolRep3A3T0_CNhs12952_tpm_rev Saos-2W/AscorbicAcidBgp_00hr00minBr3- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 00hr00min, biol_rep3 (A3 T0)_CNhs12952_12858-137D5_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification00hr00minBiolRep3A3T0_CNhs12952_tpm_fwd Saos-2W/AscorbicAcidBgp_00hr00minBr3+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 00hr00min, biol_rep3 (A3 T0)_CNhs12952_12858-137D5_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification00hr00minBiolRep2A2T0_CNhs12859_tpm_rev Saos-2W/AscorbicAcidBgp_00hr00minBr2- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 00hr00min, biol_rep2 (A2 T0)_CNhs12859_12760-136B6_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification00hr00minBiolRep2A2T0_CNhs12859_tpm_fwd Saos-2W/AscorbicAcidBgp_00hr00minBr2+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 00hr00min, biol_rep2 (A2 T0)_CNhs12859_12760-136B6_forward Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification00hr00minBiolRep1A1T0_CNhs11918_tpm_rev Saos-2W/AscorbicAcidBgp_00hr00minBr1- Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 00hr00min, biol_rep1 (A1 T0)_CNhs11918_12662-134I7_reverse Regulation 
Saos2OsteosarcomaTreatedWithAscorbicAcidAndBGPToInduceCalcification00hr00minBiolRep1A1T0_CNhs11918_tpm_fwd Saos-2W/AscorbicAcidBgp_00hr00minBr1+ Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 00hr00min, biol_rep1 (A1 T0)_CNhs11918_12662-134I7_forward Regulation 
COBLaRinderpestInfection48hrBiolRep3_CNhs14434_tpm_rev Tc:COBL-aRinderpest_48hrBr3- COBL-a rinderpest infection, 48hr, biol_rep3_CNhs14434_13567-146B3_reverse Regulation 
COBLaRinderpestInfection48hrBiolRep3_CNhs14434_tpm_fwd Tc:COBL-aRinderpest_48hrBr3+ COBL-a rinderpest infection, 48hr, biol_rep3_CNhs14434_13567-146B3_forward Regulation 
COBLaRinderpestInfection48hrBiolRep2_CNhs14432_tpm_rev Tc:COBL-aRinderpest_48hrBr2- COBL-a rinderpest infection, 48hr, biol_rep2_CNhs14432_13566-146B2_reverse Regulation 
COBLaRinderpestInfection48hrBiolRep2_CNhs14432_tpm_fwd Tc:COBL-aRinderpest_48hrBr2+ COBL-a rinderpest infection, 48hr, biol_rep2_CNhs14432_13566-146B2_forward Regulation 
COBLaRinderpestInfection48hrBiolRep1_CNhs14431_tpm_rev Tc:COBL-aRinderpest_48hrBr1- COBL-a rinderpest infection, 48hr, biol_rep1_CNhs14431_13565-146B1_reverse Regulation 
COBLaRinderpestInfection48hrBiolRep1_CNhs14431_tpm_fwd Tc:COBL-aRinderpest_48hrBr1+ COBL-a rinderpest infection, 48hr, biol_rep1_CNhs14431_13565-146B1_forward Regulation 
COBLaRinderpestInfection24hrBiolRep3_CNhs14430_tpm_rev Tc:COBL-aRinderpest_24hrBr3- COBL-a rinderpest infection, 24hr, biol_rep3_CNhs14430_13564-146A9_reverse Regulation 
COBLaRinderpestInfection24hrBiolRep3_CNhs14430_tpm_fwd Tc:COBL-aRinderpest_24hrBr3+ COBL-a rinderpest infection, 24hr, biol_rep3_CNhs14430_13564-146A9_forward Regulation 
COBLaRinderpestInfection24hrBiolRep2_CNhs14429_tpm_rev Tc:COBL-aRinderpest_24hrBr2- COBL-a rinderpest infection, 24hr, biol_rep2_CNhs14429_13563-146A8_reverse Regulation 
COBLaRinderpestInfection24hrBiolRep2_CNhs14429_tpm_fwd Tc:COBL-aRinderpest_24hrBr2+ COBL-a rinderpest infection, 24hr, biol_rep2_CNhs14429_13563-146A8_forward Regulation 
COBLaRinderpestInfection24hrBiolRep1_CNhs14428_tpm_rev Tc:COBL-aRinderpest_24hrBr1- COBL-a rinderpest infection, 24hr, biol_rep1_CNhs14428_13562-146A7_reverse Regulation 
COBLaRinderpestInfection24hrBiolRep1_CNhs14428_tpm_fwd Tc:COBL-aRinderpest_24hrBr1+ COBL-a rinderpest infection, 24hr, biol_rep1_CNhs14428_13562-146A7_forward Regulation 
COBLaRinderpestInfection12hrBiolRep3_CNhs14427_tpm_rev Tc:COBL-aRinderpest_12hrBr3- COBL-a rinderpest infection, 12hr, biol_rep3_CNhs14427_13561-146A6_reverse Regulation 
COBLaRinderpestInfection12hrBiolRep3_CNhs14427_tpm_fwd Tc:COBL-aRinderpest_12hrBr3+ COBL-a rinderpest infection, 12hr, biol_rep3_CNhs14427_13561-146A6_forward Regulation 
COBLaRinderpestInfection12hrBiolRep2_CNhs14426_tpm_rev Tc:COBL-aRinderpest_12hrBr2- COBL-a rinderpest infection, 12hr, biol_rep2_CNhs14426_13560-146A5_reverse Regulation 
COBLaRinderpestInfection12hrBiolRep2_CNhs14426_tpm_fwd Tc:COBL-aRinderpest_12hrBr2+ COBL-a rinderpest infection, 12hr, biol_rep2_CNhs14426_13560-146A5_forward Regulation 
COBLaRinderpestInfection12hrBiolRep1_CNhs14425_tpm_rev Tc:COBL-aRinderpest_12hrBr1- COBL-a rinderpest infection, 12hr, biol_rep1_CNhs14425_13559-146A4_reverse Regulation 
COBLaRinderpestInfection12hrBiolRep1_CNhs14425_tpm_fwd Tc:COBL-aRinderpest_12hrBr1+ COBL-a rinderpest infection, 12hr, biol_rep1_CNhs14425_13559-146A4_forward Regulation 
COBLaRinderpestInfection06hrBiolRep3_CNhs14424_tpm_rev Tc:COBL-aRinderpest_06hrBr3- COBL-a rinderpest infection, 06hr, biol_rep3_CNhs14424_13558-146A3_reverse Regulation 
COBLaRinderpestInfection06hrBiolRep3_CNhs14424_tpm_fwd Tc:COBL-aRinderpest_06hrBr3+ COBL-a rinderpest infection, 06hr, biol_rep3_CNhs14424_13558-146A3_forward Regulation 
COBLaRinderpestInfection06hrBiolRep2_CNhs14423_tpm_rev Tc:COBL-aRinderpest_06hrBr2- COBL-a rinderpest infection, 06hr, biol_rep2_CNhs14423_13557-146A2_reverse Regulation 
COBLaRinderpestInfection06hrBiolRep2_CNhs14423_tpm_fwd Tc:COBL-aRinderpest_06hrBr2+ COBL-a rinderpest infection, 06hr, biol_rep2_CNhs14423_13557-146A2_forward Regulation 
COBLaRinderpestInfection06hrBiolRep1_CNhs14422_tpm_rev Tc:COBL-aRinderpest_06hrBr1- COBL-a rinderpest infection, 06hr, biol_rep1_CNhs14422_13556-146A1_reverse Regulation 
COBLaRinderpestInfection06hrBiolRep1_CNhs14422_tpm_fwd Tc:COBL-aRinderpest_06hrBr1+ COBL-a rinderpest infection, 06hr, biol_rep1_CNhs14422_13556-146A1_forward Regulation 
COBLaRinderpestInfection00hrBiolRep3_CNhs14421_tpm_rev Tc:COBL-aRinderpest_00hrBr3- COBL-a rinderpest infection, 00hr, biol_rep3_CNhs14421_13555-145I9_reverse Regulation 
COBLaRinderpestInfection00hrBiolRep3_CNhs14421_tpm_fwd Tc:COBL-aRinderpest_00hrBr3+ COBL-a rinderpest infection, 00hr, biol_rep3_CNhs14421_13555-145I9_forward Regulation 
COBLaRinderpestInfection00hrBiolRep2_CNhs14420_tpm_rev Tc:COBL-aRinderpest_00hrBr2- COBL-a rinderpest infection, 00hr, biol_rep2_CNhs14420_13554-145I8_reverse Regulation 
COBLaRinderpestInfection00hrBiolRep2_CNhs14420_tpm_fwd Tc:COBL-aRinderpest_00hrBr2+ COBL-a rinderpest infection, 00hr, biol_rep2_CNhs14420_13554-145I8_forward Regulation 
COBLaRinderpestInfection00hrBiolRep1_CNhs14419_tpm_rev Tc:COBL-aRinderpest_00hrBr1- COBL-a rinderpest infection, 00hr, biol_rep1_CNhs14419_13553-145I7_reverse Regulation 
COBLaRinderpestInfection00hrBiolRep1_CNhs14419_tpm_fwd Tc:COBL-aRinderpest_00hrBr1+ COBL-a rinderpest infection, 00hr, biol_rep1_CNhs14419_13553-145I7_forward Regulation 
COBLaRinderpestCInfection48hrBiolRep3_CNhs14446_tpm_rev Tc:COBL-aRinderpest(-C)_48hrBr3- COBL-a rinderpest(-C) infection, 48hr, biol_rep3_CNhs14446_13579-146C6_reverse Regulation 
COBLaRinderpestCInfection48hrBiolRep3_CNhs14446_tpm_fwd Tc:COBL-aRinderpest(-C)_48hrBr3+ COBL-a rinderpest(-C) infection, 48hr, biol_rep3_CNhs14446_13579-146C6_forward Regulation 
COBLaRinderpestCInfection48hrBiolRep2_CNhs14445_tpm_rev Tc:COBL-aRinderpest(-C)_48hrBr2- COBL-a rinderpest(-C) infection, 48hr, biol_rep2_CNhs14445_13578-146C5_reverse Regulation 
COBLaRinderpestCInfection48hrBiolRep2_CNhs14445_tpm_fwd Tc:COBL-aRinderpest(-C)_48hrBr2+ COBL-a rinderpest(-C) infection, 48hr, biol_rep2_CNhs14445_13578-146C5_forward Regulation 
COBLaRinderpestCInfection48hrBiolRep1_CNhs14444_tpm_rev Tc:COBL-aRinderpest(-C)_48hrBr1- COBL-a rinderpest(-C) infection, 48hr, biol_rep1_CNhs14444_13577-146C4_reverse Regulation 
COBLaRinderpestCInfection48hrBiolRep1_CNhs14444_tpm_fwd Tc:COBL-aRinderpest(-C)_48hrBr1+ COBL-a rinderpest(-C) infection, 48hr, biol_rep1_CNhs14444_13577-146C4_forward Regulation 
COBLaRinderpestCInfection24hrBiolRep3_CNhs14443_tpm_rev Tc:COBL-aRinderpest(-C)_24hrBr3- COBL-a rinderpest(-C) infection, 24hr, biol_rep3_CNhs14443_13576-146C3_reverse Regulation 
COBLaRinderpestCInfection24hrBiolRep3_CNhs14443_tpm_fwd Tc:COBL-aRinderpest(-C)_24hrBr3+ COBL-a rinderpest(-C) infection, 24hr, biol_rep3_CNhs14443_13576-146C3_forward Regulation 
COBLaRinderpestCInfection24hrBiolRep2_CNhs14442_tpm_rev Tc:COBL-aRinderpest(-C)_24hrBr2- COBL-a rinderpest(-C) infection, 24hr, biol_rep2_CNhs14442_13575-146C2_reverse Regulation 
COBLaRinderpestCInfection24hrBiolRep2_CNhs14442_tpm_fwd Tc:COBL-aRinderpest(-C)_24hrBr2+ COBL-a rinderpest(-C) infection, 24hr, biol_rep2_CNhs14442_13575-146C2_forward Regulation 
COBLaRinderpestCInfection24hrBiolRep1_CNhs14441_tpm_rev Tc:COBL-aRinderpest(-C)_24hrBr1- COBL-a rinderpest(-C) infection, 24hr, biol_rep1_CNhs14441_13574-146C1_reverse Regulation 
COBLaRinderpestCInfection24hrBiolRep1_CNhs14441_tpm_fwd Tc:COBL-aRinderpest(-C)_24hrBr1+ COBL-a rinderpest(-C) infection, 24hr, biol_rep1_CNhs14441_13574-146C1_forward Regulation 
COBLaRinderpestCInfection12hrBiolRep3_CNhs14440_tpm_rev Tc:COBL-aRinderpest(-C)_12hrBr3- COBL-a rinderpest(-C) infection, 12hr, biol_rep3_CNhs14440_13573-146B9_reverse Regulation 
COBLaRinderpestCInfection12hrBiolRep3_CNhs14440_tpm_fwd Tc:COBL-aRinderpest(-C)_12hrBr3+ COBL-a rinderpest(-C) infection, 12hr, biol_rep3_CNhs14440_13573-146B9_forward Regulation 
COBLaRinderpestCInfection12hrBiolRep2_CNhs14439_tpm_rev Tc:COBL-aRinderpest(-C)_12hrBr2- COBL-a rinderpest(-C) infection, 12hr, biol_rep2_CNhs14439_13572-146B8_reverse Regulation 
COBLaRinderpestCInfection12hrBiolRep2_CNhs14439_tpm_fwd Tc:COBL-aRinderpest(-C)_12hrBr2+ COBL-a rinderpest(-C) infection, 12hr, biol_rep2_CNhs14439_13572-146B8_forward Regulation 
COBLaRinderpestCInfection12hrBiolRep1_CNhs14438_tpm_rev Tc:COBL-aRinderpest(-C)_12hrBr1- COBL-a rinderpest(-C) infection, 12hr, biol_rep1_CNhs14438_13571-146B7_reverse Regulation 
COBLaRinderpestCInfection12hrBiolRep1_CNhs14438_tpm_fwd Tc:COBL-aRinderpest(-C)_12hrBr1+ COBL-a rinderpest(-C) infection, 12hr, biol_rep1_CNhs14438_13571-146B7_forward Regulation 
COBLaRinderpestCInfection06hrBiolRep3_CNhs14437_tpm_rev Tc:COBL-aRinderpest(-C)_06hrBr3- COBL-a rinderpest(-C) infection, 06hr, biol_rep3_CNhs14437_13570-146B6_reverse Regulation 
COBLaRinderpestCInfection06hrBiolRep3_CNhs14437_tpm_fwd Tc:COBL-aRinderpest(-C)_06hrBr3+ COBL-a rinderpest(-C) infection, 06hr, biol_rep3_CNhs14437_13570-146B6_forward Regulation 
COBLaRinderpestCInfection06hrBiolRep2_CNhs14436_tpm_rev Tc:COBL-aRinderpest(-C)_06hrBr2- COBL-a rinderpest(-C) infection, 06hr, biol_rep2_CNhs14436_13569-146B5_reverse Regulation 
COBLaRinderpestCInfection06hrBiolRep2_CNhs14436_tpm_fwd Tc:COBL-aRinderpest(-C)_06hrBr2+ COBL-a rinderpest(-C) infection, 06hr, biol_rep2_CNhs14436_13569-146B5_forward Regulation 
COBLaRinderpestCInfection06hrBiolRep1_CNhs14435_tpm_rev Tc:COBL-aRinderpest(-C)_06hrBr1- COBL-a rinderpest(-C) infection, 06hr, biol_rep1_CNhs14435_13568-146B4_reverse Regulation 
COBLaRinderpestCInfection06hrBiolRep1_CNhs14435_tpm_fwd Tc:COBL-aRinderpest(-C)_06hrBr1+ COBL-a rinderpest(-C) infection, 06hr, biol_rep1_CNhs14435_13568-146B4_forward Regulation 
293SLAMRinderpestInfection24hrBiolRep3_CNhs14418_tpm_rev Tc:293SlamRinderpest_24hrBr3- 293SLAM rinderpest infection, 24hr, biol_rep3_CNhs14418_13552-145I6_reverse Regulation 
293SLAMRinderpestInfection24hrBiolRep3_CNhs14418_tpm_fwd Tc:293SlamRinderpest_24hrBr3+ 293SLAM rinderpest infection, 24hr, biol_rep3_CNhs14418_13552-145I6_forward Regulation 
293SLAMRinderpestInfection24hrBiolRep2_CNhs14417_tpm_rev Tc:293SlamRinderpest_24hrBr2- 293SLAM rinderpest infection, 24hr, biol_rep2_CNhs14417_13551-145I5_reverse Regulation 
293SLAMRinderpestInfection24hrBiolRep2_CNhs14417_tpm_fwd Tc:293SlamRinderpest_24hrBr2+ 293SLAM rinderpest infection, 24hr, biol_rep2_CNhs14417_13551-145I5_forward Regulation 
293SLAMRinderpestInfection24hrBiolRep1_CNhs14416_tpm_rev Tc:293SlamRinderpest_24hrBr1- 293SLAM rinderpest infection, 24hr, biol_rep1_CNhs14416_13550-145I4_reverse Regulation 
293SLAMRinderpestInfection24hrBiolRep1_CNhs14416_tpm_fwd Tc:293SlamRinderpest_24hrBr1+ 293SLAM rinderpest infection, 24hr, biol_rep1_CNhs14416_13550-145I4_forward Regulation 
293SLAMRinderpestInfection12hrBiolRep3_CNhs14415_tpm_rev Tc:293SlamRinderpest_12hrBr3- 293SLAM rinderpest infection, 12hr, biol_rep3_CNhs14415_13549-145I3_reverse Regulation 
293SLAMRinderpestInfection12hrBiolRep3_CNhs14415_tpm_fwd Tc:293SlamRinderpest_12hrBr3+ 293SLAM rinderpest infection, 12hr, biol_rep3_CNhs14415_13549-145I3_forward Regulation 
293SLAMRinderpestInfection12hrBiolRep2_CNhs14414_tpm_rev Tc:293SlamRinderpest_12hrBr2- 293SLAM rinderpest infection, 12hr, biol_rep2_CNhs14414_13548-145I2_reverse Regulation 
293SLAMRinderpestInfection12hrBiolRep2_CNhs14414_tpm_fwd Tc:293SlamRinderpest_12hrBr2+ 293SLAM rinderpest infection, 12hr, biol_rep2_CNhs14414_13548-145I2_forward Regulation 
293SLAMRinderpestInfection12hrBiolRep1_CNhs14413_tpm_rev Tc:293SlamRinderpest_12hrBr1- 293SLAM rinderpest infection, 12hr, biol_rep1_CNhs14413_13547-145I1_reverse Regulation 
293SLAMRinderpestInfection12hrBiolRep1_CNhs14413_tpm_fwd Tc:293SlamRinderpest_12hrBr1+ 293SLAM rinderpest infection, 12hr, biol_rep1_CNhs14413_13547-145I1_forward Regulation 
293SLAMRinderpestInfection06hrBiolRep3_CNhs14412_tpm_rev Tc:293SlamRinderpest_06hrBr3- 293SLAM rinderpest infection, 06hr, biol_rep3_CNhs14412_13546-145H9_reverse Regulation 
293SLAMRinderpestInfection06hrBiolRep3_CNhs14412_tpm_fwd Tc:293SlamRinderpest_06hrBr3+ 293SLAM rinderpest infection, 06hr, biol_rep3_CNhs14412_13546-145H9_forward Regulation 
293SLAMRinderpestInfection06hrBiolRep2_CNhs14411_tpm_rev Tc:293SlamRinderpest_06hrBr2- 293SLAM rinderpest infection, 06hr, biol_rep2_CNhs14411_13545-145H8_reverse Regulation 
293SLAMRinderpestInfection06hrBiolRep2_CNhs14411_tpm_fwd Tc:293SlamRinderpest_06hrBr2+ 293SLAM rinderpest infection, 06hr, biol_rep2_CNhs14411_13545-145H8_forward Regulation 
293SLAMRinderpestInfection06hrBiolRep1_CNhs14410_tpm_rev Tc:293SlamRinderpest_06hrBr1- 293SLAM rinderpest infection, 06hr, biol_rep1_CNhs14410_13544-145H7_reverse Regulation 
293SLAMRinderpestInfection06hrBiolRep1_CNhs14410_tpm_fwd Tc:293SlamRinderpest_06hrBr1+ 293SLAM rinderpest infection, 06hr, biol_rep1_CNhs14410_13544-145H7_forward Regulation 
293SLAMRinderpestInfection00hrBiolRep3_CNhs14408_tpm_rev Tc:293SlamRinderpest_00hrBr3- 293SLAM rinderpest infection, 00hr, biol_rep3_CNhs14408_13543-145H6_reverse Regulation 
293SLAMRinderpestInfection00hrBiolRep3_CNhs14408_tpm_fwd Tc:293SlamRinderpest_00hrBr3+ 293SLAM rinderpest infection, 00hr, biol_rep3_CNhs14408_13543-145H6_forward Regulation 
293SLAMRinderpestInfection00hrBiolRep2_CNhs14407_tpm_rev Tc:293SlamRinderpest_00hrBr2- 293SLAM rinderpest infection, 00hr, biol_rep2_CNhs14407_13542-145H5_reverse Regulation 
293SLAMRinderpestInfection00hrBiolRep2_CNhs14407_tpm_fwd Tc:293SlamRinderpest_00hrBr2+ 293SLAM rinderpest infection, 00hr, biol_rep2_CNhs14407_13542-145H5_forward Regulation 
293SLAMRinderpestInfection00hrBiolRep1_CNhs14406_tpm_rev Tc:293SlamRinderpest_00hrBr1- 293SLAM rinderpest infection, 00hr, biol_rep1_CNhs14406_13541-145H4_reverse Regulation 
293SLAMRinderpestInfection00hrBiolRep1_CNhs14406_tpm_fwd Tc:293SlamRinderpest_00hrBr1+ 293SLAM rinderpest infection, 00hr, biol_rep1_CNhs14406_13541-145H4_forward Regulation 
AdipocyteDifferentiationDay12Donor4_CNhs13419_tpm_rev Tc:AdipoDiff_Day12D4- Adipocyte differentiation, day12, donor4_CNhs13419_13030-139E6_reverse Regulation 
AdipocyteDifferentiationDay12Donor4_CNhs13419_tpm_fwd Tc:AdipoDiff_Day12D4+ Adipocyte differentiation, day12, donor4_CNhs13419_13030-139E6_forward Regulation 
AdipocyteDifferentiationDay12Donor3_CNhs13416_tpm_rev Tc:AdipoDiff_Day12D3- Adipocyte differentiation, day12, donor3_CNhs13416_13027-139E3_reverse Regulation 
AdipocyteDifferentiationDay12Donor3_CNhs13416_tpm_fwd Tc:AdipoDiff_Day12D3+ Adipocyte differentiation, day12, donor3_CNhs13416_13027-139E3_forward Regulation 
AdipocyteDifferentiationDay12Donor2_CNhs13412_tpm_rev Tc:AdipoDiff_Day12D2- Adipocyte differentiation, day12, donor2_CNhs13412_13024-139D9_reverse Regulation 
AdipocyteDifferentiationDay12Donor2_CNhs13412_tpm_fwd Tc:AdipoDiff_Day12D2+ Adipocyte differentiation, day12, donor2_CNhs13412_13024-139D9_forward Regulation 
AdipocyteDifferentiationDay12Donor1_CNhs13336_tpm_rev Tc:AdipoDiff_Day12D1- Adipocyte differentiation, day12, donor1_CNhs13336_13021-139D6_reverse Regulation 
AdipocyteDifferentiationDay12Donor1_CNhs13336_tpm_fwd Tc:AdipoDiff_Day12D1+ Adipocyte differentiation, day12, donor1_CNhs13336_13021-139D6_forward Regulation 
AdipocyteDifferentiationDay08Donor4_CNhs13418_tpm_rev Tc:AdipoDiff_Day08D4- Adipocyte differentiation, day08, donor4_CNhs13418_13029-139E5_reverse Regulation 
AdipocyteDifferentiationDay08Donor4_CNhs13418_tpm_fwd Tc:AdipoDiff_Day08D4+ Adipocyte differentiation, day08, donor4_CNhs13418_13029-139E5_forward Regulation 
AdipocyteDifferentiationDay08Donor3_CNhs13415_tpm_rev Tc:AdipoDiff_Day08D3- Adipocyte differentiation, day08, donor3_CNhs13415_13026-139E2_reverse Regulation 
AdipocyteDifferentiationDay08Donor3_CNhs13415_tpm_fwd Tc:AdipoDiff_Day08D3+ Adipocyte differentiation, day08, donor3_CNhs13415_13026-139E2_forward Regulation 
AdipocyteDifferentiationDay08Donor2_CNhs13411_tpm_rev Tc:AdipoDiff_Day08D2- Adipocyte differentiation, day08, donor2_CNhs13411_13023-139D8_reverse Regulation 
AdipocyteDifferentiationDay08Donor2_CNhs13411_tpm_fwd Tc:AdipoDiff_Day08D2+ Adipocyte differentiation, day08, donor2_CNhs13411_13023-139D8_forward Regulation 
AdipocyteDifferentiationDay08Donor1_CNhs12517_tpm_rev Tc:AdipoDiff_Day08D1- Adipocyte differentiation, day08, donor1_CNhs12517_13020-139D5_reverse Regulation 
AdipocyteDifferentiationDay08Donor1_CNhs12517_tpm_fwd Tc:AdipoDiff_Day08D1+ Adipocyte differentiation, day08, donor1_CNhs12517_13020-139D5_forward Regulation 
AdipocyteDifferentiationDay04Donor4_CNhs13417_tpm_rev Tc:AdipoDiff_Day04D4- Adipocyte differentiation, day04, donor4_CNhs13417_13028-139E4_reverse Regulation 
AdipocyteDifferentiationDay04Donor4_CNhs13417_tpm_fwd Tc:AdipoDiff_Day04D4+ Adipocyte differentiation, day04, donor4_CNhs13417_13028-139E4_forward Regulation 
AdipocyteDifferentiationDay04Donor3_CNhs13413_tpm_rev Tc:AdipoDiff_Day04D3- Adipocyte differentiation, day04, donor3_CNhs13413_13025-139E1_reverse Regulation 
AdipocyteDifferentiationDay04Donor3_CNhs13413_tpm_fwd Tc:AdipoDiff_Day04D3+ Adipocyte differentiation, day04, donor3_CNhs13413_13025-139E1_forward Regulation 
AdipocyteDifferentiationDay04Donor2_CNhs13410_tpm_rev Tc:AdipoDiff_Day04D2- Adipocyte differentiation, day04, donor2_CNhs13410_13022-139D7_reverse Regulation 
AdipocyteDifferentiationDay04Donor2_CNhs13410_tpm_fwd Tc:AdipoDiff_Day04D2+ Adipocyte differentiation, day04, donor2_CNhs13410_13022-139D7_forward Regulation 
AdipocyteDifferentiationDay04Donor1_CNhs12516_tpm_rev Tc:AdipoDiff_Day04D1- Adipocyte differentiation, day04, donor1_CNhs12516_13019-139D4_reverse Regulation 
AdipocyteDifferentiationDay04Donor1_CNhs12516_tpm_fwd Tc:AdipoDiff_Day04D1+ Adipocyte differentiation, day04, donor1_CNhs12516_13019-139D4_forward Regulation 
MyoblastDifferentiationToMyotubesDay12ControlDonor3_CNhs14585_tpm_rev MyoblastToMyotubes_Day12D3- Myoblast differentiation to myotubes, day12, control donor3_CNhs14585_13495-145C3_reverse Regulation 
MyoblastDifferentiationToMyotubesDay12DuchenneMuscularDystrophyDonor3_CNhs14613_tpm_rev MyoblastToMyotubes_Day12D3- Myoblast differentiation to myotubes, day12, Duchenne Muscular Dystrophy donor3_CNhs14613_13522-145F3_reverse Regulation 
MyoblastDifferentiationToMyotubesDay12ControlDonor3_CNhs14585_tpm_fwd MyoblastToMyotubes_Day12D3+ Myoblast differentiation to myotubes, day12, control donor3_CNhs14585_13495-145C3_forward Regulation 
MyoblastDifferentiationToMyotubesDay12DuchenneMuscularDystrophyDonor3_CNhs14613_tpm_fwd MyoblastToMyotubes_Day12D3+ Myoblast differentiation to myotubes, day12, Duchenne Muscular Dystrophy donor3_CNhs14613_13522-145F3_forward Regulation 
MyoblastDifferentiationToMyotubesDay12DuchenneMuscularDystrophyDonor2_CNhs14604_tpm_rev MyoblastToMyotubes_Day12D2- Myoblast differentiation to myotubes, day12, Duchenne Muscular Dystrophy donor2_CNhs14604_13513-145E3_reverse Regulation 
MyoblastDifferentiationToMyotubesDay12ControlDonor2_CNhs14576_tpm_rev MyoblastToMyotubes_Day12D2- Myoblast differentiation to myotubes, day12, control donor2_CNhs14576_13486-145B3_reverse Regulation 
MyoblastDifferentiationToMyotubesDay12DuchenneMuscularDystrophyDonor2_CNhs14604_tpm_fwd MyoblastToMyotubes_Day12D2+ Myoblast differentiation to myotubes, day12, Duchenne Muscular Dystrophy donor2_CNhs14604_13513-145E3_forward Regulation 
MyoblastDifferentiationToMyotubesDay12ControlDonor2_CNhs14576_tpm_fwd MyoblastToMyotubes_Day12D2+ Myoblast differentiation to myotubes, day12, control donor2_CNhs14576_13486-145B3_forward Regulation 
MyoblastDifferentiationToMyotubesDay12DuchenneMuscularDystrophyDonor1_CNhs14595_tpm_rev MyoblastToMyotubes_Day12D1- Myoblast differentiation to myotubes, day12, Duchenne Muscular Dystrophy donor1_CNhs14595_13504-145D3_reverse Regulation 
MyoblastDifferentiationToMyotubesDay12ControlDonor1_CNhs14566_tpm_rev MyoblastToMyotubes_Day12D1- Myoblast differentiation to myotubes, day12, control donor1_CNhs14566_13477-145A3_reverse Regulation 
MyoblastDifferentiationToMyotubesDay12DuchenneMuscularDystrophyDonor1_CNhs14595_tpm_fwd MyoblastToMyotubes_Day12D1+ Myoblast differentiation to myotubes, day12, Duchenne Muscular Dystrophy donor1_CNhs14595_13504-145D3_forward Regulation 
MyoblastDifferentiationToMyotubesDay12ControlDonor1_CNhs14566_tpm_fwd MyoblastToMyotubes_Day12D1+ Myoblast differentiation to myotubes, day12, control donor1_CNhs14566_13477-145A3_forward Regulation 
MyoblastDifferentiationToMyotubesDay10DuchenneMuscularDystrophyDonor3_CNhs14612_tpm_rev MyoblastToMyotubes_Day10D3- Myoblast differentiation to myotubes, day10, Duchenne Muscular Dystrophy donor3_CNhs14612_13521-145F2_reverse Regulation 
MyoblastDifferentiationToMyotubesDay10DuchenneMuscularDystrophyDonor3_CNhs14612_tpm_fwd MyoblastToMyotubes_Day10D3+ Myoblast differentiation to myotubes, day10, Duchenne Muscular Dystrophy donor3_CNhs14612_13521-145F2_forward Regulation 
MyoblastDifferentiationToMyotubesDay10DuchenneMuscularDystrophyDonor2_CNhs14603_tpm_rev MyoblastToMyotubes_Day10D2- Myoblast differentiation to myotubes, day10, Duchenne Muscular Dystrophy donor2_CNhs14603_13512-145E2_reverse Regulation 
MyoblastDifferentiationToMyotubesDay10ControlDonor2_CNhs14575_tpm_rev MyoblastToMyotubes_Day10D2- Myoblast differentiation to myotubes, day10, control donor2_CNhs14575_13485-145B2_reverse Regulation 
MyoblastDifferentiationToMyotubesDay10DuchenneMuscularDystrophyDonor2_CNhs14603_tpm_fwd MyoblastToMyotubes_Day10D2+ Myoblast differentiation to myotubes, day10, Duchenne Muscular Dystrophy donor2_CNhs14603_13512-145E2_forward Regulation 
MyoblastDifferentiationToMyotubesDay10ControlDonor2_CNhs14575_tpm_fwd MyoblastToMyotubes_Day10D2+ Myoblast differentiation to myotubes, day10, control donor2_CNhs14575_13485-145B2_forward Regulation 
MyoblastDifferentiationToMyotubesDay10ControlDonor1_CNhs13854_tpm_rev MyoblastToMyotubes_Day10D1- Myoblast differentiation to myotubes, day10, control donor1_CNhs13854_13476-145A2_reverse Regulation 
MyoblastDifferentiationToMyotubesDay10DuchenneMuscularDystrophyDonor1_CNhs14594_tpm_rev MyoblastToMyotubes_Day10D1- Myoblast differentiation to myotubes, day10, Duchenne Muscular Dystrophy donor1_CNhs14594_13503-145D2_reverse Regulation 
MyoblastDifferentiationToMyotubesDay10ControlDonor1_CNhs13854_tpm_fwd MyoblastToMyotubes_Day10D1+ Myoblast differentiation to myotubes, day10, control donor1_CNhs13854_13476-145A2_forward Regulation 
MyoblastDifferentiationToMyotubesDay10DuchenneMuscularDystrophyDonor1_CNhs14594_tpm_fwd MyoblastToMyotubes_Day10D1+ Myoblast differentiation to myotubes, day10, Duchenne Muscular Dystrophy donor1_CNhs14594_13503-145D2_forward Regulation 
MyoblastDifferentiationToMyotubesDay08DuchenneMuscularDystrophyDonor3_CNhs14611_tpm_rev MyoblastToMyotubes_Day08D3- Myoblast differentiation to myotubes, day08, Duchenne Muscular Dystrophy donor3_CNhs14611_13520-145F1_reverse Regulation 
MyoblastDifferentiationToMyotubesDay08ControlDonor3_CNhs14583_tpm_rev MyoblastToMyotubes_Day08D3- Myoblast differentiation to myotubes, day08, control donor3_CNhs14583_13493-145C1_reverse Regulation 
MyoblastDifferentiationToMyotubesDay08DuchenneMuscularDystrophyDonor3_CNhs14611_tpm_fwd MyoblastToMyotubes_Day08D3+ Myoblast differentiation to myotubes, day08, Duchenne Muscular Dystrophy donor3_CNhs14611_13520-145F1_forward Regulation 
MyoblastDifferentiationToMyotubesDay08ControlDonor3_CNhs14583_tpm_fwd MyoblastToMyotubes_Day08D3+ Myoblast differentiation to myotubes, day08, control donor3_CNhs14583_13493-145C1_forward Regulation 
MyoblastDifferentiationToMyotubesDay08DuchenneMuscularDystrophyDonor2_CNhs14602_tpm_rev MyoblastToMyotubes_Day08D2- Myoblast differentiation to myotubes, day08, Duchenne Muscular Dystrophy donor2_CNhs14602_13511-145E1_reverse Regulation 
MyoblastDifferentiationToMyotubesDay08ControlDonor2_CNhs14574_tpm_rev MyoblastToMyotubes_Day08D2- Myoblast differentiation to myotubes, day08, control donor2_CNhs14574_13484-145B1_reverse Regulation 
MyoblastDifferentiationToMyotubesDay08DuchenneMuscularDystrophyDonor2_CNhs14602_tpm_fwd MyoblastToMyotubes_Day08D2+ Myoblast differentiation to myotubes, day08, Duchenne Muscular Dystrophy donor2_CNhs14602_13511-145E1_forward Regulation 
MyoblastDifferentiationToMyotubesDay08ControlDonor2_CNhs14574_tpm_fwd MyoblastToMyotubes_Day08D2+ Myoblast differentiation to myotubes, day08, control donor2_CNhs14574_13484-145B1_forward Regulation 
MyoblastDifferentiationToMyotubesDay08ControlDonor1_CNhs13853_tpm_rev MyoblastToMyotubes_Day08D1- Myoblast differentiation to myotubes, day08, control donor1_CNhs13853_13475-145A1_reverse Regulation 
MyoblastDifferentiationToMyotubesDay08DuchenneMuscularDystrophyDonor1_CNhs14592_tpm_rev MyoblastToMyotubes_Day08D1- Myoblast differentiation to myotubes, day08, Duchenne Muscular Dystrophy donor1_CNhs14592_13502-145D1_reverse Regulation 
MyoblastDifferentiationToMyotubesDay08ControlDonor1_CNhs13853_tpm_fwd MyoblastToMyotubes_Day08D1+ Myoblast differentiation to myotubes, day08, control donor1_CNhs13853_13475-145A1_forward Regulation 
MyoblastDifferentiationToMyotubesDay08DuchenneMuscularDystrophyDonor1_CNhs14592_tpm_fwd MyoblastToMyotubes_Day08D1+ Myoblast differentiation to myotubes, day08, Duchenne Muscular Dystrophy donor1_CNhs14592_13502-145D1_forward Regulation 
MyoblastDifferentiationToMyotubesDay06DuchenneMuscularDystrophyDonor3_CNhs14610_tpm_rev MyoblastToMyotubes_Day06D3- Myoblast differentiation to myotubes, day06, Duchenne Muscular Dystrophy donor3_CNhs14610_13519-145E9_reverse Regulation 
MyoblastDifferentiationToMyotubesDay06ControlDonor3_CNhs14582_tpm_rev MyoblastToMyotubes_Day06D3- Myoblast differentiation to myotubes, day06, control donor3_CNhs14582_13492-145B9_reverse Regulation 
MyoblastDifferentiationToMyotubesDay06DuchenneMuscularDystrophyDonor3_CNhs14610_tpm_fwd MyoblastToMyotubes_Day06D3+ Myoblast differentiation to myotubes, day06, Duchenne Muscular Dystrophy donor3_CNhs14610_13519-145E9_forward Regulation 
MyoblastDifferentiationToMyotubesDay06ControlDonor3_CNhs14582_tpm_fwd MyoblastToMyotubes_Day06D3+ Myoblast differentiation to myotubes, day06, control donor3_CNhs14582_13492-145B9_forward Regulation 
MyoblastDifferentiationToMyotubesDay06ControlDonor2_CNhs14573_tpm_rev MyoblastToMyotubes_Day06D2- Myoblast differentiation to myotubes, day06, control donor2_CNhs14573_13483-145A9_reverse Regulation 
MyoblastDifferentiationToMyotubesDay06ControlDonor2_CNhs14573_tpm_fwd MyoblastToMyotubes_Day06D2+ Myoblast differentiation to myotubes, day06, control donor2_CNhs14573_13483-145A9_forward Regulation 
MyoblastDifferentiationToMyotubesDay06DuchenneMuscularDystrophyDonor1_CNhs14591_tpm_rev MyoblastToMyotubes_Day06D1- Myoblast differentiation to myotubes, day06, Duchenne Muscular Dystrophy donor1_CNhs14591_13501-145C9_reverse Regulation 
MyoblastDifferentiationToMyotubesDay06ControlDonor1_CNhs13852_tpm_rev MyoblastToMyotubes_Day06D1- Myoblast differentiation to myotubes, day06, control donor1_CNhs13852_13474-144I9_reverse Regulation 
MyoblastDifferentiationToMyotubesDay06DuchenneMuscularDystrophyDonor1_CNhs14591_tpm_fwd MyoblastToMyotubes_Day06D1+ Myoblast differentiation to myotubes, day06, Duchenne Muscular Dystrophy donor1_CNhs14591_13501-145C9_forward Regulation 
MyoblastDifferentiationToMyotubesDay06ControlDonor1_CNhs13852_tpm_fwd MyoblastToMyotubes_Day06D1+ Myoblast differentiation to myotubes, day06, control donor1_CNhs13852_13474-144I9_forward Regulation 
MyoblastDifferentiationToMyotubesDay04DuchenneMuscularDystrophyDonor3_CNhs14609_tpm_rev MyoblastToMyotubes_Day04D3- Myoblast differentiation to myotubes, day04, Duchenne Muscular Dystrophy donor3_CNhs14609_13518-145E8_reverse Regulation 
MyoblastDifferentiationToMyotubesDay04ControlDonor3_CNhs14581_tpm_rev MyoblastToMyotubes_Day04D3- Myoblast differentiation to myotubes, day04, control donor3_CNhs14581_13491-145B8_reverse Regulation 
MyoblastDifferentiationToMyotubesDay04DuchenneMuscularDystrophyDonor3_CNhs14609_tpm_fwd MyoblastToMyotubes_Day04D3+ Myoblast differentiation to myotubes, day04, Duchenne Muscular Dystrophy donor3_CNhs14609_13518-145E8_forward Regulation 
MyoblastDifferentiationToMyotubesDay04ControlDonor3_CNhs14581_tpm_fwd MyoblastToMyotubes_Day04D3+ Myoblast differentiation to myotubes, day04, control donor3_CNhs14581_13491-145B8_forward Regulation 
MyoblastDifferentiationToMyotubesDay04DuchenneMuscularDystrophyDonor2_CNhs14600_tpm_rev MyoblastToMyotubes_Day04D2- Myoblast differentiation to myotubes, day04, Duchenne Muscular Dystrophy donor2_CNhs14600_13509-145D8_reverse Regulation 
MyoblastDifferentiationToMyotubesDay04ControlDonor2_CNhs14572_tpm_rev MyoblastToMyotubes_Day04D2- Myoblast differentiation to myotubes, day04, control donor2_CNhs14572_13482-145A8_reverse Regulation 
MyoblastDifferentiationToMyotubesDay04DuchenneMuscularDystrophyDonor2_CNhs14600_tpm_fwd MyoblastToMyotubes_Day04D2+ Myoblast differentiation to myotubes, day04, Duchenne Muscular Dystrophy donor2_CNhs14600_13509-145D8_forward Regulation 
MyoblastDifferentiationToMyotubesDay04ControlDonor2_CNhs14572_tpm_fwd MyoblastToMyotubes_Day04D2+ Myoblast differentiation to myotubes, day04, control donor2_CNhs14572_13482-145A8_forward Regulation 
MyoblastDifferentiationToMyotubesDay04DuchenneMuscularDystrophyDonor1_CNhs14590_tpm_rev MyoblastToMyotubes_Day04D1- Myoblast differentiation to myotubes, day04, Duchenne Muscular Dystrophy donor1_CNhs14590_13500-145C8_reverse Regulation 
MyoblastDifferentiationToMyotubesDay04ControlDonor1_CNhs13851_tpm_rev MyoblastToMyotubes_Day04D1- Myoblast differentiation to myotubes, day04, control donor1_CNhs13851_13473-144I8_reverse Regulation 
MyoblastDifferentiationToMyotubesDay04DuchenneMuscularDystrophyDonor1_CNhs14590_tpm_fwd MyoblastToMyotubes_Day04D1+ Myoblast differentiation to myotubes, day04, Duchenne Muscular Dystrophy donor1_CNhs14590_13500-145C8_forward Regulation 
MyoblastDifferentiationToMyotubesDay04ControlDonor1_CNhs13851_tpm_fwd MyoblastToMyotubes_Day04D1+ Myoblast differentiation to myotubes, day04, control donor1_CNhs13851_13473-144I8_forward Regulation 
MyoblastDifferentiationToMyotubesDay03ControlDonor3_CNhs14580_tpm_rev MyoblastToMyotubes_Day03D3- Myoblast differentiation to myotubes, day03, control donor3_CNhs14580_13490-145B7_reverse Regulation 
MyoblastDifferentiationToMyotubesDay03ControlDonor3_CNhs14580_tpm_fwd MyoblastToMyotubes_Day03D3+ Myoblast differentiation to myotubes, day03, control donor3_CNhs14580_13490-145B7_forward Regulation 
MyoblastDifferentiationToMyotubesDay03DuchenneMuscularDystrophyDonor2_CNhs14599_tpm_rev MyoblastToMyotubes_Day03D2- Myoblast differentiation to myotubes, day03, Duchenne Muscular Dystrophy donor2_CNhs14599_13508-145D7_reverse Regulation 
MyoblastDifferentiationToMyotubesDay03ControlDonor2_CNhs14571_tpm_rev MyoblastToMyotubes_Day03D2- Myoblast differentiation to myotubes, day03, control donor2_CNhs14571_13481-145A7_reverse Regulation 
MyoblastDifferentiationToMyotubesDay03DuchenneMuscularDystrophyDonor2_CNhs14599_tpm_fwd MyoblastToMyotubes_Day03D2+ Myoblast differentiation to myotubes, day03, Duchenne Muscular Dystrophy donor2_CNhs14599_13508-145D7_forward Regulation 
MyoblastDifferentiationToMyotubesDay03ControlDonor2_CNhs14571_tpm_fwd MyoblastToMyotubes_Day03D2+ Myoblast differentiation to myotubes, day03, control donor2_CNhs14571_13481-145A7_forward Regulation 
MyoblastDifferentiationToMyotubesDay03ControlDonor1_CNhs13850_tpm_rev MyoblastToMyotubes_Day03D1- Myoblast differentiation to myotubes, day03, control donor1_CNhs13850_13472-144I7_reverse Regulation 
MyoblastDifferentiationToMyotubesDay03DuchenneMuscularDystrophyDonor1_CNhs14589_tpm_rev MyoblastToMyotubes_Day03D1- Myoblast differentiation to myotubes, day03, Duchenne Muscular Dystrophy donor1_CNhs14589_13499-145C7_reverse Regulation 
MyoblastDifferentiationToMyotubesDay03ControlDonor1_CNhs13850_tpm_fwd MyoblastToMyotubes_Day03D1+ Myoblast differentiation to myotubes, day03, control donor1_CNhs13850_13472-144I7_forward Regulation 
MyoblastDifferentiationToMyotubesDay03DuchenneMuscularDystrophyDonor1_CNhs14589_tpm_fwd MyoblastToMyotubes_Day03D1+ Myoblast differentiation to myotubes, day03, Duchenne Muscular Dystrophy donor1_CNhs14589_13499-145C7_forward Regulation 
MyoblastDifferentiationToMyotubesDay02ControlDonor3_CNhs14579_tpm_rev MyoblastToMyotubes_Day02D3- Myoblast differentiation to myotubes, day02, control donor3_CNhs14579_13489-145B6_reverse Regulation 
MyoblastDifferentiationToMyotubesDay02DuchenneMuscularDystrophyDonor3_CNhs14607_tpm_rev MyoblastToMyotubes_Day02D3- Myoblast differentiation to myotubes, day02, Duchenne Muscular Dystrophy donor3_CNhs14607_13516-145E6_reverse Regulation 
MyoblastDifferentiationToMyotubesDay02ControlDonor3_CNhs14579_tpm_fwd MyoblastToMyotubes_Day02D3+ Myoblast differentiation to myotubes, day02, control donor3_CNhs14579_13489-145B6_forward Regulation 
MyoblastDifferentiationToMyotubesDay02DuchenneMuscularDystrophyDonor3_CNhs14607_tpm_fwd MyoblastToMyotubes_Day02D3+ Myoblast differentiation to myotubes, day02, Duchenne Muscular Dystrophy donor3_CNhs14607_13516-145E6_forward Regulation 
MyoblastDifferentiationToMyotubesDay02DuchenneMuscularDystrophyDonor2_CNhs14598_tpm_rev MyoblastToMyotubes_Day02D2- Myoblast differentiation to myotubes, day02, Duchenne Muscular Dystrophy donor2_CNhs14598_13507-145D6_reverse Regulation 
MyoblastDifferentiationToMyotubesDay02ControlDonor2_CNhs14570_tpm_rev MyoblastToMyotubes_Day02D2- Myoblast differentiation to myotubes, day02, control donor2_CNhs14570_13480-145A6_reverse Regulation 
MyoblastDifferentiationToMyotubesDay02DuchenneMuscularDystrophyDonor2_CNhs14598_tpm_fwd MyoblastToMyotubes_Day02D2+ Myoblast differentiation to myotubes, day02, Duchenne Muscular Dystrophy donor2_CNhs14598_13507-145D6_forward Regulation 
MyoblastDifferentiationToMyotubesDay02ControlDonor2_CNhs14570_tpm_fwd MyoblastToMyotubes_Day02D2+ Myoblast differentiation to myotubes, day02, control donor2_CNhs14570_13480-145A6_forward Regulation 
MyoblastDifferentiationToMyotubesDay02DuchenneMuscularDystrophyDonor1_CNhs14588_tpm_rev MyoblastToMyotubes_Day02D1- Myoblast differentiation to myotubes, day02, Duchenne Muscular Dystrophy donor1_CNhs14588_13498-145C6_reverse Regulation 
MyoblastDifferentiationToMyotubesDay02ControlDonor1_CNhs13849_tpm_rev MyoblastToMyotubes_Day02D1- Myoblast differentiation to myotubes, day02, control donor1_CNhs13849_13471-144I6_reverse Regulation 
MyoblastDifferentiationToMyotubesDay02DuchenneMuscularDystrophyDonor1_CNhs14588_tpm_fwd MyoblastToMyotubes_Day02D1+ Myoblast differentiation to myotubes, day02, Duchenne Muscular Dystrophy donor1_CNhs14588_13498-145C6_forward Regulation 
MyoblastDifferentiationToMyotubesDay02ControlDonor1_CNhs13849_tpm_fwd MyoblastToMyotubes_Day02D1+ Myoblast differentiation to myotubes, day02, control donor1_CNhs13849_13471-144I6_forward Regulation 
MyoblastDifferentiationToMyotubesDay01DuchenneMuscularDystrophyDonor3_CNhs14606_tpm_rev MyoblastToMyotubes_Day01D3- Myoblast differentiation to myotubes, day01, Duchenne Muscular Dystrophy donor3_CNhs14606_13515-145E5_reverse Regulation 
MyoblastDifferentiationToMyotubesDay01ControlDonor3_CNhs14578_tpm_rev MyoblastToMyotubes_Day01D3- Myoblast differentiation to myotubes, day01, control donor3_CNhs14578_13488-145B5_reverse Regulation 
MyoblastDifferentiationToMyotubesDay01DuchenneMuscularDystrophyDonor3_CNhs14606_tpm_fwd MyoblastToMyotubes_Day01D3+ Myoblast differentiation to myotubes, day01, Duchenne Muscular Dystrophy donor3_CNhs14606_13515-145E5_forward Regulation 
MyoblastDifferentiationToMyotubesDay01ControlDonor3_CNhs14578_tpm_fwd MyoblastToMyotubes_Day01D3+ Myoblast differentiation to myotubes, day01, control donor3_CNhs14578_13488-145B5_forward Regulation 
MyoblastDifferentiationToMyotubesDay01DuchenneMuscularDystrophyDonor2_CNhs14597_tpm_rev MyoblastToMyotubes_Day01D2- Myoblast differentiation to myotubes, day01, Duchenne Muscular Dystrophy donor2_CNhs14597_13506-145D5_reverse Regulation 
MyoblastDifferentiationToMyotubesDay01DuchenneMuscularDystrophyDonor2_CNhs14597_tpm_fwd MyoblastToMyotubes_Day01D2+ Myoblast differentiation to myotubes, day01, Duchenne Muscular Dystrophy donor2_CNhs14597_13506-145D5_forward Regulation 
MyoblastDifferentiationToMyotubesDay01ControlDonor1_CNhs13848_tpm_rev MyoblastToMyotubes_Day01D1- Myoblast differentiation to myotubes, day01, control donor1_CNhs13848_13470-144I5_reverse Regulation 
MyoblastDifferentiationToMyotubesDay01DuchenneMuscularDystrophyDonor1_CNhs14587_tpm_rev MyoblastToMyotubes_Day01D1- Myoblast differentiation to myotubes, day01, Duchenne Muscular Dystrophy donor1_CNhs14587_13497-145C5_reverse Regulation 
MyoblastDifferentiationToMyotubesDay01ControlDonor1_CNhs13848_tpm_fwd MyoblastToMyotubes_Day01D1+ Myoblast differentiation to myotubes, day01, control donor1_CNhs13848_13470-144I5_forward Regulation 
MyoblastDifferentiationToMyotubesDay01DuchenneMuscularDystrophyDonor1_CNhs14587_tpm_fwd MyoblastToMyotubes_Day01D1+ Myoblast differentiation to myotubes, day01, Duchenne Muscular Dystrophy donor1_CNhs14587_13497-145C5_forward Regulation 
MyoblastDifferentiationToMyotubesDay00ControlDonor3_CNhs14577_tpm_rev MyoblastToMyotubes_Day00D3- Myoblast differentiation to myotubes, day00, control donor3_CNhs14577_13487-145B4_reverse Regulation 
MyoblastDifferentiationToMyotubesDay00DuchenneMuscularDystrophyDonor3_CNhs14605_tpm_rev MyoblastToMyotubes_Day00D3- Myoblast differentiation to myotubes, day00, Duchenne Muscular Dystrophy donor3_CNhs14605_13514-145E4_reverse Regulation 
MyoblastDifferentiationToMyotubesDay00ControlDonor3_CNhs14577_tpm_fwd MyoblastToMyotubes_Day00D3+ Myoblast differentiation to myotubes, day00, control donor3_CNhs14577_13487-145B4_forward Regulation 
MyoblastDifferentiationToMyotubesDay00DuchenneMuscularDystrophyDonor3_CNhs14605_tpm_fwd MyoblastToMyotubes_Day00D3+ Myoblast differentiation to myotubes, day00, Duchenne Muscular Dystrophy donor3_CNhs14605_13514-145E4_forward Regulation 
MyoblastDifferentiationToMyotubesDay00ControlDonor2_CNhs14567_tpm_rev MyoblastToMyotubes_Day00D2- Myoblast differentiation to myotubes, day00, control donor2_CNhs14567_13478-145A4_reverse Regulation 
MyoblastDifferentiationToMyotubesDay00DuchenneMuscularDystrophyDonor2_CNhs14596_tpm_rev MyoblastToMyotubes_Day00D2- Myoblast differentiation to myotubes, day00, Duchenne Muscular Dystrophy donor2_CNhs14596_13505-145D4_reverse Regulation 
MyoblastDifferentiationToMyotubesDay00ControlDonor2_CNhs14567_tpm_fwd MyoblastToMyotubes_Day00D2+ Myoblast differentiation to myotubes, day00, control donor2_CNhs14567_13478-145A4_forward Regulation 
MyoblastDifferentiationToMyotubesDay00DuchenneMuscularDystrophyDonor2_CNhs14596_tpm_fwd MyoblastToMyotubes_Day00D2+ Myoblast differentiation to myotubes, day00, Duchenne Muscular Dystrophy donor2_CNhs14596_13505-145D4_forward Regulation 
MyoblastDifferentiationToMyotubesDay00DuchenneMuscularDystrophyDonor1_CNhs14586_tpm_rev MyoblastToMyotubes_Day00D1- Myoblast differentiation to myotubes, day00, Duchenne Muscular Dystrophy donor1_CNhs14586_13496-145C4_reverse Regulation 
MyoblastDifferentiationToMyotubesDay00ControlDonor1_CNhs13847_tpm_rev MyoblastToMyotubes_Day00D1- Myoblast differentiation to myotubes, day00, control donor1_CNhs13847_13469-144I4_reverse Regulation 
MyoblastDifferentiationToMyotubesDay00DuchenneMuscularDystrophyDonor1_CNhs14586_tpm_fwd MyoblastToMyotubes_Day00D1+ Myoblast differentiation to myotubes, day00, Duchenne Muscular Dystrophy donor1_CNhs14586_13496-145C4_forward Regulation 
MyoblastDifferentiationToMyotubesDay00ControlDonor1_CNhs13847_tpm_fwd MyoblastToMyotubes_Day00D1+ Myoblast differentiation to myotubes, day00, control donor1_CNhs13847_13469-144I4_forward Regulation 
MonocytederivedMacrophagesResponseToLPS48hrDonor2T26Subject2_CNhs13405_tpm_rev Tc:MdmToLps_48hrD2- Monocyte-derived macrophages response to LPS, 48hr, donor2 (t26 Subject2)_CNhs13405_12821-136I4_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS48hrDonor2T26Subject2_CNhs13405_tpm_fwd Tc:MdmToLps_48hrD2+ Monocyte-derived macrophages response to LPS, 48hr, donor2 (t26 Subject2)_CNhs13405_12821-136I4_forward Regulation 
MonocytederivedMacrophagesResponseToLPS48hrDonor1T26Subject1_CNhs11942_tpm_rev Tc:MdmToLps_48hrD1- Monocyte-derived macrophages response to LPS, 48hr, donor1 (t26 Subject1)_CNhs11942_12723-135G5_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS48hrDonor1T26Subject1_CNhs11942_tpm_fwd Tc:MdmToLps_48hrD1+ Monocyte-derived macrophages response to LPS, 48hr, donor1 (t26 Subject1)_CNhs11942_12723-135G5_forward Regulation 
MonocytederivedMacrophagesResponseToLPS36hrDonor3T25Subject3_CNhs13335_tpm_rev Tc:MdmToLps_36hrD3- Monocyte-derived macrophages response to LPS, 36hr, donor3 (t25 Subject3)_CNhs13335_12918-138B2_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS36hrDonor3T25Subject3_CNhs13335_tpm_fwd Tc:MdmToLps_36hrD3+ Monocyte-derived macrophages response to LPS, 36hr, donor3 (t25 Subject3)_CNhs13335_12918-138B2_forward Regulation 
MonocytederivedMacrophagesResponseToLPS36hrDonor2T25Subject2_CNhs13404_tpm_rev Tc:MdmToLps_36hrD2- Monocyte-derived macrophages response to LPS, 36hr, donor2 (t25 Subject2)_CNhs13404_12820-136I3_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS36hrDonor2T25Subject2_CNhs13404_tpm_fwd Tc:MdmToLps_36hrD2+ Monocyte-derived macrophages response to LPS, 36hr, donor2 (t25 Subject2)_CNhs13404_12820-136I3_forward Regulation 
MonocytederivedMacrophagesResponseToLPS36hrDonor1T25Subject1_CNhs12933_tpm_rev Tc:MdmToLps_36hrD1- Monocyte-derived macrophages response to LPS, 36hr, donor1 (t25 Subject1)_CNhs12933_12722-135G4_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS36hrDonor1T25Subject1_CNhs12933_tpm_fwd Tc:MdmToLps_36hrD1+ Monocyte-derived macrophages response to LPS, 36hr, donor1 (t25 Subject1)_CNhs12933_12722-135G4_forward Regulation 
MonocytederivedMacrophagesResponseToLPS24hrDonor3T24Subject3_CNhs13334_tpm_rev Tc:MdmToLps_24hrD3- Monocyte-derived macrophages response to LPS, 24hr, donor3 (t24 Subject3)_CNhs13334_12917-138B1_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS24hrDonor3T24Subject3_CNhs13334_tpm_fwd Tc:MdmToLps_24hrD3+ Monocyte-derived macrophages response to LPS, 24hr, donor3 (t24 Subject3)_CNhs13334_12917-138B1_forward Regulation 
MonocytederivedMacrophagesResponseToLPS24hrDonor2T24Subject2_CNhs13403_tpm_rev Tc:MdmToLps_24hrD2- Monocyte-derived macrophages response to LPS, 24hr, donor2 (t24 Subject2)_CNhs13403_12819-136I2_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS24hrDonor2T24Subject2_CNhs13403_tpm_fwd Tc:MdmToLps_24hrD2+ Monocyte-derived macrophages response to LPS, 24hr, donor2 (t24 Subject2)_CNhs13403_12819-136I2_forward Regulation 
MonocytederivedMacrophagesResponseToLPS24hrDonor1T24Subject1_CNhs12932_tpm_rev Tc:MdmToLps_24hrD1- Monocyte-derived macrophages response to LPS, 24hr, donor1 (t24 Subject1)_CNhs12932_12721-135G3_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS24hrDonor1T24Subject1_CNhs12932_tpm_fwd Tc:MdmToLps_24hrD1+ Monocyte-derived macrophages response to LPS, 24hr, donor1 (t24 Subject1)_CNhs12932_12721-135G3_forward Regulation 
MonocytederivedMacrophagesResponseToLPS22hrDonor3T23Subject3_CNhs13333_tpm_rev Tc:MdmToLps_22hrD3- Monocyte-derived macrophages response to LPS, 22hr, donor3 (t23 Subject3)_CNhs13333_12916-138A9_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS22hrDonor3T23Subject3_CNhs13333_tpm_fwd Tc:MdmToLps_22hrD3+ Monocyte-derived macrophages response to LPS, 22hr, donor3 (t23 Subject3)_CNhs13333_12916-138A9_forward Regulation 
MonocytederivedMacrophagesResponseToLPS22hrDonor2T23Subject2_CNhs13402_tpm_rev Tc:MdmToLps_22hrD2- Monocyte-derived macrophages response to LPS, 22hr, donor2 (t23 Subject2)_CNhs13402_12818-136I1_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS22hrDonor2T23Subject2_CNhs13402_tpm_fwd Tc:MdmToLps_22hrD2+ Monocyte-derived macrophages response to LPS, 22hr, donor2 (t23 Subject2)_CNhs13402_12818-136I1_forward Regulation 
MonocytederivedMacrophagesResponseToLPS22hrDonor1T23Subject1_CNhs12815_tpm_rev Tc:MdmToLps_22hrD1- Monocyte-derived macrophages response to LPS, 22hr, donor1 (t23 Subject1)_CNhs12815_12720-135G2_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS22hrDonor1T23Subject1_CNhs12815_tpm_fwd Tc:MdmToLps_22hrD1+ Monocyte-derived macrophages response to LPS, 22hr, donor1 (t23 Subject1)_CNhs12815_12720-135G2_forward Regulation 
MonocytederivedMacrophagesResponseToLPS20hrDonor3T22Subject3_CNhs13332_tpm_rev Tc:MdmToLps_20hrD3- Monocyte-derived macrophages response to LPS, 20hr, donor3 (t22 Subject3)_CNhs13332_12915-138A8_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS20hrDonor3T22Subject3_CNhs13332_tpm_fwd Tc:MdmToLps_20hrD3+ Monocyte-derived macrophages response to LPS, 20hr, donor3 (t22 Subject3)_CNhs13332_12915-138A8_forward Regulation 
MonocytederivedMacrophagesResponseToLPS20hrDonor2T22Subject2_CNhs13401_tpm_rev Tc:MdmToLps_20hrD2- Monocyte-derived macrophages response to LPS, 20hr, donor2 (t22 Subject2)_CNhs13401_12817-136H9_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS20hrDonor2T22Subject2_CNhs13401_tpm_fwd Tc:MdmToLps_20hrD2+ Monocyte-derived macrophages response to LPS, 20hr, donor2 (t22 Subject2)_CNhs13401_12817-136H9_forward Regulation 
MonocytederivedMacrophagesResponseToLPS20hrDonor1T22Subject1_CNhs12931_tpm_rev Tc:MdmToLps_20hrD1- Monocyte-derived macrophages response to LPS, 20hr, donor1 (t22 Subject1)_CNhs12931_12719-135G1_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS20hrDonor1T22Subject1_CNhs12931_tpm_fwd Tc:MdmToLps_20hrD1+ Monocyte-derived macrophages response to LPS, 20hr, donor1 (t22 Subject1)_CNhs12931_12719-135G1_forward Regulation 
MonocytederivedMacrophagesResponseToLPS18hrDonor3T21Subject3_CNhs13331_tpm_rev Tc:MdmToLps_18hrD3- Monocyte-derived macrophages response to LPS, 18hr, donor3 (t21 Subject3)_CNhs13331_12914-138A7_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS18hrDonor3T21Subject3_CNhs13331_tpm_fwd Tc:MdmToLps_18hrD3+ Monocyte-derived macrophages response to LPS, 18hr, donor3 (t21 Subject3)_CNhs13331_12914-138A7_forward Regulation 
MonocytederivedMacrophagesResponseToLPS18hrDonor2T21Subject2_CNhs13400_tpm_rev Tc:MdmToLps_18hrD2- Monocyte-derived macrophages response to LPS, 18hr, donor2 (t21 Subject2)_CNhs13400_12816-136H8_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS18hrDonor2T21Subject2_CNhs13400_tpm_fwd Tc:MdmToLps_18hrD2+ Monocyte-derived macrophages response to LPS, 18hr, donor2 (t21 Subject2)_CNhs13400_12816-136H8_forward Regulation 
MonocytederivedMacrophagesResponseToLPS18hrDonor1T21Subject1_CNhs12814_tpm_rev Tc:MdmToLps_18hrD1- Monocyte-derived macrophages response to LPS, 18hr, donor1 (t21 Subject1)_CNhs12814_12718-135F9_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS18hrDonor1T21Subject1_CNhs12814_tpm_fwd Tc:MdmToLps_18hrD1+ Monocyte-derived macrophages response to LPS, 18hr, donor1 (t21 Subject1)_CNhs12814_12718-135F9_forward Regulation 
MonocytederivedMacrophagesResponseToLPS16hrDonor3T20Subject3_CNhs13330_tpm_rev Tc:MdmToLps_16hrD3- Monocyte-derived macrophages response to LPS, 16hr, donor3 (t20 Subject3)_CNhs13330_12913-138A6_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS16hrDonor3T20Subject3_CNhs13330_tpm_fwd Tc:MdmToLps_16hrD3+ Monocyte-derived macrophages response to LPS, 16hr, donor3 (t20 Subject3)_CNhs13330_12913-138A6_forward Regulation 
MonocytederivedMacrophagesResponseToLPS16hrDonor2T20Subject2_CNhs13399_tpm_rev Tc:MdmToLps_16hrD2- Monocyte-derived macrophages response to LPS, 16hr, donor2 (t20 Subject2)_CNhs13399_12815-136H7_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS16hrDonor2T20Subject2_CNhs13399_tpm_fwd Tc:MdmToLps_16hrD2+ Monocyte-derived macrophages response to LPS, 16hr, donor2 (t20 Subject2)_CNhs13399_12815-136H7_forward Regulation 
MonocytederivedMacrophagesResponseToLPS14hrDonor3T19Subject3_CNhs13329_tpm_rev Tc:MdmToLps_14hrD3- Monocyte-derived macrophages response to LPS, 14hr, donor3 (t19 Subject3)_CNhs13329_12912-138A5_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS14hrDonor3T19Subject3_CNhs13329_tpm_fwd Tc:MdmToLps_14hrD3+ Monocyte-derived macrophages response to LPS, 14hr, donor3 (t19 Subject3)_CNhs13329_12912-138A5_forward Regulation 
MonocytederivedMacrophagesResponseToLPS14hrDonor2T19Subject2_CNhs13398_tpm_rev Tc:MdmToLps_14hrD2- Monocyte-derived macrophages response to LPS, 14hr, donor2 (t19 Subject2)_CNhs13398_12814-136H6_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS14hrDonor2T19Subject2_CNhs13398_tpm_fwd Tc:MdmToLps_14hrD2+ Monocyte-derived macrophages response to LPS, 14hr, donor2 (t19 Subject2)_CNhs13398_12814-136H6_forward Regulation 
MonocytederivedMacrophagesResponseToLPS14hrDonor1T19Subject1_CNhs12929_tpm_rev Tc:MdmToLps_14hrD1- Monocyte-derived macrophages response to LPS, 14hr, donor1 (t19 Subject1)_CNhs12929_12716-135F7_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS14hrDonor1T19Subject1_CNhs12929_tpm_fwd Tc:MdmToLps_14hrD1+ Monocyte-derived macrophages response to LPS, 14hr, donor1 (t19 Subject1)_CNhs12929_12716-135F7_forward Regulation 
MonocytederivedMacrophagesResponseToLPS12hrDonor3T18Subject3_CNhs13328_tpm_rev Tc:MdmToLps_12hrD3- Monocyte-derived macrophages response to LPS, 12hr, donor3 (t18 Subject3)_CNhs13328_12911-138A4_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS12hrDonor3T18Subject3_CNhs13328_tpm_fwd Tc:MdmToLps_12hrD3+ Monocyte-derived macrophages response to LPS, 12hr, donor3 (t18 Subject3)_CNhs13328_12911-138A4_forward Regulation 
MonocytederivedMacrophagesResponseToLPS12hrDonor2T18Subject2_CNhs13397_tpm_rev Tc:MdmToLps_12hrD2- Monocyte-derived macrophages response to LPS, 12hr, donor2 (t18 Subject2)_CNhs13397_12813-136H5_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS12hrDonor2T18Subject2_CNhs13397_tpm_fwd Tc:MdmToLps_12hrD2+ Monocyte-derived macrophages response to LPS, 12hr, donor2 (t18 Subject2)_CNhs13397_12813-136H5_forward Regulation 
MonocytederivedMacrophagesResponseToLPS12hrDonor1T18Subject1_CNhs12813_tpm_rev Tc:MdmToLps_12hrD1- Monocyte-derived macrophages response to LPS, 12hr, donor1 (t18 Subject1)_CNhs12813_12715-135F6_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS12hrDonor1T18Subject1_CNhs12813_tpm_fwd Tc:MdmToLps_12hrD1+ Monocyte-derived macrophages response to LPS, 12hr, donor1 (t18 Subject1)_CNhs12813_12715-135F6_forward Regulation 
MonocytederivedMacrophagesResponseToLPS10hrDonor3T17Subject3_CNhs13327_tpm_rev Tc:MdmToLps_10hrD3- Monocyte-derived macrophages response to LPS, 10hr, donor3 (t17 Subject3)_CNhs13327_12910-138A3_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS10hrDonor3T17Subject3_CNhs13327_tpm_fwd Tc:MdmToLps_10hrD3+ Monocyte-derived macrophages response to LPS, 10hr, donor3 (t17 Subject3)_CNhs13327_12910-138A3_forward Regulation 
MonocytederivedMacrophagesResponseToLPS10hrDonor2T17Subject2_CNhs13396_tpm_rev Tc:MdmToLps_10hrD2- Monocyte-derived macrophages response to LPS, 10hr, donor2 (t17 Subject2)_CNhs13396_12812-136H4_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS10hrDonor2T17Subject2_CNhs13396_tpm_fwd Tc:MdmToLps_10hrD2+ Monocyte-derived macrophages response to LPS, 10hr, donor2 (t17 Subject2)_CNhs13396_12812-136H4_forward Regulation 
MonocytederivedMacrophagesResponseToLPS08hrDonor3T16Subject3_CNhs13326_tpm_rev Tc:MdmToLps_08hrD3- Monocyte-derived macrophages response to LPS, 08hr, donor3 (t16 Subject3)_CNhs13326_12909-138A2_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS08hrDonor3T16Subject3_CNhs13326_tpm_fwd Tc:MdmToLps_08hrD3+ Monocyte-derived macrophages response to LPS, 08hr, donor3 (t16 Subject3)_CNhs13326_12909-138A2_forward Regulation 
MonocytederivedMacrophagesResponseToLPS08hrDonor2T16Subject2_CNhs13395_tpm_rev Tc:MdmToLps_08hrD2- Monocyte-derived macrophages response to LPS, 08hr, donor2 (t16 Subject2)_CNhs13395_12811-136H3_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS08hrDonor2T16Subject2_CNhs13395_tpm_fwd Tc:MdmToLps_08hrD2+ Monocyte-derived macrophages response to LPS, 08hr, donor2 (t16 Subject2)_CNhs13395_12811-136H3_forward Regulation 
MonocytederivedMacrophagesResponseToLPS08hrDonor1T16Subject1_CNhs12927_tpm_rev Tc:MdmToLps_08hrD1- Monocyte-derived macrophages response to LPS, 08hr, donor1 (t16 Subject1)_CNhs12927_12713-135F4_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS08hrDonor1T16Subject1_CNhs12927_tpm_fwd Tc:MdmToLps_08hrD1+ Monocyte-derived macrophages response to LPS, 08hr, donor1 (t16 Subject1)_CNhs12927_12713-135F4_forward Regulation 
MonocytederivedMacrophagesResponseToLPS05hrDonor3T13Subject3_CNhs13186_tpm_rev Tc:MdmToLps_05hrD3- Monocyte-derived macrophages response to LPS, 05hr, donor3 (t13 Subject3)_CNhs13186_12906-137I8_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS05hrDonor3T13Subject3_CNhs13186_tpm_fwd Tc:MdmToLps_05hrD3+ Monocyte-derived macrophages response to LPS, 05hr, donor3 (t13 Subject3)_CNhs13186_12906-137I8_forward Regulation 
MonocytederivedMacrophagesResponseToLPS05hrDonor2T13Subject2_CNhs13392_tpm_rev Tc:MdmToLps_05hrD2- Monocyte-derived macrophages response to LPS, 05hr, donor2 (t13 Subject2)_CNhs13392_12808-136G9_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS05hrDonor2T13Subject2_CNhs13392_tpm_fwd Tc:MdmToLps_05hrD2+ Monocyte-derived macrophages response to LPS, 05hr, donor2 (t13 Subject2)_CNhs13392_12808-136G9_forward Regulation 
MonocytederivedMacrophagesResponseToLPS05hrDonor1T13Subject1_CNhs13155_tpm_rev Tc:MdmToLps_05hrD1- Monocyte-derived macrophages response to LPS, 05hr, donor1 (t13 Subject1)_CNhs13155_12710-135F1_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS05hrDonor1T13Subject1_CNhs13155_tpm_fwd Tc:MdmToLps_05hrD1+ Monocyte-derived macrophages response to LPS, 05hr, donor1 (t13 Subject1)_CNhs13155_12710-135F1_forward Regulation 
MonocytederivedMacrophagesResponseToLPS04hrDonor3T12Subject3_CNhs13185_tpm_rev Tc:MdmToLps_04hrD3- Monocyte-derived macrophages response to LPS, 04hr, donor3 (t12 Subject3)_CNhs13185_12905-137I7_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS04hrDonor3T12Subject3_CNhs13185_tpm_fwd Tc:MdmToLps_04hrD3+ Monocyte-derived macrophages response to LPS, 04hr, donor3 (t12 Subject3)_CNhs13185_12905-137I7_forward Regulation 
MonocytederivedMacrophagesResponseToLPS04hrDonor2T12Subject2_CNhs13391_tpm_rev Tc:MdmToLps_04hrD2- Monocyte-derived macrophages response to LPS, 04hr, donor2 (t12 Subject2)_CNhs13391_12807-136G8_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS04hrDonor2T12Subject2_CNhs13391_tpm_fwd Tc:MdmToLps_04hrD2+ Monocyte-derived macrophages response to LPS, 04hr, donor2 (t12 Subject2)_CNhs13391_12807-136G8_forward Regulation 
MonocytederivedMacrophagesResponseToLPS03hr30minDonor3T11Subject3_CNhs13184_tpm_rev Tc:MdmToLps_03hr30minD3- Monocyte-derived macrophages response to LPS, 03hr30min, donor3 (t11 Subject3)_CNhs13184_12904-137I6_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS03hr30minDonor3T11Subject3_CNhs13184_tpm_fwd Tc:MdmToLps_03hr30minD3+ Monocyte-derived macrophages response to LPS, 03hr30min, donor3 (t11 Subject3)_CNhs13184_12904-137I6_forward Regulation 
MonocytederivedMacrophagesResponseToLPS03hr30minDonor2T11Subject2_CNhs13389_tpm_rev Tc:MdmToLps_03hr30minD2- Monocyte-derived macrophages response to LPS, 03hr30min, donor2 (t11 Subject2)_CNhs13389_12806-136G7_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS03hr30minDonor2T11Subject2_CNhs13389_tpm_fwd Tc:MdmToLps_03hr30minD2+ Monocyte-derived macrophages response to LPS, 03hr30min, donor2 (t11 Subject2)_CNhs13389_12806-136G7_forward Regulation 
MonocytederivedMacrophagesResponseToLPS03hr00minDonor3T10Subject3_CNhs13183_tpm_rev Tc:MdmToLps_03hr00minD3- Monocyte-derived macrophages response to LPS, 03hr00min, donor3 (t10 Subject3)_CNhs13183_12903-137I5_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS03hr00minDonor3T10Subject3_CNhs13183_tpm_fwd Tc:MdmToLps_03hr00minD3+ Monocyte-derived macrophages response to LPS, 03hr00min, donor3 (t10 Subject3)_CNhs13183_12903-137I5_forward Regulation 
MonocytederivedMacrophagesResponseToLPS03hr00minDonor2T10Subject2_CNhs13388_tpm_rev Tc:MdmToLps_03hr00minD2- Monocyte-derived macrophages response to LPS, 03hr00min, donor2 (t10 Subject2)_CNhs13388_12805-136G6_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS03hr00minDonor2T10Subject2_CNhs13388_tpm_fwd Tc:MdmToLps_03hr00minD2+ Monocyte-derived macrophages response to LPS, 03hr00min, donor2 (t10 Subject2)_CNhs13388_12805-136G6_forward Regulation 
MonocytederivedMacrophagesResponseToLPS03hr00minDonor1T10Subject1_CNhs12924_tpm_rev Tc:MdmToLps_03hr00minD1- Monocyte-derived macrophages response to LPS, 03hr00min, donor1 (t10 Subject1)_CNhs12924_12707-135E7_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS03hr00minDonor1T10Subject1_CNhs12924_tpm_fwd Tc:MdmToLps_03hr00minD1+ Monocyte-derived macrophages response to LPS, 03hr00min, donor1 (t10 Subject1)_CNhs12924_12707-135E7_forward Regulation 
MonocytederivedMacrophagesResponseToLPS02hr30minDonor3T9Subject3_CNhs13182_tpm_rev Tc:MdmToLps_02hr30minD3- Monocyte-derived macrophages response to LPS, 02hr30min, donor3 (t9 Subject3)_CNhs13182_12902-137I4_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS02hr30minDonor3T9Subject3_CNhs13182_tpm_fwd Tc:MdmToLps_02hr30minD3+ Monocyte-derived macrophages response to LPS, 02hr30min, donor3 (t9 Subject3)_CNhs13182_12902-137I4_forward Regulation 
MonocytederivedMacrophagesResponseToLPS02hr30minDonor2T9Subject2_CNhs13387_tpm_rev Tc:MdmToLps_02hr30minD2- Monocyte-derived macrophages response to LPS, 02hr30min, donor2 (t9 Subject2)_CNhs13387_12804-136G5_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS02hr30minDonor2T9Subject2_CNhs13387_tpm_fwd Tc:MdmToLps_02hr30minD2+ Monocyte-derived macrophages response to LPS, 02hr30min, donor2 (t9 Subject2)_CNhs13387_12804-136G5_forward Regulation 
MonocytederivedMacrophagesResponseToLPS02hr30minDonor1T9Subject1_CNhs13152_tpm_rev Tc:MdmToLps_02hr30minD1- Monocyte-derived macrophages response to LPS, 02hr30min, donor1 (t9 Subject1)_CNhs13152_12706-135E6_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS02hr30minDonor1T9Subject1_CNhs13152_tpm_fwd Tc:MdmToLps_02hr30minD1+ Monocyte-derived macrophages response to LPS, 02hr30min, donor1 (t9 Subject1)_CNhs13152_12706-135E6_forward Regulation 
MonocytederivedMacrophagesResponseToLPS02hr00minDonor3T8Subject3_CNhs13181_tpm_rev Tc:MdmToLps_02hr00minD3- Monocyte-derived macrophages response to LPS, 02hr00min, donor3 (t8 Subject3)_CNhs13181_12901-137I3_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS02hr00minDonor3T8Subject3_CNhs13181_tpm_fwd Tc:MdmToLps_02hr00minD3+ Monocyte-derived macrophages response to LPS, 02hr00min, donor3 (t8 Subject3)_CNhs13181_12901-137I3_forward Regulation 
MonocytederivedMacrophagesResponseToLPS02hr00minDonor2T8Subject2_CNhs13386_tpm_rev Tc:MdmToLps_02hr00minD2- Monocyte-derived macrophages response to LPS, 02hr00min, donor2 (t8 Subject2)_CNhs13386_12803-136G4_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS02hr00minDonor2T8Subject2_CNhs13386_tpm_fwd Tc:MdmToLps_02hr00minD2+ Monocyte-derived macrophages response to LPS, 02hr00min, donor2 (t8 Subject2)_CNhs13386_12803-136G4_forward Regulation 
MonocytederivedMacrophagesResponseToLPS01hr20minDonor3T6Subject3_CNhs13179_tpm_rev Tc:MdmToLps_01hr20minD3- Monocyte-derived macrophages response to LPS, 01hr20min, donor3 (t6 Subject3)_CNhs13179_12899-137I1_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS01hr20minDonor3T6Subject3_CNhs13179_tpm_fwd Tc:MdmToLps_01hr20minD3+ Monocyte-derived macrophages response to LPS, 01hr20min, donor3 (t6 Subject3)_CNhs13179_12899-137I1_forward Regulation 
MonocytederivedMacrophagesResponseToLPS01hr20minDonor2T6Subject2_CNhs13384_tpm_rev Tc:MdmToLps_01hr20minD2- Monocyte-derived macrophages response to LPS, 01hr20min, donor2 (t6 Subject2)_CNhs13384_12801-136G2_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS01hr20minDonor2T6Subject2_CNhs13384_tpm_fwd Tc:MdmToLps_01hr20minD2+ Monocyte-derived macrophages response to LPS, 01hr20min, donor2 (t6 Subject2)_CNhs13384_12801-136G2_forward Regulation 
MonocytederivedMacrophagesResponseToLPS01hr00minDonor3T5Subject3_CNhs13178_tpm_rev Tc:MdmToLps_01hr00minD3- Monocyte-derived macrophages response to LPS, 01hr00min, donor3 (t5 Subject3)_CNhs13178_12898-137H9_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS01hr00minDonor3T5Subject3_CNhs13178_tpm_fwd Tc:MdmToLps_01hr00minD3+ Monocyte-derived macrophages response to LPS, 01hr00min, donor3 (t5 Subject3)_CNhs13178_12898-137H9_forward Regulation 
MonocytederivedMacrophagesResponseToLPS01hr00minDonor2T5Subject2_CNhs13383_tpm_rev Tc:MdmToLps_01hr00minD2- Monocyte-derived macrophages response to LPS, 01hr00min, donor2 (t5 Subject2)_CNhs13383_12800-136G1_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS01hr00minDonor2T5Subject2_CNhs13383_tpm_fwd Tc:MdmToLps_01hr00minD2+ Monocyte-derived macrophages response to LPS, 01hr00min, donor2 (t5 Subject2)_CNhs13383_12800-136G1_forward Regulation 
MonocytederivedMacrophagesResponseToLPS00hr45minDonor3T4Subject3_CNhs13177_tpm_rev Tc:MdmToLps_00hr45minD3- Monocyte-derived macrophages response to LPS, 00hr45min, donor3 (t4 Subject3)_CNhs13177_12897-137H8_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS00hr45minDonor3T4Subject3_CNhs13177_tpm_fwd Tc:MdmToLps_00hr45minD3+ Monocyte-derived macrophages response to LPS, 00hr45min, donor3 (t4 Subject3)_CNhs13177_12897-137H8_forward Regulation 
MonocytederivedMacrophagesResponseToLPS00hr45minDonor2T4Subject2_CNhs13382_tpm_rev Tc:MdmToLps_00hr45minD2- Monocyte-derived macrophages response to LPS, 00hr45min, donor2 (t4 Subject2)_CNhs13382_12799-136F9_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS00hr45minDonor2T4Subject2_CNhs13382_tpm_fwd Tc:MdmToLps_00hr45minD2+ Monocyte-derived macrophages response to LPS, 00hr45min, donor2 (t4 Subject2)_CNhs13382_12799-136F9_forward Regulation 
MonocytederivedMacrophagesResponseToLPS00hr30minDonor3T3Subject3_CNhs13176_tpm_rev Tc:MdmToLps_00hr30minD3- Monocyte-derived macrophages response to LPS, 00hr30min, donor3 (t3 Subject3)_CNhs13176_12896-137H7_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS00hr30minDonor3T3Subject3_CNhs13176_tpm_fwd Tc:MdmToLps_00hr30minD3+ Monocyte-derived macrophages response to LPS, 00hr30min, donor3 (t3 Subject3)_CNhs13176_12896-137H7_forward Regulation 
MonocytederivedMacrophagesResponseToLPS00hr30minDonor2T3Subject2_CNhs13381_tpm_rev Tc:MdmToLps_00hr30minD2- Monocyte-derived macrophages response to LPS, 00hr30min, donor2 (t3 Subject2)_CNhs13381_12798-136F8_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS00hr30minDonor2T3Subject2_CNhs13381_tpm_fwd Tc:MdmToLps_00hr30minD2+ Monocyte-derived macrophages response to LPS, 00hr30min, donor2 (t3 Subject2)_CNhs13381_12798-136F8_forward Regulation 
MonocytederivedMacrophagesResponseToLPS00hr15minDonor3T2Subject3_CNhs13175_tpm_rev Tc:MdmToLps_00hr15minD3- Monocyte-derived macrophages response to LPS, 00hr15min, donor3 (t2 Subject3)_CNhs13175_12895-137H6_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS00hr15minDonor3T2Subject3_CNhs13175_tpm_fwd Tc:MdmToLps_00hr15minD3+ Monocyte-derived macrophages response to LPS, 00hr15min, donor3 (t2 Subject3)_CNhs13175_12895-137H6_forward Regulation 
MonocytederivedMacrophagesResponseToLPS00hr15minDonor2T2Subject2_CNhs13380_tpm_rev Tc:MdmToLps_00hr15minD2- Monocyte-derived macrophages response to LPS, 00hr15min, donor2 (t2 Subject2)_CNhs13380_12797-136F7_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS00hr15minDonor2T2Subject2_CNhs13380_tpm_fwd Tc:MdmToLps_00hr15minD2+ Monocyte-derived macrophages response to LPS, 00hr15min, donor2 (t2 Subject2)_CNhs13380_12797-136F7_forward Regulation 
MonocytederivedMacrophagesResponseToLPS00hr00minDonor3T1Subject3_CNhs13174_tpm_rev Tc:MdmToLps_00hr00minD3- Monocyte-derived macrophages response to LPS, 00hr00min, donor3 (t1 Subject3)_CNhs13174_12894-137H5_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS00hr00minDonor3T1Subject3_CNhs13174_tpm_fwd Tc:MdmToLps_00hr00minD3+ Monocyte-derived macrophages response to LPS, 00hr00min, donor3 (t1 Subject3)_CNhs13174_12894-137H5_forward Regulation 
MonocytederivedMacrophagesResponseToLPS00hr00minDonor2T1Subject2_CNhs13379_tpm_rev Tc:MdmToLps_00hr00minD2- Monocyte-derived macrophages response to LPS, 00hr00min, donor2 (t1 Subject2)_CNhs13379_12796-136F6_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS00hr00minDonor2T1Subject2_CNhs13379_tpm_fwd Tc:MdmToLps_00hr00minD2+ Monocyte-derived macrophages response to LPS, 00hr00min, donor2 (t1 Subject2)_CNhs13379_12796-136F6_forward Regulation 
MonocytederivedMacrophagesResponseToLPS00hr00minDonor1T1Subject1_CNhs11941_tpm_rev Tc:MdmToLps_00hr00minD1- Monocyte-derived macrophages response to LPS, 00hr00min, donor1 (t1 Subject1)_CNhs11941_12698-135D7_reverse Regulation 
MonocytederivedMacrophagesResponseToLPS00hr00minDonor1T1Subject1_CNhs11941_tpm_fwd Tc:MdmToLps_00hr00minD1+ Monocyte-derived macrophages response to LPS, 00hr00min, donor1 (t1 Subject1)_CNhs11941_12698-135D7_forward Regulation 
MonocytederivedMacrophagesResponseToMockInfluenzaInfection24hr00minDonor4227_121MI_24h_CNhs13644_tpm_rev Tc:MdmToMock_24hr00minD4- Monocyte-derived macrophages response to mock influenza infection, 24hr00min, donor4 (227_121:MI_24h)_CNhs13644_13315-143A3_reverse Regulation 
MonocytederivedMacrophagesResponseToMockInfluenzaInfection24hr00minDonor4227_121MI_24h_CNhs13644_tpm_fwd Tc:MdmToMock_24hr00minD4+ Monocyte-derived macrophages response to mock influenza infection, 24hr00min, donor4 (227_121:MI_24h)_CNhs13644_13315-143A3_forward Regulation 
MonocytederivedMacrophagesResponseToMockInfluenzaInfection24hr00minDonor3536_119MI_24h_CNhs13652_tpm_rev Tc:MdmToMock_24hr00minD3- Monocyte-derived macrophages response to mock influenza infection, 24hr00min, donor3 (536_119:MI_24h)_CNhs13652_13327-143B6_reverse Regulation 
MonocytederivedMacrophagesResponseToMockInfluenzaInfection24hr00minDonor3536_119MI_24h_CNhs13652_tpm_fwd Tc:MdmToMock_24hr00minD3+ Monocyte-derived macrophages response to mock influenza infection, 24hr00min, donor3 (536_119:MI_24h)_CNhs13652_13327-143B6_forward Regulation 
MonocytederivedMacrophagesResponseToMockInfluenzaInfection24hr00minDonor2150_120MI_24h_CNhs13648_tpm_rev Tc:MdmToMock_24hr00minD2- Monocyte-derived macrophages response to mock influenza infection, 24hr00min, donor2 (150_120:MI_24h)_CNhs13648_13321-143A9_reverse Regulation 
MonocytederivedMacrophagesResponseToMockInfluenzaInfection24hr00minDonor2150_120MI_24h_CNhs13648_tpm_fwd Tc:MdmToMock_24hr00minD2+ Monocyte-derived macrophages response to mock influenza infection, 24hr00min, donor2 (150_120:MI_24h)_CNhs13648_13321-143A9_forward Regulation 
MonocytederivedMacrophagesResponseToMockInfluenzaInfection24hr00minDonor1868_121MI_24h_CNhs13693_tpm_rev Tc:MdmToMock_24hr00minD1- Monocyte-derived macrophages response to mock influenza infection, 24hr00min, donor1 (868_121:MI_24h)_CNhs13693_13309-142I6_reverse Regulation 
MonocytederivedMacrophagesResponseToMockInfluenzaInfection24hr00minDonor1868_121MI_24h_CNhs13693_tpm_fwd Tc:MdmToMock_24hr00minD1+ Monocyte-derived macrophages response to mock influenza infection, 24hr00min, donor1 (868_121:MI_24h)_CNhs13693_13309-142I6_forward Regulation 
MonocytederivedMacrophagesResponseToMockInfluenzaInfection00hr00minDonor4227_121MI_0h_CNhs13638_tpm_rev Tc:MdmToMock_00hr00minD4- Monocyte-derived macrophages response to mock influenza infection, 00hr00min, donor4 (227_121:MI_0h)_CNhs13638_13310-142I7_reverse Regulation 
MonocytederivedMacrophagesResponseToMockInfluenzaInfection00hr00minDonor4227_121MI_0h_CNhs13638_tpm_fwd Tc:MdmToMock_00hr00minD4+ Monocyte-derived macrophages response to mock influenza infection, 00hr00min, donor4 (227_121:MI_0h)_CNhs13638_13310-142I7_forward Regulation 
MonocytederivedMacrophagesResponseToMockInfluenzaInfection00hr00minDonor3536_119MI_0h_CNhs13649_tpm_rev Tc:MdmToMock_00hr00minD3- Monocyte-derived macrophages response to mock influenza infection, 00hr00min, donor3 (536_119:MI_0h)_CNhs13649_13322-143B1_reverse Regulation 
MonocytederivedMacrophagesResponseToMockInfluenzaInfection00hr00minDonor3536_119MI_0h_CNhs13649_tpm_fwd Tc:MdmToMock_00hr00minD3+ Monocyte-derived macrophages response to mock influenza infection, 00hr00min, donor3 (536_119:MI_0h)_CNhs13649_13322-143B1_forward Regulation 
MonocytederivedMacrophagesResponseToMockInfluenzaInfection00hr00minDonor2150_120MI_0h_CNhs13645_tpm_rev Tc:MdmToMock_00hr00minD2- Monocyte-derived macrophages response to mock influenza infection, 00hr00min, donor2 (150_120:MI_0h)_CNhs13645_13316-143A4_reverse Regulation 
MonocytederivedMacrophagesResponseToMockInfluenzaInfection00hr00minDonor2150_120MI_0h_CNhs13645_tpm_fwd Tc:MdmToMock_00hr00minD2+ Monocyte-derived macrophages response to mock influenza infection, 00hr00min, donor2 (150_120:MI_0h)_CNhs13645_13316-143A4_forward Regulation 
MonocytederivedMacrophagesResponseToUdornInfluenzaInfection24hr00minDonor3536_119Ud_24h_CNhs13562_tpm_rev MonocyteMacrophageUdornInfluenza_24hr00minD3- Monocyte-derived macrophages response to udorn influenza infection, 24hr00min, donor3 (536_119:Ud_24h)_CNhs13562_13326-143B5_reverse Regulation 
MonocytederivedMacrophagesResponseToUdornInfluenzaInfection24hr00minDonor3536_119Ud_24h_CNhs13562_tpm_fwd MonocyteMacrophageUdornInfluenza_24hr00minD3+ Monocyte-derived macrophages response to udorn influenza infection, 24hr00min, donor3 (536_119:Ud_24h)_CNhs13562_13326-143B5_forward Regulation 
MonocytederivedMacrophagesResponseToUdornInfluenzaInfection24hr00minDonor2150_120Ud_24h_CNhs13560_tpm_rev MonocyteMacrophageUdornInfluenza_24hr00minD2- Monocyte-derived macrophages response to udorn influenza infection, 24hr00min, donor2 (150_120:Ud_24h)_CNhs13560_13320-143A8_reverse Regulation 
MonocytederivedMacrophagesResponseToUdornInfluenzaInfection24hr00minDonor2150_120Ud_24h_CNhs13560_tpm_fwd MonocyteMacrophageUdornInfluenza_24hr00minD2+ Monocyte-derived macrophages response to udorn influenza infection, 24hr00min, donor2 (150_120:Ud_24h)_CNhs13560_13320-143A8_forward Regulation 
MonocytederivedMacrophagesResponseToUdornInfluenzaInfection24hr00minDonor1868_121Ud_24h_CNhs13557_tpm_rev MonocyteMacrophageUdornInfluenza_24hr00minD1- Monocyte-derived macrophages response to udorn influenza infection, 24hr00min, donor1 (868_121:Ud_24h)_CNhs13557_13308-142I5_reverse Regulation 
MonocytederivedMacrophagesResponseToUdornInfluenzaInfection24hr00minDonor1868_121Ud_24h_CNhs13557_tpm_fwd MonocyteMacrophageUdornInfluenza_24hr00minD1+ Monocyte-derived macrophages response to udorn influenza infection, 24hr00min, donor1 (868_121:Ud_24h)_CNhs13557_13308-142I5_forward Regulation 
MonocytederivedMacrophagesResponseToUdornInfluenzaInfection07hr00minDonor4227_121Ud_7h_CNhs13641_tpm_rev MonocyteMacrophageUdornInfluenza_07hr00minD4- Monocyte-derived macrophages response to udorn influenza infection, 07hr00min, donor4 (227_121:Ud_7h)_CNhs13641_13313-143A1_reverse Regulation 
MonocytederivedMacrophagesResponseToUdornInfluenzaInfection07hr00minDonor4227_121Ud_7h_CNhs13641_tpm_fwd MonocyteMacrophageUdornInfluenza_07hr00minD4+ Monocyte-derived macrophages response to udorn influenza infection, 07hr00min, donor4 (227_121:Ud_7h)_CNhs13641_13313-143A1_forward Regulation 
MonocytederivedMacrophagesResponseToUdornInfluenzaInfection07hr00minDonor3536_119Ud_7h_CNhs13561_tpm_rev MonocyteMacrophageUdornInfluenza_07hr00minD3- Monocyte-derived macrophages response to udorn influenza infection, 07hr00min, donor3 (536_119:Ud_7h)_CNhs13561_13325-143B4_reverse Regulation 
MonocytederivedMacrophagesResponseToUdornInfluenzaInfection07hr00minDonor3536_119Ud_7h_CNhs13561_tpm_fwd MonocyteMacrophageUdornInfluenza_07hr00minD3+ Monocyte-derived macrophages response to udorn influenza infection, 07hr00min, donor3 (536_119:Ud_7h)_CNhs13561_13325-143B4_forward Regulation 
MonocytederivedMacrophagesResponseToUdornInfluenzaInfection07hr00minDonor2150_120Ud_7h_CNhs13559_tpm_rev MonocyteMacrophageUdornInfluenza_07hr00minD2- Monocyte-derived macrophages response to udorn influenza infection, 07hr00min, donor2 (150_120:Ud_7h)_CNhs13559_13319-143A7_reverse Regulation 
MonocytederivedMacrophagesResponseToUdornInfluenzaInfection07hr00minDonor2150_120Ud_7h_CNhs13559_tpm_fwd MonocyteMacrophageUdornInfluenza_07hr00minD2+ Monocyte-derived macrophages response to udorn influenza infection, 07hr00min, donor2 (150_120:Ud_7h)_CNhs13559_13319-143A7_forward Regulation 
MonocytederivedMacrophagesResponseToUdornInfluenzaInfection07hr00minDonor1868_121Ud_7h_CNhs13556_tpm_rev MonocyteMacrophageUdornInfluenza_07hr00minD1- Monocyte-derived macrophages response to udorn influenza infection, 07hr00min, donor1 (868_121:Ud_7h)_CNhs13556_13307-142I4_reverse Regulation 
MonocytederivedMacrophagesResponseToUdornInfluenzaInfection07hr00minDonor1868_121Ud_7h_CNhs13556_tpm_fwd MonocyteMacrophageUdornInfluenza_07hr00minD1+ Monocyte-derived macrophages response to udorn influenza infection, 07hr00min, donor1 (868_121:Ud_7h)_CNhs13556_13307-142I4_forward Regulation 
MonocytederivedMacrophagesResponseToUdornInfluenzaInfection02hr00minDonor4227_121Ud_2h_CNhs13640_tpm_rev MonocyteMacrophageUdornInfluenza_02hr00minD4- Monocyte-derived macrophages response to udorn influenza infection, 02hr00min, donor4 (227_121:Ud_2h)_CNhs13640_13312-142I9_reverse Regulation 
MonocytederivedMacrophagesResponseToUdornInfluenzaInfection02hr00minDonor4227_121Ud_2h_CNhs13640_tpm_fwd MonocyteMacrophageUdornInfluenza_02hr00minD4+ Monocyte-derived macrophages response to udorn influenza infection, 02hr00min, donor4 (227_121:Ud_2h)_CNhs13640_13312-142I9_forward Regulation 
MonocytederivedMacrophagesResponseToUdornInfluenzaInfection02hr00minDonor3536_119Ud_2h_CNhs13651_tpm_rev MonocyteMacrophageUdornInfluenza_02hr00minD3- Monocyte-derived macrophages response to udorn influenza infection, 02hr00min, donor3 (536_119:Ud_2h)_CNhs13651_13324-143B3_reverse Regulation 
MonocytederivedMacrophagesResponseToUdornInfluenzaInfection02hr00minDonor3536_119Ud_2h_CNhs13651_tpm_fwd MonocyteMacrophageUdornInfluenza_02hr00minD3+ Monocyte-derived macrophages response to udorn influenza infection, 02hr00min, donor3 (536_119:Ud_2h)_CNhs13651_13324-143B3_forward Regulation 
MonocytederivedMacrophagesResponseToUdornInfluenzaInfection02hr00minDonor1868_121Ud_2h_CNhs13555_tpm_rev MonocyteMacrophageUdornInfluenza_02hr00minD1- Monocyte-derived macrophages response to udorn influenza infection, 02hr00min, donor1 (868_121:Ud_2h)_CNhs13555_13306-142I3_reverse Regulation 
MonocytederivedMacrophagesResponseToUdornInfluenzaInfection02hr00minDonor1868_121Ud_2h_CNhs13555_tpm_fwd MonocyteMacrophageUdornInfluenza_02hr00minD1+ Monocyte-derived macrophages response to udorn influenza infection, 02hr00min, donor1 (868_121:Ud_2h)_CNhs13555_13306-142I3_forward Regulation 
MonocytederivedMacrophagesResponseToUdornInfluenzaInfection00hr00minDonor4227_121Ud_0h_CNhs13639_tpm_rev MonocyteMacrophageUdornInfluenza_00hr00minD4- Monocyte-derived macrophages response to udorn influenza infection, 00hr00min, donor4 (227_121:Ud_0h)_CNhs13639_13311-142I8_reverse Regulation 
MonocytederivedMacrophagesResponseToUdornInfluenzaInfection00hr00minDonor4227_121Ud_0h_CNhs13639_tpm_fwd MonocyteMacrophageUdornInfluenza_00hr00minD4+ Monocyte-derived macrophages response to udorn influenza infection, 00hr00min, donor4 (227_121:Ud_0h)_CNhs13639_13311-142I8_forward Regulation 
MonocytederivedMacrophagesResponseToUdornInfluenzaInfection00hr00minDonor3536_119Ud_0h_CNhs13650_tpm_rev MonocyteMacrophageUdornInfluenza_00hr00minD3- Monocyte-derived macrophages response to udorn influenza infection, 00hr00min, donor3 (536_119:Ud_0h)_CNhs13650_13323-143B2_reverse Regulation 
MonocytederivedMacrophagesResponseToUdornInfluenzaInfection00hr00minDonor3536_119Ud_0h_CNhs13650_tpm_fwd MonocyteMacrophageUdornInfluenza_00hr00minD3+ Monocyte-derived macrophages response to udorn influenza infection, 00hr00min, donor3 (536_119:Ud_0h)_CNhs13650_13323-143B2_forward Regulation 
MonocytederivedMacrophagesResponseToUdornInfluenzaInfection00hr00minDonor2150_120Ud_0h_CNhs13646_tpm_rev MonocyteMacrophageUdornInfluenza_00hr00minD2- Monocyte-derived macrophages response to udorn influenza infection, 00hr00min, donor2 (150_120:Ud_0h)_CNhs13646_13317-143A5_reverse Regulation 
MonocytederivedMacrophagesResponseToUdornInfluenzaInfection00hr00minDonor2150_120Ud_0h_CNhs13646_tpm_fwd MonocyteMacrophageUdornInfluenza_00hr00minD2+ Monocyte-derived macrophages response to udorn influenza infection, 00hr00min, donor2 (150_120:Ud_0h)_CNhs13646_13317-143A5_forward Regulation 
MonocytederivedMacrophagesResponseToUdornInfluenzaInfection00hr00minDonor1868_121Ud_0h_CNhs13554_tpm_rev MonocyteMacrophageUdornInfluenza_00hr00minD1- Monocyte-derived macrophages response to udorn influenza infection, 00hr00min, donor1 (868_121:Ud_0h)_CNhs13554_13305-142I2_reverse Regulation 
MonocytederivedMacrophagesResponseToUdornInfluenzaInfection00hr00minDonor1868_121Ud_0h_CNhs13554_tpm_fwd MonocyteMacrophageUdornInfluenza_00hr00minD1+ Monocyte-derived macrophages response to udorn influenza infection, 00hr00min, donor1 (868_121:Ud_0h)_CNhs13554_13305-142I2_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay14BiolRep3_CNhs13632_tpm_rev MscAdipogenicInduction_Day14Br3- mesenchymal stem cells (adipose derived), adipogenic induction, day14, biol_rep3_CNhs13632_13279-142F3_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay14BiolRep3_CNhs13632_tpm_fwd MscAdipogenicInduction_Day14Br3+ mesenchymal stem cells (adipose derived), adipogenic induction, day14, biol_rep3_CNhs13632_13279-142F3_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay14BiolRep1_CNhs13338_tpm_rev MscAdipogenicInduction_Day14Br1- mesenchymal stem cells (adipose derived), adipogenic induction, day14, biol_rep1_CNhs13338_13277-142F1_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay14BiolRep1_CNhs13338_tpm_fwd MscAdipogenicInduction_Day14Br1+ mesenchymal stem cells (adipose derived), adipogenic induction, day14, biol_rep1_CNhs13338_13277-142F1_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay12BiolRep3_CNhs13630_tpm_rev MscAdipogenicInduction_Day12Br3- mesenchymal stem cells (adipose derived), adipogenic induction, day12, biol_rep3_CNhs13630_13276-142E9_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay12BiolRep3_CNhs13630_tpm_fwd MscAdipogenicInduction_Day12Br3+ mesenchymal stem cells (adipose derived), adipogenic induction, day12, biol_rep3_CNhs13630_13276-142E9_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay12BiolRep2_CNhs13629_tpm_rev MscAdipogenicInduction_Day12Br2- mesenchymal stem cells (adipose derived), adipogenic induction, day12, biol_rep2_CNhs13629_13275-142E8_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay12BiolRep2_CNhs13629_tpm_fwd MscAdipogenicInduction_Day12Br2+ mesenchymal stem cells (adipose derived), adipogenic induction, day12, biol_rep2_CNhs13629_13275-142E8_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay12BiolRep1_CNhs13628_tpm_rev MscAdipogenicInduction_Day12Br1- mesenchymal stem cells (adipose derived), adipogenic induction, day12, biol_rep1_CNhs13628_13274-142E7_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay12BiolRep1_CNhs13628_tpm_fwd MscAdipogenicInduction_Day12Br1+ mesenchymal stem cells (adipose derived), adipogenic induction, day12, biol_rep1_CNhs13628_13274-142E7_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay08BiolRep3_CNhs13627_tpm_rev MscAdipogenicInduction_Day08Br3- mesenchymal stem cells (adipose derived), adipogenic induction, day08, biol_rep3_CNhs13627_13273-142E6_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay08BiolRep3_CNhs13627_tpm_fwd MscAdipogenicInduction_Day08Br3+ mesenchymal stem cells (adipose derived), adipogenic induction, day08, biol_rep3_CNhs13627_13273-142E6_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay08BiolRep2_CNhs13626_tpm_rev MscAdipogenicInduction_Day08Br2- mesenchymal stem cells (adipose derived), adipogenic induction, day08, biol_rep2_CNhs13626_13272-142E5_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay08BiolRep2_CNhs13626_tpm_fwd MscAdipogenicInduction_Day08Br2+ mesenchymal stem cells (adipose derived), adipogenic induction, day08, biol_rep2_CNhs13626_13272-142E5_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay08BiolRep1_CNhs13625_tpm_rev MscAdipogenicInduction_Day08Br1- mesenchymal stem cells (adipose derived), adipogenic induction, day08, biol_rep1_CNhs13625_13271-142E4_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay08BiolRep1_CNhs13625_tpm_fwd MscAdipogenicInduction_Day08Br1+ mesenchymal stem cells (adipose derived), adipogenic induction, day08, biol_rep1_CNhs13625_13271-142E4_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay04BiolRep3_CNhs13624_tpm_rev MscAdipogenicInduction_Day04Br3- mesenchymal stem cells (adipose derived), adipogenic induction, day04, biol_rep3_CNhs13624_13270-142E3_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay04BiolRep3_CNhs13624_tpm_fwd MscAdipogenicInduction_Day04Br3+ mesenchymal stem cells (adipose derived), adipogenic induction, day04, biol_rep3_CNhs13624_13270-142E3_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay04BiolRep1_CNhs13622_tpm_rev MscAdipogenicInduction_Day04Br1- mesenchymal stem cells (adipose derived), adipogenic induction, day04, biol_rep1_CNhs13622_13268-142E1_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay04BiolRep1_CNhs13622_tpm_fwd MscAdipogenicInduction_Day04Br1+ mesenchymal stem cells (adipose derived), adipogenic induction, day04, biol_rep1_CNhs13622_13268-142E1_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay02BiolRep3_CNhs13621_tpm_rev MscAdipogenicInduction_Day02Br3- mesenchymal stem cells (adipose derived), adipogenic induction, day02, biol_rep3_CNhs13621_13267-142D9_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay02BiolRep3_CNhs13621_tpm_fwd MscAdipogenicInduction_Day02Br3+ mesenchymal stem cells (adipose derived), adipogenic induction, day02, biol_rep3_CNhs13621_13267-142D9_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay02BiolRep2_CNhs13620_tpm_rev MscAdipogenicInduction_Day02Br2- mesenchymal stem cells (adipose derived), adipogenic induction, day02, biol_rep2_CNhs13620_13266-142D8_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay02BiolRep2_CNhs13620_tpm_fwd MscAdipogenicInduction_Day02Br2+ mesenchymal stem cells (adipose derived), adipogenic induction, day02, biol_rep2_CNhs13620_13266-142D8_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay02BiolRep1_CNhs13619_tpm_rev MscAdipogenicInduction_Day02Br1- mesenchymal stem cells (adipose derived), adipogenic induction, day02, biol_rep1_CNhs13619_13265-142D7_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay02BiolRep1_CNhs13619_tpm_fwd MscAdipogenicInduction_Day02Br1+ mesenchymal stem cells (adipose derived), adipogenic induction, day02, biol_rep1_CNhs13619_13265-142D7_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay01BiolRep3_CNhs13617_tpm_rev MscAdipogenicInduction_Day01Br3- mesenchymal stem cells (adipose derived), adipogenic induction, day01, biol_rep3_CNhs13617_13264-142D6_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay01BiolRep3_CNhs13617_tpm_fwd MscAdipogenicInduction_Day01Br3+ mesenchymal stem cells (adipose derived), adipogenic induction, day01, biol_rep3_CNhs13617_13264-142D6_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay01BiolRep2_CNhs13616_tpm_rev MscAdipogenicInduction_Day01Br2- mesenchymal stem cells (adipose derived), adipogenic induction, day01, biol_rep2_CNhs13616_13263-142D5_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInductionDay01BiolRep2_CNhs13616_tpm_fwd MscAdipogenicInduction_Day01Br2+ mesenchymal stem cells (adipose derived), adipogenic induction, day01, biol_rep2_CNhs13616_13263-142D5_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction03hr00minBiolRep3_CNhs13611_tpm_rev MscAdipogenicInduction_03hr00minBr3- mesenchymal stem cells (adipose derived), adipogenic induction, 03hr00min, biol_rep3_CNhs13611_13258-142C9_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction03hr00minBiolRep3_CNhs13611_tpm_fwd MscAdipogenicInduction_03hr00minBr3+ mesenchymal stem cells (adipose derived), adipogenic induction, 03hr00min, biol_rep3_CNhs13611_13258-142C9_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction03hr00minBiolRep1_CNhs13609_tpm_rev MscAdipogenicInduction_03hr00minBr1- mesenchymal stem cells (adipose derived), adipogenic induction, 03hr00min, biol_rep1_CNhs13609_13256-142C7_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction03hr00minBiolRep1_CNhs13609_tpm_fwd MscAdipogenicInduction_03hr00minBr1+ mesenchymal stem cells (adipose derived), adipogenic induction, 03hr00min, biol_rep1_CNhs13609_13256-142C7_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction02hr30minBiolRep3_CNhs13608_tpm_rev MscAdipogenicInduction_02hr30minBr3- mesenchymal stem cells (adipose derived), adipogenic induction, 02hr30min, biol_rep3_CNhs13608_13255-142C6_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction02hr30minBiolRep3_CNhs13608_tpm_fwd MscAdipogenicInduction_02hr30minBr3+ mesenchymal stem cells (adipose derived), adipogenic induction, 02hr30min, biol_rep3_CNhs13608_13255-142C6_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction02hr30minBiolRep1_CNhs13606_tpm_rev MscAdipogenicInduction_02hr30minBr1- mesenchymal stem cells (adipose derived), adipogenic induction, 02hr30min, biol_rep1_CNhs13606_13253-142C4_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction02hr30minBiolRep1_CNhs13606_tpm_fwd MscAdipogenicInduction_02hr30minBr1+ mesenchymal stem cells (adipose derived), adipogenic induction, 02hr30min, biol_rep1_CNhs13606_13253-142C4_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction02hr00minBiolRep2_CNhs13604_tpm_rev MscAdipogenicInduction_02hr00minBr2- mesenchymal stem cells (adipose derived), adipogenic induction, 02hr00min, biol_rep2_CNhs13604_13251-142C2_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction02hr00minBiolRep2_CNhs13604_tpm_fwd MscAdipogenicInduction_02hr00minBr2+ mesenchymal stem cells (adipose derived), adipogenic induction, 02hr00min, biol_rep2_CNhs13604_13251-142C2_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction02hr00minBiolRep1_CNhs13603_tpm_rev MscAdipogenicInduction_02hr00minBr1- mesenchymal stem cells (adipose derived), adipogenic induction, 02hr00min, biol_rep1_CNhs13603_13250-142C1_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction02hr00minBiolRep1_CNhs13603_tpm_fwd MscAdipogenicInduction_02hr00minBr1+ mesenchymal stem cells (adipose derived), adipogenic induction, 02hr00min, biol_rep1_CNhs13603_13250-142C1_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction01hr40minBiolRep3_CNhs13602_tpm_rev MscAdipogenicInduction_01hr40minBr3- mesenchymal stem cells (adipose derived), adipogenic induction, 01hr40min, biol_rep3_CNhs13602_13249-142B9_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction01hr40minBiolRep3_CNhs13602_tpm_fwd MscAdipogenicInduction_01hr40minBr3+ mesenchymal stem cells (adipose derived), adipogenic induction, 01hr40min, biol_rep3_CNhs13602_13249-142B9_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction01hr40minBiolRep2_CNhs13601_tpm_rev MscAdipogenicInduction_01hr40minBr2- mesenchymal stem cells (adipose derived), adipogenic induction, 01hr40min, biol_rep2_CNhs13601_13248-142B8_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction01hr40minBiolRep2_CNhs13601_tpm_fwd MscAdipogenicInduction_01hr40minBr2+ mesenchymal stem cells (adipose derived), adipogenic induction, 01hr40min, biol_rep2_CNhs13601_13248-142B8_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction01hr40minBiolRep1_CNhs13600_tpm_rev MscAdipogenicInduction_01hr40minBr1- mesenchymal stem cells (adipose derived), adipogenic induction, 01hr40min, biol_rep1_CNhs13600_13247-142B7_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction01hr40minBiolRep1_CNhs13600_tpm_fwd MscAdipogenicInduction_01hr40minBr1+ mesenchymal stem cells (adipose derived), adipogenic induction, 01hr40min, biol_rep1_CNhs13600_13247-142B7_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction01hr00minBiolRep3_CNhs13433_tpm_rev MscAdipogenicInduction_01hr00minBr3- mesenchymal stem cells (adipose derived), adipogenic induction, 01hr00min, biol_rep3_CNhs13433_13243-142B3_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction01hr00minBiolRep3_CNhs13433_tpm_fwd MscAdipogenicInduction_01hr00minBr3+ mesenchymal stem cells (adipose derived), adipogenic induction, 01hr00min, biol_rep3_CNhs13433_13243-142B3_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction01hr00minBiolRep2_CNhs13432_tpm_rev MscAdipogenicInduction_01hr00minBr2- mesenchymal stem cells (adipose derived), adipogenic induction, 01hr00min, biol_rep2_CNhs13432_13242-142B2_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction01hr00minBiolRep2_CNhs13432_tpm_fwd MscAdipogenicInduction_01hr00minBr2+ mesenchymal stem cells (adipose derived), adipogenic induction, 01hr00min, biol_rep2_CNhs13432_13242-142B2_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction01hr00minBiolRep1_CNhs13431_tpm_rev MscAdipogenicInduction_01hr00minBr1- mesenchymal stem cells (adipose derived), adipogenic induction, 01hr00min, biol_rep1_CNhs13431_13241-142B1_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction01hr00minBiolRep1_CNhs13431_tpm_fwd MscAdipogenicInduction_01hr00minBr1+ mesenchymal stem cells (adipose derived), adipogenic induction, 01hr00min, biol_rep1_CNhs13431_13241-142B1_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction00hr45minBiolRep3_CNhs13430_tpm_rev MscAdipogenicInduction_00hr45minBr3- mesenchymal stem cells (adipose derived), adipogenic induction, 00hr45min, biol_rep3_CNhs13430_13240-142A9_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction00hr45minBiolRep3_CNhs13430_tpm_fwd MscAdipogenicInduction_00hr45minBr3+ mesenchymal stem cells (adipose derived), adipogenic induction, 00hr45min, biol_rep3_CNhs13430_13240-142A9_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction00hr45minBiolRep2_CNhs13429_tpm_rev MscAdipogenicInduction_00hr45minBr2- mesenchymal stem cells (adipose derived), adipogenic induction, 00hr45min, biol_rep2_CNhs13429_13239-142A8_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction00hr45minBiolRep2_CNhs13429_tpm_fwd MscAdipogenicInduction_00hr45minBr2+ mesenchymal stem cells (adipose derived), adipogenic induction, 00hr45min, biol_rep2_CNhs13429_13239-142A8_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction00hr45minBiolRep1_CNhs13428_tpm_rev MscAdipogenicInduction_00hr45minBr1- mesenchymal stem cells (adipose derived), adipogenic induction, 00hr45min, biol_rep1_CNhs13428_13238-142A7_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction00hr45minBiolRep1_CNhs13428_tpm_fwd MscAdipogenicInduction_00hr45minBr1+ mesenchymal stem cells (adipose derived), adipogenic induction, 00hr45min, biol_rep1_CNhs13428_13238-142A7_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction00hr30minBiolRep2_CNhs13426_tpm_rev MscAdipogenicInduction_00hr30minBr2- mesenchymal stem cells (adipose derived), adipogenic induction, 00hr30min, biol_rep2_CNhs13426_13236-142A5_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction00hr30minBiolRep2_CNhs13426_tpm_fwd MscAdipogenicInduction_00hr30minBr2+ mesenchymal stem cells (adipose derived), adipogenic induction, 00hr30min, biol_rep2_CNhs13426_13236-142A5_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction00hr30minBiolRep1_CNhs13425_tpm_rev MscAdipogenicInduction_00hr30minBr1- mesenchymal stem cells (adipose derived), adipogenic induction, 00hr30min, biol_rep1_CNhs13425_13235-142A4_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction00hr30minBiolRep1_CNhs13425_tpm_fwd MscAdipogenicInduction_00hr30minBr1+ mesenchymal stem cells (adipose derived), adipogenic induction, 00hr30min, biol_rep1_CNhs13425_13235-142A4_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction00hr15minBiolRep3_CNhs13424_tpm_rev MscAdipogenicInduction_00hr15minBr3- mesenchymal stem cells (adipose derived), adipogenic induction, 00hr15min, biol_rep3_CNhs13424_13234-142A3_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction00hr15minBiolRep3_CNhs13424_tpm_fwd MscAdipogenicInduction_00hr15minBr3+ mesenchymal stem cells (adipose derived), adipogenic induction, 00hr15min, biol_rep3_CNhs13424_13234-142A3_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction00hr15minBiolRep2_CNhs13423_tpm_rev MscAdipogenicInduction_00hr15minBr2- mesenchymal stem cells (adipose derived), adipogenic induction, 00hr15min, biol_rep2_CNhs13423_13233-142A2_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction00hr15minBiolRep2_CNhs13423_tpm_fwd MscAdipogenicInduction_00hr15minBr2+ mesenchymal stem cells (adipose derived), adipogenic induction, 00hr15min, biol_rep2_CNhs13423_13233-142A2_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction00hr15minBiolRep1_CNhs13422_tpm_rev MscAdipogenicInduction_00hr15minBr1- mesenchymal stem cells (adipose derived), adipogenic induction, 00hr15min, biol_rep1_CNhs13422_13232-142A1_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction00hr15minBiolRep1_CNhs13422_tpm_fwd MscAdipogenicInduction_00hr15minBr1+ mesenchymal stem cells (adipose derived), adipogenic induction, 00hr15min, biol_rep1_CNhs13422_13232-142A1_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction00hr00minBiolRep3_CNhs13421_tpm_rev MscAdipogenicInduction_00hr00minBr3- mesenchymal stem cells (adipose derived), adipogenic induction, 00hr00min, biol_rep3_CNhs13421_13231-141I9_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction00hr00minBiolRep3_CNhs13421_tpm_fwd MscAdipogenicInduction_00hr00minBr3+ mesenchymal stem cells (adipose derived), adipogenic induction, 00hr00min, biol_rep3_CNhs13421_13231-141I9_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction00hr00minBiolRep2_CNhs13420_tpm_rev MscAdipogenicInduction_00hr00minBr2- mesenchymal stem cells (adipose derived), adipogenic induction, 00hr00min, biol_rep2_CNhs13420_13230-141I8_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction00hr00minBiolRep2_CNhs13420_tpm_fwd MscAdipogenicInduction_00hr00minBr2+ mesenchymal stem cells (adipose derived), adipogenic induction, 00hr00min, biol_rep2_CNhs13420_13230-141I8_forward Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction00hr00minBiolRep1_CNhs13337_tpm_rev MscAdipogenicInduction_00hr00minBr1- mesenchymal stem cells (adipose derived), adipogenic induction, 00hr00min, biol_rep1_CNhs13337_13229-141I7_reverse Regulation 
MesenchymalStemCellsAdiposeDerivedAdipogenicInduction00hr00minBiolRep1_CNhs13337_tpm_fwd MscAdipogenicInduction_00hr00minBr1+ mesenchymal stem cells (adipose derived), adipogenic induction, 00hr00min, biol_rep1_CNhs13337_13229-141I7_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG08hrBiolRep3_CNhs12768_tpm_rev Tc:Mcf7ToHrg_08hrBr3- MCF7 breast cancer cell line response to HRG, 08hr, biol_rep3_CNhs12768_13194-141E8_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG08hrBiolRep3_CNhs12768_tpm_fwd Tc:Mcf7ToHrg_08hrBr3+ MCF7 breast cancer cell line response to HRG, 08hr, biol_rep3_CNhs12768_13194-141E8_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG08hrBiolRep2_CNhs12667_tpm_rev Tc:Mcf7ToHrg_08hrBr2- MCF7 breast cancer cell line response to HRG, 08hr, biol_rep2_CNhs12667_13128-140G5_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG08hrBiolRep2_CNhs12667_tpm_fwd Tc:Mcf7ToHrg_08hrBr2+ MCF7 breast cancer cell line response to HRG, 08hr, biol_rep2_CNhs12667_13128-140G5_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG08hrBiolRep1_CNhs12740_tpm_rev Tc:Mcf7ToHrg_08hrBr1- MCF7 breast cancer cell line response to HRG, 08hr, biol_rep1_CNhs12740_13062-139I2_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG08hrBiolRep1_CNhs12740_tpm_fwd Tc:Mcf7ToHrg_08hrBr1+ MCF7 breast cancer cell line response to HRG, 08hr, biol_rep1_CNhs12740_13062-139I2_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG07hrBiolRep3_CNhs12767_tpm_rev Tc:Mcf7ToHrg_07hrBr3- MCF7 breast cancer cell line response to HRG, 07hr, biol_rep3_CNhs12767_13193-141E7_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG07hrBiolRep3_CNhs12767_tpm_fwd Tc:Mcf7ToHrg_07hrBr3+ MCF7 breast cancer cell line response to HRG, 07hr, biol_rep3_CNhs12767_13193-141E7_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG07hrBiolRep2_CNhs12666_tpm_rev Tc:Mcf7ToHrg_07hrBr2- MCF7 breast cancer cell line response to HRG, 07hr, biol_rep2_CNhs12666_13127-140G4_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG07hrBiolRep2_CNhs12666_tpm_fwd Tc:Mcf7ToHrg_07hrBr2+ MCF7 breast cancer cell line response to HRG, 07hr, biol_rep2_CNhs12666_13127-140G4_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG07hrBiolRep1_CNhs12448_tpm_rev Tc:Mcf7ToHrg_07hrBr1- MCF7 breast cancer cell line response to HRG, 07hr, biol_rep1_CNhs12448_13061-139I1_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG07hrBiolRep1_CNhs12448_tpm_fwd Tc:Mcf7ToHrg_07hrBr1+ MCF7 breast cancer cell line response to HRG, 07hr, biol_rep1_CNhs12448_13061-139I1_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG06hrBiolRep3_CNhs12766_tpm_rev Tc:Mcf7ToHrg_06hrBr3- MCF7 breast cancer cell line response to HRG, 06hr, biol_rep3_CNhs12766_13192-141E6_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG06hrBiolRep3_CNhs12766_tpm_fwd Tc:Mcf7ToHrg_06hrBr3+ MCF7 breast cancer cell line response to HRG, 06hr, biol_rep3_CNhs12766_13192-141E6_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG06hrBiolRep2_CNhs12665_tpm_rev Tc:Mcf7ToHrg_06hrBr2- MCF7 breast cancer cell line response to HRG, 06hr, biol_rep2_CNhs12665_13126-140G3_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG06hrBiolRep2_CNhs12665_tpm_fwd Tc:Mcf7ToHrg_06hrBr2+ MCF7 breast cancer cell line response to HRG, 06hr, biol_rep2_CNhs12665_13126-140G3_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG06hrBiolRep1_CNhs12447_tpm_rev Tc:Mcf7ToHrg_06hrBr1- MCF7 breast cancer cell line response to HRG, 06hr, biol_rep1_CNhs12447_13060-139H9_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG06hrBiolRep1_CNhs12447_tpm_fwd Tc:Mcf7ToHrg_06hrBr1+ MCF7 breast cancer cell line response to HRG, 06hr, biol_rep1_CNhs12447_13060-139H9_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG05hrBiolRep3_CNhs12765_tpm_rev Tc:Mcf7ToHrg_05hrBr3- MCF7 breast cancer cell line response to HRG, 05hr, biol_rep3_CNhs12765_13191-141E5_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG05hrBiolRep3_CNhs12765_tpm_fwd Tc:Mcf7ToHrg_05hrBr3+ MCF7 breast cancer cell line response to HRG, 05hr, biol_rep3_CNhs12765_13191-141E5_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG05hrBiolRep2_CNhs12664_tpm_rev Tc:Mcf7ToHrg_05hrBr2- MCF7 breast cancer cell line response to HRG, 05hr, biol_rep2_CNhs12664_13125-140G2_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG05hrBiolRep2_CNhs12664_tpm_fwd Tc:Mcf7ToHrg_05hrBr2+ MCF7 breast cancer cell line response to HRG, 05hr, biol_rep2_CNhs12664_13125-140G2_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG05hrBiolRep1_CNhs12446_tpm_rev Tc:Mcf7ToHrg_05hrBr1- MCF7 breast cancer cell line response to HRG, 05hr, biol_rep1_CNhs12446_13059-139H8_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG05hrBiolRep1_CNhs12446_tpm_fwd Tc:Mcf7ToHrg_05hrBr1+ MCF7 breast cancer cell line response to HRG, 05hr, biol_rep1_CNhs12446_13059-139H8_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG04hrBiolRep3_CNhs12764_tpm_rev Tc:Mcf7ToHrg_04hrBr3- MCF7 breast cancer cell line response to HRG, 04hr, biol_rep3_CNhs12764_13190-141E4_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG04hrBiolRep3_CNhs12764_tpm_fwd Tc:Mcf7ToHrg_04hrBr3+ MCF7 breast cancer cell line response to HRG, 04hr, biol_rep3_CNhs12764_13190-141E4_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG04hrBiolRep2_CNhs12663_tpm_rev Tc:Mcf7ToHrg_04hrBr2- MCF7 breast cancer cell line response to HRG, 04hr, biol_rep2_CNhs12663_13124-140G1_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG04hrBiolRep2_CNhs12663_tpm_fwd Tc:Mcf7ToHrg_04hrBr2+ MCF7 breast cancer cell line response to HRG, 04hr, biol_rep2_CNhs12663_13124-140G1_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG04hrBiolRep1_CNhs12445_tpm_rev Tc:Mcf7ToHrg_04hrBr1- MCF7 breast cancer cell line response to HRG, 04hr, biol_rep1_CNhs12445_13058-139H7_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG04hrBiolRep1_CNhs12445_tpm_fwd Tc:Mcf7ToHrg_04hrBr1+ MCF7 breast cancer cell line response to HRG, 04hr, biol_rep1_CNhs12445_13058-139H7_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG03hr30minBiolRep3_CNhs12763_tpm_rev Tc:Mcf7ToHrg_03hr30minBr3- MCF7 breast cancer cell line response to HRG, 03hr30min, biol_rep3_CNhs12763_13189-141E3_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG03hr30minBiolRep3_CNhs12763_tpm_fwd Tc:Mcf7ToHrg_03hr30minBr3+ MCF7 breast cancer cell line response to HRG, 03hr30min, biol_rep3_CNhs12763_13189-141E3_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG03hr30minBiolRep2_CNhs12662_tpm_rev Tc:Mcf7ToHrg_03hr30minBr2- MCF7 breast cancer cell line response to HRG, 03hr30min, biol_rep2_CNhs12662_13123-140F9_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG03hr30minBiolRep2_CNhs12662_tpm_fwd Tc:Mcf7ToHrg_03hr30minBr2+ MCF7 breast cancer cell line response to HRG, 03hr30min, biol_rep2_CNhs12662_13123-140F9_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG03hr30minBiolRep1_CNhs12444_tpm_rev Tc:Mcf7ToHrg_03hr30minBr1- MCF7 breast cancer cell line response to HRG, 03hr30min, biol_rep1_CNhs12444_13057-139H6_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG03hr30minBiolRep1_CNhs12444_tpm_fwd Tc:Mcf7ToHrg_03hr30minBr1+ MCF7 breast cancer cell line response to HRG, 03hr30min, biol_rep1_CNhs12444_13057-139H6_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG03hr00minBiolRep3_CNhs12762_tpm_rev Tc:Mcf7ToHrg_03hr00minBr3- MCF7 breast cancer cell line response to HRG, 03hr00min, biol_rep3_CNhs12762_13188-141E2_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG03hr00minBiolRep3_CNhs12762_tpm_fwd Tc:Mcf7ToHrg_03hr00minBr3+ MCF7 breast cancer cell line response to HRG, 03hr00min, biol_rep3_CNhs12762_13188-141E2_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG03hr00minBiolRep2_CNhs12660_tpm_rev Tc:Mcf7ToHrg_03hr00minBr2- MCF7 breast cancer cell line response to HRG, 03hr00min, biol_rep2_CNhs12660_13122-140F8_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG03hr00minBiolRep2_CNhs12660_tpm_fwd Tc:Mcf7ToHrg_03hr00minBr2+ MCF7 breast cancer cell line response to HRG, 03hr00min, biol_rep2_CNhs12660_13122-140F8_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG03hr00minBiolRep1_CNhs12443_tpm_rev Tc:Mcf7ToHrg_03hr00minBr1- MCF7 breast cancer cell line response to HRG, 03hr00min, biol_rep1_CNhs12443_13056-139H5_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG03hr00minBiolRep1_CNhs12443_tpm_fwd Tc:Mcf7ToHrg_03hr00minBr1+ MCF7 breast cancer cell line response to HRG, 03hr00min, biol_rep1_CNhs12443_13056-139H5_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG02hr30minBiolRep3_CNhs12761_tpm_rev Tc:Mcf7ToHrg_02hr30minBr3- MCF7 breast cancer cell line response to HRG, 02hr30min, biol_rep3_CNhs12761_13187-141E1_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG02hr30minBiolRep3_CNhs12761_tpm_fwd Tc:Mcf7ToHrg_02hr30minBr3+ MCF7 breast cancer cell line response to HRG, 02hr30min, biol_rep3_CNhs12761_13187-141E1_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG02hr30minBiolRep2_CNhs12659_tpm_rev Tc:Mcf7ToHrg_02hr30minBr2- MCF7 breast cancer cell line response to HRG, 02hr30min, biol_rep2_CNhs12659_13121-140F7_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG02hr30minBiolRep2_CNhs12659_tpm_fwd Tc:Mcf7ToHrg_02hr30minBr2+ MCF7 breast cancer cell line response to HRG, 02hr30min, biol_rep2_CNhs12659_13121-140F7_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG02hr30minBiolRep1_CNhs12442_tpm_rev Tc:Mcf7ToHrg_02hr30minBr1- MCF7 breast cancer cell line response to HRG, 02hr30min, biol_rep1_CNhs12442_13055-139H4_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG02hr30minBiolRep1_CNhs12442_tpm_fwd Tc:Mcf7ToHrg_02hr30minBr1+ MCF7 breast cancer cell line response to HRG, 02hr30min, biol_rep1_CNhs12442_13055-139H4_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG02hr00minBiolRep3_CNhs12760_tpm_rev Tc:Mcf7ToHrg_02hr00minBr3- MCF7 breast cancer cell line response to HRG, 02hr00min, biol_rep3_CNhs12760_13186-141D9_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG02hr00minBiolRep3_CNhs12760_tpm_fwd Tc:Mcf7ToHrg_02hr00minBr3+ MCF7 breast cancer cell line response to HRG, 02hr00min, biol_rep3_CNhs12760_13186-141D9_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG02hr00minBiolRep2_CNhs12658_tpm_rev Tc:Mcf7ToHrg_02hr00minBr2- MCF7 breast cancer cell line response to HRG, 02hr00min, biol_rep2_CNhs12658_13120-140F6_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG02hr00minBiolRep2_CNhs12658_tpm_fwd Tc:Mcf7ToHrg_02hr00minBr2+ MCF7 breast cancer cell line response to HRG, 02hr00min, biol_rep2_CNhs12658_13120-140F6_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG02hr00minBiolRep1_CNhs12441_tpm_rev Tc:Mcf7ToHrg_02hr00minBr1- MCF7 breast cancer cell line response to HRG, 02hr00min, biol_rep1_CNhs12441_13054-139H3_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG02hr00minBiolRep1_CNhs12441_tpm_fwd Tc:Mcf7ToHrg_02hr00minBr1+ MCF7 breast cancer cell line response to HRG, 02hr00min, biol_rep1_CNhs12441_13054-139H3_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG01hr40minBiolRep3_CNhs12759_tpm_rev Tc:Mcf7ToHrg_01hr40minBr3- MCF7 breast cancer cell line response to HRG, 01hr40min, biol_rep3_CNhs12759_13185-141D8_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG01hr40minBiolRep3_CNhs12759_tpm_fwd Tc:Mcf7ToHrg_01hr40minBr3+ MCF7 breast cancer cell line response to HRG, 01hr40min, biol_rep3_CNhs12759_13185-141D8_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG01hr40minBiolRep2_CNhs12657_tpm_rev Tc:Mcf7ToHrg_01hr40minBr2- MCF7 breast cancer cell line response to HRG, 01hr40min, biol_rep2_CNhs12657_13119-140F5_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG01hr40minBiolRep2_CNhs12657_tpm_fwd Tc:Mcf7ToHrg_01hr40minBr2+ MCF7 breast cancer cell line response to HRG, 01hr40min, biol_rep2_CNhs12657_13119-140F5_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG01hr40minBiolRep1_CNhs12440_tpm_rev Tc:Mcf7ToHrg_01hr40minBr1- MCF7 breast cancer cell line response to HRG, 01hr40min, biol_rep1_CNhs12440_13053-139H2_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG01hr40minBiolRep1_CNhs12440_tpm_fwd Tc:Mcf7ToHrg_01hr40minBr1+ MCF7 breast cancer cell line response to HRG, 01hr40min, biol_rep1_CNhs12440_13053-139H2_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG01hr20minBiolRep3_CNhs12758_tpm_rev Tc:Mcf7ToHrg_01hr20minBr3- MCF7 breast cancer cell line response to HRG, 01hr20min, biol_rep3_CNhs12758_13184-141D7_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG01hr20minBiolRep3_CNhs12758_tpm_fwd Tc:Mcf7ToHrg_01hr20minBr3+ MCF7 breast cancer cell line response to HRG, 01hr20min, biol_rep3_CNhs12758_13184-141D7_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG01hr20minBiolRep2_CNhs12656_tpm_rev Tc:Mcf7ToHrg_01hr20minBr2- MCF7 breast cancer cell line response to HRG, 01hr20min, biol_rep2_CNhs12656_13118-140F4_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG01hr20minBiolRep2_CNhs12656_tpm_fwd Tc:Mcf7ToHrg_01hr20minBr2+ MCF7 breast cancer cell line response to HRG, 01hr20min, biol_rep2_CNhs12656_13118-140F4_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG01hr20minBiolRep1_CNhs12439_tpm_rev Tc:Mcf7ToHrg_01hr20minBr1- MCF7 breast cancer cell line response to HRG, 01hr20min, biol_rep1_CNhs12439_13052-139H1_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG01hr20minBiolRep1_CNhs12439_tpm_fwd Tc:Mcf7ToHrg_01hr20minBr1+ MCF7 breast cancer cell line response to HRG, 01hr20min, biol_rep1_CNhs12439_13052-139H1_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG01hr00minBiolRep3_CNhs12757_tpm_rev Tc:Mcf7ToHrg_01hr00minBr3- MCF7 breast cancer cell line response to HRG, 01hr00min, biol_rep3_CNhs12757_13183-141D6_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG01hr00minBiolRep3_CNhs12757_tpm_fwd Tc:Mcf7ToHrg_01hr00minBr3+ MCF7 breast cancer cell line response to HRG, 01hr00min, biol_rep3_CNhs12757_13183-141D6_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG01hr00minBiolRep2_CNhs12655_tpm_rev Tc:Mcf7ToHrg_01hr00minBr2- MCF7 breast cancer cell line response to HRG, 01hr00min, biol_rep2_CNhs12655_13117-140F3_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG01hr00minBiolRep2_CNhs12655_tpm_fwd Tc:Mcf7ToHrg_01hr00minBr2+ MCF7 breast cancer cell line response to HRG, 01hr00min, biol_rep2_CNhs12655_13117-140F3_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG01hr00minBiolRep1_CNhs12438_tpm_rev Tc:Mcf7ToHrg_01hr00minBr1- MCF7 breast cancer cell line response to HRG, 01hr00min, biol_rep1_CNhs12438_13051-139G9_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG01hr00minBiolRep1_CNhs12438_tpm_fwd Tc:Mcf7ToHrg_01hr00minBr1+ MCF7 breast cancer cell line response to HRG, 01hr00min, biol_rep1_CNhs12438_13051-139G9_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG00hr45minBiolRep3_CNhs12756_tpm_rev Tc:Mcf7ToHrg_00hr45minBr3- MCF7 breast cancer cell line response to HRG, 00hr45min, biol_rep3_CNhs12756_13182-141D5_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG00hr45minBiolRep3_CNhs12756_tpm_fwd Tc:Mcf7ToHrg_00hr45minBr3+ MCF7 breast cancer cell line response to HRG, 00hr45min, biol_rep3_CNhs12756_13182-141D5_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG00hr45minBiolRep2_CNhs12654_tpm_rev Tc:Mcf7ToHrg_00hr45minBr2- MCF7 breast cancer cell line response to HRG, 00hr45min, biol_rep2_CNhs12654_13116-140F2_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG00hr45minBiolRep2_CNhs12654_tpm_fwd Tc:Mcf7ToHrg_00hr45minBr2+ MCF7 breast cancer cell line response to HRG, 00hr45min, biol_rep2_CNhs12654_13116-140F2_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG00hr45minBiolRep1_CNhs12437_tpm_rev Tc:Mcf7ToHrg_00hr45minBr1- MCF7 breast cancer cell line response to HRG, 00hr45min, biol_rep1_CNhs12437_13050-139G8_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG00hr45minBiolRep1_CNhs12437_tpm_fwd Tc:Mcf7ToHrg_00hr45minBr1+ MCF7 breast cancer cell line response to HRG, 00hr45min, biol_rep1_CNhs12437_13050-139G8_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG00hr30minBiolRep3_CNhs12755_tpm_rev Tc:Mcf7ToHrg_00hr30minBr3- MCF7 breast cancer cell line response to HRG, 00hr30min, biol_rep3_CNhs12755_13181-141D4_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG00hr30minBiolRep3_CNhs12755_tpm_fwd Tc:Mcf7ToHrg_00hr30minBr3+ MCF7 breast cancer cell line response to HRG, 00hr30min, biol_rep3_CNhs12755_13181-141D4_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG00hr30minBiolRep2_CNhs12653_tpm_rev Tc:Mcf7ToHrg_00hr30minBr2- MCF7 breast cancer cell line response to HRG, 00hr30min, biol_rep2_CNhs12653_13115-140F1_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG00hr30minBiolRep2_CNhs12653_tpm_fwd Tc:Mcf7ToHrg_00hr30minBr2+ MCF7 breast cancer cell line response to HRG, 00hr30min, biol_rep2_CNhs12653_13115-140F1_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG00hr30minBiolRep1_CNhs12436_tpm_rev Tc:Mcf7ToHrg_00hr30minBr1- MCF7 breast cancer cell line response to HRG, 00hr30min, biol_rep1_CNhs12436_13049-139G7_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG00hr30minBiolRep1_CNhs12436_tpm_fwd Tc:Mcf7ToHrg_00hr30minBr1+ MCF7 breast cancer cell line response to HRG, 00hr30min, biol_rep1_CNhs12436_13049-139G7_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG00hr15minBiolRep3_CNhs12754_tpm_rev Tc:Mcf7ToHrg_00hr15minBr3- MCF7 breast cancer cell line response to HRG, 00hr15min, biol_rep3_CNhs12754_13180-141D3_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG00hr15minBiolRep3_CNhs12754_tpm_fwd Tc:Mcf7ToHrg_00hr15minBr3+ MCF7 breast cancer cell line response to HRG, 00hr15min, biol_rep3_CNhs12754_13180-141D3_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG00hr15minBiolRep2_CNhs12652_tpm_rev Tc:Mcf7ToHrg_00hr15minBr2- MCF7 breast cancer cell line response to HRG, 00hr15min, biol_rep2_CNhs12652_13114-140E9_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG00hr15minBiolRep2_CNhs12652_tpm_fwd Tc:Mcf7ToHrg_00hr15minBr2+ MCF7 breast cancer cell line response to HRG, 00hr15min, biol_rep2_CNhs12652_13114-140E9_forward Regulation 
MCF7BreastCancerCellLineResponseToHRG00hr15minBiolRep1_CNhs12435_tpm_rev Tc:Mcf7ToHrg_00hr15minBr1- MCF7 breast cancer cell line response to HRG, 00hr15min, biol_rep1_CNhs12435_13048-139G6_reverse Regulation 
MCF7BreastCancerCellLineResponseToHRG00hr15minBiolRep1_CNhs12435_tpm_fwd Tc:Mcf7ToHrg_00hr15minBr1+ MCF7 breast cancer cell line response to HRG, 00hr15min, biol_rep1_CNhs12435_13048-139G6_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF108hrBiolRep3_CNhs12753_tpm_rev Mcf7ToEgf1_08hrBr3- MCF7 breast cancer cell line response to EGF1, 08hr, biol_rep3_CNhs12753_13178-141D1_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF108hrBiolRep3_CNhs12753_tpm_fwd Mcf7ToEgf1_08hrBr3+ MCF7 breast cancer cell line response to EGF1, 08hr, biol_rep3_CNhs12753_13178-141D1_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF108hrBiolRep2_CNhs12491_tpm_rev Mcf7ToEgf1_08hrBr2- MCF7 breast cancer cell line response to EGF1, 08hr, biol_rep2_CNhs12491_13112-140E7_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF108hrBiolRep2_CNhs12491_tpm_fwd Mcf7ToEgf1_08hrBr2+ MCF7 breast cancer cell line response to EGF1, 08hr, biol_rep2_CNhs12491_13112-140E7_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF107hrBiolRep3_CNhs12752_tpm_rev Mcf7ToEgf1_07hrBr3- MCF7 breast cancer cell line response to EGF1, 07hr, biol_rep3_CNhs12752_13177-141C9_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF107hrBiolRep3_CNhs12752_tpm_fwd Mcf7ToEgf1_07hrBr3+ MCF7 breast cancer cell line response to EGF1, 07hr, biol_rep3_CNhs12752_13177-141C9_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF107hrBiolRep2_CNhs12490_tpm_rev Mcf7ToEgf1_07hrBr2- MCF7 breast cancer cell line response to EGF1, 07hr, biol_rep2_CNhs12490_13111-140E6_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF107hrBiolRep2_CNhs12490_tpm_fwd Mcf7ToEgf1_07hrBr2+ MCF7 breast cancer cell line response to EGF1, 07hr, biol_rep2_CNhs12490_13111-140E6_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF107hrBiolRep1_CNhs12434_tpm_rev Mcf7ToEgf1_07hrBr1- MCF7 breast cancer cell line response to EGF1, 07hr, biol_rep1_CNhs12434_13045-139G3_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF107hrBiolRep1_CNhs12434_tpm_fwd Mcf7ToEgf1_07hrBr1+ MCF7 breast cancer cell line response to EGF1, 07hr, biol_rep1_CNhs12434_13045-139G3_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF106hrBiolRep3_CNhs12751_tpm_rev Mcf7ToEgf1_06hrBr3- MCF7 breast cancer cell line response to EGF1, 06hr, biol_rep3_CNhs12751_13176-141C8_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF106hrBiolRep3_CNhs12751_tpm_fwd Mcf7ToEgf1_06hrBr3+ MCF7 breast cancer cell line response to EGF1, 06hr, biol_rep3_CNhs12751_13176-141C8_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF106hrBiolRep2_CNhs12489_tpm_rev Mcf7ToEgf1_06hrBr2- MCF7 breast cancer cell line response to EGF1, 06hr, biol_rep2_CNhs12489_13110-140E5_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF106hrBiolRep2_CNhs12489_tpm_fwd Mcf7ToEgf1_06hrBr2+ MCF7 breast cancer cell line response to EGF1, 06hr, biol_rep2_CNhs12489_13110-140E5_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF106hrBiolRep1_CNhs12432_tpm_rev Mcf7ToEgf1_06hrBr1- MCF7 breast cancer cell line response to EGF1, 06hr, biol_rep1_CNhs12432_13044-139G2_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF106hrBiolRep1_CNhs12432_tpm_fwd Mcf7ToEgf1_06hrBr1+ MCF7 breast cancer cell line response to EGF1, 06hr, biol_rep1_CNhs12432_13044-139G2_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF105hrBiolRep3_CNhs12750_tpm_rev Mcf7ToEgf1_05hrBr3- MCF7 breast cancer cell line response to EGF1, 05hr, biol_rep3_CNhs12750_13175-141C7_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF105hrBiolRep3_CNhs12750_tpm_fwd Mcf7ToEgf1_05hrBr3+ MCF7 breast cancer cell line response to EGF1, 05hr, biol_rep3_CNhs12750_13175-141C7_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF105hrBiolRep2_CNhs12488_tpm_rev Mcf7ToEgf1_05hrBr2- MCF7 breast cancer cell line response to EGF1, 05hr, biol_rep2_CNhs12488_13109-140E4_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF105hrBiolRep2_CNhs12488_tpm_fwd Mcf7ToEgf1_05hrBr2+ MCF7 breast cancer cell line response to EGF1, 05hr, biol_rep2_CNhs12488_13109-140E4_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF105hrBiolRep1_CNhs12431_tpm_rev Mcf7ToEgf1_05hrBr1- MCF7 breast cancer cell line response to EGF1, 05hr, biol_rep1_CNhs12431_13043-139G1_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF105hrBiolRep1_CNhs12431_tpm_fwd Mcf7ToEgf1_05hrBr1+ MCF7 breast cancer cell line response to EGF1, 05hr, biol_rep1_CNhs12431_13043-139G1_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF104hrBiolRep3_CNhs12749_tpm_rev Mcf7ToEgf1_04hrBr3- MCF7 breast cancer cell line response to EGF1, 04hr, biol_rep3_CNhs12749_13174-141C6_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF104hrBiolRep3_CNhs12749_tpm_fwd Mcf7ToEgf1_04hrBr3+ MCF7 breast cancer cell line response to EGF1, 04hr, biol_rep3_CNhs12749_13174-141C6_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF104hrBiolRep2_CNhs12487_tpm_rev Mcf7ToEgf1_04hrBr2- MCF7 breast cancer cell line response to EGF1, 04hr, biol_rep2_CNhs12487_13108-140E3_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF104hrBiolRep2_CNhs12487_tpm_fwd Mcf7ToEgf1_04hrBr2+ MCF7 breast cancer cell line response to EGF1, 04hr, biol_rep2_CNhs12487_13108-140E3_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF104hrBiolRep1_CNhs12430_tpm_rev Mcf7ToEgf1_04hrBr1- MCF7 breast cancer cell line response to EGF1, 04hr, biol_rep1_CNhs12430_13042-139F9_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF104hrBiolRep1_CNhs12430_tpm_fwd Mcf7ToEgf1_04hrBr1+ MCF7 breast cancer cell line response to EGF1, 04hr, biol_rep1_CNhs12430_13042-139F9_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF103hr30minBiolRep3_CNhs12748_tpm_rev Mcf7ToEgf1_03hr30minBr3- MCF7 breast cancer cell line response to EGF1, 03hr30min, biol_rep3_CNhs12748_13173-141C5_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF103hr30minBiolRep3_CNhs12748_tpm_fwd Mcf7ToEgf1_03hr30minBr3+ MCF7 breast cancer cell line response to EGF1, 03hr30min, biol_rep3_CNhs12748_13173-141C5_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF103hr30minBiolRep2_CNhs12486_tpm_rev Mcf7ToEgf1_03hr30minBr2- MCF7 breast cancer cell line response to EGF1, 03hr30min, biol_rep2_CNhs12486_13107-140E2_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF103hr30minBiolRep2_CNhs12486_tpm_fwd Mcf7ToEgf1_03hr30minBr2+ MCF7 breast cancer cell line response to EGF1, 03hr30min, biol_rep2_CNhs12486_13107-140E2_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF103hr30minBiolRep1_CNhs12429_tpm_rev Mcf7ToEgf1_03hr30minBr1- MCF7 breast cancer cell line response to EGF1, 03hr30min, biol_rep1_CNhs12429_13041-139F8_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF103hr30minBiolRep1_CNhs12429_tpm_fwd Mcf7ToEgf1_03hr30minBr1+ MCF7 breast cancer cell line response to EGF1, 03hr30min, biol_rep1_CNhs12429_13041-139F8_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF103hr00minBiolRep3_CNhs12747_tpm_rev Mcf7ToEgf1_03hr00minBr3- MCF7 breast cancer cell line response to EGF1, 03hr00min, biol_rep3_CNhs12747_13172-141C4_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF103hr00minBiolRep3_CNhs12747_tpm_fwd Mcf7ToEgf1_03hr00minBr3+ MCF7 breast cancer cell line response to EGF1, 03hr00min, biol_rep3_CNhs12747_13172-141C4_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF103hr00minBiolRep2_CNhs12485_tpm_rev Mcf7ToEgf1_03hr00minBr2- MCF7 breast cancer cell line response to EGF1, 03hr00min, biol_rep2_CNhs12485_13106-140E1_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF103hr00minBiolRep2_CNhs12485_tpm_fwd Mcf7ToEgf1_03hr00minBr2+ MCF7 breast cancer cell line response to EGF1, 03hr00min, biol_rep2_CNhs12485_13106-140E1_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF103hr00minBiolRep1_CNhs12428_tpm_rev Mcf7ToEgf1_03hr00minBr1- MCF7 breast cancer cell line response to EGF1, 03hr00min, biol_rep1_CNhs12428_13040-139F7_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF103hr00minBiolRep1_CNhs12428_tpm_fwd Mcf7ToEgf1_03hr00minBr1+ MCF7 breast cancer cell line response to EGF1, 03hr00min, biol_rep1_CNhs12428_13040-139F7_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF102hr30minBiolRep3_CNhs12746_tpm_rev Mcf7ToEgf1_02hr30minBr3- MCF7 breast cancer cell line response to EGF1, 02hr30min, biol_rep3_CNhs12746_13171-141C3_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF102hr30minBiolRep3_CNhs12746_tpm_fwd Mcf7ToEgf1_02hr30minBr3+ MCF7 breast cancer cell line response to EGF1, 02hr30min, biol_rep3_CNhs12746_13171-141C3_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF102hr30minBiolRep2_CNhs12484_tpm_rev Mcf7ToEgf1_02hr30minBr2- MCF7 breast cancer cell line response to EGF1, 02hr30min, biol_rep2_CNhs12484_13105-140D9_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF102hr30minBiolRep2_CNhs12484_tpm_fwd Mcf7ToEgf1_02hr30minBr2+ MCF7 breast cancer cell line response to EGF1, 02hr30min, biol_rep2_CNhs12484_13105-140D9_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF102hr30minBiolRep1_CNhs12427_tpm_rev Mcf7ToEgf1_02hr30minBr1- MCF7 breast cancer cell line response to EGF1, 02hr30min, biol_rep1_CNhs12427_13039-139F6_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF102hr30minBiolRep1_CNhs12427_tpm_fwd Mcf7ToEgf1_02hr30minBr1+ MCF7 breast cancer cell line response to EGF1, 02hr30min, biol_rep1_CNhs12427_13039-139F6_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF102hr00minBiolRep3_CNhs12744_tpm_rev Mcf7ToEgf1_02hr00minBr3- MCF7 breast cancer cell line response to EGF1, 02hr00min, biol_rep3_CNhs12744_13170-141C2_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF102hr00minBiolRep3_CNhs12744_tpm_fwd Mcf7ToEgf1_02hr00minBr3+ MCF7 breast cancer cell line response to EGF1, 02hr00min, biol_rep3_CNhs12744_13170-141C2_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF102hr00minBiolRep2_CNhs12483_tpm_rev Mcf7ToEgf1_02hr00minBr2- MCF7 breast cancer cell line response to EGF1, 02hr00min, biol_rep2_CNhs12483_13104-140D8_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF102hr00minBiolRep2_CNhs12483_tpm_fwd Mcf7ToEgf1_02hr00minBr2+ MCF7 breast cancer cell line response to EGF1, 02hr00min, biol_rep2_CNhs12483_13104-140D8_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF102hr00minBiolRep1_CNhs12426_tpm_rev Mcf7ToEgf1_02hr00minBr1- MCF7 breast cancer cell line response to EGF1, 02hr00min, biol_rep1_CNhs12426_13038-139F5_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF102hr00minBiolRep1_CNhs12426_tpm_fwd Mcf7ToEgf1_02hr00minBr1+ MCF7 breast cancer cell line response to EGF1, 02hr00min, biol_rep1_CNhs12426_13038-139F5_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF101hr40minBiolRep3_CNhs12743_tpm_rev Mcf7ToEgf1_01hr40minBr3- MCF7 breast cancer cell line response to EGF1, 01hr40min, biol_rep3_CNhs12743_13169-141C1_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF101hr40minBiolRep3_CNhs12743_tpm_fwd Mcf7ToEgf1_01hr40minBr3+ MCF7 breast cancer cell line response to EGF1, 01hr40min, biol_rep3_CNhs12743_13169-141C1_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF101hr40minBiolRep2_CNhs12482_tpm_rev Mcf7ToEgf1_01hr40minBr2- MCF7 breast cancer cell line response to EGF1, 01hr40min, biol_rep2_CNhs12482_13103-140D7_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF101hr40minBiolRep2_CNhs12482_tpm_fwd Mcf7ToEgf1_01hr40minBr2+ MCF7 breast cancer cell line response to EGF1, 01hr40min, biol_rep2_CNhs12482_13103-140D7_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF101hr40minBiolRep1_CNhs12425_tpm_rev Mcf7ToEgf1_01hr40minBr1- MCF7 breast cancer cell line response to EGF1, 01hr40min, biol_rep1_CNhs12425_13037-139F4_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF101hr40minBiolRep1_CNhs12425_tpm_fwd Mcf7ToEgf1_01hr40minBr1+ MCF7 breast cancer cell line response to EGF1, 01hr40min, biol_rep1_CNhs12425_13037-139F4_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF101hr20minBiolRep3_CNhs12742_tpm_rev Mcf7ToEgf1_01hr20minBr3- MCF7 breast cancer cell line response to EGF1, 01hr20min, biol_rep3_CNhs12742_13168-141B9_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF101hr20minBiolRep3_CNhs12742_tpm_fwd Mcf7ToEgf1_01hr20minBr3+ MCF7 breast cancer cell line response to EGF1, 01hr20min, biol_rep3_CNhs12742_13168-141B9_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF101hr20minBiolRep2_CNhs12480_tpm_rev Mcf7ToEgf1_01hr20minBr2- MCF7 breast cancer cell line response to EGF1, 01hr20min, biol_rep2_CNhs12480_13102-140D6_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF101hr20minBiolRep2_CNhs12480_tpm_fwd Mcf7ToEgf1_01hr20minBr2+ MCF7 breast cancer cell line response to EGF1, 01hr20min, biol_rep2_CNhs12480_13102-140D6_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF101hr20minBiolRep1_CNhs12424_tpm_rev Mcf7ToEgf1_01hr20minBr1- MCF7 breast cancer cell line response to EGF1, 01hr20min, biol_rep1_CNhs12424_13036-139F3_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF101hr20minBiolRep1_CNhs12424_tpm_fwd Mcf7ToEgf1_01hr20minBr1+ MCF7 breast cancer cell line response to EGF1, 01hr20min, biol_rep1_CNhs12424_13036-139F3_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF101hr00minBiolRep3_CNhs12705_tpm_rev Mcf7ToEgf1_01hr00minBr3- MCF7 breast cancer cell line response to EGF1, 01hr00min, biol_rep3_CNhs12705_13167-141B8_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF101hr00minBiolRep3_CNhs12705_tpm_fwd Mcf7ToEgf1_01hr00minBr3+ MCF7 breast cancer cell line response to EGF1, 01hr00min, biol_rep3_CNhs12705_13167-141B8_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF101hr00minBiolRep2_CNhs12479_tpm_rev Mcf7ToEgf1_01hr00minBr2- MCF7 breast cancer cell line response to EGF1, 01hr00min, biol_rep2_CNhs12479_13101-140D5_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF101hr00minBiolRep2_CNhs12479_tpm_fwd Mcf7ToEgf1_01hr00minBr2+ MCF7 breast cancer cell line response to EGF1, 01hr00min, biol_rep2_CNhs12479_13101-140D5_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF101hr00minBiolRep1_CNhs12423_tpm_rev Mcf7ToEgf1_01hr00minBr1- MCF7 breast cancer cell line response to EGF1, 01hr00min, biol_rep1_CNhs12423_13035-139F2_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF101hr00minBiolRep1_CNhs12423_tpm_fwd Mcf7ToEgf1_01hr00minBr1+ MCF7 breast cancer cell line response to EGF1, 01hr00min, biol_rep1_CNhs12423_13035-139F2_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF100hr45minBiolRep3_CNhs12739_tpm_rev Mcf7ToEgf1_00hr45minBr3- MCF7 breast cancer cell line response to EGF1, 00hr45min, biol_rep3_CNhs12739_13166-141B7_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF100hr45minBiolRep3_CNhs12739_tpm_fwd Mcf7ToEgf1_00hr45minBr3+ MCF7 breast cancer cell line response to EGF1, 00hr45min, biol_rep3_CNhs12739_13166-141B7_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF100hr45minBiolRep2_CNhs12478_tpm_rev Mcf7ToEgf1_00hr45minBr2- MCF7 breast cancer cell line response to EGF1, 00hr45min, biol_rep2_CNhs12478_13100-140D4_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF100hr45minBiolRep2_CNhs12478_tpm_fwd Mcf7ToEgf1_00hr45minBr2+ MCF7 breast cancer cell line response to EGF1, 00hr45min, biol_rep2_CNhs12478_13100-140D4_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF100hr45minBiolRep1_CNhs12422_tpm_rev Mcf7ToEgf1_00hr45minBr1- MCF7 breast cancer cell line response to EGF1, 00hr45min, biol_rep1_CNhs12422_13034-139F1_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF100hr45minBiolRep1_CNhs12422_tpm_fwd Mcf7ToEgf1_00hr45minBr1+ MCF7 breast cancer cell line response to EGF1, 00hr45min, biol_rep1_CNhs12422_13034-139F1_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF100hr30minBiolRep3_CNhs12738_tpm_rev Mcf7ToEgf1_00hr30minBr3- MCF7 breast cancer cell line response to EGF1, 00hr30min, biol_rep3_CNhs12738_13165-141B6_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF100hr30minBiolRep3_CNhs12738_tpm_fwd Mcf7ToEgf1_00hr30minBr3+ MCF7 breast cancer cell line response to EGF1, 00hr30min, biol_rep3_CNhs12738_13165-141B6_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF100hr30minBiolRep2_CNhs12477_tpm_rev Mcf7ToEgf1_00hr30minBr2- MCF7 breast cancer cell line response to EGF1, 00hr30min, biol_rep2_CNhs12477_13099-140D3_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF100hr30minBiolRep2_CNhs12477_tpm_fwd Mcf7ToEgf1_00hr30minBr2+ MCF7 breast cancer cell line response to EGF1, 00hr30min, biol_rep2_CNhs12477_13099-140D3_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF100hr30minBiolRep1_CNhs12421_tpm_rev Mcf7ToEgf1_00hr30minBr1- MCF7 breast cancer cell line response to EGF1, 00hr30min, biol_rep1_CNhs12421_13033-139E9_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF100hr30minBiolRep1_CNhs12421_tpm_fwd Mcf7ToEgf1_00hr30minBr1+ MCF7 breast cancer cell line response to EGF1, 00hr30min, biol_rep1_CNhs12421_13033-139E9_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF100hr15minBiolRep3_CNhs12704_tpm_rev Mcf7ToEgf1_00hr15minBr3- MCF7 breast cancer cell line response to EGF1, 00hr15min, biol_rep3_CNhs12704_13164-141B5_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF100hr15minBiolRep3_CNhs12704_tpm_fwd Mcf7ToEgf1_00hr15minBr3+ MCF7 breast cancer cell line response to EGF1, 00hr15min, biol_rep3_CNhs12704_13164-141B5_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF100hr15minBiolRep2_CNhs12476_tpm_rev Mcf7ToEgf1_00hr15minBr2- MCF7 breast cancer cell line response to EGF1, 00hr15min, biol_rep2_CNhs12476_13098-140D2_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF100hr15minBiolRep2_CNhs12476_tpm_fwd Mcf7ToEgf1_00hr15minBr2+ MCF7 breast cancer cell line response to EGF1, 00hr15min, biol_rep2_CNhs12476_13098-140D2_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF100hr15minBiolRep1_CNhs12420_tpm_rev Mcf7ToEgf1_00hr15minBr1- MCF7 breast cancer cell line response to EGF1, 00hr15min, biol_rep1_CNhs12420_13032-139E8_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF100hr15minBiolRep1_CNhs12420_tpm_fwd Mcf7ToEgf1_00hr15minBr1+ MCF7 breast cancer cell line response to EGF1, 00hr15min, biol_rep1_CNhs12420_13032-139E8_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF100hr00minBiolRep3_CNhs12703_tpm_rev Mcf7ToEgf1_00hr00minBr3- MCF7 breast cancer cell line response to EGF1, 00hr00min, biol_rep3_CNhs12703_13163-141B4_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF100hr00minBiolRep3_CNhs12703_tpm_fwd Mcf7ToEgf1_00hr00minBr3+ MCF7 breast cancer cell line response to EGF1, 00hr00min, biol_rep3_CNhs12703_13163-141B4_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF100hr00minBiolRep2_CNhs12475_tpm_rev Mcf7ToEgf1_00hr00minBr2- MCF7 breast cancer cell line response to EGF1, 00hr00min, biol_rep2_CNhs12475_13097-140D1_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF100hr00minBiolRep2_CNhs12475_tpm_fwd Mcf7ToEgf1_00hr00minBr2+ MCF7 breast cancer cell line response to EGF1, 00hr00min, biol_rep2_CNhs12475_13097-140D1_forward Regulation 
MCF7BreastCancerCellLineResponseToEGF108hrBiolRep1_CNhs12565_tpm_rev Mcf7ToEgf1_08hrBr1- MCF7 breast cancer cell line response to EGF1, 08hr, biol_rep1_CNhs12565_13046-139G4_reverse Regulation 
MCF7BreastCancerCellLineResponseToEGF108hrBiolRep1_CNhs12565_tpm_fwd Mcf7ToEgf1_08hrBr1+ MCF7 breast cancer cell line response to EGF1, 08hr, biol_rep1_CNhs12565_13046-139G4_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC08hrBiolRep3MMXXII16_CNhs13291_tpm_rev LymphaticEndothelialCellsToVegfc_08hrBr3- Lymphatic Endothelial cells response to VEGFC, 08hr, biol_rep3 (MM XXII - 16)_CNhs13291_12519-133B8_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC08hrBiolRep3MMXXII16_CNhs13291_tpm_fwd LymphaticEndothelialCellsToVegfc_08hrBr3+ Lymphatic Endothelial cells response to VEGFC, 08hr, biol_rep3 (MM XXII - 16)_CNhs13291_12519-133B8_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC08hrBiolRep2MMXIV16_CNhs13173_tpm_rev LymphaticEndothelialCellsToVegfc_08hrBr2- Lymphatic Endothelial cells response to VEGFC, 08hr, biol_rep2 (MM XIV - 16)_CNhs13173_12397-131G3_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC08hrBiolRep2MMXIV16_CNhs13173_tpm_fwd LymphaticEndothelialCellsToVegfc_08hrBr2+ Lymphatic Endothelial cells response to VEGFC, 08hr, biol_rep2 (MM XIV - 16)_CNhs13173_12397-131G3_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC08hrBiolRep1MMXIX16_CNhs11937_tpm_rev LymphaticEndothelialCellsToVegfc_08hrBr1- Lymphatic Endothelial cells response to VEGFC, 08hr, biol_rep1 (MM XIX - 16)_CNhs11937_12275-130B7_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC08hrBiolRep1MMXIX16_CNhs11937_tpm_fwd LymphaticEndothelialCellsToVegfc_08hrBr1+ Lymphatic Endothelial cells response to VEGFC, 08hr, biol_rep1 (MM XIX - 16)_CNhs11937_12275-130B7_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC07hrBiolRep3MMXXII15_CNhs13290_tpm_rev LymphaticEndothelialCellsToVegfc_07hrBr3- Lymphatic Endothelial cells response to VEGFC, 07hr, biol_rep3 (MM XXII - 15)_CNhs13290_12518-133B7_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC07hrBiolRep3MMXXII15_CNhs13290_tpm_fwd LymphaticEndothelialCellsToVegfc_07hrBr3+ Lymphatic Endothelial cells response to VEGFC, 07hr, biol_rep3 (MM XXII - 15)_CNhs13290_12518-133B7_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC07hrBiolRep2MMXIV15_CNhs13172_tpm_rev LymphaticEndothelialCellsToVegfc_07hrBr2- Lymphatic Endothelial cells response to VEGFC, 07hr, biol_rep2 (MM XIV - 15)_CNhs13172_12396-131G2_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC07hrBiolRep2MMXIV15_CNhs13172_tpm_fwd LymphaticEndothelialCellsToVegfc_07hrBr2+ Lymphatic Endothelial cells response to VEGFC, 07hr, biol_rep2 (MM XIV - 15)_CNhs13172_12396-131G2_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC07hrBiolRep1MMXIX15_CNhs13113_tpm_rev LymphaticEndothelialCellsToVegfc_07hrBr1- Lymphatic Endothelial cells response to VEGFC, 07hr, biol_rep1 (MM XIX - 15)_CNhs13113_12274-130B6_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC07hrBiolRep1MMXIX15_CNhs13113_tpm_fwd LymphaticEndothelialCellsToVegfc_07hrBr1+ Lymphatic Endothelial cells response to VEGFC, 07hr, biol_rep1 (MM XIX - 15)_CNhs13113_12274-130B6_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC06hrBiolRep3MMXXII14_CNhs13289_tpm_rev LymphaticEndothelialCellsToVegfc_06hrBr3- Lymphatic Endothelial cells response to VEGFC, 06hr, biol_rep3 (MM XXII - 14)_CNhs13289_12517-133B6_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC06hrBiolRep3MMXXII14_CNhs13289_tpm_fwd LymphaticEndothelialCellsToVegfc_06hrBr3+ Lymphatic Endothelial cells response to VEGFC, 06hr, biol_rep3 (MM XXII - 14)_CNhs13289_12517-133B6_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC06hrBiolRep2MMXIV14_CNhs13171_tpm_rev LymphaticEndothelialCellsToVegfc_06hrBr2- Lymphatic Endothelial cells response to VEGFC, 06hr, biol_rep2 (MM XIV - 14)_CNhs13171_12395-131G1_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC06hrBiolRep2MMXIV14_CNhs13171_tpm_fwd LymphaticEndothelialCellsToVegfc_06hrBr2+ Lymphatic Endothelial cells response to VEGFC, 06hr, biol_rep2 (MM XIV - 14)_CNhs13171_12395-131G1_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC06hrBiolRep1MMXIX14_CNhs13112_tpm_rev LymphaticEndothelialCellsToVegfc_06hrBr1- Lymphatic Endothelial cells response to VEGFC, 06hr, biol_rep1 (MM XIX - 14)_CNhs13112_12273-130B5_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC06hrBiolRep1MMXIX14_CNhs13112_tpm_fwd LymphaticEndothelialCellsToVegfc_06hrBr1+ Lymphatic Endothelial cells response to VEGFC, 06hr, biol_rep1 (MM XIX - 14)_CNhs13112_12273-130B5_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC05hrBiolRep3MMXXII13_CNhs13288_tpm_rev LymphaticEndothelialCellsToVegfc_05hrBr3- Lymphatic Endothelial cells response to VEGFC, 05hr, biol_rep3 (MM XXII - 13)_CNhs13288_12516-133B5_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC05hrBiolRep3MMXXII13_CNhs13288_tpm_fwd LymphaticEndothelialCellsToVegfc_05hrBr3+ Lymphatic Endothelial cells response to VEGFC, 05hr, biol_rep3 (MM XXII - 13)_CNhs13288_12516-133B5_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC05hrBiolRep2MMXIV13_CNhs13170_tpm_rev LymphaticEndothelialCellsToVegfc_05hrBr2- Lymphatic Endothelial cells response to VEGFC, 05hr, biol_rep2 (MM XIV - 13)_CNhs13170_12394-131F9_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC05hrBiolRep2MMXIV13_CNhs13170_tpm_fwd LymphaticEndothelialCellsToVegfc_05hrBr2+ Lymphatic Endothelial cells response to VEGFC, 05hr, biol_rep2 (MM XIV - 13)_CNhs13170_12394-131F9_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC05hrBiolRep1MMXIX13_CNhs13111_tpm_rev LymphaticEndothelialCellsToVegfc_05hrBr1- Lymphatic Endothelial cells response to VEGFC, 05hr, biol_rep1 (MM XIX - 13)_CNhs13111_12272-130B4_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC05hrBiolRep1MMXIX13_CNhs13111_tpm_fwd LymphaticEndothelialCellsToVegfc_05hrBr1+ Lymphatic Endothelial cells response to VEGFC, 05hr, biol_rep1 (MM XIX - 13)_CNhs13111_12272-130B4_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC04hrBiolRep3MMXXII12_CNhs13287_tpm_rev LymphaticEndothelialCellsToVegfc_04hrBr3- Lymphatic Endothelial cells response to VEGFC, 04hr, biol_rep3 (MM XXII - 12)_CNhs13287_12515-133B4_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC04hrBiolRep3MMXXII12_CNhs13287_tpm_fwd LymphaticEndothelialCellsToVegfc_04hrBr3+ Lymphatic Endothelial cells response to VEGFC, 04hr, biol_rep3 (MM XXII - 12)_CNhs13287_12515-133B4_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC04hrBiolRep2MMXIV12_CNhs13169_tpm_rev LymphaticEndothelialCellsToVegfc_04hrBr2- Lymphatic Endothelial cells response to VEGFC, 04hr, biol_rep2 (MM XIV - 12)_CNhs13169_12393-131F8_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC04hrBiolRep2MMXIV12_CNhs13169_tpm_fwd LymphaticEndothelialCellsToVegfc_04hrBr2+ Lymphatic Endothelial cells response to VEGFC, 04hr, biol_rep2 (MM XIV - 12)_CNhs13169_12393-131F8_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC04hrBiolRep1MMXIX12_CNhs13110_tpm_rev LymphaticEndothelialCellsToVegfc_04hrBr1- Lymphatic Endothelial cells response to VEGFC, 04hr, biol_rep1 (MM XIX - 12)_CNhs13110_12271-130B3_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC04hrBiolRep1MMXIX12_CNhs13110_tpm_fwd LymphaticEndothelialCellsToVegfc_04hrBr1+ Lymphatic Endothelial cells response to VEGFC, 04hr, biol_rep1 (MM XIX - 12)_CNhs13110_12271-130B3_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC03hr30minBiolRep3MMXXII11_CNhs13286_tpm_rev LymphaticEndothelialCellsToVegfc_03hr30minBr3- Lymphatic Endothelial cells response to VEGFC, 03hr30min, biol_rep3 (MM XXII - 11)_CNhs13286_12514-133B3_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC03hr30minBiolRep3MMXXII11_CNhs13286_tpm_fwd LymphaticEndothelialCellsToVegfc_03hr30minBr3+ Lymphatic Endothelial cells response to VEGFC, 03hr30min, biol_rep3 (MM XXII - 11)_CNhs13286_12514-133B3_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC03hr30minBiolRep2MMXIV11_CNhs13168_tpm_rev LymphaticEndothelialCellsToVegfc_03hr30minBr2- Lymphatic Endothelial cells response to VEGFC, 03hr30min, biol_rep2 (MM XIV - 11)_CNhs13168_12392-131F7_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC03hr30minBiolRep2MMXIV11_CNhs13168_tpm_fwd LymphaticEndothelialCellsToVegfc_03hr30minBr2+ Lymphatic Endothelial cells response to VEGFC, 03hr30min, biol_rep2 (MM XIV - 11)_CNhs13168_12392-131F7_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC03hr30minBiolRep1MMXIX11_CNhs13109_tpm_rev LymphaticEndothelialCellsToVegfc_03hr30minBr1- Lymphatic Endothelial cells response to VEGFC, 03hr30min, biol_rep1 (MM XIX - 11)_CNhs13109_12270-130B2_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC03hr30minBiolRep1MMXIX11_CNhs13109_tpm_fwd LymphaticEndothelialCellsToVegfc_03hr30minBr1+ Lymphatic Endothelial cells response to VEGFC, 03hr30min, biol_rep1 (MM XIX - 11)_CNhs13109_12270-130B2_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC03hr00minBiolRep3MMXXII10_CNhs13285_tpm_rev LymphaticEndothelialCellsToVegfc_03hr00minBr3- Lymphatic Endothelial cells response to VEGFC, 03hr00min, biol_rep3 (MM XXII - 10)_CNhs13285_12513-133B2_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC03hr00minBiolRep3MMXXII10_CNhs13285_tpm_fwd LymphaticEndothelialCellsToVegfc_03hr00minBr3+ Lymphatic Endothelial cells response to VEGFC, 03hr00min, biol_rep3 (MM XXII - 10)_CNhs13285_12513-133B2_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC03hr00minBiolRep2MMXIV10_CNhs13166_tpm_rev LymphaticEndothelialCellsToVegfc_03hr00minBr2- Lymphatic Endothelial cells response to VEGFC, 03hr00min, biol_rep2 (MM XIV - 10)_CNhs13166_12391-131F6_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC03hr00minBiolRep2MMXIV10_CNhs13166_tpm_fwd LymphaticEndothelialCellsToVegfc_03hr00minBr2+ Lymphatic Endothelial cells response to VEGFC, 03hr00min, biol_rep2 (MM XIV - 10)_CNhs13166_12391-131F6_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC03hr00minBiolRep1MMXIX10_CNhs13108_tpm_rev LymphaticEndothelialCellsToVegfc_03hr00minBr1- Lymphatic Endothelial cells response to VEGFC, 03hr00min, biol_rep1 (MM XIX - 10)_CNhs13108_12269-130B1_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC03hr00minBiolRep1MMXIX10_CNhs13108_tpm_fwd LymphaticEndothelialCellsToVegfc_03hr00minBr1+ Lymphatic Endothelial cells response to VEGFC, 03hr00min, biol_rep1 (MM XIX - 10)_CNhs13108_12269-130B1_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC02hr30minBiolRep3MMXXII9_CNhs13284_tpm_rev LymphaticEndothelialCellsToVegfc_02hr30minBr3- Lymphatic Endothelial cells response to VEGFC, 02hr30min, biol_rep3 (MM XXII - 9)_CNhs13284_12512-133B1_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC02hr30minBiolRep3MMXXII9_CNhs13284_tpm_fwd LymphaticEndothelialCellsToVegfc_02hr30minBr3+ Lymphatic Endothelial cells response to VEGFC, 02hr30min, biol_rep3 (MM XXII - 9)_CNhs13284_12512-133B1_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC02hr30minBiolRep2MMXIV9_CNhs13165_tpm_rev LymphaticEndothelialCellsToVegfc_02hr30minBr2- Lymphatic Endothelial cells response to VEGFC, 02hr30min, biol_rep2 (MM XIV - 9)_CNhs13165_12390-131F5_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC02hr30minBiolRep2MMXIV9_CNhs13165_tpm_fwd LymphaticEndothelialCellsToVegfc_02hr30minBr2+ Lymphatic Endothelial cells response to VEGFC, 02hr30min, biol_rep2 (MM XIV - 9)_CNhs13165_12390-131F5_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC02hr30minBiolRep1MMXIX9_CNhs13107_tpm_rev LymphaticEndothelialCellsToVegfc_02hr30minBr1- Lymphatic Endothelial cells response to VEGFC, 02hr30min, biol_rep1 (MM XIX - 9)_CNhs13107_12268-130A9_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC02hr30minBiolRep1MMXIX9_CNhs13107_tpm_fwd LymphaticEndothelialCellsToVegfc_02hr30minBr1+ Lymphatic Endothelial cells response to VEGFC, 02hr30min, biol_rep1 (MM XIX - 9)_CNhs13107_12268-130A9_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC02hr00minBiolRep3MMXXII8_CNhs13283_tpm_rev LymphaticEndothelialCellsToVegfc_02hr00minBr3- Lymphatic Endothelial cells response to VEGFC, 02hr00min, biol_rep3 (MM XXII - 8)_CNhs13283_12511-133A9_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC02hr00minBiolRep3MMXXII8_CNhs13283_tpm_fwd LymphaticEndothelialCellsToVegfc_02hr00minBr3+ Lymphatic Endothelial cells response to VEGFC, 02hr00min, biol_rep3 (MM XXII - 8)_CNhs13283_12511-133A9_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC02hr00minBiolRep2MMXIV8_CNhs13164_tpm_rev LymphaticEndothelialCellsToVegfc_02hr00minBr2- Lymphatic Endothelial cells response to VEGFC, 02hr00min, biol_rep2 (MM XIV - 8)_CNhs13164_12389-131F4_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC02hr00minBiolRep2MMXIV8_CNhs13164_tpm_fwd LymphaticEndothelialCellsToVegfc_02hr00minBr2+ Lymphatic Endothelial cells response to VEGFC, 02hr00min, biol_rep2 (MM XIV - 8)_CNhs13164_12389-131F4_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC02hr00minBiolRep1MMXIX8_CNhs13106_tpm_rev LymphaticEndothelialCellsToVegfc_02hr00minBr1- Lymphatic Endothelial cells response to VEGFC, 02hr00min, biol_rep1 (MM XIX - 8)_CNhs13106_12267-130A8_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC02hr00minBiolRep1MMXIX8_CNhs13106_tpm_fwd LymphaticEndothelialCellsToVegfc_02hr00minBr1+ Lymphatic Endothelial cells response to VEGFC, 02hr00min, biol_rep1 (MM XIX - 8)_CNhs13106_12267-130A8_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC01hr40minBiolRep3MMXXII7_CNhs13282_tpm_rev LymphaticEndothelialCellsToVegfc_01hr40minBr3- Lymphatic Endothelial cells response to VEGFC, 01hr40min, biol_rep3 (MM XXII - 7)_CNhs13282_12510-133A8_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC01hr40minBiolRep3MMXXII7_CNhs13282_tpm_fwd LymphaticEndothelialCellsToVegfc_01hr40minBr3+ Lymphatic Endothelial cells response to VEGFC, 01hr40min, biol_rep3 (MM XXII - 7)_CNhs13282_12510-133A8_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC01hr40minBiolRep2MMXIV7_CNhs13163_tpm_rev LymphaticEndothelialCellsToVegfc_01hr40minBr2- Lymphatic Endothelial cells response to VEGFC, 01hr40min, biol_rep2 (MM XIV - 7)_CNhs13163_12388-131F3_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC01hr40minBiolRep2MMXIV7_CNhs13163_tpm_fwd LymphaticEndothelialCellsToVegfc_01hr40minBr2+ Lymphatic Endothelial cells response to VEGFC, 01hr40min, biol_rep2 (MM XIV - 7)_CNhs13163_12388-131F3_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC01hr40minBiolRep1MMXIX7_CNhs13105_tpm_rev LymphaticEndothelialCellsToVegfc_01hr40minBr1- Lymphatic Endothelial cells response to VEGFC, 01hr40min, biol_rep1 (MM XIX - 7)_CNhs13105_12266-130A7_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC01hr40minBiolRep1MMXIX7_CNhs13105_tpm_fwd LymphaticEndothelialCellsToVegfc_01hr40minBr1+ Lymphatic Endothelial cells response to VEGFC, 01hr40min, biol_rep1 (MM XIX - 7)_CNhs13105_12266-130A7_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC01hr20minBiolRep3MMXXII6_CNhs13281_tpm_rev LymphaticEndothelialCellsToVegfc_01hr20minBr3- Lymphatic Endothelial cells response to VEGFC, 01hr20min, biol_rep3 (MM XXII - 6)_CNhs13281_12509-133A7_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC01hr20minBiolRep3MMXXII6_CNhs13281_tpm_fwd LymphaticEndothelialCellsToVegfc_01hr20minBr3+ Lymphatic Endothelial cells response to VEGFC, 01hr20min, biol_rep3 (MM XXII - 6)_CNhs13281_12509-133A7_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC01hr20minBiolRep2MMXIV6_CNhs13162_tpm_rev LymphaticEndothelialCellsToVegfc_01hr20minBr2- Lymphatic Endothelial cells response to VEGFC, 01hr20min, biol_rep2 (MM XIV - 6)_CNhs13162_12387-131F2_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC01hr20minBiolRep2MMXIV6_CNhs13162_tpm_fwd LymphaticEndothelialCellsToVegfc_01hr20minBr2+ Lymphatic Endothelial cells response to VEGFC, 01hr20min, biol_rep2 (MM XIV - 6)_CNhs13162_12387-131F2_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC01hr20minBiolRep1MMXIX6_CNhs13104_tpm_rev LymphaticEndothelialCellsToVegfc_01hr20minBr1- Lymphatic Endothelial cells response to VEGFC, 01hr20min, biol_rep1 (MM XIX - 6)_CNhs13104_12265-130A6_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC01hr20minBiolRep1MMXIX6_CNhs13104_tpm_fwd LymphaticEndothelialCellsToVegfc_01hr20minBr1+ Lymphatic Endothelial cells response to VEGFC, 01hr20min, biol_rep1 (MM XIX - 6)_CNhs13104_12265-130A6_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC01hr00minBiolRep3MMXXII5_CNhs13280_tpm_rev LymphaticEndothelialCellsToVegfc_01hr00minBr3- Lymphatic Endothelial cells response to VEGFC, 01hr00min, biol_rep3 (MM XXII - 5)_CNhs13280_12508-133A6_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC01hr00minBiolRep3MMXXII5_CNhs13280_tpm_fwd LymphaticEndothelialCellsToVegfc_01hr00minBr3+ Lymphatic Endothelial cells response to VEGFC, 01hr00min, biol_rep3 (MM XXII - 5)_CNhs13280_12508-133A6_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC01hr00minBiolRep2MMXIV5_CNhs13161_tpm_rev LymphaticEndothelialCellsToVegfc_01hr00minBr2- Lymphatic Endothelial cells response to VEGFC, 01hr00min, biol_rep2 (MM XIV - 5)_CNhs13161_12386-131F1_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC01hr00minBiolRep2MMXIV5_CNhs13161_tpm_fwd LymphaticEndothelialCellsToVegfc_01hr00minBr2+ Lymphatic Endothelial cells response to VEGFC, 01hr00min, biol_rep2 (MM XIV - 5)_CNhs13161_12386-131F1_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC01hr00minBiolRep1MMXIX5_CNhs13103_tpm_rev LymphaticEndothelialCellsToVegfc_01hr00minBr1- Lymphatic Endothelial cells response to VEGFC, 01hr00min, biol_rep1 (MM XIX - 5)_CNhs13103_12264-130A5_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC01hr00minBiolRep1MMXIX5_CNhs13103_tpm_fwd LymphaticEndothelialCellsToVegfc_01hr00minBr1+ Lymphatic Endothelial cells response to VEGFC, 01hr00min, biol_rep1 (MM XIX - 5)_CNhs13103_12264-130A5_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC00hr45minBiolRep3MMXXII4_CNhs13279_tpm_rev LymphaticEndothelialCellsToVegfc_00hr45minBr3- Lymphatic Endothelial cells response to VEGFC, 00hr45min, biol_rep3 (MM XXII - 4)_CNhs13279_12507-133A5_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC00hr45minBiolRep3MMXXII4_CNhs13279_tpm_fwd LymphaticEndothelialCellsToVegfc_00hr45minBr3+ Lymphatic Endothelial cells response to VEGFC, 00hr45min, biol_rep3 (MM XXII - 4)_CNhs13279_12507-133A5_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC00hr45minBiolRep2MMXIV4_CNhs13160_tpm_rev LymphaticEndothelialCellsToVegfc_00hr45minBr2- Lymphatic Endothelial cells response to VEGFC, 00hr45min, biol_rep2 (MM XIV - 4)_CNhs13160_12385-131E9_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC00hr45minBiolRep2MMXIV4_CNhs13160_tpm_fwd LymphaticEndothelialCellsToVegfc_00hr45minBr2+ Lymphatic Endothelial cells response to VEGFC, 00hr45min, biol_rep2 (MM XIV - 4)_CNhs13160_12385-131E9_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC00hr45minBiolRep1MMXIX4_CNhs13102_tpm_rev LymphaticEndothelialCellsToVegfc_00hr45minBr1- Lymphatic Endothelial cells response to VEGFC, 00hr45min, biol_rep1 (MM XIX - 4)_CNhs13102_12263-130A4_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC00hr45minBiolRep1MMXIX4_CNhs13102_tpm_fwd LymphaticEndothelialCellsToVegfc_00hr45minBr1+ Lymphatic Endothelial cells response to VEGFC, 00hr45min, biol_rep1 (MM XIX - 4)_CNhs13102_12263-130A4_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC00hr30minBiolRep3MMXXII3_CNhs13278_tpm_rev LymphaticEndothelialCellsToVegfc_00hr30minBr3- Lymphatic Endothelial cells response to VEGFC, 00hr30min, biol_rep3 (MM XXII - 3)_CNhs13278_12506-133A4_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC00hr30minBiolRep3MMXXII3_CNhs13278_tpm_fwd LymphaticEndothelialCellsToVegfc_00hr30minBr3+ Lymphatic Endothelial cells response to VEGFC, 00hr30min, biol_rep3 (MM XXII - 3)_CNhs13278_12506-133A4_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC00hr30minBiolRep2MMXIV3_CNhs13159_tpm_rev LymphaticEndothelialCellsToVegfc_00hr30minBr2- Lymphatic Endothelial cells response to VEGFC, 00hr30min, biol_rep2 (MM XIV - 3)_CNhs13159_12384-131E8_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC00hr30minBiolRep2MMXIV3_CNhs13159_tpm_fwd LymphaticEndothelialCellsToVegfc_00hr30minBr2+ Lymphatic Endothelial cells response to VEGFC, 00hr30min, biol_rep2 (MM XIV - 3)_CNhs13159_12384-131E8_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC00hr30minBiolRep1MMXIX3_CNhs13101_tpm_rev LymphaticEndothelialCellsToVegfc_00hr30minBr1- Lymphatic Endothelial cells response to VEGFC, 00hr30min, biol_rep1 (MM XIX - 3)_CNhs13101_12262-130A3_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC00hr30minBiolRep1MMXIX3_CNhs13101_tpm_fwd LymphaticEndothelialCellsToVegfc_00hr30minBr1+ Lymphatic Endothelial cells response to VEGFC, 00hr30min, biol_rep1 (MM XIX - 3)_CNhs13101_12262-130A3_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC00hr15minBiolRep3MMXXII2_CNhs13277_tpm_rev LymphaticEndothelialCellsToVegfc_00hr15minBr3- Lymphatic Endothelial cells response to VEGFC, 00hr15min, biol_rep3 (MM XXII - 2)_CNhs13277_12505-133A3_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC00hr15minBiolRep3MMXXII2_CNhs13277_tpm_fwd LymphaticEndothelialCellsToVegfc_00hr15minBr3+ Lymphatic Endothelial cells response to VEGFC, 00hr15min, biol_rep3 (MM XXII - 2)_CNhs13277_12505-133A3_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC00hr15minBiolRep2MMXIV2_CNhs13158_tpm_rev LymphaticEndothelialCellsToVegfc_00hr15minBr2- Lymphatic Endothelial cells response to VEGFC, 00hr15min, biol_rep2 (MM XIV - 2)_CNhs13158_12383-131E7_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC00hr15minBiolRep2MMXIV2_CNhs13158_tpm_fwd LymphaticEndothelialCellsToVegfc_00hr15minBr2+ Lymphatic Endothelial cells response to VEGFC, 00hr15min, biol_rep2 (MM XIV - 2)_CNhs13158_12383-131E7_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC00hr15minBiolRep1MMXIX2_CNhs13100_tpm_rev LymphaticEndothelialCellsToVegfc_00hr15minBr1- Lymphatic Endothelial cells response to VEGFC, 00hr15min, biol_rep1 (MM XIX - 2)_CNhs13100_12261-130A2_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC00hr15minBiolRep1MMXIX2_CNhs13100_tpm_fwd LymphaticEndothelialCellsToVegfc_00hr15minBr1+ Lymphatic Endothelial cells response to VEGFC, 00hr15min, biol_rep1 (MM XIX - 2)_CNhs13100_12261-130A2_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC00hr00minBiolRep3MMXXII1_CNhs13276_tpm_rev LymphaticEndothelialCellsToVegfc_00hr00minBr3- Lymphatic Endothelial cells response to VEGFC, 00hr00min, biol_rep3 (MM XXII - 1 )_CNhs13276_12504-133A2_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC00hr00minBiolRep3MMXXII1_CNhs13276_tpm_fwd LymphaticEndothelialCellsToVegfc_00hr00minBr3+ Lymphatic Endothelial cells response to VEGFC, 00hr00min, biol_rep3 (MM XXII - 1 )_CNhs13276_12504-133A2_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC00hr00minBiolRep2MMXIV1_CNhs13157_tpm_rev LymphaticEndothelialCellsToVegfc_00hr00minBr2- Lymphatic Endothelial cells response to VEGFC, 00hr00min, biol_rep2 (MM XIV - 1)_CNhs13157_12382-131E6_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC00hr00minBiolRep2MMXIV1_CNhs13157_tpm_fwd LymphaticEndothelialCellsToVegfc_00hr00minBr2+ Lymphatic Endothelial cells response to VEGFC, 00hr00min, biol_rep2 (MM XIV - 1)_CNhs13157_12382-131E6_forward Regulation 
LymphaticEndothelialCellsResponseToVEGFC00hr00minBiolRep1MMXIX1_CNhs11936_tpm_rev LymphaticEndothelialCellsToVegfc_00hr00minBr1- Lymphatic Endothelial cells response to VEGFC, 00hr00min, biol_rep1 (MM XIX - 1)_CNhs11936_12260-130A1_reverse Regulation 
LymphaticEndothelialCellsResponseToVEGFC00hr00minBiolRep1MMXIX1_CNhs11936_tpm_fwd LymphaticEndothelialCellsToVegfc_00hr00minBr1+ Lymphatic Endothelial cells response to VEGFC, 00hr00min, biol_rep1 (MM XIX - 1)_CNhs11936_12260-130A1_forward Regulation 
IPSDifferentiationToNeuronControlDonorC32CRL1502Day18Rep3_CNhs14055_tpm_rev IpsToNeuronControlDnC11-CRL2429Day18R3- iPS differentiation to neuron, control donor C32-CRL1502, day18, rep3_CNhs14055_13444-144F6_reverse Regulation 
IPSDifferentiationToNeuronControlDonorC32CRL1502Day18Rep3_CNhs14055_tpm_fwd IpsToNeuronControlDnC11-CRL2429Day18R3+ iPS differentiation to neuron, control donor C32-CRL1502, day18, rep3_CNhs14055_13444-144F6_forward Regulation 
IPSDifferentiationToNeuronControlDonorC32CRL1502Day18Rep2_CNhs13842_tpm_rev IpsToNeuronControlDnC11-CRL2429Day18R2- iPS differentiation to neuron, control donor C32-CRL1502, day18, rep2_CNhs13842_13440-144F2_reverse Regulation 
IPSDifferentiationToNeuronControlDonorC32CRL1502Day18Rep2_CNhs13842_tpm_fwd IpsToNeuronControlDnC11-CRL2429Day18R2+ iPS differentiation to neuron, control donor C32-CRL1502, day18, rep2_CNhs13842_13440-144F2_forward Regulation 
IPSDifferentiationToNeuronControlDonorC32CRL1502Day18Rep1_CNhs13829_tpm_rev IpsToNeuronControlDnC11-CRL2429Day18R1- iPS differentiation to neuron, control donor C32-CRL1502, day18, rep1_CNhs13829_13436-144E7_reverse Regulation 
IPSDifferentiationToNeuronControlDonorC32CRL1502Day18Rep1_CNhs13829_tpm_fwd IpsToNeuronControlDnC11-CRL2429Day18R1+ iPS differentiation to neuron, control donor C32-CRL1502, day18, rep1_CNhs13829_13436-144E7_forward Regulation 
IPSDifferentiationToNeuronControlDonorC32CRL1502Day12Rep3_CNhs14054_tpm_rev IpsToNeuronControlDnC11-CRL2429Day12R3- iPS differentiation to neuron, control donor C32-CRL1502, day12, rep3_CNhs14054_13443-144F5_reverse Regulation 
IPSDifferentiationToNeuronControlDonorC32CRL1502Day12Rep3_CNhs14054_tpm_fwd IpsToNeuronControlDnC11-CRL2429Day12R3+ iPS differentiation to neuron, control donor C32-CRL1502, day12, rep3_CNhs14054_13443-144F5_forward Regulation 
IPSDifferentiationToNeuronControlDonorC32CRL1502Day12Rep2_CNhs13841_tpm_rev IpsToNeuronControlDnC11-CRL2429Day12R2- iPS differentiation to neuron, control donor C32-CRL1502, day12, rep2_CNhs13841_13439-144F1_reverse Regulation 
IPSDifferentiationToNeuronControlDonorC32CRL1502Day12Rep2_CNhs13841_tpm_fwd IpsToNeuronControlDnC11-CRL2429Day12R2+ iPS differentiation to neuron, control donor C32-CRL1502, day12, rep2_CNhs13841_13439-144F1_forward Regulation 
IPSDifferentiationToNeuronControlDonorC32CRL1502Day12Rep1_CNhs13828_tpm_rev IpsToNeuronControlDnC11-CRL2429Day12R1- iPS differentiation to neuron, control donor C32-CRL1502, day12, rep1_CNhs13828_13435-144E6_reverse Regulation 
IPSDifferentiationToNeuronControlDonorC32CRL1502Day12Rep1_CNhs13828_tpm_fwd IpsToNeuronControlDnC11-CRL2429Day12R1+ iPS differentiation to neuron, control donor C32-CRL1502, day12, rep1_CNhs13828_13435-144E6_forward Regulation 
IPSDifferentiationToNeuronControlDonorC32CRL1502Day06Rep3_CNhs14053_tpm_rev IpsToNeuronControlDnC11-CRL2429Day06R3- iPS differentiation to neuron, control donor C32-CRL1502, day06, rep3_CNhs14053_13442-144F4_reverse Regulation 
IPSDifferentiationToNeuronControlDonorC32CRL1502Day06Rep3_CNhs14053_tpm_fwd IpsToNeuronControlDnC11-CRL2429Day06R3+ iPS differentiation to neuron, control donor C32-CRL1502, day06, rep3_CNhs14053_13442-144F4_forward Regulation 
IPSDifferentiationToNeuronControlDonorC32CRL1502Day06Rep2_CNhs13840_tpm_rev IpsToNeuronControlDnC11-CRL2429Day06R2- iPS differentiation to neuron, control donor C32-CRL1502, day06, rep2_CNhs13840_13438-144E9_reverse Regulation 
IPSDifferentiationToNeuronControlDonorC32CRL1502Day06Rep2_CNhs13840_tpm_fwd IpsToNeuronControlDnC11-CRL2429Day06R2+ iPS differentiation to neuron, control donor C32-CRL1502, day06, rep2_CNhs13840_13438-144E9_forward Regulation 
IPSDifferentiationToNeuronControlDonorC32CRL1502Day06Rep1_CNhs13827_tpm_rev IpsToNeuronControlDnC11-CRL2429Day06R1- iPS differentiation to neuron, control donor C32-CRL1502, day06, rep1_CNhs13827_13434-144E5_reverse Regulation 
IPSDifferentiationToNeuronControlDonorC32CRL1502Day06Rep1_CNhs13827_tpm_fwd IpsToNeuronControlDnC11-CRL2429Day06R1+ iPS differentiation to neuron, control donor C32-CRL1502, day06, rep1_CNhs13827_13434-144E5_forward Regulation 
IPSDifferentiationToNeuronControlDonorC32CRL1502Day00Rep3_CNhs14052_tpm_rev IpsToNeuronControlDnC11-CRL2429Day00R3- iPS differentiation to neuron, control donor C32-CRL1502, day00, rep3_CNhs14052_13441-144F3_reverse Regulation 
IPSDifferentiationToNeuronControlDonorC32CRL1502Day00Rep3_CNhs14052_tpm_fwd IpsToNeuronControlDnC11-CRL2429Day00R3+ iPS differentiation to neuron, control donor C32-CRL1502, day00, rep3_CNhs14052_13441-144F3_forward Regulation 
IPSDifferentiationToNeuronControlDonorC32CRL1502Day00Rep2_CNhs13839_tpm_rev IpsToNeuronControlDnC11-CRL2429Day00R2- iPS differentiation to neuron, control donor C32-CRL1502, day00, rep2_CNhs13839_13437-144E8_reverse Regulation 
IPSDifferentiationToNeuronControlDonorC32CRL1502Day00Rep2_CNhs13839_tpm_fwd IpsToNeuronControlDnC11-CRL2429Day00R2+ iPS differentiation to neuron, control donor C32-CRL1502, day00, rep2_CNhs13839_13437-144E8_forward Regulation 
IPSDifferentiationToNeuronControlDonorC32CRL1502Day00Rep1_CNhs13826_tpm_rev IpsToNeuronControlDnC11-CRL2429Day00R1- iPS differentiation to neuron, control donor C32-CRL1502, day00, rep1_CNhs13826_13433-144E4_reverse Regulation 
IPSDifferentiationToNeuronControlDonorC32CRL1502Day00Rep1_CNhs13826_tpm_fwd IpsToNeuronControlDnC11-CRL2429Day00R1+ iPS differentiation to neuron, control donor C32-CRL1502, day00, rep1_CNhs13826_13433-144E4_forward Regulation 
IPSDifferentiationToNeuronControlDonorC11CRL2429Day18Rep3_CNhs13917_tpm_rev IpsToNeuronControlDnC11-CRL2429Day18R3- iPS differentiation to neuron, control donor C11-CRL2429, day18, rep3_CNhs13917_13432-144E3_reverse Regulation 
IPSDifferentiationToNeuronControlDonorC11CRL2429Day18Rep3_CNhs13917_tpm_fwd IpsToNeuronControlDnC11-CRL2429Day18R3+ iPS differentiation to neuron, control donor C11-CRL2429, day18, rep3_CNhs13917_13432-144E3_forward Regulation 
IPSDifferentiationToNeuronControlDonorC11CRL2429Day18Rep2_CNhs13825_tpm_rev IpsToNeuronControlDnC11-CRL2429Day18R2- iPS differentiation to neuron, control donor C11-CRL2429, day18, rep2_CNhs13825_13428-144D8_reverse Regulation 
IPSDifferentiationToNeuronControlDonorC11CRL2429Day18Rep2_CNhs13825_tpm_fwd IpsToNeuronControlDnC11-CRL2429Day18R2+ iPS differentiation to neuron, control donor C11-CRL2429, day18, rep2_CNhs13825_13428-144D8_forward Regulation 
IPSDifferentiationToNeuronControlDonorC11CRL2429Day18Rep1_CNhs13916_tpm_rev IpsToNeuronControlDnC11-CRL2429Day18R1- iPS differentiation to neuron, control donor C11-CRL2429, day18, rep1_CNhs13916_13424-144D4_reverse Regulation 
IPSDifferentiationToNeuronControlDonorC11CRL2429Day18Rep1_CNhs13916_tpm_fwd IpsToNeuronControlDnC11-CRL2429Day18R1+ iPS differentiation to neuron, control donor C11-CRL2429, day18, rep1_CNhs13916_13424-144D4_forward Regulation 
IPSDifferentiationToNeuronControlDonorC11CRL2429Day12Rep3_CNhs14051_tpm_rev IpsToNeuronControlDnC11-CRL2429Day12R3- iPS differentiation to neuron, control donor C11-CRL2429, day12, rep3_CNhs14051_13431-144E2_reverse Regulation 
IPSDifferentiationToNeuronControlDonorC11CRL2429Day12Rep3_CNhs14051_tpm_fwd IpsToNeuronControlDnC11-CRL2429Day12R3+ iPS differentiation to neuron, control donor C11-CRL2429, day12, rep3_CNhs14051_13431-144E2_forward Regulation 
IPSDifferentiationToNeuronControlDonorC11CRL2429Day12Rep2_CNhs13824_tpm_rev IpsToNeuronControlDnC11-CRL2429Day12R2- iPS differentiation to neuron, control donor C11-CRL2429, day12, rep2_CNhs13824_13427-144D7_reverse Regulation 
IPSDifferentiationToNeuronControlDonorC11CRL2429Day12Rep2_CNhs13824_tpm_fwd IpsToNeuronControlDnC11-CRL2429Day12R2+ iPS differentiation to neuron, control donor C11-CRL2429, day12, rep2_CNhs13824_13427-144D7_forward Regulation 
IPSDifferentiationToNeuronControlDonorC11CRL2429Day12Rep1_CNhs14047_tpm_rev IpsToNeuronControlDnC11-CRL2429Day12R1- iPS differentiation to neuron, control donor C11-CRL2429, day12, rep1_CNhs14047_13423-144D3_reverse Regulation 
IPSDifferentiationToNeuronControlDonorC11CRL2429Day12Rep1_CNhs14047_tpm_fwd IpsToNeuronControlDnC11-CRL2429Day12R1+ iPS differentiation to neuron, control donor C11-CRL2429, day12, rep1_CNhs14047_13423-144D3_forward Regulation 
IPSDifferentiationToNeuronControlDonorC11CRL2429Day06Rep3_CNhs14050_tpm_rev IpsToNeuronControlDnC11-CRL2429Day06R3- iPS differentiation to neuron, control donor C11-CRL2429, day06, rep3_CNhs14050_13430-144E1_reverse Regulation 
IPSDifferentiationToNeuronControlDonorC11CRL2429Day06Rep3_CNhs14050_tpm_fwd IpsToNeuronControlDnC11-CRL2429Day06R3+ iPS differentiation to neuron, control donor C11-CRL2429, day06, rep3_CNhs14050_13430-144E1_forward Regulation 
IPSDifferentiationToNeuronControlDonorC11CRL2429Day06Rep2_CNhs13823_tpm_rev IpsToNeuronControlDnC11-CRL2429Day06R2- iPS differentiation to neuron, control donor C11-CRL2429, day06, rep2_CNhs13823_13426-144D6_reverse Regulation 
IPSDifferentiationToNeuronControlDonorC11CRL2429Day06Rep2_CNhs13823_tpm_fwd IpsToNeuronControlDnC11-CRL2429Day06R2+ iPS differentiation to neuron, control donor C11-CRL2429, day06, rep2_CNhs13823_13426-144D6_forward Regulation 
IPSDifferentiationToNeuronControlDonorC11CRL2429Day06Rep1_CNhs14046_tpm_rev IpsToNeuronControlDnC11-CRL2429Day06R1- iPS differentiation to neuron, control donor C11-CRL2429, day06, rep1_CNhs14046_13422-144D2_reverse Regulation 
IPSDifferentiationToNeuronControlDonorC11CRL2429Day06Rep1_CNhs14046_tpm_fwd IpsToNeuronControlDnC11-CRL2429Day06R1+ iPS differentiation to neuron, control donor C11-CRL2429, day06, rep1_CNhs14046_13422-144D2_forward Regulation 
IPSDifferentiationToNeuronControlDonorC11CRL2429Day00Rep3_CNhs14049_tpm_rev IpsToNeuronControlDnC11-CRL2429Day00R3- iPS differentiation to neuron, control donor C11-CRL2429, day00, rep3_CNhs14049_13429-144D9_reverse Regulation 
IPSDifferentiationToNeuronControlDonorC11CRL2429Day00Rep3_CNhs14049_tpm_fwd IpsToNeuronControlDnC11-CRL2429Day00R3+ iPS differentiation to neuron, control donor C11-CRL2429, day00, rep3_CNhs14049_13429-144D9_forward Regulation 
IPSDifferentiationToNeuronControlDonorC11CRL2429Day00Rep2_CNhs13822_tpm_rev IpsToNeuronControlDnC11-CRL2429Day00R2- iPS differentiation to neuron, control donor C11-CRL2429, day00, rep2_CNhs13822_13425-144D5_reverse Regulation 
IPSDifferentiationToNeuronControlDonorC11CRL2429Day00Rep2_CNhs13822_tpm_fwd IpsToNeuronControlDnC11-CRL2429Day00R2+ iPS differentiation to neuron, control donor C11-CRL2429, day00, rep2_CNhs13822_13425-144D5_forward Regulation 
IPSDifferentiationToNeuronControlDonorC11CRL2429Day00Rep1_CNhs14045_tpm_rev IpsToNeuronControlDnC11-CRL2429Day00R1- iPS differentiation to neuron, control donor C11-CRL2429, day00, rep1_CNhs14045_13421-144D1_reverse Regulation 
IPSDifferentiationToNeuronControlDonorC11CRL2429Day00Rep1_CNhs14045_tpm_fwd IpsToNeuronControlDnC11-CRL2429Day00R1+ iPS differentiation to neuron, control donor C11-CRL2429, day00, rep1_CNhs14045_13421-144D1_forward Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC18CCL54Day18Rep3_CNhs14066_tpm_rev Tc:iPStoNeuronDs_Day18R3- iPS differentiation to neuron, down-syndrome donor C18-CCL54, day18, rep3_CNhs14066_13468-144I3_reverse Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC18CCL54Day18Rep3_CNhs14066_tpm_fwd Tc:iPStoNeuronDs_Day18R3+ iPS differentiation to neuron, down-syndrome donor C18-CCL54, day18, rep3_CNhs14066_13468-144I3_forward Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC18CCL54Day18Rep2_CNhs13922_tpm_rev Tc:iPStoNeuronDs_Day18R2- iPS differentiation to neuron, down-syndrome donor C18-CCL54, day18, rep2_CNhs13922_13464-144H8_reverse Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC18CCL54Day18Rep2_CNhs13922_tpm_fwd Tc:iPStoNeuronDs_Day18R2+ iPS differentiation to neuron, down-syndrome donor C18-CCL54, day18, rep2_CNhs13922_13464-144H8_forward Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC18CCL54Day18Rep1_CNhs13838_tpm_rev Tc:iPStoNeuronDs_Day18R1- iPS differentiation to neuron, down-syndrome donor C18-CCL54, day18, rep1_CNhs13838_13460-144H4_reverse Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC18CCL54Day18Rep1_CNhs13838_tpm_fwd Tc:iPStoNeuronDs_Day18R1+ iPS differentiation to neuron, down-syndrome donor C18-CCL54, day18, rep1_CNhs13838_13460-144H4_forward Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC18CCL54Day12Rep3_CNhs14065_tpm_rev Tc:iPStoNeuronDs_Day12R3- iPS differentiation to neuron, down-syndrome donor C18-CCL54, day12, rep3_CNhs14065_13467-144I2_reverse Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC18CCL54Day12Rep3_CNhs14065_tpm_fwd Tc:iPStoNeuronDs_Day12R3+ iPS differentiation to neuron, down-syndrome donor C18-CCL54, day12, rep3_CNhs14065_13467-144I2_forward Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC18CCL54Day12Rep2_CNhs14062_tpm_rev Tc:iPStoNeuronDs_Day12R2- iPS differentiation to neuron, down-syndrome donor C18-CCL54, day12, rep2_CNhs14062_13463-144H7_reverse Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC18CCL54Day12Rep2_CNhs14062_tpm_fwd Tc:iPStoNeuronDs_Day12R2+ iPS differentiation to neuron, down-syndrome donor C18-CCL54, day12, rep2_CNhs14062_13463-144H7_forward Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC18CCL54Day12Rep1_CNhs13837_tpm_rev Tc:iPStoNeuronDs_Day12R1- iPS differentiation to neuron, down-syndrome donor C18-CCL54, day12, rep1_CNhs13837_13459-144H3_reverse Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC18CCL54Day12Rep1_CNhs13837_tpm_fwd Tc:iPStoNeuronDs_Day12R1+ iPS differentiation to neuron, down-syndrome donor C18-CCL54, day12, rep1_CNhs13837_13459-144H3_forward Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC18CCL54Day06Rep3_CNhs14064_tpm_rev Tc:iPStoNeuronDs_Day06R3- iPS differentiation to neuron, down-syndrome donor C18-CCL54, day06, rep3_CNhs14064_13466-144I1_reverse Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC18CCL54Day06Rep3_CNhs14064_tpm_fwd Tc:iPStoNeuronDs_Day06R3+ iPS differentiation to neuron, down-syndrome donor C18-CCL54, day06, rep3_CNhs14064_13466-144I1_forward Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC18CCL54Day06Rep2_CNhs14061_tpm_rev Tc:iPStoNeuronDs_Day06R2- iPS differentiation to neuron, down-syndrome donor C18-CCL54, day06, rep2_CNhs14061_13462-144H6_reverse Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC18CCL54Day06Rep2_CNhs14061_tpm_fwd Tc:iPStoNeuronDs_Day06R2+ iPS differentiation to neuron, down-syndrome donor C18-CCL54, day06, rep2_CNhs14061_13462-144H6_forward Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC18CCL54Day06Rep1_CNhs13836_tpm_rev Tc:iPStoNeuronDs_Day06R1- iPS differentiation to neuron, down-syndrome donor C18-CCL54, day06, rep1_CNhs13836_13458-144H2_reverse Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC18CCL54Day06Rep1_CNhs13836_tpm_fwd Tc:iPStoNeuronDs_Day06R1+ iPS differentiation to neuron, down-syndrome donor C18-CCL54, day06, rep1_CNhs13836_13458-144H2_forward Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC18CCL54Day00Rep3_CNhs14063_tpm_rev Tc:iPStoNeuronDs_Day00R3- iPS differentiation to neuron, down-syndrome donor C18-CCL54, day00, rep3_CNhs14063_13465-144H9_reverse Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC18CCL54Day00Rep3_CNhs14063_tpm_fwd Tc:iPStoNeuronDs_Day00R3+ iPS differentiation to neuron, down-syndrome donor C18-CCL54, day00, rep3_CNhs14063_13465-144H9_forward Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC18CCL54Day00Rep2_CNhs14060_tpm_rev Tc:iPStoNeuronDs_Day00R2- iPS differentiation to neuron, down-syndrome donor C18-CCL54, day00, rep2_CNhs14060_13461-144H5_reverse Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC18CCL54Day00Rep2_CNhs14060_tpm_fwd Tc:iPStoNeuronDs_Day00R2+ iPS differentiation to neuron, down-syndrome donor C18-CCL54, day00, rep2_CNhs14060_13461-144H5_forward Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC18CCL54Day00Rep1_CNhs13835_tpm_rev Tc:iPStoNeuronDs_Day00R1- iPS differentiation to neuron, down-syndrome donor C18-CCL54, day00, rep1_CNhs13835_13457-144H1_reverse Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC18CCL54Day00Rep1_CNhs13835_tpm_fwd Tc:iPStoNeuronDs_Day00R1+ iPS differentiation to neuron, down-syndrome donor C18-CCL54, day00, rep1_CNhs13835_13457-144H1_forward Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC11CCL54Day18Rep3_CNhs14059_tpm_rev Tc:iPStoNeuronDs_Day18R3- iPS differentiation to neuron, down-syndrome donor C11-CCL54, day18, rep3_CNhs14059_13456-144G9_reverse Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC11CCL54Day18Rep3_CNhs14059_tpm_fwd Tc:iPStoNeuronDs_Day18R3+ iPS differentiation to neuron, down-syndrome donor C11-CCL54, day18, rep3_CNhs14059_13456-144G9_forward Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC11CCL54Day18Rep2_CNhs13846_tpm_rev Tc:iPStoNeuronDs_Day18R2- iPS differentiation to neuron, down-syndrome donor C11-CCL54, day18, rep2_CNhs13846_13452-144G5_reverse Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC11CCL54Day18Rep2_CNhs13846_tpm_fwd Tc:iPStoNeuronDs_Day18R2+ iPS differentiation to neuron, down-syndrome donor C11-CCL54, day18, rep2_CNhs13846_13452-144G5_forward Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC11CCL54Day18Rep1_CNhs13833_tpm_rev Tc:iPStoNeuronDs_Day18R1- iPS differentiation to neuron, down-syndrome donor C11-CCL54, day18, rep1_CNhs13833_13448-144G1_reverse Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC11CCL54Day18Rep1_CNhs13833_tpm_fwd Tc:iPStoNeuronDs_Day18R1+ iPS differentiation to neuron, down-syndrome donor C11-CCL54, day18, rep1_CNhs13833_13448-144G1_forward Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC11CCL54Day12Rep3_CNhs14058_tpm_rev Tc:iPStoNeuronDs_Day12R3- iPS differentiation to neuron, down-syndrome donor C11-CCL54, day12, rep3_CNhs14058_13455-144G8_reverse Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC11CCL54Day12Rep3_CNhs14058_tpm_fwd Tc:iPStoNeuronDs_Day12R3+ iPS differentiation to neuron, down-syndrome donor C11-CCL54, day12, rep3_CNhs14058_13455-144G8_forward Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC11CCL54Day12Rep2_CNhs13845_tpm_rev Tc:iPStoNeuronDs_Day12R2- iPS differentiation to neuron, down-syndrome donor C11-CCL54, day12, rep2_CNhs13845_13451-144G4_reverse Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC11CCL54Day12Rep2_CNhs13845_tpm_fwd Tc:iPStoNeuronDs_Day12R2+ iPS differentiation to neuron, down-syndrome donor C11-CCL54, day12, rep2_CNhs13845_13451-144G4_forward Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC11CCL54Day12Rep1_CNhs13832_tpm_rev Tc:iPStoNeuronDs_Day12R1- iPS differentiation to neuron, down-syndrome donor C11-CCL54, day12, rep1_CNhs13832_13447-144F9_reverse Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC11CCL54Day12Rep1_CNhs13832_tpm_fwd Tc:iPStoNeuronDs_Day12R1+ iPS differentiation to neuron, down-syndrome donor C11-CCL54, day12, rep1_CNhs13832_13447-144F9_forward Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC11CCL54Day06Rep3_CNhs14057_tpm_rev Tc:iPStoNeuronDs_Day06R3- iPS differentiation to neuron, down-syndrome donor C11-CCL54, day06, rep3_CNhs14057_13454-144G7_reverse Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC11CCL54Day06Rep3_CNhs14057_tpm_fwd Tc:iPStoNeuronDs_Day06R3+ iPS differentiation to neuron, down-syndrome donor C11-CCL54, day06, rep3_CNhs14057_13454-144G7_forward Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC11CCL54Day06Rep2_CNhs13844_tpm_rev Tc:iPStoNeuronDs_Day06R2- iPS differentiation to neuron, down-syndrome donor C11-CCL54, day06, rep2_CNhs13844_13450-144G3_reverse Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC11CCL54Day06Rep2_CNhs13844_tpm_fwd Tc:iPStoNeuronDs_Day06R2+ iPS differentiation to neuron, down-syndrome donor C11-CCL54, day06, rep2_CNhs13844_13450-144G3_forward Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC11CCL54Day06Rep1_CNhs13831_tpm_rev Tc:iPStoNeuronDs_Day06R1- iPS differentiation to neuron, down-syndrome donor C11-CCL54, day06, rep1_CNhs13831_13446-144F8_reverse Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC11CCL54Day06Rep1_CNhs13831_tpm_fwd Tc:iPStoNeuronDs_Day06R1+ iPS differentiation to neuron, down-syndrome donor C11-CCL54, day06, rep1_CNhs13831_13446-144F8_forward Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC11CCL54Day00Rep3_CNhs14056_tpm_rev Tc:iPStoNeuronDs_Day00R3- iPS differentiation to neuron, down-syndrome donor C11-CCL54, day00, rep3_CNhs14056_13453-144G6_reverse Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC11CCL54Day00Rep3_CNhs14056_tpm_fwd Tc:iPStoNeuronDs_Day00R3+ iPS differentiation to neuron, down-syndrome donor C11-CCL54, day00, rep3_CNhs14056_13453-144G6_forward Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC11CCL54Day00Rep2_CNhs13843_tpm_rev Tc:iPStoNeuronDs_Day00R2- iPS differentiation to neuron, down-syndrome donor C11-CCL54, day00, rep2_CNhs13843_13449-144G2_reverse Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC11CCL54Day00Rep2_CNhs13843_tpm_fwd Tc:iPStoNeuronDs_Day00R2+ iPS differentiation to neuron, down-syndrome donor C11-CCL54, day00, rep2_CNhs13843_13449-144G2_forward Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC11CCL54Day00Rep1_CNhs13830_tpm_rev Tc:iPStoNeuronDs_Day00R1- iPS differentiation to neuron, down-syndrome donor C11-CCL54, day00, rep1_CNhs13830_13445-144F7_reverse Regulation 
IPSDifferentiationToNeuronDownsyndromeDonorC11CCL54Day00Rep1_CNhs13830_tpm_fwd Tc:iPStoNeuronDs_Day00R1+ iPS differentiation to neuron, down-syndrome donor C11-CCL54, day00, rep1_CNhs13830_13445-144F7_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha60hr00minBiolRep3_CNhs14543_tpm_rev Tc:ARPE-19Emt_60hr00minBr3- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 60hr00min, biol_rep3_CNhs14543_13687-147F6_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha60hr00minBiolRep3_CNhs14543_tpm_fwd Tc:ARPE-19Emt_60hr00minBr3+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 60hr00min, biol_rep3_CNhs14543_13687-147F6_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha60hr00minBiolRep2_CNhs14542_tpm_rev Tc:ARPE-19Emt_60hr00minBr2- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 60hr00min, biol_rep2_CNhs14542_13686-147F5_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha60hr00minBiolRep2_CNhs14542_tpm_fwd Tc:ARPE-19Emt_60hr00minBr2+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 60hr00min, biol_rep2_CNhs14542_13686-147F5_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha60hr00minBiolRep1_CNhs14541_tpm_rev Tc:ARPE-19Emt_60hr00minBr1- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 60hr00min, biol_rep1_CNhs14541_13685-147F4_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha60hr00minBiolRep1_CNhs14541_tpm_fwd Tc:ARPE-19Emt_60hr00minBr1+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 60hr00min, biol_rep1_CNhs14541_13685-147F4_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha42hr00minBiolRep3_CNhs14540_tpm_rev Tc:ARPE-19Emt_42hr00minBr3- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 42hr00min, biol_rep3_CNhs14540_13684-147F3_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha42hr00minBiolRep3_CNhs14540_tpm_fwd Tc:ARPE-19Emt_42hr00minBr3+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 42hr00min, biol_rep3_CNhs14540_13684-147F3_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha42hr00minBiolRep2_CNhs14539_tpm_rev Tc:ARPE-19Emt_42hr00minBr2- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 42hr00min, biol_rep2_CNhs14539_13683-147F2_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha42hr00minBiolRep2_CNhs14539_tpm_fwd Tc:ARPE-19Emt_42hr00minBr2+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 42hr00min, biol_rep2_CNhs14539_13683-147F2_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha42hr00minBiolRep1_CNhs14538_tpm_rev Tc:ARPE-19Emt_42hr00minBr1- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 42hr00min, biol_rep1_CNhs14538_13682-147F1_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha42hr00minBiolRep1_CNhs14538_tpm_fwd Tc:ARPE-19Emt_42hr00minBr1+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 42hr00min, biol_rep1_CNhs14538_13682-147F1_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha24hr00minBiolRep3_CNhs14537_tpm_rev Tc:ARPE-19Emt_24hr00minBr3- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 24hr00min, biol_rep3_CNhs14537_13681-147E9_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha24hr00minBiolRep3_CNhs14537_tpm_fwd Tc:ARPE-19Emt_24hr00minBr3+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 24hr00min, biol_rep3_CNhs14537_13681-147E9_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha24hr00minBiolRep1_CNhs14535_tpm_rev Tc:ARPE-19Emt_24hr00minBr1- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 24hr00min, biol_rep1_CNhs14535_13679-147E7_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha24hr00minBiolRep1_CNhs14535_tpm_fwd Tc:ARPE-19Emt_24hr00minBr1+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 24hr00min, biol_rep1_CNhs14535_13679-147E7_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha16hr00minBiolRep3_CNhs14534_tpm_rev Tc:ARPE-19Emt_16hr00minBr3- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 16hr00min, biol_rep3_CNhs14534_13678-147E6_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha16hr00minBiolRep3_CNhs14534_tpm_fwd Tc:ARPE-19Emt_16hr00minBr3+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 16hr00min, biol_rep3_CNhs14534_13678-147E6_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha16hr00minBiolRep2_CNhs14533_tpm_rev Tc:ARPE-19Emt_16hr00minBr2- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 16hr00min, biol_rep2_CNhs14533_13677-147E5_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha16hr00minBiolRep2_CNhs14533_tpm_fwd Tc:ARPE-19Emt_16hr00minBr2+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 16hr00min, biol_rep2_CNhs14533_13677-147E5_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha16hr00minBiolRep1_CNhs14532_tpm_rev Tc:ARPE-19Emt_16hr00minBr1- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 16hr00min, biol_rep1_CNhs14532_13676-147E4_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha16hr00minBiolRep1_CNhs14532_tpm_fwd Tc:ARPE-19Emt_16hr00minBr1+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 16hr00min, biol_rep1_CNhs14532_13676-147E4_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha12hr00minBiolRep3_CNhs14531_tpm_rev Tc:ARPE-19Emt_12hr00minBr3- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 12hr00min, biol_rep3_CNhs14531_13675-147E3_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha12hr00minBiolRep3_CNhs14531_tpm_fwd Tc:ARPE-19Emt_12hr00minBr3+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 12hr00min, biol_rep3_CNhs14531_13675-147E3_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha12hr00minBiolRep2_CNhs14530_tpm_rev Tc:ARPE-19Emt_12hr00minBr2- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 12hr00min, biol_rep2_CNhs14530_13674-147E2_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha12hr00minBiolRep2_CNhs14530_tpm_fwd Tc:ARPE-19Emt_12hr00minBr2+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 12hr00min, biol_rep2_CNhs14530_13674-147E2_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha08hr00minBiolRep3_CNhs14528_tpm_rev Tc:ARPE-19Emt_08hr00minBr3- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 08hr00min, biol_rep3_CNhs14528_13672-147D9_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha08hr00minBiolRep3_CNhs14528_tpm_fwd Tc:ARPE-19Emt_08hr00minBr3+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 08hr00min, biol_rep3_CNhs14528_13672-147D9_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha08hr00minBiolRep2_CNhs14527_tpm_rev Tc:ARPE-19Emt_08hr00minBr2- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 08hr00min, biol_rep2_CNhs14527_13671-147D8_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha08hr00minBiolRep2_CNhs14527_tpm_fwd Tc:ARPE-19Emt_08hr00minBr2+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 08hr00min, biol_rep2_CNhs14527_13671-147D8_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha08hr00minBiolRep1_CNhs14526_tpm_rev Tc:ARPE-19Emt_08hr00minBr1- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 08hr00min, biol_rep1_CNhs14526_13670-147D7_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha08hr00minBiolRep1_CNhs14526_tpm_fwd Tc:ARPE-19Emt_08hr00minBr1+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 08hr00min, biol_rep1_CNhs14526_13670-147D7_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha07hr00minBiolRep3_CNhs14525_tpm_rev Tc:ARPE-19Emt_07hr00minBr3- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 07hr00min, biol_rep3_CNhs14525_13669-147D6_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha07hr00minBiolRep3_CNhs14525_tpm_fwd Tc:ARPE-19Emt_07hr00minBr3+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 07hr00min, biol_rep3_CNhs14525_13669-147D6_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha07hr00minBiolRep2_CNhs14524_tpm_rev Tc:ARPE-19Emt_07hr00minBr2- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 07hr00min, biol_rep2_CNhs14524_13668-147D5_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha07hr00minBiolRep2_CNhs14524_tpm_fwd Tc:ARPE-19Emt_07hr00minBr2+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 07hr00min, biol_rep2_CNhs14524_13668-147D5_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha07hr00minBiolRep1_CNhs14523_tpm_rev Tc:ARPE-19Emt_07hr00minBr1- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 07hr00min, biol_rep1_CNhs14523_13667-147D4_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha07hr00minBiolRep1_CNhs14523_tpm_fwd Tc:ARPE-19Emt_07hr00minBr1+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 07hr00min, biol_rep1_CNhs14523_13667-147D4_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha06hr00minBiolRep3_CNhs14522_tpm_rev Tc:ARPE-19Emt_06hr00minBr3- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 06hr00min, biol_rep3_CNhs14522_13666-147D3_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha06hr00minBiolRep3_CNhs14522_tpm_fwd Tc:ARPE-19Emt_06hr00minBr3+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 06hr00min, biol_rep3_CNhs14522_13666-147D3_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha06hr00minBiolRep1_CNhs14519_tpm_rev Tc:ARPE-19Emt_06hr00minBr1- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 06hr00min, biol_rep1_CNhs14519_13664-147D1_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha06hr00minBiolRep1_CNhs14519_tpm_fwd Tc:ARPE-19Emt_06hr00minBr1+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 06hr00min, biol_rep1_CNhs14519_13664-147D1_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha05hr00minBiolRep3_CNhs14518_tpm_rev Tc:ARPE-19Emt_05hr00minBr3- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 05hr00min, biol_rep3_CNhs14518_13663-147C9_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha05hr00minBiolRep3_CNhs14518_tpm_fwd Tc:ARPE-19Emt_05hr00minBr3+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 05hr00min, biol_rep3_CNhs14518_13663-147C9_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha05hr00minBiolRep2_CNhs14501_tpm_rev Tc:ARPE-19Emt_05hr00minBr2- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 05hr00min, biol_rep2_CNhs14501_13662-147C8_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha05hr00minBiolRep2_CNhs14501_tpm_fwd Tc:ARPE-19Emt_05hr00minBr2+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 05hr00min, biol_rep2_CNhs14501_13662-147C8_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha05hr00minBiolRep1_CNhs14500_tpm_rev Tc:ARPE-19Emt_05hr00minBr1- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 05hr00min, biol_rep1_CNhs14500_13661-147C7_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha05hr00minBiolRep1_CNhs14500_tpm_fwd Tc:ARPE-19Emt_05hr00minBr1+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 05hr00min, biol_rep1_CNhs14500_13661-147C7_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha04hr00minBiolRep3_CNhs14499_tpm_rev Tc:ARPE-19Emt_04hr00minBr3- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 04hr00min, biol_rep3_CNhs14499_13660-147C6_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha04hr00minBiolRep3_CNhs14499_tpm_fwd Tc:ARPE-19Emt_04hr00minBr3+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 04hr00min, biol_rep3_CNhs14499_13660-147C6_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha04hr00minBiolRep2_CNhs14498_tpm_rev Tc:ARPE-19Emt_04hr00minBr2- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 04hr00min, biol_rep2_CNhs14498_13659-147C5_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha04hr00minBiolRep2_CNhs14498_tpm_fwd Tc:ARPE-19Emt_04hr00minBr2+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 04hr00min, biol_rep2_CNhs14498_13659-147C5_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha04hr00minBiolRep1_CNhs14497_tpm_rev Tc:ARPE-19Emt_04hr00minBr1- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 04hr00min, biol_rep1_CNhs14497_13658-147C4_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha04hr00minBiolRep1_CNhs14497_tpm_fwd Tc:ARPE-19Emt_04hr00minBr1+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 04hr00min, biol_rep1_CNhs14497_13658-147C4_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha03hr30minBiolRep3_CNhs14496_tpm_rev Tc:ARPE-19Emt_03hr30minBr3- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 03hr30min, biol_rep3_CNhs14496_13657-147C3_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha03hr30minBiolRep3_CNhs14496_tpm_fwd Tc:ARPE-19Emt_03hr30minBr3+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 03hr30min, biol_rep3_CNhs14496_13657-147C3_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha03hr30minBiolRep2_CNhs14495_tpm_rev Tc:ARPE-19Emt_03hr30minBr2- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 03hr30min, biol_rep2_CNhs14495_13656-147C2_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha03hr30minBiolRep2_CNhs14495_tpm_fwd Tc:ARPE-19Emt_03hr30minBr2+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 03hr30min, biol_rep2_CNhs14495_13656-147C2_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha03hr30minBiolRep1_CNhs14494_tpm_rev Tc:ARPE-19Emt_03hr30minBr1- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 03hr30min, biol_rep1_CNhs14494_13655-147C1_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha03hr30minBiolRep1_CNhs14494_tpm_fwd Tc:ARPE-19Emt_03hr30minBr1+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 03hr30min, biol_rep1_CNhs14494_13655-147C1_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha03hr00minBiolRep3_CNhs14493_tpm_rev Tc:ARPE-19Emt_03hr00minBr3- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 03hr00min, biol_rep3_CNhs14493_13654-147B9_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha03hr00minBiolRep3_CNhs14493_tpm_fwd Tc:ARPE-19Emt_03hr00minBr3+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 03hr00min, biol_rep3_CNhs14493_13654-147B9_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha03hr00minBiolRep2_CNhs14492_tpm_rev Tc:ARPE-19Emt_03hr00minBr2- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 03hr00min, biol_rep2_CNhs14492_13653-147B8_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha03hr00minBiolRep2_CNhs14492_tpm_fwd Tc:ARPE-19Emt_03hr00minBr2+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 03hr00min, biol_rep2_CNhs14492_13653-147B8_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha03hr00minBiolRep1_CNhs14491_tpm_rev Tc:ARPE-19Emt_03hr00minBr1- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 03hr00min, biol_rep1_CNhs14491_13652-147B7_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha03hr00minBiolRep1_CNhs14491_tpm_fwd Tc:ARPE-19Emt_03hr00minBr1+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 03hr00min, biol_rep1_CNhs14491_13652-147B7_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha02hr30minBiolRep3_CNhs14490_tpm_rev Tc:ARPE-19Emt_02hr30minBr3- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 02hr30min, biol_rep3_CNhs14490_13651-147B6_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha02hr30minBiolRep3_CNhs14490_tpm_fwd Tc:ARPE-19Emt_02hr30minBr3+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 02hr30min, biol_rep3_CNhs14490_13651-147B6_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha02hr30minBiolRep2_CNhs14489_tpm_rev Tc:ARPE-19Emt_02hr30minBr2- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 02hr30min, biol_rep2_CNhs14489_13650-147B5_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha02hr30minBiolRep2_CNhs14489_tpm_fwd Tc:ARPE-19Emt_02hr30minBr2+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 02hr30min, biol_rep2_CNhs14489_13650-147B5_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha02hr30minBiolRep1_CNhs14488_tpm_rev Tc:ARPE-19Emt_02hr30minBr1- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 02hr30min, biol_rep1_CNhs14488_13649-147B4_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha02hr30minBiolRep1_CNhs14488_tpm_fwd Tc:ARPE-19Emt_02hr30minBr1+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 02hr30min, biol_rep1_CNhs14488_13649-147B4_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha02hr00minBiolRep3_CNhs14487_tpm_rev Tc:ARPE-19Emt_02hr00minBr3- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 02hr00min, biol_rep3_CNhs14487_13648-147B3_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha02hr00minBiolRep3_CNhs14487_tpm_fwd Tc:ARPE-19Emt_02hr00minBr3+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 02hr00min, biol_rep3_CNhs14487_13648-147B3_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha02hr00minBiolRep2_CNhs14486_tpm_rev Tc:ARPE-19Emt_02hr00minBr2- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 02hr00min, biol_rep2_CNhs14486_13647-147B2_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha02hr00minBiolRep2_CNhs14486_tpm_fwd Tc:ARPE-19Emt_02hr00minBr2+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 02hr00min, biol_rep2_CNhs14486_13647-147B2_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha02hr00minBiolRep1_CNhs14485_tpm_rev Tc:ARPE-19Emt_02hr00minBr1- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 02hr00min, biol_rep1_CNhs14485_13646-147B1_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha02hr00minBiolRep1_CNhs14485_tpm_fwd Tc:ARPE-19Emt_02hr00minBr1+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 02hr00min, biol_rep1_CNhs14485_13646-147B1_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha01hr40minBiolRep3_CNhs14484_tpm_rev Tc:ARPE-19Emt_01hr40minBr3- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 01hr40min, biol_rep3_CNhs14484_13645-147A9_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha01hr40minBiolRep3_CNhs14484_tpm_fwd Tc:ARPE-19Emt_01hr40minBr3+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 01hr40min, biol_rep3_CNhs14484_13645-147A9_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha01hr40minBiolRep2_CNhs14483_tpm_rev Tc:ARPE-19Emt_01hr40minBr2- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 01hr40min, biol_rep2_CNhs14483_13644-147A8_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha01hr40minBiolRep2_CNhs14483_tpm_fwd Tc:ARPE-19Emt_01hr40minBr2+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 01hr40min, biol_rep2_CNhs14483_13644-147A8_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha01hr40minBiolRep1_CNhs14482_tpm_rev Tc:ARPE-19Emt_01hr40minBr1- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 01hr40min, biol_rep1_CNhs14482_13643-147A7_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha01hr40minBiolRep1_CNhs14482_tpm_fwd Tc:ARPE-19Emt_01hr40minBr1+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 01hr40min, biol_rep1_CNhs14482_13643-147A7_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha01hr20minBiolRep3_CNhs14480_tpm_rev Tc:ARPE-19Emt_01hr20minBr3- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 01hr20min, biol_rep3_CNhs14480_13642-147A6_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha01hr20minBiolRep3_CNhs14480_tpm_fwd Tc:ARPE-19Emt_01hr20minBr3+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 01hr20min, biol_rep3_CNhs14480_13642-147A6_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha01hr20minBiolRep2_CNhs14479_tpm_rev Tc:ARPE-19Emt_01hr20minBr2- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 01hr20min, biol_rep2_CNhs14479_13641-147A5_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha01hr20minBiolRep2_CNhs14479_tpm_fwd Tc:ARPE-19Emt_01hr20minBr2+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 01hr20min, biol_rep2_CNhs14479_13641-147A5_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha01hr20minBiolRep1_CNhs14478_tpm_rev Tc:ARPE-19Emt_01hr20minBr1- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 01hr20min, biol_rep1_CNhs14478_13640-147A4_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha01hr20minBiolRep1_CNhs14478_tpm_fwd Tc:ARPE-19Emt_01hr20minBr1+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 01hr20min, biol_rep1_CNhs14478_13640-147A4_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha01hr00minBiolRep3_CNhs14477_tpm_rev Tc:ARPE-19Emt_01hr00minBr3- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 01hr00min, biol_rep3_CNhs14477_13639-147A3_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha01hr00minBiolRep3_CNhs14477_tpm_fwd Tc:ARPE-19Emt_01hr00minBr3+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 01hr00min, biol_rep3_CNhs14477_13639-147A3_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha01hr00minBiolRep2_CNhs14476_tpm_rev Tc:ARPE-19Emt_01hr00minBr2- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 01hr00min, biol_rep2_CNhs14476_13638-147A2_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha01hr00minBiolRep2_CNhs14476_tpm_fwd Tc:ARPE-19Emt_01hr00minBr2+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 01hr00min, biol_rep2_CNhs14476_13638-147A2_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha01hr00minBiolRep1_CNhs14475_tpm_rev Tc:ARPE-19Emt_01hr00minBr1- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 01hr00min, biol_rep1_CNhs14475_13637-147A1_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha01hr00minBiolRep1_CNhs14475_tpm_fwd Tc:ARPE-19Emt_01hr00minBr1+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 01hr00min, biol_rep1_CNhs14475_13637-147A1_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha00hr45minBiolRep3_CNhs14474_tpm_rev Tc:ARPE-19Emt_00hr45minBr3- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 00hr45min, biol_rep3_CNhs14474_13636-146I9_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha00hr45minBiolRep3_CNhs14474_tpm_fwd Tc:ARPE-19Emt_00hr45minBr3+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 00hr45min, biol_rep3_CNhs14474_13636-146I9_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha00hr45minBiolRep2_CNhs14473_tpm_rev Tc:ARPE-19Emt_00hr45minBr2- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 00hr45min, biol_rep2_CNhs14473_13635-146I8_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha00hr45minBiolRep2_CNhs14473_tpm_fwd Tc:ARPE-19Emt_00hr45minBr2+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 00hr45min, biol_rep2_CNhs14473_13635-146I8_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha00hr45minBiolRep1_CNhs14472_tpm_rev Tc:ARPE-19Emt_00hr45minBr1- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 00hr45min, biol_rep1_CNhs14472_13634-146I7_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha00hr45minBiolRep1_CNhs14472_tpm_fwd Tc:ARPE-19Emt_00hr45minBr1+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 00hr45min, biol_rep1_CNhs14472_13634-146I7_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha00hr30minBiolRep3_CNhs14471_tpm_rev Tc:ARPE-19Emt_00hr30minBr3- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 00hr30min, biol_rep3_CNhs14471_13633-146I6_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha00hr30minBiolRep3_CNhs14471_tpm_fwd Tc:ARPE-19Emt_00hr30minBr3+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 00hr30min, biol_rep3_CNhs14471_13633-146I6_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha00hr30minBiolRep2_CNhs14470_tpm_rev Tc:ARPE-19Emt_00hr30minBr2- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 00hr30min, biol_rep2_CNhs14470_13632-146I5_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha00hr30minBiolRep2_CNhs14470_tpm_fwd Tc:ARPE-19Emt_00hr30minBr2+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 00hr30min, biol_rep2_CNhs14470_13632-146I5_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha00hr30minBiolRep1_CNhs14469_tpm_rev Tc:ARPE-19Emt_00hr30minBr1- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 00hr30min, biol_rep1_CNhs14469_13631-146I4_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha00hr30minBiolRep1_CNhs14469_tpm_fwd Tc:ARPE-19Emt_00hr30minBr1+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 00hr30min, biol_rep1_CNhs14469_13631-146I4_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha00hr15minBiolRep3_CNhs14468_tpm_rev Tc:ARPE-19Emt_00hr15minBr3- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 00hr15min, biol_rep3_CNhs14468_13630-146I3_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha00hr15minBiolRep3_CNhs14468_tpm_fwd Tc:ARPE-19Emt_00hr15minBr3+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 00hr15min, biol_rep3_CNhs14468_13630-146I3_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha00hr15minBiolRep2_CNhs14467_tpm_rev Tc:ARPE-19Emt_00hr15minBr2- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 00hr15min, biol_rep2_CNhs14467_13629-146I2_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha00hr15minBiolRep2_CNhs14467_tpm_fwd Tc:ARPE-19Emt_00hr15minBr2+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 00hr15min, biol_rep2_CNhs14467_13629-146I2_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha00hr15minBiolRep1_CNhs14466_tpm_rev Tc:ARPE-19Emt_00hr15minBr1- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 00hr15min, biol_rep1_CNhs14466_13628-146I1_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha00hr15minBiolRep1_CNhs14466_tpm_fwd Tc:ARPE-19Emt_00hr15minBr1+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 00hr15min, biol_rep1_CNhs14466_13628-146I1_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha00hr00minBiolRep3_CNhs14465_tpm_rev Tc:ARPE-19Emt_00hr00minBr3- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 00hr00min, biol_rep3_CNhs14465_13627-146H9_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha00hr00minBiolRep3_CNhs14465_tpm_fwd Tc:ARPE-19Emt_00hr00minBr3+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 00hr00min, biol_rep3_CNhs14465_13627-146H9_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha00hr00minBiolRep2_CNhs14464_tpm_rev Tc:ARPE-19Emt_00hr00minBr2- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 00hr00min, biol_rep2_CNhs14464_13626-146H8_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha00hr00minBiolRep2_CNhs14464_tpm_fwd Tc:ARPE-19Emt_00hr00minBr2+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 00hr00min, biol_rep2_CNhs14464_13626-146H8_forward Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha00hr00minBiolRep1_CNhs14463_tpm_rev Tc:ARPE-19Emt_00hr00minBr1- ARPE-19 EMT induced with TGF-beta and TNF-alpha, 00hr00min, biol_rep1_CNhs14463_13625-146H7_reverse Regulation 
ARPE19EMTInducedWithTGFbetaAndTNFalpha00hr00minBiolRep1_CNhs14463_tpm_fwd Tc:ARPE-19Emt_00hr00minBr1+ ARPE-19 EMT induced with TGF-beta and TNF-alpha, 00hr00min, biol_rep1_CNhs14463_13625-146H7_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay41BiolRep3H9EB3D41_CNhs12950_tpm_rev H9MelanocyticInduction_Day41Br3- H9 Embryoid body cells, melanocytic induction, day41, biol_rep3 (H9EB-3 d41)_CNhs12950_12836-137B1_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay41BiolRep3H9EB3D41_CNhs12950_tpm_fwd H9MelanocyticInduction_Day41Br3+ H9 Embryoid body cells, melanocytic induction, day41, biol_rep3 (H9EB-3 d41)_CNhs12950_12836-137B1_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay41BiolRep2H9EB2D41_CNhs12907_tpm_rev H9MelanocyticInduction_Day41Br2- H9 Embryoid body cells, melanocytic induction, day41, biol_rep2 (H9EB-2 d41)_CNhs12907_12738-135I2_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay41BiolRep2H9EB2D41_CNhs12907_tpm_fwd H9MelanocyticInduction_Day41Br2+ H9 Embryoid body cells, melanocytic induction, day41, biol_rep2 (H9EB-2 d41)_CNhs12907_12738-135I2_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay41BiolRep1H9EB1D41_CNhs12905_tpm_rev H9MelanocyticInduction_Day41Br1- H9 Embryoid body cells, melanocytic induction, day41, biol_rep1 (H9EB-1 d41)_CNhs12905_12640-134G3_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay41BiolRep1H9EB1D41_CNhs12905_tpm_fwd H9MelanocyticInduction_Day41Br1+ H9 Embryoid body cells, melanocytic induction, day41, biol_rep1 (H9EB-1 d41)_CNhs12905_12640-134G3_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay34BiolRep3H9EB3D34_CNhs12919_tpm_rev H9MelanocyticInduction_Day34Br3- H9 Embryoid body cells, melanocytic induction, day34, biol_rep3 (H9EB-3 d34)_CNhs12919_12835-137A9_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay34BiolRep3H9EB3D34_CNhs12919_tpm_fwd H9MelanocyticInduction_Day34Br3+ H9 Embryoid body cells, melanocytic induction, day34, biol_rep3 (H9EB-3 d34)_CNhs12919_12835-137A9_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay34BiolRep2H9EB2D34_CNhs12906_tpm_rev H9MelanocyticInduction_Day34Br2- H9 Embryoid body cells, melanocytic induction, day34, biol_rep2 (H9EB-2 d34)_CNhs12906_12737-135I1_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay34BiolRep2H9EB2D34_CNhs12906_tpm_fwd H9MelanocyticInduction_Day34Br2+ H9 Embryoid body cells, melanocytic induction, day34, biol_rep2 (H9EB-2 d34)_CNhs12906_12737-135I1_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay34BiolRep1H9EB1D34_CNhs12904_tpm_rev H9MelanocyticInduction_Day34Br1- H9 Embryoid body cells, melanocytic induction, day34, biol_rep1 (H9EB-1 d34)_CNhs12904_12639-134G2_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay34BiolRep1H9EB1D34_CNhs12904_tpm_fwd H9MelanocyticInduction_Day34Br1+ H9 Embryoid body cells, melanocytic induction, day34, biol_rep1 (H9EB-1 d34)_CNhs12904_12639-134G2_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay30BiolRep3H9EB3D30_CNhs12918_tpm_rev H9MelanocyticInduction_Day30Br3- H9 Embryoid body cells, melanocytic induction, day30, biol_rep3 (H9EB-3 d30)_CNhs12918_12834-137A8_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay30BiolRep3H9EB3D30_CNhs12918_tpm_fwd H9MelanocyticInduction_Day30Br3+ H9 Embryoid body cells, melanocytic induction, day30, biol_rep3 (H9EB-3 d30)_CNhs12918_12834-137A8_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay30BiolRep2H9EB2D30_CNhs12836_tpm_rev H9MelanocyticInduction_Day30Br2- H9 Embryoid body cells, melanocytic induction, day30, biol_rep2 (H9EB-2 d30)_CNhs12836_12736-135H9_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay30BiolRep2H9EB2D30_CNhs12836_tpm_fwd H9MelanocyticInduction_Day30Br2+ H9 Embryoid body cells, melanocytic induction, day30, biol_rep2 (H9EB-2 d30)_CNhs12836_12736-135H9_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay30BiolRep1H9EB1D30_CNhs12903_tpm_rev H9MelanocyticInduction_Day30Br1- H9 Embryoid body cells, melanocytic induction, day30, biol_rep1 (H9EB-1 d30)_CNhs12903_12638-134G1_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay30BiolRep1H9EB1D30_CNhs12903_tpm_fwd H9MelanocyticInduction_Day30Br1+ H9 Embryoid body cells, melanocytic induction, day30, biol_rep1 (H9EB-1 d30)_CNhs12903_12638-134G1_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay27BiolRep3H9EB3D27_CNhs12917_tpm_rev H9MelanocyticInduction_Day27Br3- H9 Embryoid body cells, melanocytic induction, day27, biol_rep3 (H9EB-3 d27)_CNhs12917_12833-137A7_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay27BiolRep3H9EB3D27_CNhs12917_tpm_fwd H9MelanocyticInduction_Day27Br3+ H9 Embryoid body cells, melanocytic induction, day27, biol_rep3 (H9EB-3 d27)_CNhs12917_12833-137A7_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay27BiolRep2H9EB2D27_CNhs12835_tpm_rev H9MelanocyticInduction_Day27Br2- H9 Embryoid body cells, melanocytic induction, day27, biol_rep2 (H9EB-2 d27)_CNhs12835_12735-135H8_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay27BiolRep2H9EB2D27_CNhs12835_tpm_fwd H9MelanocyticInduction_Day27Br2+ H9 Embryoid body cells, melanocytic induction, day27, biol_rep2 (H9EB-2 d27)_CNhs12835_12735-135H8_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay27BiolRep1H9EB1D27_CNhs12902_tpm_rev H9MelanocyticInduction_Day27Br1- H9 Embryoid body cells, melanocytic induction, day27, biol_rep1 (H9EB-1 d27)_CNhs12902_12637-134F9_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay27BiolRep1H9EB1D27_CNhs12902_tpm_fwd H9MelanocyticInduction_Day27Br1+ H9 Embryoid body cells, melanocytic induction, day27, biol_rep1 (H9EB-1 d27)_CNhs12902_12637-134F9_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay24BiolRep3H9EB3D24_CNhs12916_tpm_rev H9MelanocyticInduction_Day24Br3- H9 Embryoid body cells, melanocytic induction, day24, biol_rep3 (H9EB-3 d24)_CNhs12916_12832-137A6_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay24BiolRep3H9EB3D24_CNhs12916_tpm_fwd H9MelanocyticInduction_Day24Br3+ H9 Embryoid body cells, melanocytic induction, day24, biol_rep3 (H9EB-3 d24)_CNhs12916_12832-137A6_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay24BiolRep2H9EB2D24_CNhs12834_tpm_rev H9MelanocyticInduction_Day24Br2- H9 Embryoid body cells, melanocytic induction, day24, biol_rep2 (H9EB-2 d24)_CNhs12834_12734-135H7_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay24BiolRep2H9EB2D24_CNhs12834_tpm_fwd H9MelanocyticInduction_Day24Br2+ H9 Embryoid body cells, melanocytic induction, day24, biol_rep2 (H9EB-2 d24)_CNhs12834_12734-135H7_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay24BiolRep1H9EB1D24_CNhs12901_tpm_rev H9MelanocyticInduction_Day24Br1- H9 Embryoid body cells, melanocytic induction, day24, biol_rep1 (H9EB-1 d24)_CNhs12901_12636-134F8_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay24BiolRep1H9EB1D24_CNhs12901_tpm_fwd H9MelanocyticInduction_Day24Br1+ H9 Embryoid body cells, melanocytic induction, day24, biol_rep1 (H9EB-1 d24)_CNhs12901_12636-134F8_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay21BiolRep3H9EB3D21_CNhs12915_tpm_rev H9MelanocyticInduction_Day21Br3- H9 Embryoid body cells, melanocytic induction, day21, biol_rep3 (H9EB-3 d21)_CNhs12915_12831-137A5_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay21BiolRep3H9EB3D21_CNhs12915_tpm_fwd H9MelanocyticInduction_Day21Br3+ H9 Embryoid body cells, melanocytic induction, day21, biol_rep3 (H9EB-3 d21)_CNhs12915_12831-137A5_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay21BiolRep2H9EB2D21_CNhs12833_tpm_rev H9MelanocyticInduction_Day21Br2- H9 Embryoid body cells, melanocytic induction, day21, biol_rep2 (H9EB-2 d21)_CNhs12833_12733-135H6_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay21BiolRep2H9EB2D21_CNhs12833_tpm_fwd H9MelanocyticInduction_Day21Br2+ H9 Embryoid body cells, melanocytic induction, day21, biol_rep2 (H9EB-2 d21)_CNhs12833_12733-135H6_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay21BiolRep1H9EB1D21_CNhs12900_tpm_rev H9MelanocyticInduction_Day21Br1- H9 Embryoid body cells, melanocytic induction, day21, biol_rep1 (H9EB-1 d21)_CNhs12900_12635-134F7_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay21BiolRep1H9EB1D21_CNhs12900_tpm_fwd H9MelanocyticInduction_Day21Br1+ H9 Embryoid body cells, melanocytic induction, day21, biol_rep1 (H9EB-1 d21)_CNhs12900_12635-134F7_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay18BiolRep3H9EB3D18_CNhs12914_tpm_rev H9MelanocyticInduction_Day18Br3- H9 Embryoid body cells, melanocytic induction, day18, biol_rep3 (H9EB-3 d18)_CNhs12914_12830-137A4_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay18BiolRep3H9EB3D18_CNhs12914_tpm_fwd H9MelanocyticInduction_Day18Br3+ H9 Embryoid body cells, melanocytic induction, day18, biol_rep3 (H9EB-3 d18)_CNhs12914_12830-137A4_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay18BiolRep2H9EB2D18_CNhs12832_tpm_rev H9MelanocyticInduction_Day18Br2- H9 Embryoid body cells, melanocytic induction, day18, biol_rep2 (H9EB-2 d18)_CNhs12832_12732-135H5_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay18BiolRep2H9EB2D18_CNhs12832_tpm_fwd H9MelanocyticInduction_Day18Br2+ H9 Embryoid body cells, melanocytic induction, day18, biol_rep2 (H9EB-2 d18)_CNhs12832_12732-135H5_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay18BiolRep1H9EB1D18_CNhs12899_tpm_rev H9MelanocyticInduction_Day18Br1- H9 Embryoid body cells, melanocytic induction, day18, biol_rep1 (H9EB-1 d18)_CNhs12899_12634-134F6_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay18BiolRep1H9EB1D18_CNhs12899_tpm_fwd H9MelanocyticInduction_Day18Br1+ H9 Embryoid body cells, melanocytic induction, day18, biol_rep1 (H9EB-1 d18)_CNhs12899_12634-134F6_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay15BiolRep3H9EB3D15_CNhs12912_tpm_rev H9MelanocyticInduction_Day15Br3- H9 Embryoid body cells, melanocytic induction, day15, biol_rep3 (H9EB-3 d15)_CNhs12912_12829-137A3_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay15BiolRep3H9EB3D15_CNhs12912_tpm_fwd H9MelanocyticInduction_Day15Br3+ H9 Embryoid body cells, melanocytic induction, day15, biol_rep3 (H9EB-3 d15)_CNhs12912_12829-137A3_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay15BiolRep2H9EB2D15_CNhs12831_tpm_rev H9MelanocyticInduction_Day15Br2- H9 Embryoid body cells, melanocytic induction, day15, biol_rep2 (H9EB-2 d15)_CNhs12831_12731-135H4_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay15BiolRep2H9EB2D15_CNhs12831_tpm_fwd H9MelanocyticInduction_Day15Br2+ H9 Embryoid body cells, melanocytic induction, day15, biol_rep2 (H9EB-2 d15)_CNhs12831_12731-135H4_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay15BiolRep1H9EB1D15_CNhs12898_tpm_rev H9MelanocyticInduction_Day15Br1- H9 Embryoid body cells, melanocytic induction, day15, biol_rep1 (H9EB-1 d15)_CNhs12898_12633-134F5_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay15BiolRep1H9EB1D15_CNhs12898_tpm_fwd H9MelanocyticInduction_Day15Br1+ H9 Embryoid body cells, melanocytic induction, day15, biol_rep1 (H9EB-1 d15)_CNhs12898_12633-134F5_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay12BiolRep3H9EB3D12_CNhs12995_tpm_rev H9MelanocyticInduction_Day12Br3- H9 Embryoid body cells, melanocytic induction, day12, biol_rep3 (H9EB-3 d12)_CNhs12995_12828-137A2_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay12BiolRep3H9EB3D12_CNhs12949_tpm_rev H9MelanocyticInduction_Day12Br3- H9 Embryoid body cells, melanocytic induction, day12, biol_rep3 (H9EB-3 d12)_CNhs12949_12828-137A2_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay12BiolRep3H9EB3D12_CNhs12995_tpm_fwd H9MelanocyticInduction_Day12Br3+ H9 Embryoid body cells, melanocytic induction, day12, biol_rep3 (H9EB-3 d12)_CNhs12995_12828-137A2_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay12BiolRep3H9EB3D12_CNhs12949_tpm_fwd H9MelanocyticInduction_Day12Br3+ H9 Embryoid body cells, melanocytic induction, day12, biol_rep3 (H9EB-3 d12)_CNhs12949_12828-137A2_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay12BiolRep2H9EB2D12_CNhs12830_tpm_rev H9MelanocyticInduction_Day12Br2- H9 Embryoid body cells, melanocytic induction, day12, biol_rep2 (H9EB-2 d12)_CNhs12830_12730-135H3_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay12BiolRep2H9EB2D12_CNhs12830_tpm_fwd H9MelanocyticInduction_Day12Br2+ H9 Embryoid body cells, melanocytic induction, day12, biol_rep2 (H9EB-2 d12)_CNhs12830_12730-135H3_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay12BiolRep1H9EB1D12_CNhs12994_tpm_rev H9MelanocyticInduction_Day12Br1- H9 Embryoid body cells, melanocytic induction, day12, biol_rep1 (H9EB-1 d12)_CNhs12994_12632-134F4_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay12BiolRep1H9EB1D12_CNhs12948_tpm_rev H9MelanocyticInduction_Day12Br1- H9 Embryoid body cells, melanocytic induction, day12, biol_rep1 (H9EB-1 d12)_CNhs12948_12632-134F4_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay12BiolRep1H9EB1D12_CNhs12994_tpm_fwd H9MelanocyticInduction_Day12Br1+ H9 Embryoid body cells, melanocytic induction, day12, biol_rep1 (H9EB-1 d12)_CNhs12994_12632-134F4_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay12BiolRep1H9EB1D12_CNhs12948_tpm_fwd H9MelanocyticInduction_Day12Br1+ H9 Embryoid body cells, melanocytic induction, day12, biol_rep1 (H9EB-1 d12)_CNhs12948_12632-134F4_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay09BiolRep3H9EB3D9_CNhs12951_tpm_rev H9MelanocyticInduction_Day09Br3- H9 Embryoid body cells, melanocytic induction, day09, biol_rep3 (H9EB-3 d9)_CNhs12951_12827-137A1_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay09BiolRep3H9EB3D9_CNhs12951_tpm_fwd H9MelanocyticInduction_Day09Br3+ H9 Embryoid body cells, melanocytic induction, day09, biol_rep3 (H9EB-3 d9)_CNhs12951_12827-137A1_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay09BiolRep2H9EB2D9_CNhs12829_tpm_rev H9MelanocyticInduction_Day09Br2- H9 Embryoid body cells, melanocytic induction, day09, biol_rep2 (H9EB-2 d9)_CNhs12829_12729-135H2_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay09BiolRep2H9EB2D9_CNhs12829_tpm_fwd H9MelanocyticInduction_Day09Br2+ H9 Embryoid body cells, melanocytic induction, day09, biol_rep2 (H9EB-2 d9)_CNhs12829_12729-135H2_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay09BiolRep1H9EB1D9_CNhs12897_tpm_rev H9MelanocyticInduction_Day09Br1- H9 Embryoid body cells, melanocytic induction, day09, biol_rep1 (H9EB-1 d9)_CNhs12897_12631-134F3_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay09BiolRep1H9EB1D9_CNhs12897_tpm_fwd H9MelanocyticInduction_Day09Br1+ H9 Embryoid body cells, melanocytic induction, day09, biol_rep1 (H9EB-1 d9)_CNhs12897_12631-134F3_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay06BiolRep3H9EB3D6_CNhs12911_tpm_rev H9MelanocyticInduction_Day06Br3- H9 Embryoid body cells, melanocytic induction, day06, biol_rep3 (H9EB-3 d6)_CNhs12911_12826-136I9_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay06BiolRep3H9EB3D6_CNhs12911_tpm_fwd H9MelanocyticInduction_Day06Br3+ H9 Embryoid body cells, melanocytic induction, day06, biol_rep3 (H9EB-3 d6)_CNhs12911_12826-136I9_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay06BiolRep2H9EB2D6_CNhs12828_tpm_rev H9MelanocyticInduction_Day06Br2- H9 Embryoid body cells, melanocytic induction, day06, biol_rep2 (H9EB-2 d6)_CNhs12828_12728-135H1_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay06BiolRep2H9EB2D6_CNhs12828_tpm_fwd H9MelanocyticInduction_Day06Br2+ H9 Embryoid body cells, melanocytic induction, day06, biol_rep2 (H9EB-2 d6)_CNhs12828_12728-135H1_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay06BiolRep1H9EB1D6_CNhs12896_tpm_rev H9MelanocyticInduction_Day06Br1- H9 Embryoid body cells, melanocytic induction, day06, biol_rep1 (H9EB-1 d6)_CNhs12896_12630-134F2_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay06BiolRep1H9EB1D6_CNhs12896_tpm_fwd H9MelanocyticInduction_Day06Br1+ H9 Embryoid body cells, melanocytic induction, day06, biol_rep1 (H9EB-1 d6)_CNhs12896_12630-134F2_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay03BiolRep3H9EB3D3_CNhs12910_tpm_rev H9MelanocyticInduction_Day03Br3- H9 Embryoid body cells, melanocytic induction, day03, biol_rep3 (H9EB-3 d3)_CNhs12910_12825-136I8_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay03BiolRep3H9EB3D3_CNhs12910_tpm_fwd H9MelanocyticInduction_Day03Br3+ H9 Embryoid body cells, melanocytic induction, day03, biol_rep3 (H9EB-3 d3)_CNhs12910_12825-136I8_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay03BiolRep2H9EB2D3_CNhs12827_tpm_rev H9MelanocyticInduction_Day03Br2- H9 Embryoid body cells, melanocytic induction, day03, biol_rep2 (H9EB-2 d3)_CNhs12827_12727-135G9_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay03BiolRep2H9EB2D3_CNhs12827_tpm_fwd H9MelanocyticInduction_Day03Br2+ H9 Embryoid body cells, melanocytic induction, day03, biol_rep2 (H9EB-2 d3)_CNhs12827_12727-135G9_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay03BiolRep1H9EB1D3_CNhs12895_tpm_rev H9MelanocyticInduction_Day03Br1- H9 Embryoid body cells, melanocytic induction, day03, biol_rep1 (H9EB-1 d3)_CNhs12895_12629-134F1_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay03BiolRep1H9EB1D3_CNhs12895_tpm_fwd H9MelanocyticInduction_Day03Br1+ H9 Embryoid body cells, melanocytic induction, day03, biol_rep1 (H9EB-1 d3)_CNhs12895_12629-134F1_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay01BiolRep3H9EB3D1_CNhs12909_tpm_rev H9MelanocyticInduction_Day01Br3- H9 Embryoid body cells, melanocytic induction, day01, biol_rep3 (H9EB-3 d1)_CNhs12909_12824-136I7_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay01BiolRep3H9EB3D1_CNhs12909_tpm_fwd H9MelanocyticInduction_Day01Br3+ H9 Embryoid body cells, melanocytic induction, day01, biol_rep3 (H9EB-3 d1)_CNhs12909_12824-136I7_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay01BiolRep2H9EB2D1_CNhs12826_tpm_rev H9MelanocyticInduction_Day01Br2- H9 Embryoid body cells, melanocytic induction, day01, biol_rep2 (H9EB-2 d1)_CNhs12826_12726-135G8_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay01BiolRep2H9EB2D1_CNhs12826_tpm_fwd H9MelanocyticInduction_Day01Br2+ H9 Embryoid body cells, melanocytic induction, day01, biol_rep2 (H9EB-2 d1)_CNhs12826_12726-135G8_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay01BiolRep1H9EB1D1_CNhs12823_tpm_rev H9MelanocyticInduction_Day01Br1- H9 Embryoid body cells, melanocytic induction, day01, biol_rep1 (H9EB-1 d1)_CNhs12823_12628-134E9_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay01BiolRep1H9EB1D1_CNhs12823_tpm_fwd H9MelanocyticInduction_Day01Br1+ H9 Embryoid body cells, melanocytic induction, day01, biol_rep1 (H9EB-1 d1)_CNhs12823_12628-134E9_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay00BiolRep3H9EB3D0_CNhs12908_tpm_rev H9MelanocyticInduction_Day00Br3- H9 Embryoid body cells, melanocytic induction, day00, biol_rep3 (H9EB-3 d0)_CNhs12908_12823-136I6_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay00BiolRep3H9EB3D0_CNhs12908_tpm_fwd H9MelanocyticInduction_Day00Br3+ H9 Embryoid body cells, melanocytic induction, day00, biol_rep3 (H9EB-3 d0)_CNhs12908_12823-136I6_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay00BiolRep2H9EB2D0_CNhs12825_tpm_rev H9MelanocyticInduction_Day00Br2- H9 Embryoid body cells, melanocytic induction, day00, biol_rep2 (H9EB-2 d0)_CNhs12825_12725-135G7_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay00BiolRep2H9EB2D0_CNhs12825_tpm_fwd H9MelanocyticInduction_Day00Br2+ H9 Embryoid body cells, melanocytic induction, day00, biol_rep2 (H9EB-2 d0)_CNhs12825_12725-135G7_forward Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay00BiolRep1H9EB1D0_CNhs12822_tpm_rev H9MelanocyticInduction_Day00Br1- H9 Embryoid body cells, melanocytic induction, day00, biol_rep1 (H9EB-1 d0)_CNhs12822_12627-134E8_reverse Regulation 
H9EmbryoidBodyCellsMelanocyticInductionDay00BiolRep1H9EB1D0_CNhs12822_tpm_fwd H9MelanocyticInduction_Day00Br1+ H9 Embryoid body cells, melanocytic induction, day00, biol_rep1 (H9EB-1 d0)_CNhs12822_12627-134E8_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay12BiolRep3_CNhs13736_tpm_rev Hes3-gfpCardiomyocyticInduction_Day12Br3- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day12, biol_rep3_CNhs13736_13363-143F6_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay12BiolRep3_CNhs13736_tpm_fwd Hes3-gfpCardiomyocyticInduction_Day12Br3+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day12, biol_rep3_CNhs13736_13363-143F6_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay12BiolRep2_CNhs13724_tpm_rev Hes3-gfpCardiomyocyticInduction_Day12Br2- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day12, biol_rep2_CNhs13724_13351-143E3_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay12BiolRep2_CNhs13724_tpm_fwd Hes3-gfpCardiomyocyticInduction_Day12Br2+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day12, biol_rep2_CNhs13724_13351-143E3_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay12BiolRep1_CNhs13711_tpm_rev Hes3-gfpCardiomyocyticInduction_Day12Br1- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day12, biol_rep1_CNhs13711_13339-143C9_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay12BiolRep1_CNhs13711_tpm_fwd Hes3-gfpCardiomyocyticInduction_Day12Br1+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day12, biol_rep1_CNhs13711_13339-143C9_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay11BiolRep3_CNhs13735_tpm_rev Hes3-gfpCardiomyocyticInduction_Day11Br3- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day11, biol_rep3_CNhs13735_13362-143F5_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay11BiolRep3_CNhs13735_tpm_fwd Hes3-gfpCardiomyocyticInduction_Day11Br3+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day11, biol_rep3_CNhs13735_13362-143F5_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay11BiolRep2_CNhs13723_tpm_rev Hes3-gfpCardiomyocyticInduction_Day11Br2- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day11, biol_rep2_CNhs13723_13350-143E2_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay11BiolRep2_CNhs13723_tpm_fwd Hes3-gfpCardiomyocyticInduction_Day11Br2+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day11, biol_rep2_CNhs13723_13350-143E2_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay11BiolRep1_CNhs13710_tpm_rev Hes3-gfpCardiomyocyticInduction_Day11Br1- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day11, biol_rep1_CNhs13710_13338-143C8_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay11BiolRep1_CNhs13710_tpm_fwd Hes3-gfpCardiomyocyticInduction_Day11Br1+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day11, biol_rep1_CNhs13710_13338-143C8_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay10BiolRep3_CNhs13734_tpm_rev Hes3-gfpCardiomyocyticInduction_Day10Br3- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day10, biol_rep3_CNhs13734_13361-143F4_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay10BiolRep3_CNhs13734_tpm_fwd Hes3-gfpCardiomyocyticInduction_Day10Br3+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day10, biol_rep3_CNhs13734_13361-143F4_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay10BiolRep2_CNhs13722_tpm_rev Hes3-gfpCardiomyocyticInduction_Day10Br2- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day10, biol_rep2_CNhs13722_13349-143E1_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay10BiolRep2_CNhs13722_tpm_fwd Hes3-gfpCardiomyocyticInduction_Day10Br2+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day10, biol_rep2_CNhs13722_13349-143E1_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay10BiolRep1_CNhs13662_tpm_rev Hes3-gfpCardiomyocyticInduction_Day10Br1- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day10, biol_rep1_CNhs13662_13337-143C7_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay10BiolRep1_CNhs13662_tpm_fwd Hes3-gfpCardiomyocyticInduction_Day10Br1+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day10, biol_rep1_CNhs13662_13337-143C7_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay09BiolRep3_CNhs13733_tpm_rev Hes3-gfpCardiomyocyticInduction_Day09Br3- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day09, biol_rep3_CNhs13733_13360-143F3_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay09BiolRep3_CNhs13733_tpm_fwd Hes3-gfpCardiomyocyticInduction_Day09Br3+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day09, biol_rep3_CNhs13733_13360-143F3_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay09BiolRep2_CNhs13721_tpm_rev Hes3-gfpCardiomyocyticInduction_Day09Br2- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day09, biol_rep2_CNhs13721_13348-143D9_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay09BiolRep2_CNhs13721_tpm_fwd Hes3-gfpCardiomyocyticInduction_Day09Br2+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day09, biol_rep2_CNhs13721_13348-143D9_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay09BiolRep1_CNhs13661_tpm_rev Hes3-gfpCardiomyocyticInduction_Day09Br1- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day09, biol_rep1_CNhs13661_13336-143C6_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay09BiolRep1_CNhs13661_tpm_fwd Hes3-gfpCardiomyocyticInduction_Day09Br1+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day09, biol_rep1_CNhs13661_13336-143C6_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay08BiolRep3_CNhs13732_tpm_rev Hes3-gfpCardiomyocyticInduction_Day08Br3- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day08, biol_rep3_CNhs13732_13359-143F2_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay08BiolRep3_CNhs13732_tpm_fwd Hes3-gfpCardiomyocyticInduction_Day08Br3+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day08, biol_rep3_CNhs13732_13359-143F2_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay08BiolRep2_CNhs13720_tpm_rev Hes3-gfpCardiomyocyticInduction_Day08Br2- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day08, biol_rep2_CNhs13720_13347-143D8_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay08BiolRep2_CNhs13720_tpm_fwd Hes3-gfpCardiomyocyticInduction_Day08Br2+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day08, biol_rep2_CNhs13720_13347-143D8_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay08BiolRep1_CNhs13660_tpm_rev Hes3-gfpCardiomyocyticInduction_Day08Br1- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day08, biol_rep1_CNhs13660_13335-143C5_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay08BiolRep1_CNhs13660_tpm_fwd Hes3-gfpCardiomyocyticInduction_Day08Br1+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day08, biol_rep1_CNhs13660_13335-143C5_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay07BiolRep3_CNhs13731_tpm_rev Hes3-gfpCardiomyocyticInduction_Day07Br3- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day07, biol_rep3_CNhs13731_13358-143F1_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay07BiolRep3_CNhs13731_tpm_fwd Hes3-gfpCardiomyocyticInduction_Day07Br3+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day07, biol_rep3_CNhs13731_13358-143F1_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay07BiolRep2_CNhs13719_tpm_rev Hes3-gfpCardiomyocyticInduction_Day07Br2- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day07, biol_rep2_CNhs13719_13346-143D7_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay07BiolRep2_CNhs13719_tpm_fwd Hes3-gfpCardiomyocyticInduction_Day07Br2+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day07, biol_rep2_CNhs13719_13346-143D7_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay06BiolRep3_CNhs13730_tpm_rev Hes3-gfpCardiomyocyticInduction_Day06Br3- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day06, biol_rep3_CNhs13730_13357-143E9_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay06BiolRep3_CNhs13730_tpm_fwd Hes3-gfpCardiomyocyticInduction_Day06Br3+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day06, biol_rep3_CNhs13730_13357-143E9_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay06BiolRep2_CNhs13718_tpm_rev Hes3-gfpCardiomyocyticInduction_Day06Br2- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day06, biol_rep2_CNhs13718_13345-143D6_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay06BiolRep2_CNhs13718_tpm_fwd Hes3-gfpCardiomyocyticInduction_Day06Br2+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day06, biol_rep2_CNhs13718_13345-143D6_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay06BiolRep1_CNhs13658_tpm_rev Hes3-gfpCardiomyocyticInduction_Day06Br1- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day06, biol_rep1_CNhs13658_13333-143C3_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay06BiolRep1_CNhs13658_tpm_fwd Hes3-gfpCardiomyocyticInduction_Day06Br1+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day06, biol_rep1_CNhs13658_13333-143C3_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay05BiolRep3_CNhs13729_tpm_rev Hes3-gfpCardiomyocyticInduction_Day05Br3- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day05, biol_rep3_CNhs13729_13356-143E8_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay05BiolRep3_CNhs13729_tpm_fwd Hes3-gfpCardiomyocyticInduction_Day05Br3+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day05, biol_rep3_CNhs13729_13356-143E8_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay05BiolRep2_CNhs13717_tpm_rev Hes3-gfpCardiomyocyticInduction_Day05Br2- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day05, biol_rep2_CNhs13717_13344-143D5_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay05BiolRep2_CNhs13717_tpm_fwd Hes3-gfpCardiomyocyticInduction_Day05Br2+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day05, biol_rep2_CNhs13717_13344-143D5_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay05BiolRep1_CNhs13657_tpm_rev Hes3-gfpCardiomyocyticInduction_Day05Br1- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day05, biol_rep1_CNhs13657_13332-143C2_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay05BiolRep1_CNhs13657_tpm_fwd Hes3-gfpCardiomyocyticInduction_Day05Br1+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day05, biol_rep1_CNhs13657_13332-143C2_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay04BiolRep3_CNhs13728_tpm_rev Hes3-gfpCardiomyocyticInduction_Day04Br3- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day04, biol_rep3_CNhs13728_13355-143E7_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay04BiolRep3_CNhs13728_tpm_fwd Hes3-gfpCardiomyocyticInduction_Day04Br3+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day04, biol_rep3_CNhs13728_13355-143E7_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay04BiolRep2_CNhs13716_tpm_rev Hes3-gfpCardiomyocyticInduction_Day04Br2- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day04, biol_rep2_CNhs13716_13343-143D4_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay04BiolRep2_CNhs13716_tpm_fwd Hes3-gfpCardiomyocyticInduction_Day04Br2+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day04, biol_rep2_CNhs13716_13343-143D4_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay04BiolRep1_CNhs13656_tpm_rev Hes3-gfpCardiomyocyticInduction_Day04Br1- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day04, biol_rep1_CNhs13656_13331-143C1_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay04BiolRep1_CNhs13656_tpm_fwd Hes3-gfpCardiomyocyticInduction_Day04Br1+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day04, biol_rep1_CNhs13656_13331-143C1_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay03BiolRep3_CNhs13727_tpm_rev Hes3-gfpCardiomyocyticInduction_Day03Br3- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day03, biol_rep3_CNhs13727_13354-143E6_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay03BiolRep3_CNhs13727_tpm_fwd Hes3-gfpCardiomyocyticInduction_Day03Br3+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day03, biol_rep3_CNhs13727_13354-143E6_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay03BiolRep2_CNhs13715_tpm_rev Hes3-gfpCardiomyocyticInduction_Day03Br2- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day03, biol_rep2_CNhs13715_13342-143D3_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay03BiolRep2_CNhs13715_tpm_fwd Hes3-gfpCardiomyocyticInduction_Day03Br2+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day03, biol_rep2_CNhs13715_13342-143D3_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay03BiolRep1_CNhs13655_tpm_rev Hes3-gfpCardiomyocyticInduction_Day03Br1- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day03, biol_rep1_CNhs13655_13330-143B9_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay03BiolRep1_CNhs13655_tpm_fwd Hes3-gfpCardiomyocyticInduction_Day03Br1+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day03, biol_rep1_CNhs13655_13330-143B9_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay02BiolRep3_CNhs13726_tpm_rev Hes3-gfpCardiomyocyticInduction_Day02Br3- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day02, biol_rep3_CNhs13726_13353-143E5_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay02BiolRep3_CNhs13726_tpm_fwd Hes3-gfpCardiomyocyticInduction_Day02Br3+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day02, biol_rep3_CNhs13726_13353-143E5_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay02BiolRep2_CNhs13714_tpm_rev Hes3-gfpCardiomyocyticInduction_Day02Br2- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day02, biol_rep2_CNhs13714_13341-143D2_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay02BiolRep2_CNhs13714_tpm_fwd Hes3-gfpCardiomyocyticInduction_Day02Br2+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day02, biol_rep2_CNhs13714_13341-143D2_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay02BiolRep1_CNhs13654_tpm_rev Hes3-gfpCardiomyocyticInduction_Day02Br1- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day02, biol_rep1_CNhs13654_13329-143B8_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay02BiolRep1_CNhs13654_tpm_fwd Hes3-gfpCardiomyocyticInduction_Day02Br1+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day02, biol_rep1_CNhs13654_13329-143B8_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay01BiolRep3_CNhs13725_tpm_rev Hes3-gfpCardiomyocyticInduction_Day01Br3- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day01, biol_rep3_CNhs13725_13352-143E4_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay01BiolRep3_CNhs13725_tpm_fwd Hes3-gfpCardiomyocyticInduction_Day01Br3+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day01, biol_rep3_CNhs13725_13352-143E4_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay01BiolRep2_CNhs13712_tpm_rev Hes3-gfpCardiomyocyticInduction_Day01Br2- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day01, biol_rep2_CNhs13712_13340-143D1_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay01BiolRep2_CNhs13712_tpm_fwd Hes3-gfpCardiomyocyticInduction_Day01Br2+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day01, biol_rep2_CNhs13712_13340-143D1_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay01BiolRep1_CNhs13653_tpm_rev Hes3-gfpCardiomyocyticInduction_Day01Br1- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day01, biol_rep1_CNhs13653_13328-143B7_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay01BiolRep1_CNhs13653_tpm_fwd Hes3-gfpCardiomyocyticInduction_Day01Br1+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day01, biol_rep1_CNhs13653_13328-143B7_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay00BiolRep3UH3_CNhs13738_tpm_rev Hes3-gfpCardiomyocyticInduction_Day00Br3- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day00, biol_rep3 (UH-3)_CNhs13738_13366-143F9_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay00BiolRep3UH3_CNhs13738_tpm_fwd Hes3-gfpCardiomyocyticInduction_Day00Br3+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day00, biol_rep3 (UH-3)_CNhs13738_13366-143F9_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay00BiolRep2UH2_CNhs13695_tpm_rev Hes3-gfpCardiomyocyticInduction_Day00Br2- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day00, biol_rep2 (UH-2)_CNhs13695_13365-143F8_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay00BiolRep2UH2_CNhs13695_tpm_fwd Hes3-gfpCardiomyocyticInduction_Day00Br2+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day00, biol_rep2 (UH-2)_CNhs13695_13365-143F8_forward Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay00BiolRep1UH1_CNhs13694_tpm_rev Hes3-gfpCardiomyocyticInduction_Day00Br1- HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day00, biol_rep1 (UH-1)_CNhs13694_13364-143F7_reverse Regulation 
HES3GFPEmbryonicStemCellsCardiomyocyticInductionDay00BiolRep1UH1_CNhs13694_tpm_fwd Hes3-gfpCardiomyocyticInduction_Day00Br1+ HES3-GFP Embryonic Stem cells, cardiomyocytic induction, day00, biol_rep1 (UH-1)_CNhs13694_13364-143F7_forward Regulation 
AorticSmoothMuscleCellResponseToIL1b06hrBiolRep3LK60_CNhs13586_tpm_rev AorticSmsToIL1b_06hrBr3- Aortic smooth muscle cell response to IL1b, 06hr, biol_rep3 (LK60)_CNhs13586_12857-137D4_reverse Regulation 
AorticSmoothMuscleCellResponseToIL1b06hrBiolRep3LK60_CNhs13586_tpm_fwd AorticSmsToIL1b_06hrBr3+ Aortic smooth muscle cell response to IL1b, 06hr, biol_rep3 (LK60)_CNhs13586_12857-137D4_forward Regulation 
AorticSmoothMuscleCellResponseToIL1b06hrBiolRep2LK59_CNhs13378_tpm_rev AorticSmsToIL1b_06hrBr2- Aortic smooth muscle cell response to IL1b, 06hr, biol_rep2 (LK59)_CNhs13378_12759-136B5_reverse Regulation 
AorticSmoothMuscleCellResponseToIL1b06hrBiolRep2LK59_CNhs13378_tpm_fwd AorticSmsToIL1b_06hrBr2+ Aortic smooth muscle cell response to IL1b, 06hr, biol_rep2 (LK59)_CNhs13378_12759-136B5_forward Regulation 
AorticSmoothMuscleCellResponseToIL1b06hrBiolRep1LK58_CNhs13357_tpm_rev AorticSmsToIL1b_06hrBr1- Aortic smooth muscle cell response to IL1b, 06hr, biol_rep1 (LK58)_CNhs13357_12661-134I6_reverse Regulation 
AorticSmoothMuscleCellResponseToIL1b06hrBiolRep1LK58_CNhs13357_tpm_fwd AorticSmsToIL1b_06hrBr1+ Aortic smooth muscle cell response to IL1b, 06hr, biol_rep1 (LK58)_CNhs13357_12661-134I6_forward Regulation 
AorticSmoothMuscleCellResponseToIL1b05hrBiolRep2LK56_CNhs13377_tpm_rev AorticSmsToIL1b_05hrBr2- Aortic smooth muscle cell response to IL1b, 05hr, biol_rep2 (LK56)_CNhs13377_12758-136B4_reverse Regulation 
AorticSmoothMuscleCellResponseToIL1b05hrBiolRep2LK56_CNhs13377_tpm_fwd AorticSmsToIL1b_05hrBr2+ Aortic smooth muscle cell response to IL1b, 05hr, biol_rep2 (LK56)_CNhs13377_12758-136B4_forward Regulation 
AorticSmoothMuscleCellResponseToIL1b05hrBiolRep1LK55_CNhs13356_tpm_rev AorticSmsToIL1b_05hrBr1- Aortic smooth muscle cell response to IL1b, 05hr, biol_rep1 (LK55)_CNhs13356_12660-134I5_reverse Regulation 
AorticSmoothMuscleCellResponseToIL1b05hrBiolRep1LK55_CNhs13356_tpm_fwd AorticSmsToIL1b_05hrBr1+ Aortic smooth muscle cell response to IL1b, 05hr, biol_rep1 (LK55)_CNhs13356_12660-134I5_forward Regulation 
AorticSmoothMuscleCellResponseToIL1b04hrBiolRep3LK54_CNhs13584_tpm_rev AorticSmsToIL1b_04hrBr3- Aortic smooth muscle cell response to IL1b, 04hr, biol_rep3 (LK54)_CNhs13584_12855-137D2_reverse Regulation 
AorticSmoothMuscleCellResponseToIL1b04hrBiolRep3LK54_CNhs13584_tpm_fwd AorticSmsToIL1b_04hrBr3+ Aortic smooth muscle cell response to IL1b, 04hr, biol_rep3 (LK54)_CNhs13584_12855-137D2_forward Regulation 
AorticSmoothMuscleCellResponseToIL1b04hrBiolRep2LK53_CNhs13376_tpm_rev AorticSmsToIL1b_04hrBr2- Aortic smooth muscle cell response to IL1b, 04hr, biol_rep2 (LK53)_CNhs13376_12757-136B3_reverse Regulation 
AorticSmoothMuscleCellResponseToIL1b04hrBiolRep2LK53_CNhs13376_tpm_fwd AorticSmsToIL1b_04hrBr2+ Aortic smooth muscle cell response to IL1b, 04hr, biol_rep2 (LK53)_CNhs13376_12757-136B3_forward Regulation 
AorticSmoothMuscleCellResponseToIL1b04hrBiolRep1LK52_CNhs13682_tpm_rev AorticSmsToIL1b_04hrBr1- Aortic smooth muscle cell response to IL1b, 04hr, biol_rep1 (LK52)_CNhs13682_12659-134I4_reverse Regulation 
AorticSmoothMuscleCellResponseToIL1b04hrBiolRep1LK52_CNhs13682_tpm_fwd AorticSmsToIL1b_04hrBr1+ Aortic smooth muscle cell response to IL1b, 04hr, biol_rep1 (LK52)_CNhs13682_12659-134I4_forward Regulation 
AorticSmoothMuscleCellResponseToIL1b03hrBiolRep2LK50_CNhs13375_tpm_rev AorticSmsToIL1b_03hrBr2- Aortic smooth muscle cell response to IL1b, 03hr, biol_rep2 (LK50)_CNhs13375_12756-136B2_reverse Regulation 
AorticSmoothMuscleCellResponseToIL1b03hrBiolRep2LK50_CNhs13375_tpm_fwd AorticSmsToIL1b_03hrBr2+ Aortic smooth muscle cell response to IL1b, 03hr, biol_rep2 (LK50)_CNhs13375_12756-136B2_forward Regulation 
AorticSmoothMuscleCellResponseToIL1b03hrBiolRep1LK49_CNhs13355_tpm_rev AorticSmsToIL1b_03hrBr1- Aortic smooth muscle cell response to IL1b, 03hr, biol_rep1 (LK49)_CNhs13355_12658-134I3_reverse Regulation 
AorticSmoothMuscleCellResponseToIL1b03hrBiolRep1LK49_CNhs13355_tpm_fwd AorticSmsToIL1b_03hrBr1+ Aortic smooth muscle cell response to IL1b, 03hr, biol_rep1 (LK49)_CNhs13355_12658-134I3_forward Regulation 
AorticSmoothMuscleCellResponseToIL1b02hrBiolRep3LK48_CNhs13582_tpm_rev AorticSmsToIL1b_02hrBr3- Aortic smooth muscle cell response to IL1b, 02hr, biol_rep3 (LK48)_CNhs13582_12853-137C9_reverse Regulation 
AorticSmoothMuscleCellResponseToIL1b02hrBiolRep3LK48_CNhs13582_tpm_fwd AorticSmsToIL1b_02hrBr3+ Aortic smooth muscle cell response to IL1b, 02hr, biol_rep3 (LK48)_CNhs13582_12853-137C9_forward Regulation 
AorticSmoothMuscleCellResponseToIL1b02hrBiolRep2LK47_CNhs13374_tpm_rev AorticSmsToIL1b_02hrBr2- Aortic smooth muscle cell response to IL1b, 02hr, biol_rep2 (LK47)_CNhs13374_12755-136B1_reverse Regulation 
AorticSmoothMuscleCellResponseToIL1b02hrBiolRep2LK47_CNhs13374_tpm_fwd AorticSmsToIL1b_02hrBr2+ Aortic smooth muscle cell response to IL1b, 02hr, biol_rep2 (LK47)_CNhs13374_12755-136B1_forward Regulation 
AorticSmoothMuscleCellResponseToIL1b01hrBiolRep2LK44_CNhs13373_tpm_rev AorticSmsToIL1b_01hrBr2- Aortic smooth muscle cell response to IL1b, 01hr, biol_rep2 (LK44)_CNhs13373_12754-136A9_reverse Regulation 
AorticSmoothMuscleCellResponseToIL1b01hrBiolRep2LK44_CNhs13373_tpm_fwd AorticSmsToIL1b_01hrBr2+ Aortic smooth muscle cell response to IL1b, 01hr, biol_rep2 (LK44)_CNhs13373_12754-136A9_forward Regulation 
AorticSmoothMuscleCellResponseToIL1b01hrBiolRep1LK43_CNhs13353_tpm_rev AorticSmsToIL1b_01hrBr1- Aortic smooth muscle cell response to IL1b, 01hr, biol_rep1 (LK43)_CNhs13353_12656-134I1_reverse Regulation 
AorticSmoothMuscleCellResponseToIL1b01hrBiolRep1LK43_CNhs13353_tpm_fwd AorticSmsToIL1b_01hrBr1+ Aortic smooth muscle cell response to IL1b, 01hr, biol_rep1 (LK43)_CNhs13353_12656-134I1_forward Regulation 
AorticSmoothMuscleCellResponseToIL1b00hr45minBiolRep3LK42_CNhs13580_tpm_rev AorticSmsToIL1b_00hr45minBr3- Aortic smooth muscle cell response to IL1b, 00hr45min, biol_rep3 (LK42)_CNhs13580_12851-137C7_reverse Regulation 
AorticSmoothMuscleCellResponseToIL1b00hr45minBiolRep3LK42_CNhs13580_tpm_fwd AorticSmsToIL1b_00hr45minBr3+ Aortic smooth muscle cell response to IL1b, 00hr45min, biol_rep3 (LK42)_CNhs13580_12851-137C7_forward Regulation 
AorticSmoothMuscleCellResponseToIL1b00hr45minBiolRep2LK41_CNhs13372_tpm_rev AorticSmsToIL1b_00hr45minBr2- Aortic smooth muscle cell response to IL1b, 00hr45min, biol_rep2 (LK41)_CNhs13372_12753-136A8_reverse Regulation 
AorticSmoothMuscleCellResponseToIL1b00hr45minBiolRep2LK41_CNhs13372_tpm_fwd AorticSmsToIL1b_00hr45minBr2+ Aortic smooth muscle cell response to IL1b, 00hr45min, biol_rep2 (LK41)_CNhs13372_12753-136A8_forward Regulation 
AorticSmoothMuscleCellResponseToIL1b00hr45minBiolRep1LK40_CNhs13352_tpm_rev AorticSmsToIL1b_00hr45minBr1- Aortic smooth muscle cell response to IL1b, 00hr45min, biol_rep1 (LK40)_CNhs13352_12655-134H9_reverse Regulation 
AorticSmoothMuscleCellResponseToIL1b00hr45minBiolRep1LK40_CNhs13352_tpm_fwd AorticSmsToIL1b_00hr45minBr1+ Aortic smooth muscle cell response to IL1b, 00hr45min, biol_rep1 (LK40)_CNhs13352_12655-134H9_forward Regulation 
AorticSmoothMuscleCellResponseToIL1b00hr30minBiolRep3LK39_CNhs13579_tpm_rev AorticSmsToIL1b_00hr30minBr3- Aortic smooth muscle cell response to IL1b, 00hr30min, biol_rep3 (LK39)_CNhs13579_12850-137C6_reverse Regulation 
AorticSmoothMuscleCellResponseToIL1b00hr30minBiolRep3LK39_CNhs13579_tpm_fwd AorticSmsToIL1b_00hr30minBr3+ Aortic smooth muscle cell response to IL1b, 00hr30min, biol_rep3 (LK39)_CNhs13579_12850-137C6_forward Regulation 
AorticSmoothMuscleCellResponseToIL1b00hr30minBiolRep2LK38_CNhs13371_tpm_rev AorticSmsToIL1b_00hr30minBr2- Aortic smooth muscle cell response to IL1b, 00hr30min, biol_rep2 (LK38)_CNhs13371_12752-136A7_reverse Regulation 
AorticSmoothMuscleCellResponseToIL1b00hr30minBiolRep2LK38_CNhs13371_tpm_fwd AorticSmsToIL1b_00hr30minBr2+ Aortic smooth muscle cell response to IL1b, 00hr30min, biol_rep2 (LK38)_CNhs13371_12752-136A7_forward Regulation 
AorticSmoothMuscleCellResponseToIL1b00hr30minBiolRep1LK37_CNhs13351_tpm_rev AorticSmsToIL1b_00hr30minBr1- Aortic smooth muscle cell response to IL1b, 00hr30min, biol_rep1 (LK37)_CNhs13351_12654-134H8_reverse Regulation 
AorticSmoothMuscleCellResponseToIL1b00hr30minBiolRep1LK37_CNhs13351_tpm_fwd AorticSmsToIL1b_00hr30minBr1+ Aortic smooth muscle cell response to IL1b, 00hr30min, biol_rep1 (LK37)_CNhs13351_12654-134H8_forward Regulation 
AorticSmoothMuscleCellResponseToIL1b00hr15minBiolRep3LK36_CNhs13578_tpm_rev AorticSmsToIL1b_00hr15minBr3- Aortic smooth muscle cell response to IL1b, 00hr15min, biol_rep3 (LK36)_CNhs13578_12849-137C5_reverse Regulation 
AorticSmoothMuscleCellResponseToIL1b00hr15minBiolRep3LK36_CNhs13578_tpm_fwd AorticSmsToIL1b_00hr15minBr3+ Aortic smooth muscle cell response to IL1b, 00hr15min, biol_rep3 (LK36)_CNhs13578_12849-137C5_forward Regulation 
AorticSmoothMuscleCellResponseToIL1b00hr15minBiolRep2LK35_CNhs13370_tpm_rev AorticSmsToIL1b_00hr15minBr2- Aortic smooth muscle cell response to IL1b, 00hr15min, biol_rep2 (LK35)_CNhs13370_12751-136A6_reverse Regulation 
AorticSmoothMuscleCellResponseToIL1b00hr15minBiolRep2LK35_CNhs13370_tpm_fwd AorticSmsToIL1b_00hr15minBr2+ Aortic smooth muscle cell response to IL1b, 00hr15min, biol_rep2 (LK35)_CNhs13370_12751-136A6_forward Regulation 
AorticSmoothMuscleCellResponseToIL1b00hr15minBiolRep1LK34_CNhs13350_tpm_rev AorticSmsToIL1b_00hr15minBr1- Aortic smooth muscle cell response to IL1b, 00hr15min, biol_rep1 (LK34)_CNhs13350_12653-134H7_reverse Regulation 
AorticSmoothMuscleCellResponseToIL1b00hr15minBiolRep1LK34_CNhs13350_tpm_fwd AorticSmsToIL1b_00hr15minBr1+ Aortic smooth muscle cell response to IL1b, 00hr15min, biol_rep1 (LK34)_CNhs13350_12653-134H7_forward Regulation 
AorticSmoothMuscleCellResponseToIL1b00hr00minBiolRep3LK33_CNhs13577_tpm_rev AorticSmsToIL1b_00hr00minBr3- Aortic smooth muscle cell response to IL1b, 00hr00min, biol_rep3 (LK33)_CNhs13577_12848-137C4_reverse Regulation 
AorticSmoothMuscleCellResponseToIL1b00hr00minBiolRep3LK33_CNhs13577_tpm_fwd AorticSmsToIL1b_00hr00minBr3+ Aortic smooth muscle cell response to IL1b, 00hr00min, biol_rep3 (LK33)_CNhs13577_12848-137C4_forward Regulation 
AorticSmoothMuscleCellResponseToIL1b00hr00minBiolRep2LK32_CNhs13369_tpm_rev AorticSmsToIL1b_00hr00minBr2- Aortic smooth muscle cell response to IL1b, 00hr00min, biol_rep2 (LK32)_CNhs13369_12750-136A5_reverse Regulation 
AorticSmoothMuscleCellResponseToIL1b00hr00minBiolRep2LK32_CNhs13369_tpm_fwd AorticSmsToIL1b_00hr00minBr2+ Aortic smooth muscle cell response to IL1b, 00hr00min, biol_rep2 (LK32)_CNhs13369_12750-136A5_forward Regulation 
AorticSmoothMuscleCellResponseToIL1b00hr00minBiolRep1LK31_CNhs13349_tpm_rev AorticSmsToIL1b_00hr00minBr1- Aortic smooth muscle cell response to IL1b, 00hr00min, biol_rep1 (LK31)_CNhs13349_12652-134H6_reverse Regulation 
AorticSmoothMuscleCellResponseToIL1b00hr00minBiolRep1LK31_CNhs13349_tpm_fwd AorticSmsToIL1b_00hr00minBr1+ Aortic smooth muscle cell response to IL1b, 00hr00min, biol_rep1 (LK31)_CNhs13349_12652-134H6_forward Regulation 
AorticSmoothMuscleCellResponseToFGF206hrBiolRep3LK30_CNhs13576_tpm_rev AorticSmsToFgf2_06hrBr3- Aortic smooth muscle cell response to FGF2, 06hr, biol_rep3 (LK30)_CNhs13576_12847-137C3_reverse Regulation 
AorticSmoothMuscleCellResponseToFGF206hrBiolRep3LK30_CNhs13576_tpm_fwd AorticSmsToFgf2_06hrBr3+ Aortic smooth muscle cell response to FGF2, 06hr, biol_rep3 (LK30)_CNhs13576_12847-137C3_forward Regulation 
AorticSmoothMuscleCellResponseToFGF206hrBiolRep2LK29_CNhs13368_tpm_rev AorticSmsToFgf2_06hrBr2- Aortic smooth muscle cell response to FGF2, 06hr, biol_rep2 (LK29)_CNhs13368_12749-136A4_reverse Regulation 
AorticSmoothMuscleCellResponseToFGF206hrBiolRep2LK29_CNhs13368_tpm_fwd AorticSmsToFgf2_06hrBr2+ Aortic smooth muscle cell response to FGF2, 06hr, biol_rep2 (LK29)_CNhs13368_12749-136A4_forward Regulation 
AorticSmoothMuscleCellResponseToFGF206hrBiolRep1LK28_CNhs13348_tpm_rev AorticSmsToFgf2_06hrBr1- Aortic smooth muscle cell response to FGF2, 06hr, biol_rep1 (LK28)_CNhs13348_12651-134H5_reverse Regulation 
AorticSmoothMuscleCellResponseToFGF206hrBiolRep1LK28_CNhs13348_tpm_fwd AorticSmsToFgf2_06hrBr1+ Aortic smooth muscle cell response to FGF2, 06hr, biol_rep1 (LK28)_CNhs13348_12651-134H5_forward Regulation 
AorticSmoothMuscleCellResponseToFGF205hrBiolRep3LK27_CNhs13575_tpm_rev AorticSmsToFgf2_05hrBr3- Aortic smooth muscle cell response to FGF2, 05hr, biol_rep3 (LK27)_CNhs13575_12846-137C2_reverse Regulation 
AorticSmoothMuscleCellResponseToFGF205hrBiolRep3LK27_CNhs13575_tpm_fwd AorticSmsToFgf2_05hrBr3+ Aortic smooth muscle cell response to FGF2, 05hr, biol_rep3 (LK27)_CNhs13575_12846-137C2_forward Regulation 
AorticSmoothMuscleCellResponseToFGF205hrBiolRep2LK26_CNhs13367_tpm_rev AorticSmsToFgf2_05hrBr2- Aortic smooth muscle cell response to FGF2, 05hr, biol_rep2 (LK26)_CNhs13367_12748-136A3_reverse Regulation 
AorticSmoothMuscleCellResponseToFGF205hrBiolRep2LK26_CNhs13367_tpm_fwd AorticSmsToFgf2_05hrBr2+ Aortic smooth muscle cell response to FGF2, 05hr, biol_rep2 (LK26)_CNhs13367_12748-136A3_forward Regulation 
AorticSmoothMuscleCellResponseToFGF205hrBiolRep1LK25_CNhs13347_tpm_rev AorticSmsToFgf2_05hrBr1- Aortic smooth muscle cell response to FGF2, 05hr, biol_rep1 (LK25)_CNhs13347_12650-134H4_reverse Regulation 
AorticSmoothMuscleCellResponseToFGF205hrBiolRep1LK25_CNhs13347_tpm_fwd AorticSmsToFgf2_05hrBr1+ Aortic smooth muscle cell response to FGF2, 05hr, biol_rep1 (LK25)_CNhs13347_12650-134H4_forward Regulation 
AorticSmoothMuscleCellResponseToFGF203hrBiolRep3LK21_CNhs13573_tpm_rev AorticSmsToFgf2_03hrBr3- Aortic smooth muscle cell response to FGF2, 03hr, biol_rep3 (LK21)_CNhs13573_12844-137B9_reverse Regulation 
AorticSmoothMuscleCellResponseToFGF203hrBiolRep3LK21_CNhs13573_tpm_fwd AorticSmsToFgf2_03hrBr3+ Aortic smooth muscle cell response to FGF2, 03hr, biol_rep3 (LK21)_CNhs13573_12844-137B9_forward Regulation 
AorticSmoothMuscleCellResponseToFGF203hrBiolRep2LK20_CNhs13364_tpm_rev AorticSmsToFgf2_03hrBr2- Aortic smooth muscle cell response to FGF2, 03hr, biol_rep2 (LK20)_CNhs13364_12746-136A1_reverse Regulation 
AorticSmoothMuscleCellResponseToFGF203hrBiolRep2LK20_CNhs13364_tpm_fwd AorticSmsToFgf2_03hrBr2+ Aortic smooth muscle cell response to FGF2, 03hr, biol_rep2 (LK20)_CNhs13364_12746-136A1_forward Regulation 
AorticSmoothMuscleCellResponseToFGF203hrBiolRep1LK19_CNhs13345_tpm_rev AorticSmsToFgf2_03hrBr1- Aortic smooth muscle cell response to FGF2, 03hr, biol_rep1 (LK19)_CNhs13345_12648-134H2_reverse Regulation 
AorticSmoothMuscleCellResponseToFGF203hrBiolRep1LK19_CNhs13345_tpm_fwd AorticSmsToFgf2_03hrBr1+ Aortic smooth muscle cell response to FGF2, 03hr, biol_rep1 (LK19)_CNhs13345_12648-134H2_forward Regulation 
AorticSmoothMuscleCellResponseToFGF202hrBiolRep3LK18_CNhs13572_tpm_rev AorticSmsToFgf2_02hrBr3- Aortic smooth muscle cell response to FGF2, 02hr, biol_rep3 (LK18)_CNhs13572_12843-137B8_reverse Regulation 
AorticSmoothMuscleCellResponseToFGF202hrBiolRep3LK18_CNhs13572_tpm_fwd AorticSmsToFgf2_02hrBr3+ Aortic smooth muscle cell response to FGF2, 02hr, biol_rep3 (LK18)_CNhs13572_12843-137B8_forward Regulation 
AorticSmoothMuscleCellResponseToFGF202hrBiolRep2LK17_CNhs13363_tpm_rev AorticSmsToFgf2_02hrBr2- Aortic smooth muscle cell response to FGF2, 02hr, biol_rep2 (LK17)_CNhs13363_12745-135I9_reverse Regulation 
AorticSmoothMuscleCellResponseToFGF202hrBiolRep2LK17_CNhs13363_tpm_fwd AorticSmsToFgf2_02hrBr2+ Aortic smooth muscle cell response to FGF2, 02hr, biol_rep2 (LK17)_CNhs13363_12745-135I9_forward Regulation 
AorticSmoothMuscleCellResponseToFGF202hrBiolRep1LK16_CNhs13344_tpm_rev AorticSmsToFgf2_02hrBr1- Aortic smooth muscle cell response to FGF2, 02hr, biol_rep1 (LK16)_CNhs13344_12647-134H1_reverse Regulation 
AorticSmoothMuscleCellResponseToFGF202hrBiolRep1LK16_CNhs13344_tpm_fwd AorticSmsToFgf2_02hrBr1+ Aortic smooth muscle cell response to FGF2, 02hr, biol_rep1 (LK16)_CNhs13344_12647-134H1_forward Regulation 
AorticSmoothMuscleCellResponseToFGF201hrBiolRep3LK15_CNhs13683_tpm_rev AorticSmsToFgf2_01hrBr3- Aortic smooth muscle cell response to FGF2, 01hr, biol_rep3 (LK15)_CNhs13683_12842-137B7_reverse Regulation 
AorticSmoothMuscleCellResponseToFGF201hrBiolRep3LK15_CNhs13683_tpm_fwd AorticSmsToFgf2_01hrBr3+ Aortic smooth muscle cell response to FGF2, 01hr, biol_rep3 (LK15)_CNhs13683_12842-137B7_forward Regulation 
AorticSmoothMuscleCellResponseToFGF201hrBiolRep1LK13_CNhs12741_tpm_rev AorticSmsToFgf2_01hrBr1- Aortic smooth muscle cell response to FGF2, 01hr, biol_rep1 (LK13)_CNhs12741_12646-134G9_reverse Regulation 
AorticSmoothMuscleCellResponseToFGF201hrBiolRep1LK13_CNhs12741_tpm_fwd AorticSmsToFgf2_01hrBr1+ Aortic smooth muscle cell response to FGF2, 01hr, biol_rep1 (LK13)_CNhs12741_12646-134G9_forward Regulation 
AorticSmoothMuscleCellResponseToFGF200hr45minBiolRep3LK12_CNhs13571_tpm_rev AorticSmsToFgf2_00hr45minBr3- Aortic smooth muscle cell response to FGF2, 00hr45min, biol_rep3 (LK12)_CNhs13571_12841-137B6_reverse Regulation 
AorticSmoothMuscleCellResponseToFGF200hr45minBiolRep3LK12_CNhs13571_tpm_fwd AorticSmsToFgf2_00hr45minBr3+ Aortic smooth muscle cell response to FGF2, 00hr45min, biol_rep3 (LK12)_CNhs13571_12841-137B6_forward Regulation 
AorticSmoothMuscleCellResponseToFGF200hr45minBiolRep2LK11_CNhs13361_tpm_rev AorticSmsToFgf2_00hr45minBr2- Aortic smooth muscle cell response to FGF2, 00hr45min, biol_rep2 (LK11)_CNhs13361_12743-135I7_reverse Regulation 
AorticSmoothMuscleCellResponseToFGF200hr45minBiolRep2LK11_CNhs13361_tpm_fwd AorticSmsToFgf2_00hr45minBr2+ Aortic smooth muscle cell response to FGF2, 00hr45min, biol_rep2 (LK11)_CNhs13361_12743-135I7_forward Regulation 
AorticSmoothMuscleCellResponseToFGF200hr45minBiolRep1LK10_CNhs13343_tpm_rev AorticSmsToFgf2_00hr45minBr1- Aortic smooth muscle cell response to FGF2, 00hr45min, biol_rep1 (LK10)_CNhs13343_12645-134G8_reverse Regulation 
AorticSmoothMuscleCellResponseToFGF200hr45minBiolRep1LK10_CNhs13343_tpm_fwd AorticSmsToFgf2_00hr45minBr1+ Aortic smooth muscle cell response to FGF2, 00hr45min, biol_rep1 (LK10)_CNhs13343_12645-134G8_forward Regulation 
AorticSmoothMuscleCellResponseToFGF200hr30minBiolRep3LK9_CNhs13569_tpm_rev AorticSmsToFgf2_00hr30minBr3- Aortic smooth muscle cell response to FGF2, 00hr30min, biol_rep3 (LK9)_CNhs13569_12840-137B5_reverse Regulation 
AorticSmoothMuscleCellResponseToFGF200hr30minBiolRep3LK9_CNhs13569_tpm_fwd AorticSmsToFgf2_00hr30minBr3+ Aortic smooth muscle cell response to FGF2, 00hr30min, biol_rep3 (LK9)_CNhs13569_12840-137B5_forward Regulation 
AorticSmoothMuscleCellResponseToFGF200hr30minBiolRep2LK8_CNhs13360_tpm_rev AorticSmsToFgf2_00hr30minBr2- Aortic smooth muscle cell response to FGF2, 00hr30min, biol_rep2 (LK8)_CNhs13360_12742-135I6_reverse Regulation 
AorticSmoothMuscleCellResponseToFGF200hr30minBiolRep2LK8_CNhs13360_tpm_fwd AorticSmsToFgf2_00hr30minBr2+ Aortic smooth muscle cell response to FGF2, 00hr30min, biol_rep2 (LK8)_CNhs13360_12742-135I6_forward Regulation 
AorticSmoothMuscleCellResponseToFGF200hr30minBiolRep1LK7_CNhs13341_tpm_rev AorticSmsToFgf2_00hr30minBr1- Aortic smooth muscle cell response to FGF2, 00hr30min, biol_rep1 (LK7)_CNhs13341_12644-134G7_reverse Regulation 
AorticSmoothMuscleCellResponseToFGF200hr30minBiolRep1LK7_CNhs13341_tpm_fwd AorticSmsToFgf2_00hr30minBr1+ Aortic smooth muscle cell response to FGF2, 00hr30min, biol_rep1 (LK7)_CNhs13341_12644-134G7_forward Regulation 
AorticSmoothMuscleCellResponseToFGF200hr15minBiolRep3LK6_CNhs13568_tpm_rev AorticSmsToFgf2_00hr15minBr3- Aortic smooth muscle cell response to FGF2, 00hr15min, biol_rep3 (LK6)_CNhs13568_12839-137B4_reverse Regulation 
AorticSmoothMuscleCellResponseToFGF200hr15minBiolRep3LK6_CNhs13568_tpm_fwd AorticSmsToFgf2_00hr15minBr3+ Aortic smooth muscle cell response to FGF2, 00hr15min, biol_rep3 (LK6)_CNhs13568_12839-137B4_forward Regulation 
AorticSmoothMuscleCellResponseToFGF200hr15minBiolRep2LK5_CNhs13359_tpm_rev AorticSmsToFgf2_00hr15minBr2- Aortic smooth muscle cell response to FGF2, 00hr15min, biol_rep2 (LK5)_CNhs13359_12741-135I5_reverse Regulation 
AorticSmoothMuscleCellResponseToFGF200hr15minBiolRep2LK5_CNhs13359_tpm_fwd AorticSmsToFgf2_00hr15minBr2+ Aortic smooth muscle cell response to FGF2, 00hr15min, biol_rep2 (LK5)_CNhs13359_12741-135I5_forward Regulation 
AorticSmoothMuscleCellResponseToFGF200hr15minBiolRep1LK4_CNhs13340_tpm_rev AorticSmsToFgf2_00hr15minBr1- Aortic smooth muscle cell response to FGF2, 00hr15min, biol_rep1 (LK4)_CNhs13340_12643-134G6_reverse Regulation 
AorticSmoothMuscleCellResponseToFGF200hr15minBiolRep1LK4_CNhs13340_tpm_fwd AorticSmsToFgf2_00hr15minBr1+ Aortic smooth muscle cell response to FGF2, 00hr15min, biol_rep1 (LK4)_CNhs13340_12643-134G6_forward Regulation 
AorticSmoothMuscleCellResponseToFGF200hr00minBiolRep2LK2_CNhs13358_tpm_rev AorticSmsToFgf2_00hr00minBr2- Aortic smooth muscle cell response to FGF2, 00hr00min, biol_rep2 (LK2)_CNhs13358_12740-135I4_reverse Regulation 
AorticSmoothMuscleCellResponseToFGF200hr00minBiolRep2LK2_CNhs13358_tpm_fwd AorticSmsToFgf2_00hr00minBr2+ Aortic smooth muscle cell response to FGF2, 00hr00min, biol_rep2 (LK2)_CNhs13358_12740-135I4_forward Regulation 
AorticSmoothMuscleCellResponseToFGF200hr00minBiolRep1LK1_CNhs13339_tpm_rev AorticSmsToFgf2_00hr00minBr1- Aortic smooth muscle cell response to FGF2, 00hr00min, biol_rep1 (LK1)_CNhs13339_12642-134G5_reverse Regulation 
AorticSmoothMuscleCellResponseToFGF200hr00minBiolRep1LK1_CNhs13339_tpm_fwd AorticSmsToFgf2_00hr00minBr1+ Aortic smooth muscle cell response to FGF2, 00hr00min, biol_rep1 (LK1)_CNhs13339_12642-134G5_forward Regulation 
cons30way UCSC 30 Primates UCSC 30 Primates - 30 primate genomes aligned with MultiZ by the UCSC Browser Group Comparative Genomics Description This track shows multiple alignments of 30 species and measurements of evolutionary conservation using two methods (phastCons and phyloP) from the PHAST package, for all thirty species. The multiple alignments were generated using multiz and other tools in the UCSC/Penn State Bioinformatics comparative genomics alignment pipeline. Conserved elements identified by phastCons are also displayed in this track. PhastCons (which has been used in previous Conservation tracks) is a hidden Markov model-based method that estimates the probability that each nucleotide belongs to a conserved element, based on the multiple alignment. It considers not just each individual alignment column, but also its flanking columns. By contrast, phyloP separately measures conservation at individual columns, ignoring the effects of their neighbors. As a consequence, the phyloP plots have a less smooth appearance than the phastCons plots, with more "texture" at individual sites. The two methods have different strengths and weaknesses. PhastCons is sensitive to "runs" of conserved sites, and is therefore effective for picking out conserved elements. PhyloP, on the other hand, is more appropriate for evaluating signatures of selection at particular nucleotides or classes of nucleotides (e.g., third codon positions, or first positions of miRNA target sites). Another important difference is that phyloP can measure acceleration (faster evolution than expected under neutral drift) as well as conservation (slower than expected evolution). In the phyloP plots, sites predicted to be conserved are assigned positive scores (and shown in blue), while sites predicted to be fast-evolving are assigned negative scores (and shown in red). The absolute values of the scores represent -log p-values under a null hypothesis of neutral evolution. The phastCons scores, by contrast, represent probabilities of negative selection and range between 0 and 1. Both phastCons and phyloP treat alignment gaps and unaligned nucleotides as missing data. See also: lastz parameters and other details and chain minimum score and gap parameters used in these alignments. Missing sequence in the assemblies is highlighted in the track display by regions of yellow when zoomed out and Ns displayed at base level (see Gap Annotation, below). OrganismSpeciesRelease dateUCSC versionalignment type HumanHomo sapiens Dec. 2013 (GRCh38/hg38)Dec. 2013 (GRCh38/hg38)MAF Net ChimpPan troglodytes May 2016 (Pan_tro 3.0/panTro5)May 2016 (Pan_tro 3.0/panTro5)MAF Net BonoboPan paniscus Aug. 2015 (MPI-EVA panpan1.1/panPan2)Aug. 2015 (MPI-EVA panpan1.1/panPan2)MAF Net GorillaGorilla gorilla gorilla Mar. 2016 (GSMRT3/gorGor5)Mar. 2016 (GSMRT3/gorGor5)MAF Net OrangutanPongo pygmaeus abelii July 2007 (WUGSC 2.0.2/ponAbe2)July 2007 (WUGSC 2.0.2/ponAbe2)MAF Net GibbonNomascus leucogenys Oct. 2012 (GGSC Nleu3.0/nomLeu3)Oct. 2012 (GGSC Nleu3.0/nomLeu3)MAF Net RhesusMacaca mulatta Nov. 2015 (BCM Mmul_8.0.1/rheMac8)Nov. 2015 (BCM Mmul_8.0.1/rheMac8)MAF Net Crab-eating macaqueMacaca fascicularis Jun. 2013 (Macaca_fascicularis_5.0/macFas5)Jun. 2013 (Macaca_fascicularis_5.0/macFas5)MAF Net Pig-tailed macaqueMacaca nemestrina Mar. 2015 (Mnem_1.0/macNem1)Mar. 2015 (Mnem_1.0/macNem1)MAF Net Sooty mangabeyCercocebus atys Mar. 2015 (Caty_1.0/cerAty1)Mar. 2015 (Caty_1.0/cerAty1)MAF Net BaboonPapio anubis Feb. 2013 (Baylor Panu_2.0/papAnu3)Feb. 2013 (Baylor Panu_2.0/papAnu3)MAF Net Green monkeyChlorocebus sabaeus Mar. 2014 (Chlorocebus_sabeus 1.1/chlSab2)Mar. 2014 (Chlorocebus_sabeus 1.1/chlSab2)MAF Net DrillMandrillus leucophaeus Mar. 2015 (Mleu.le_1.0/manLeu1)Mar. 2015 (Mleu.le_1.0/manLeu1)MAF Net Proboscis monkeyNasalis larvatus Nov. 2014 (Charlie1.0/nasLar1)Nov. 2014 (Charlie1.0/nasLar1)MAF Net Angolan colobusColobus angolensis palliatus Mar. 2015 (Cang.pa_1.0/colAng1)Mar. 2015 (Cang.pa_1.0/colAng1)MAF Net Golden snub-nosed monkeyRhinopithecus roxellana Oct. 2014 (Rrox_v1/rhiRox1)Oct. 2014 (Rrox_v1/rhiRox1)MAF Net Black snub-nosed monkeyRhinopithecus bieti Aug. 2016 (ASM169854v1/rhiBie1)Aug. 2016 (ASM169854v1/rhiBie1)MAF Net MarmosetCallithrix jacchus March 2009 (WUGSC 3.2/calJac3)March 2009 (WUGSC 3.2/calJac3)MAF Net Squirrel monkeySaimiri boliviensis Oct. 2011 (Broad/saiBol1)Oct. 2011 (Broad/saiBol1)MAF Net White-faced sapajouCebus capucinus imitator Apr. 2016 (Cebus_imitator-1.0/cebCap1)Apr. 2016 (Cebus_imitator-1.0/cebCap1)MAF Net Ma's night monkeyAotus nancymaae Jun. 2017 (Anan_2.0/aotNan1)Jun. 2017 (Anan_2.0/aotNan1)MAF Net TarsierTarsius syrichta Sep. 2013 (Tarsius_syrichta-2.0.1/tarSyr2)Sep. 2013 (Tarsius_syrichta-2.0.1/tarSyr2)MAF Net Mouse lemurMicrocebus murinus Feb. 2017 (Mmur_3.0/micMur3)Feb. 2017 (Mmur_3.0/micMur3)MAF Net Coquerel's sifakaPropithecus coquereli Mar. 2015 (Pcoq_1.0/proCoq1)Mar. 2015 (Pcoq_1.0/proCoq1)MAF Net Black lemurEulemur macaco Aug. 2015 (Emacaco_refEf_BWA_oneround/eulMac1)Aug. 2015 (Emacaco_refEf_BWA_oneround/eulMac1)MAF Net Sclater's lemurEulemur flavifrons Aug. 2015 (Eflavifronsk33QCA/eulFla1)Aug. 2015 (Eflavifronsk33QCA/eulFla1)MAF Net BushbabyOtolemur garnettii Mar. 2011 (Broad/otoGar3)Mar. 2011 (Broad/otoGar3)MAF Net MouseMus musculus Dec. 2011 (GRCm38/mm10)Dec. 2011 (GRCm38/mm10)MAF Net DogCanis lupus familiaris Sep. 2011 (Broad CanFam3.1/canFam3)Sep. 2011 (Broad CanFam3.1/canFam3)MAF Net ArmadilloDasypus novemcinctus Dec. 2011 (Baylor/dasNov3)Dec. 2011 (Baylor/dasNov3)MAF Net Table 1. Genome assemblies included in the 30-way Conservation track. Downloads for data in this track are available: Multiz alignments (MAF format), and phylogenetic trees PhyloP conservation (WIG format) PhastCons conservation (WIG format) Display Conventions and Configuration In full and pack display modes, conservation scores are displayed as a wiggle track (histogram) in which the height reflects the value of the score. The conservation wiggles can be configured in a variety of ways to highlight different aspects of the displayed information. Click the Graph configuration help link for an explanation of the configuration options. Pairwise alignments of each species to the human genome are displayed below the conservation histogram as a grayscale density plot (in pack mode) or as a wiggle (in full mode) that indicates alignment quality. In dense display mode, conservation is shown in grayscale using darker values to indicate higher levels of overall conservation as scored by phastCons. Checkboxes on the track configuration page allow selection of the species to include in the pairwise display. The names of selected species are colored according to their clade, alternating between blue and green. Configuration buttons are available to select all of the species (Set all), deselect all of the species (Clear all), or use the default settings (Set defaults). Note that excluding species from the pairwise display does not alter the the conservation score display. To view detailed information about the alignments at a specific position, zoom the display in to 30,000 or fewer bases, then click on the alignment. Gap Annotation The Display chains between alignments configuration option enables display of gaps between alignment blocks in the pairwise alignments in a manner similar to the Chain track display. The following conventions are used: Single line: No bases in the aligned species. Possibly due to a lineage-specific insertion between the aligned blocks in the human genome or a lineage-specific deletion between the aligned blocks in the aligning species. Double line: Aligning species has one or more unalignable bases in the gap region. Possibly due to excessive evolutionary distance between species or independent indels in the region between the aligned blocks in both species. Pale yellow coloring: Aligning species has Ns in the gap region. Reflects uncertainty in the relationship between the DNA of both species, due to lack of sequence in relevant portions of the aligning species. Genomic Breaks Discontinuities in the genomic context (chromosome, scaffold or region) of the aligned DNA in the aligning species are shown as follows: Vertical blue bar: Represents a discontinuity that persists indefinitely on either side, e.g. a large region of DNA on either side of the bar comes from a different chromosome in the aligned species due to a large scale rearrangement. Green square brackets: Enclose shorter alignments consisting of DNA from one genomic context in the aligned species nested inside a larger chain of alignments from a different genomic context. The alignment within the brackets may represent a short misalignment, a lineage-specific insertion of a transposon in the human genome that aligns to a paralogous copy somewhere else in the aligned species, or other similar occurrence. Base Level When zoomed-in to the base-level display, the track shows the base composition of each alignment. The numbers and symbols on the Gaps line indicate the lengths of gaps in the human sequence at those alignment positions relative to the longest non-human sequence. If there is sufficient space in the display, the size of the gap is shown. If the space is insufficient and the gap size is a multiple of 3, a &quot;*&quot; is displayed; other gap sizes are indicated by &quot;+&quot;. Codon translation is available in base-level display mode if the displayed region is identified as a coding segment. To display this annotation, select the species for translation from the pull-down menu in the Codon Translation configuration section at the top of the page. Then, select one of the following modes: No codon translation: The gene annotation is not used; the bases are displayed without translation. Use default species reading frames for translation: The annotations from the genome displayed in the Default species to establish reading frame pull-down menu are used to translate all the aligned species present in the alignment. Use reading frames for species if available, otherwise no translation: Codon translation is performed only for those species where the region is annotated as protein coding. Use reading frames for species if available, otherwise use default species: Codon translation is done on those species that are annotated as being protein coding over the aligned region using species-specific annotation; the remaining species are translated using the default species annotation. Codon translation uses the following gene tracks as the basis for translation, depending on the species chosen (Table 2). Gene TrackSpecies Known Geneshuman, mouse Ensembl Genes v78baboon, bushbaby, chimp, dog, gorilla, marmoset, mouse lemur, orangutan, tree shrew RefSeqcrab-eating macaque, rhesus no annotationbonobo, green monkey, gibbon, proboscis monkey, golden snub-nosed monkey, squirrel monkey, tarsier Table 2. Gene tracks used for codon translation. Methods Pairwise alignments with the human genome were generated for each species using lastz from repeat-masked genomic sequence. Pairwise alignments were then linked into chains using a dynamic programming algorithm that finds maximally scoring chains of gapless subsections of the alignments organized in a kd-tree. The scoring matrix and parameters for pairwise alignment and chaining were tuned for each species based on phylogenetic distance from the reference. High-scoring chains were then placed along the genome, with gaps filled by lower-scoring chains, to produce an alignment net. For more information about the chaining and netting process and parameters for each species, see the description pages for the Chain and Net tracks. An additional filtering step was introduced in the generation of the 30-way conservation track to reduce the number of paralogs and pseudogenes from the high-quality assemblies and the suspect alignments from the low-quality assemblies. type of net alignmentSpecies Syntenic Netbaboon, chimp, dog, gibbon, green monkey, crab-eating macaque, marmoset, mouse, orangutan, rhesus Reciprocal best Netbushbaby, bonobo, gorilla, golden snub-nosed monkey, mouse lemur, proboscis monkey, squirrel monkey, tarsier, tree shrew Table 3. Type of Net alignment The resulting best-in-genome pairwise alignments were progressively aligned using multiz/autoMZ, following the tree topology diagrammed above, to produce multiple alignments. The multiple alignments were post-processed to add annotations indicating alignment gaps, genomic breaks, and base quality of the component sequences. The annotated multiple alignments, in MAF format, are available for bulk download. An alignment summary table containing an entry for each alignment block in each species was generated to improve track display performance at large scales. Framing tables were constructed to enable visualization of codons in the multiple alignment display. Phylogenetic Tree Model Both phastCons and phyloP are phylogenetic methods that rely on a tree model containing the tree topology, branch lengths representing evolutionary distance at neutrally evolving sites, the background distribution of nucleotides, and a substitution rate matrix. The all species tree model for this track was generated using the phyloFit program from the PHAST package (REV model, EM algorithm, medium precision) using multiple alignments of 4-fold degenerate sites extracted from the 30-way alignment (msa_view). The 4d sites were derived from the Xeno RefSeq gene set, filtered to select single-coverage long transcripts. This same tree model was used in the phyloP calculations, however their background frequencies were modified to maintain reversibility. The resulting tree model for all species. PhastCons Conservation The phastCons program computes conservation scores based on a phylo-HMM, a type of probabilistic model that describes both the process of DNA substitution at each site in a genome and the way this process changes from one site to the next (Felsenstein and Churchill 1996, Yang 1995, Siepel and Haussler 2005). PhastCons uses a two-state phylo-HMM, with a state for conserved regions and a state for non-conserved regions. The value plotted at each site is the posterior probability that the corresponding alignment column was "generated" by the conserved state of the phylo-HMM. These scores reflect the phylogeny (including branch lengths) of the species in question, a continuous-time Markov model of the nucleotide substitution process, and a tendency for conservation levels to be autocorrelated along the genome (i.e., to be similar at adjacent sites). The general reversible (REV) substitution model was used. Unlike many conservation-scoring programs, phastCons does not rely on a sliding window of fixed size; therefore, short highly-conserved regions and long moderately conserved regions can both obtain high scores. More information about phastCons can be found in Siepel et al. (2005). The phastCons parameters used were: expected-length=45, target-coverage=0.3, rho=0.3. PhyloP Conservation The phyloP program supports several different methods for computing p-values of conservation or acceleration, for individual nucleotides or larger elements (http://compgen.cshl.edu/phast/). Here it was used to produce separate scores at each base (--wig-scores option), considering all branches of the phylogeny rather than a particular subtree or lineage (i.e., the --subtree option was not used). The scores were computed by performing a likelihood ratio test at each alignment column (--method LRT), and scores for both conservation and acceleration were produced (--mode CONACC). SSREV PhyloP Conservation A second phyloP track, Cons 30 Mam (SSREV), computes single-base conservation scores using the strand-symmetric reversible (SSREV) substitution model rather than the standard REV model. The default REV model is not strand-symmetric, which can bias single-base conservation scores depending on the strand of the underlying transcript -- most visible at splice sites and other strand-specific motifs (Pollard et al. 2010, supplementary section 2.4). The SSREV model enforces equal substitution rates between complementary base pairs, so a splice donor on the plus strand (GT...) and on the minus strand (...AC) receive equivalent conservation scores. The SSREV track uses the same alignment, tree topology, score range, and phyloP options (--method LRT --mode CONACC --wig-scores) as the REV phyloP track; only the substitution model differs. Use the SSREV track for analyses sensitive to transcript strand (splice sites, miRNA seed regions, antisense regulatory features); the REV track remains appropriate for general genome-wide conservation analysis. Conserved Elements The conserved elements were predicted by running phastCons with the --viterbi option. The predicted elements are segments of the alignment that are likely to have been "generated" by the conserved state of the phylo-HMM. Each element is assigned a log-odds score equal to its log probability under the conserved model minus its log probability under the non-conserved model. The "score" field associated with this track contains transformed log-odds scores, taking values between 0 and 1000. (The scores are transformed using a monotonic function of the form a * log(x) + b.) The raw log odds scores are retained in the "name" field and can be seen on the details page or in the browser when the track's display mode is set to "pack" or "full". Credits This track was created using the following programs: Alignment tools: blastz and multiz by Minmei Hou, Scott Schwartz and Webb Miller of the Penn State Bioinformatics Group Chaining and Netting: axtChain, chainNet by Jim Kent at UCSC Conservation scoring: phastCons, phyloP, phyloFit, tree_doctor, msa_view and other programs in PHAST by Adam Siepel at Cold Spring Harbor Laboratory (original development done at the Haussler lab at UCSC). MAF Annotation tools: mafAddIRows by Brian Raney, UCSC; mafAddQRows by Richard Burhans, Penn State; genePredToMafFrames by Mark Diekhans, UCSC Tree image generator: phyloPng by Galt Barber, UCSC Conservation track display: Kate Rosenbloom, Hiram Clawson (wiggle display), and Brian Raney (gap annotation and codon framing) at UCSC The phylogenetic tree is based on Murphy et al. (2001) and general consensus in the vertebrate phylogeny community as of March 2007. References Phylo-HMMs, phastCons, and phyloP: Felsenstein J, Churchill GA. A Hidden Markov Model approach to variation among sites in rate of evolution. Mol Biol Evol. 1996 Jan;13(1):93-104. PMID: 8583911 Pollard KS, Hubisz MJ, Rosenbloom KR, Siepel A. Detection of nonneutral substitution rates on mammalian phylogenies. Genome Res. 2010 Jan;20(1):110-21. PMID: 19858363; PMC: PMC2798823 Siepel A, Bejerano G, Pedersen JS, Hinrichs AS, Hou M, Rosenbloom K, Clawson H, Spieth J, Hillier LW, Richards S, et al. Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes. Genome Res. 2005 Aug;15(8):1034-50. PMID: 16024819; PMC: PMC1182216 Siepel A, Haussler D. Phylogenetic Hidden Markov Models. In: Nielsen R, editor. Statistical Methods in Molecular Evolution. New York: Springer; 2005. pp. 325-351 Yang Z. A space-time process model for the evolution of DNA sequences. Genetics. 1995 Feb;139(2):993-1005. PMID: 7713447; PMC: PMC1306396 Chain/Net: Kent WJ, Baertsch R, Hinrichs A, Miller W, Haussler D. Evolution's cauldron: duplication, deletion, and rearrangement in the mouse and human genomes. Proc Natl Acad Sci U S A. 2003 Sep 30;100(30):11484-9. PMID: 14500911; PMC: PMC308784 Multiz: Blanchette M, Kent WJ, Riemer C, Elnitski L, Smit AF, Roskin KM, Baertsch R, Rosenbloom K, Clawson H, Green ED, et al. Aligning multiple genomic sequences with the threaded blockset aligner. Genome Res. 2004 Apr;14(4):708-15. PMID: 15060014; PMC: PMC383327 Harris RS. Improved pairwise alignment of genomic DNA. Ph.D. Thesis. Pennsylvania State University, USA. 2007. Blastz: Chiaromonte F, Yap VB, Miller W. Scoring pairwise genomic sequence alignments. Pac Symp Biocomput. 2002:115-26. PMID: 11928468 Schwartz S, Kent WJ, Smit A, Zhang Z, Baertsch R, Hardison RC, Haussler D, Miller W. Human-mouse alignments with BLASTZ. Genome Res. 2003 Jan;13(1):103-7. PMID: 12529312; PMC: PMC430961 Phylogenetic Tree: Murphy WJ, Eizirik E, O'Brien SJ, Madsen O, Scally M, Douady CJ, Teeling E, Ryder OA, Stanhope MJ, de Jong WW, Springer MS. Resolution of the early placental mammal radiation using Bayesian phylogenetics. Science. 2001 Dec 14;294(5550):2348-51. PMID: 11743200 
cons30wayViewalign Multiz Alignments UCSC 30 Primates - 30 primate genomes aligned with MultiZ by the UCSC Browser Group Comparative Genomics 
multiz30way Multiz Align Multiz Alignments of 30 mammals (27 primates) Comparative Genomics 
cons30wayViewphastcons Element Conservation (phastCons) UCSC 30 Primates - 30 primate genomes aligned with MultiZ by the UCSC Browser Group Comparative Genomics 
phastCons30way Cons 30 Mammals 30 mammals conservation by PhastCons (27 primates) Comparative Genomics 
cons30wayViewelements Conserved Elements UCSC 30 Primates - 30 primate genomes aligned with MultiZ by the UCSC Browser Group Comparative Genomics 
phastConsElements30way 30-way El 30 mammals Conserved Elements (27 primates) Comparative Genomics 
cons30wayViewphyloP Basewise Conservation (phyloP) UCSC 30 Primates - 30 primate genomes aligned with MultiZ by the UCSC Browser Group Comparative Genomics 
phyloP30way Cons 30 Mammals 30 mammals Basewise Conservation by PhyloP (27 primates) Comparative Genomics 
phyloPSSREV30way Cons 30 Mam (SSREV) 30 mammals Basewise Conservation by PhyloP SSREV model (27 primates) Comparative Genomics 
gnomadGenomesVariantsV3_1_1 gnomAD v3.1.1 Genome Aggregation Database (gnomAD) Genome Variants v3.1.1 Variation Description gnomAD v3.1.1 gnomAD 3 was a genomes-only release. The gnomAD v3.1.1 track is the current version of gnomAD 3 and shows variants from 76,156 whole genomes (and no exomes), all mapped to the GRCh38/hg38 reference sequence. 4,454 genomes were added to the number of genomes in the previous v3 release. For more detailed information on gnomAD v3.1, see the related blog post. A bugfix to v3.1 resulted in gnomAD v3.1.1, see changelog. Do not use gnomAD v3.1 anymore, we will remove the 3.1 track soon. gnomAD v3.1 (Deprecated) The gnomAD v3.1 track is deprecated. Please use v3.1.1 instead. gnomAD v3 The gnomAD v3 track shows variants from 71,702 whole genomes (and no exomes), all mapped to the GRCh38/hg38 reference sequence. For more detailed information on gnomAD v3, see the related blog post. For questions on the gnomAD data, also see the gnomAD FAQ. More details on the Variant type(s) can be found on the Sequence Ontology page. Display Conventions and Configuration gnomAD v3.1.1 The gnomAD v3.1.1 track version follows the same conventions and configuration as the v3.1 track, except as noted below. There is a Non-cancer filter used to exclude/include variants from samples of individuals who were not ascertained for having cancer in a cancer study. There are additional FILTER field filters: AS_VQSR, indel_stack (chrM only), and npg (chrM only). Where possible, variants overlapping multiple transcripts/genes have been collapsed into one variant, with additional information available on the details page, which has roughly halved the number of items in the bigBed. The bigBed has been split into two files, one with the information necessary for the track display, and one with the information necessary for the details page. For more information on this data format, please see the Data Access section below. The VEP annotation is shown as a table instead of spread across multiple fields. Intergenic variants have not been pre-filtered. gnomAD v3.1 By default, a maximum of 50,000 variants can be displayed at a time (before applying the filters described below), before the track switches to dense display mode. Mouse hover on an item will display many details about each variant, including the affected gene(s), the variant type, and annotation (missense, synonymous, etc). Clicking on an item will display additional details on the variant, including a population frequency table showing allele count in each sub-population. Following the conventions on the gnomAD browser, items are shaded according to their Annotation type: pLoF Missense Synonymous Other Label Options To maintain consistency with the gnomAD website, variants are by default labeled according to their chromosomal start position followed by the reference and alternate alleles, for example &quot;chr1-1234-T-CAG&quot;. dbSNP rsID's are also available as an additional label, if the variant is present in dbSnp. Filtering Options Three filters are available for these tracks: FILTER: Used to exclude/include variants that failed Random Forest (RF), Inbreeding Coefficient (Inbreeding Coeff), or Allele Count (AC0) filters. The PASS option is used to include/exclude variants that pass all of the RF, InbreedingCoeff, and AC0 filters, as denoted in the original VCF. Annotation type: Used to exclude/include variants that are annotated as Probability Loss of Function (pLoF), Missense, Synonymous, or Other, as annotated by VEP version 85 (GENCODE v19). Variant Type: Used to exclude/include variants according to the type of variation, as annotated by VEP v85. There is one additional configurable filter on the minimum minor allele frequency. UCSC Methods The gnomAD v3.1.1 data is unfiltered. For the deprecated v3.1 update only, in order to cut down on the amount of displayed data, the following variant types have been filtered out, but are still viewable in the gnomAD browser: Regulatory Region Variants Downstream/Upstream Gene Variants Transcription Factor Binding Site Variants For the full steps used to create the gnomAD tracks at UCSC, please see the hg38 gnomad makedoc. Data Access The raw data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API, and the genome annotations are stored in files that can be downloaded from our download server, subject to the conditions set forth by the gnomAD consortium (see below). The v3.1 and v3.1.1 variants can be found in a special directory as they have been transformed from the underlying VCF. For the v3.1.1 variants in particular, the underlying bigBed only contains enough information necessary to use the track in the browser. The extra data like VEP annotations and CADD scores are available in the same directory as the bigBed but in the files gnomad.v3.1.1.details.tab.gz and gnomad.v3.1.1.details.tab.gz.gzi. The gnomad.v3.1.1.details.tab.gz contains the gzip compressed extra data in JSON format, and the .gzi file is available to speed searching of this data. Each variant has an associated md5sum in the name field of the bigBed which can be used along with the _dataOffset and _dataLen fields to get the associated external data, as show below: # find item of interest: bigBedToBed genomes.bb stdout | head -4 | tail -1 chr1 12416 12417 854246d79dc5d02dcdbd5f5438542b6e [..omitted for brevity..] chr1-12417-G-A 67293 902 # use the final two fields, _dataOffset and _dataLen (add one to _dataLen to include a newline), to get the extra data: bgzip -b 67293 -s 903 gnomad.v3.1.1.details.tab.gz 854246d79dc5d02dcdbd5f5438542b6e {"DDX11L1": {"cons": ["non_coding_transcript_variant", [..omitted for brevity..] The data can also be found directly from the gnomAD downloads page. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credits Thanks to the Genome Aggregation Database Consortium for making these data available. The data are released under the Creative Commons Zero Public Domain Dedication as described here. Please note that some annotations within the provided files may have restrictions on usage. See here for more information. References Chen S, Francioli LC, Goodrich JK, Collins RL, Kanai M, Wang Q, Alf&#246;ldi J, Watts NA, Vittal C, Gauthier LD et al. A genomic mutational constraint map using variation in 76,156 human genomes. Nature. 2024 Jan;625(7993):92-100. PMID: 38057664 Karczewski KJ, Francioli LC, Tiao G, Cummings BB, Alföldi J, Wang Q, Collins RL, Laricchia KM, Ganna A, Birnbaum DP et al. The mutational constraint spectrum quantified from variation in 141,456 humans. Nature. 2020 May;581(7809):434-443. PMID: 32461654; PMC: PMC7334197 Lek M, Karczewski KJ, Minikel EV, Samocha KE, Banks E, Fennell T, O'Donnell-Luria AH, Ware JS, Hill AJ, Cummings BB et al. Analysis of protein-coding genetic variation in 60,706 humans. Nature. 2016 Aug 17;536(7616):285-91. PMID: 27535533; PMC: PMC5018207 
gnomadGenomesVariantsV3_1 Deprecated: gnomAD v3.1 Deprecated: Genome Aggregation Database (gnomAD) Genome Variants v3.1 Variation Description gnomAD v3.1.1 gnomAD 3 was a genomes-only release. The gnomAD v3.1.1 track is the current version of gnomAD 3 and shows variants from 76,156 whole genomes (and no exomes), all mapped to the GRCh38/hg38 reference sequence. 4,454 genomes were added to the number of genomes in the previous v3 release. For more detailed information on gnomAD v3.1, see the related blog post. A bugfix to v3.1 resulted in gnomAD v3.1.1, see changelog. Do not use gnomAD v3.1 anymore, we will remove the 3.1 track soon. gnomAD v3.1 (Deprecated) The gnomAD v3.1 track is deprecated. Please use v3.1.1 instead. gnomAD v3 The gnomAD v3 track shows variants from 71,702 whole genomes (and no exomes), all mapped to the GRCh38/hg38 reference sequence. For more detailed information on gnomAD v3, see the related blog post. For questions on the gnomAD data, also see the gnomAD FAQ. More details on the Variant type(s) can be found on the Sequence Ontology page. Display Conventions and Configuration gnomAD v3.1.1 The gnomAD v3.1.1 track version follows the same conventions and configuration as the v3.1 track, except as noted below. There is a Non-cancer filter used to exclude/include variants from samples of individuals who were not ascertained for having cancer in a cancer study. There are additional FILTER field filters: AS_VQSR, indel_stack (chrM only), and npg (chrM only). Where possible, variants overlapping multiple transcripts/genes have been collapsed into one variant, with additional information available on the details page, which has roughly halved the number of items in the bigBed. The bigBed has been split into two files, one with the information necessary for the track display, and one with the information necessary for the details page. For more information on this data format, please see the Data Access section below. The VEP annotation is shown as a table instead of spread across multiple fields. Intergenic variants have not been pre-filtered. gnomAD v3.1 By default, a maximum of 50,000 variants can be displayed at a time (before applying the filters described below), before the track switches to dense display mode. Mouse hover on an item will display many details about each variant, including the affected gene(s), the variant type, and annotation (missense, synonymous, etc). Clicking on an item will display additional details on the variant, including a population frequency table showing allele count in each sub-population. Following the conventions on the gnomAD browser, items are shaded according to their Annotation type: pLoF Missense Synonymous Other Label Options To maintain consistency with the gnomAD website, variants are by default labeled according to their chromosomal start position followed by the reference and alternate alleles, for example &quot;chr1-1234-T-CAG&quot;. dbSNP rsID's are also available as an additional label, if the variant is present in dbSnp. Filtering Options Three filters are available for these tracks: FILTER: Used to exclude/include variants that failed Random Forest (RF), Inbreeding Coefficient (Inbreeding Coeff), or Allele Count (AC0) filters. The PASS option is used to include/exclude variants that pass all of the RF, InbreedingCoeff, and AC0 filters, as denoted in the original VCF. Annotation type: Used to exclude/include variants that are annotated as Probability Loss of Function (pLoF), Missense, Synonymous, or Other, as annotated by VEP version 85 (GENCODE v19). Variant Type: Used to exclude/include variants according to the type of variation, as annotated by VEP v85. There is one additional configurable filter on the minimum minor allele frequency. UCSC Methods The gnomAD v3.1.1 data is unfiltered. For the deprecated v3.1 update only, in order to cut down on the amount of displayed data, the following variant types have been filtered out, but are still viewable in the gnomAD browser: Regulatory Region Variants Downstream/Upstream Gene Variants Transcription Factor Binding Site Variants For the full steps used to create the gnomAD tracks at UCSC, please see the hg38 gnomad makedoc. Data Access The raw data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API, and the genome annotations are stored in files that can be downloaded from our download server, subject to the conditions set forth by the gnomAD consortium (see below). The v3.1 and v3.1.1 variants can be found in a special directory as they have been transformed from the underlying VCF. For the v3.1.1 variants in particular, the underlying bigBed only contains enough information necessary to use the track in the browser. The extra data like VEP annotations and CADD scores are available in the same directory as the bigBed but in the files gnomad.v3.1.1.details.tab.gz and gnomad.v3.1.1.details.tab.gz.gzi. The gnomad.v3.1.1.details.tab.gz contains the gzip compressed extra data in JSON format, and the .gzi file is available to speed searching of this data. Each variant has an associated md5sum in the name field of the bigBed which can be used along with the _dataOffset and _dataLen fields to get the associated external data, as show below: # find item of interest: bigBedToBed genomes.bb stdout | head -4 | tail -1 chr1 12416 12417 854246d79dc5d02dcdbd5f5438542b6e [..omitted for brevity..] chr1-12417-G-A 67293 902 # use the final two fields, _dataOffset and _dataLen (add one to _dataLen to include a newline), to get the extra data: bgzip -b 67293 -s 903 gnomad.v3.1.1.details.tab.gz 854246d79dc5d02dcdbd5f5438542b6e {"DDX11L1": {"cons": ["non_coding_transcript_variant", [..omitted for brevity..] The data can also be found directly from the gnomAD downloads page. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credits Thanks to the Genome Aggregation Database Consortium for making these data available. The data are released under the Creative Commons Zero Public Domain Dedication as described here. Please note that some annotations within the provided files may have restrictions on usage. See here for more information. References Chen S, Francioli LC, Goodrich JK, Collins RL, Kanai M, Wang Q, Alf&#246;ldi J, Watts NA, Vittal C, Gauthier LD et al. A genomic mutational constraint map using variation in 76,156 human genomes. Nature. 2024 Jan;625(7993):92-100. PMID: 38057664 Karczewski KJ, Francioli LC, Tiao G, Cummings BB, Alföldi J, Wang Q, Collins RL, Laricchia KM, Ganna A, Birnbaum DP et al. The mutational constraint spectrum quantified from variation in 141,456 humans. Nature. 2020 May;581(7809):434-443. PMID: 32461654; PMC: PMC7334197 Lek M, Karczewski KJ, Minikel EV, Samocha KE, Banks E, Fennell T, O'Donnell-Luria AH, Ware JS, Hill AJ, Cummings BB et al. Analysis of protein-coding genetic variation in 60,706 humans. Nature. 2016 Aug 17;536(7616):285-91. PMID: 27535533; PMC: PMC5018207 
gnomadGenomesVariantsV3 gnomAD v3 Genome Aggregation Database (gnomAD) Genome Variants v3 Variation Description gnomAD v3.1.1 gnomAD 3 was a genomes-only release. The gnomAD v3.1.1 track is the current version of gnomAD 3 and shows variants from 76,156 whole genomes (and no exomes), all mapped to the GRCh38/hg38 reference sequence. 4,454 genomes were added to the number of genomes in the previous v3 release. For more detailed information on gnomAD v3.1, see the related blog post. A bugfix to v3.1 resulted in gnomAD v3.1.1, see changelog. Do not use gnomAD v3.1 anymore, we will remove the 3.1 track soon. gnomAD v3.1 (Deprecated) The gnomAD v3.1 track is deprecated. Please use v3.1.1 instead. gnomAD v3 The gnomAD v3 track shows variants from 71,702 whole genomes (and no exomes), all mapped to the GRCh38/hg38 reference sequence. For more detailed information on gnomAD v3, see the related blog post. For questions on the gnomAD data, also see the gnomAD FAQ. More details on the Variant type(s) can be found on the Sequence Ontology page. Display Conventions and Configuration gnomAD v3.1.1 The gnomAD v3.1.1 track version follows the same conventions and configuration as the v3.1 track, except as noted below. There is a Non-cancer filter used to exclude/include variants from samples of individuals who were not ascertained for having cancer in a cancer study. There are additional FILTER field filters: AS_VQSR, indel_stack (chrM only), and npg (chrM only). Where possible, variants overlapping multiple transcripts/genes have been collapsed into one variant, with additional information available on the details page, which has roughly halved the number of items in the bigBed. The bigBed has been split into two files, one with the information necessary for the track display, and one with the information necessary for the details page. For more information on this data format, please see the Data Access section below. The VEP annotation is shown as a table instead of spread across multiple fields. Intergenic variants have not been pre-filtered. gnomAD v3.1 By default, a maximum of 50,000 variants can be displayed at a time (before applying the filters described below), before the track switches to dense display mode. Mouse hover on an item will display many details about each variant, including the affected gene(s), the variant type, and annotation (missense, synonymous, etc). Clicking on an item will display additional details on the variant, including a population frequency table showing allele count in each sub-population. Following the conventions on the gnomAD browser, items are shaded according to their Annotation type: pLoF Missense Synonymous Other Label Options To maintain consistency with the gnomAD website, variants are by default labeled according to their chromosomal start position followed by the reference and alternate alleles, for example &quot;chr1-1234-T-CAG&quot;. dbSNP rsID's are also available as an additional label, if the variant is present in dbSnp. Filtering Options Three filters are available for these tracks: FILTER: Used to exclude/include variants that failed Random Forest (RF), Inbreeding Coefficient (Inbreeding Coeff), or Allele Count (AC0) filters. The PASS option is used to include/exclude variants that pass all of the RF, InbreedingCoeff, and AC0 filters, as denoted in the original VCF. Annotation type: Used to exclude/include variants that are annotated as Probability Loss of Function (pLoF), Missense, Synonymous, or Other, as annotated by VEP version 85 (GENCODE v19). Variant Type: Used to exclude/include variants according to the type of variation, as annotated by VEP v85. There is one additional configurable filter on the minimum minor allele frequency. UCSC Methods The gnomAD v3.1.1 data is unfiltered. For the deprecated v3.1 update only, in order to cut down on the amount of displayed data, the following variant types have been filtered out, but are still viewable in the gnomAD browser: Regulatory Region Variants Downstream/Upstream Gene Variants Transcription Factor Binding Site Variants For the full steps used to create the gnomAD tracks at UCSC, please see the hg38 gnomad makedoc. Data Access The raw data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API, and the genome annotations are stored in files that can be downloaded from our download server, subject to the conditions set forth by the gnomAD consortium (see below). The v3.1 and v3.1.1 variants can be found in a special directory as they have been transformed from the underlying VCF. For the v3.1.1 variants in particular, the underlying bigBed only contains enough information necessary to use the track in the browser. The extra data like VEP annotations and CADD scores are available in the same directory as the bigBed but in the files gnomad.v3.1.1.details.tab.gz and gnomad.v3.1.1.details.tab.gz.gzi. The gnomad.v3.1.1.details.tab.gz contains the gzip compressed extra data in JSON format, and the .gzi file is available to speed searching of this data. Each variant has an associated md5sum in the name field of the bigBed which can be used along with the _dataOffset and _dataLen fields to get the associated external data, as show below: # find item of interest: bigBedToBed genomes.bb stdout | head -4 | tail -1 chr1 12416 12417 854246d79dc5d02dcdbd5f5438542b6e [..omitted for brevity..] chr1-12417-G-A 67293 902 # use the final two fields, _dataOffset and _dataLen (add one to _dataLen to include a newline), to get the extra data: bgzip -b 67293 -s 903 gnomad.v3.1.1.details.tab.gz 854246d79dc5d02dcdbd5f5438542b6e {"DDX11L1": {"cons": ["non_coding_transcript_variant", [..omitted for brevity..] The data can also be found directly from the gnomAD downloads page. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credits Thanks to the Genome Aggregation Database Consortium for making these data available. The data are released under the Creative Commons Zero Public Domain Dedication as described here. Please note that some annotations within the provided files may have restrictions on usage. See here for more information. References Chen S, Francioli LC, Goodrich JK, Collins RL, Kanai M, Wang Q, Alf&#246;ldi J, Watts NA, Vittal C, Gauthier LD et al. A genomic mutational constraint map using variation in 76,156 human genomes. Nature. 2024 Jan;625(7993):92-100. PMID: 38057664 Karczewski KJ, Francioli LC, Tiao G, Cummings BB, Alföldi J, Wang Q, Collins RL, Laricchia KM, Ganna A, Birnbaum DP et al. The mutational constraint spectrum quantified from variation in 141,456 humans. Nature. 2020 May;581(7809):434-443. PMID: 32461654; PMC: PMC7334197 Lek M, Karczewski KJ, Minikel EV, Samocha KE, Banks E, Fennell T, O'Donnell-Luria AH, Ware JS, Hill AJ, Cummings BB et al. Analysis of protein-coding genetic variation in 60,706 humans. Nature. 2016 Aug 17;536(7616):285-91. PMID: 27535533; PMC: PMC5018207 
knownGeneV44 GENCODE V44 GENCODE V44 Genes and Gene Predictions Description The GENCODE Genes track (version 44, July 2023) shows high-quality manual annotations merged with evidence-based automated annotations across the entire human genome generated by the GENCODE project. By default, only the basic gene set is displayed, which is a subset of the comprehensive gene set. The basic set represents transcripts that GENCODE believes will be useful to the majority of users. The track includes protein-coding genes, non-coding RNA genes, and pseudo-genes, though pseudo-genes are not displayed by default. It contains annotations on the reference chromosomes as well as assembly patches and alternative loci (haplotypes). The following table provides statistics for the v44 release derived from the GTF file that contains annotations only on the main chromosomes. More information on how they were generated can be found in the GENCODE site. GENCODE v44 Release Stats GenesObservedTranscriptsObserved Protein-coding genes19,396Protein-coding transcripts89,067 Long non-coding RNA genes19,922- full length protein-coding63,968 Small non-coding RNA genes7,566- partial length protein-coding25,099 Pseudogenes14,735Nonsense mediated decay transcripts21,384 Immunoglobulin/T-cell receptor gene segments647Long non-coding RNA loci transcripts58,246 Total No of distinct translations65,342Genes that have more than one distinct translations13,594 For more information on the different gene tracks, see our Genes FAQ. Display Conventions and Configuration By default, this track displays only the basic GENCODE set, splice variants, and non-coding genes. It includes options to display the entire GENCODE set and pseudogenes. To customize these options, the respective boxes can be checked or unchecked at the top of this description page. This track also includes a variety of labels which identify the transcripts when visibility is set to &quot;full&quot; or &quot;pack&quot;. Gene symbols (e.g. NIPA1) are displayed by default, but additional options include GENCODE Transcript ID (ENST00000561183.5), UCSC Known Gene ID (uc001yve.4), UniProt Display ID (Q7RTP0). Additional information about gene and transcript names can be found in our FAQ. This track, in general, follows the display conventions for gene prediction tracks. The exons for putative non-coding genes and untranslated regions are represented by relatively thin blocks, while those for coding open reading frames are thicker. Coloring for the gene annotations is based on the annotation type: coding: protein coding transcripts, including polymorphic pseudogenes non-coding: non-protein coding transcripts pseudogene: pseudogene transcript annotations problem: problem transcripts (Biotypes of retained_intron, TEC, or disrupted_domain) This track contains an optional codon coloring feature that allows users to quickly validate and compare gene predictions. There is also an option to display the data as a density graph, which can be helpful for visualizing the distribution of items over a region. Squishy-pack Display Within a gene using the pack display mode, transcripts below a specified rank will be condensed into a view similar to squish mode. The transcript ranking approach is preliminary and will change in future releases. The transcripts rankings are defined by the following criteria for protein-coding and non-coding genes: Protein_coding genes MANE or Ensembl canonical 1st: MANE Select / Ensembl canonical 2nd: MANE Plus Clinical Coding biotypes 1st: protein_coding and protein_coding_LoF 2nd: NMDs and NSDs 3rd: retained intron and protein_coding_CDS_not_defined Completeness 1st: full length 2nd: CDS start/end not found CARS score (only for coding transcripts) Transcript genomic span and length (only for non-coding transcripts) Non-coding genes Transcript biotype 1st: transcript biotype identical to gene biotype Ensembl canonical GENCODE basic Transcript genomic span Transcript length Methods The GENCODE v44 track was built from the GENCODE downloads file gencode.v44.chr_patch_hapl_scaff.annotation.gff3.gz. Data from other sources were correlated with the GENCODE data to build association tables. Related Data The GENCODE Genes transcripts are annotated in numerous tables, each of which is also available as a downloadable file. One can see a full list of the associated tables in the Table Browser by selecting GENCODE Genes from the track menu; this list is then available on the table menu. Data access GENCODE Genes and its associated tables can be explored interactively using the REST API, the Table Browser or the Data Integrator. The genePred format files for hg38 are available from our downloads directory or in our GTF download directory. All the tables can also be queried directly from our public MySQL servers, with more information available on our help page as well as on our blog. Credits The GENCODE Genes track was produced at UCSC from the GENCODE comprehensive gene set using a computational pipeline developed by Jim Kent and Brian Raney. This version of the track was generated by Jonathan Casper. References Frankish A, Carbonell-Sala S, Diekhans M, Jungreis I, Loveland JE, Mudge JM, Sisu C, Wright JC, Arnan C, Barnes I et al. GENCODE: reference annotation for the human and mouse genomes in 2023. Nucleic Acids Res. 2023 Jan 6;51(D1):D942-D949. PMID: 36420896; PMC: PMC9825462 A full list of GENCODE publications is available at The GENCODE Project web site. Data Release Policy GENCODE data are available for use without restrictions. 
gnomadVariantsV2 gnomAD v2 Genome Aggregation Database (gnomAD) Genome and Exome Variants v2.1 Variation Description The gnomAD v2 tracks show variants from 125,748 exomes and 15,708 whole genomes, all mapped to the GRCh37/hg19 reference sequence and lifted to the GRCh38/hg38 assembly. The data originate from 141,456 unrelated individuals sequenced as part of various population-genetic and disease-specific studies collected by the Genome Aggregation Database (gnomAD), release 2.1.1. Raw data from all studies have been reprocessed through a unified pipeline and jointly variant-called to increase consistency across projects. For more information on the processing pipeline and population annotations, see the following blog post and the 2.1.1 README. gnomAD v2 data are based on the GRCh37/hg19 assembly. These tracks display the GRCh38/hg38 lift-over provided by gnomAD on their downloads site. The gnomAD MPC score (Missense Deleteriousness Prediction by Constraint) is available for now only on hg19. For questions on the gnomAD data, also see the gnomAD FAQ. Display Conventions and Configuration The gnomAD v2.1.1 track follows the standard display and configuration options available for VCF tracks, briefly explained below. In dense mode, a vertical line is drawn at the position of each variant. In pack mode, &quot;ref&quot; and &quot;alt&quot; alleles are displayed to the left of a vertical line with colored portions corresponding to allele counts. Hovering the mouse pointer over a variant pops up a display of alleles and counts. Filtering Options Four filters are available for these tracks, the same as the underlying VCF: AC0: Allele Count 0 after filtering out low confidence genotypes (GQ &lt; 20; DP &lt; 10; and AB &lt; 0.2 for het calls)) InbreedingCoeff: Inbreeding Coefficient &lt; -0.3 RF: Used to exclude/include variants that failed Random Forest filtering thresholds of 0.055272738028512555, 0.20641025579497013 (probabilities of being a true positive variant) for SNPs, indels) Pass: Variant passes all 3 filters There are two additional filters available, one for the minimum minor allele frequency, and a configurable filter on the QUAL score. Data Access The raw data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API, and the genome annotations are stored in files that can be downloaded from our download server, subject to the conditions set forth by the gnomAD consortium (see below). Variant VCFs can be found in the vcf/ subdirectory. The data can also be found directly from the gnomAD downloads page. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credits Thanks to the Genome Aggregation Database Consortium for making these data available. The data are released under the Creative Commons Zero Public Domain Dedication as described here. Please note that some annotations within the provided files may have restrictions on usage. See here for more information. References Karczewski KJ, Francioli LC, Tiao G, Cummings BB, Alföldi J, Wang Q, Collins RL, Laricchia KM, Ganna A, Birnbaum DP et al. The mutational constraint spectrum quantified from variation in 141,456 humans. Nature. 2020 May;581(7809):434-443. PMID: 32461654; PMC: PMC7334197 Lek M, Karczewski KJ, Minikel EV, Samocha KE, Banks E, Fennell T, O'Donnell-Luria AH, Ware JS, Hill AJ, Cummings BB et al. Analysis of protein-coding genetic variation in 60,706 humans. Nature. 2016 Aug 17;536(7616):285-91. PMID: 27535533; PMC: PMC5018207 
gnomadExomesVariantsV2 gnomAD Exome v2 Genome Aggregation Database (gnomAD) Exome Variants v2.1 Variation 
gnomadGenomesVariantsV2 gnomAD Genome v2 Genome Aggregation Database (gnomAD) Genome Variants v2.1 Variation 
gnomad4ExomeCoverage gnomAD v4 Exome Coverage Genome Aggregation Database (gnomAD) Exome Sample Coverage v4.0 Variation Description The Genome Aggregation Database (gnomAD) v4 - Exome Coverage track shows how many times regions of the genomes were sequenced. This track includes several subtracks of average coverage metrics and sample percentage of coverage. There is no gnomAD v4 genome coverage track because the genomes were unchanged from V3. There is no gnomAD v3 exomes track because v3 was a genome-only release. Display Conventions The Average/Median Sample Coverage tracks display the mean and median read depth of the samples at each base position. The details page shows calculated sample percentages for the range of sequence within the browser window. The nX Coverage Percentage tracks display the percentage of samples whose read depth is at least 1X, 5X, 10X, 15X, 20X, 25X, 30X, 50X, and 100X at each base position. The details page shows calculated sample percentages for the range of sequence within the browser window. Methods Coverage was computed using all gnomAD 4 exome samples from their gVCFs. The gVCFs were produced using a 3-bin blocking scheme: No coverage Reference genotype quality &lt; Q20 Reference genotype quality &ge; Q20 The coverage was binned by quality using the thresholds above and the median coverage value for each of the resulting coverage blocks was used to compute the coverage metrics presented in the browser. Coverage was computed for all callable bases in the genome (all non-N bases, minus telomeres and centromeres). Data Access The raw data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API, and the genome annotations are stored in files that can be downloaded from our download server, subject to the conditions set forth by the gnomAD consortium (see below). Coverage values for the genome are in bigWig files in the coverage/ subdirectory. Variant VCFs can be found in the vcf/ subdirectory. The data can also be found directly from the gnomAD downloads page. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. More information about using and understanding the gnomAD data can be found in the gnomAD FAQ site. Credits Thanks to the Genome Aggregation Database Consortium for making these data available. The data are released under the ODC Open Database License (ODbL) as described here. References Lek M, Karczewski KJ, Minikel EV, Samocha KE, Banks E, Fennell T, O'Donnell-Luria AH, Ware JS, Hill AJ, Cummings BB et al. Analysis of protein-coding genetic variation in 60,706 humans. Nature. 2016 Aug 18;536(7616):285-91. PMID: 27535533; PMC: PMC5018207 Karczewski KJ, Francioli LC, Tiao G, Cummings BB, Alf&#246;ldi J, Wang Q, Collins RL, Laricchia KM, Ganna A, Birnbaum DP et al. The mutational constraint spectrum quantified from variation in 141,456 humans. Nature. 2020 May;581(7809):434-443. PMID: 32461654; PMC: PMC7334197 Collins RL, Brand H, Karczewski KJ, Zhao X, Alf&#246;ldi J, Francioli LC, Khera AV, Lowther C, Gauthier LD, Wang H et al. A structural variation reference for medical and population genetics. Nature. 2020 May;581(7809):444-451. PMID: 32461652; PMC: PMC7334194 Cummings BB, Karczewski KJ, Kosmicki JA, Seaby EG, Watts NA, Singer-Berk M, Mudge JM, Karjalainen J, Satterstrom FK, O'Donnell-Luria AH et al. Transcript expression-aware annotation improves rare variant interpretation. Nature. 2020 May;581(7809):452-458. PMID: 32461655; PMC: PMC7334198 
gnomad4Exome100XPercentage Sample % > 100X gnomAD Percentage of Exome Samples with at least 100X Coverage v4.0 Variation 
gnomad4Exome50XPercentage Sample % > 50X gnomAD Percentage of Exome Samples with at least 50X Coverage v4.0 Variation 
gnomad4Exome30XPercentage Sample % > 30X gnomAD Percentage of Exome Samples with at least 30X Coverage v4.0 Variation 
gnomad4Exome25XPercentage Sample % > 25X gnomAD Percentage of Exome Samples with at least 25X Coverage v4.0 Variation 
gnomad4Exome20XPercentage Sample % > 20X gnomAD Percentage of Exome Samples with at least 20X Coverage v4.0 Variation 
gnomad4Exome15XPercentage Sample % > 15X gnomAD Percentage of Exome Samples with at least 15X Coverage v4.0 Variation 
gnomad4Exome10XPercentage Sample % > 10X gnomAD Percentage of Exome Samples with at least 10X Coverage v4.0 Variation 
gnomad4Exome5XPercentage Sample % > 5X gnomAD Percentage of Exome Samples with at least 5X Coverage v4.0 Variation 
gnomad4Exome1XPercentage Sample % > 1X gnomAD Percentage of Exome Samples with at least 1X Coverage v4.0 Variation 
gnomad4ExomeMedianCoverage Median Coverage gnomAD Median Exome Sample Coverage v4.0 Variation 
gnomad4ExomeMeanCoverage Mean Coverage gnomAD Mean Exome Sample Coverage v4.0 Variation 
nmdDetectiveA_ptc NMDetective-A PTC NMDetective-A: Random forest NMD efficiency for first out-of-frame PTC Genes and Gene Predictions Description The NMDetective tracks display genome-wide predictions of nonsense-mediated mRNA decay (NMD) efficiency from Lindeboom et al. 2016. NMDetective scores predict whether a premature termination codon (PTC) at a given position will trigger NMD and mRNA degradation, or whether the transcript will escape NMD and potentially produce a truncated protein. Scores range from approximately &minus;1 to +1. Positive values indicate that a PTC at that position is predicted to trigger NMD (the mRNA is degraded). Negative values indicate that the PTC is predicted to escape NMD (the truncated mRNA may be translated into an aberrant protein). Values near zero indicate intermediate or uncertain NMD efficiency. Subtracks TrackDescription NMDetective-A Random forest model predicting NMD efficiency for all possible PTCs introduced by single-nucleotide variants. Explains ~71% of systematic variance in NMD efficiency. NMDetective-B Simplified decision tree model for all possible PTCs. Slightly lower accuracy (~68% variance explained) but more interpretable, making it suitable for clinical applications. NMDetective-A PTC Random forest model predicting NMD efficiency specifically for the first out-of-frame PTC introduced by frameshifting indel mutations. NMDetective-B PTC Decision tree model for the first out-of-frame PTC from frameshifting indels. Display Conventions and Configuration Each subtrack is displayed as a signal (bigWig) track. By default, the vertical axis ranges from &minus;1 to +1. Regions with positive values (predicted NMD-triggering) are shown above the baseline; regions with negative values (predicted NMD escape) are shown below. Blue tracks (NMDetective-A and -B): predictions for all possible PTCs from single-nucleotide nonsense variants. Green tracks (NMDetective-A PTC and -B PTC): predictions for the first out-of-frame PTC from frameshifting indels. Methods The NMDetective models were trained on somatic nonsense mutation data from 9,769 cancer patients and validated with frameshift mutations and germline variants (Lindeboom et al. 2019). The models incorporate the following features to predict NMD efficiency: Whether the PTC falls in the last exon Distance to the last 50 nt of the penultimate exon (the EJC-based &ldquo;50 bp rule&rdquo;) Distance from the coding start (start-proximal NMD insensitivity) Exon length mRNA half-life Distance to the downstream exon-junction complex Distance to the wild-type stop codon NMDetective-A (random forest regression) captures non-linear interactions among these features and achieves the highest predictive accuracy. NMDetective-B (decision tree) applies a simpler rule-based classification that is more transparent, with a modest reduction in accuracy. The predictions were generated for every possible PTC-introducing single-nucleotide variant and for the first out-of-frame PTC from every possible single-nucleotide frameshifting indel across all human protein-coding transcripts. The original bedGraph custom track files were downloaded from the NMDetective Figshare page resource and converted to bigWig format at UCSC. Data Access The data underlying these tracks can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credits Thanks to Rik Lindeboom for providing custom tracks and the original NMDetective data on Figshare. References Lindeboom RG, Supek F, Lehner B. The rules and impact of nonsense-mediated mRNA decay in human cancers. Nat Genet. 2016 Oct;48(10):1112-8. PMID: 27618451; PMC: PMC5045715 Lindeboom RGH, Vermeulen M, Lehner B, Supek F. The impact of nonsense-mediated mRNA decay on genetic disease, gene editing and cancer immunotherapy. Nat Genet. 2019 Nov;51(11):1645-1651. PMID: 31659324; PMC: PMC6858879 
recombEvents Recomb. deCODE Evts Recombination events in deCODE Genetic Map (zoom to < 10kbp to see the events) Mapping and Sequencing Description The recombination rate track represents calculated rates of recombination based on the genetic maps from deCODE (Halldorsson et al., 2019) and 1000 Genomes (2013 Phase 3 release, lifted from hg19). The deCODE map is more recent, has a higher resolution and was natively created on hg38 and therefore recommended. For the Recomb. deCODE average track, the recombination rates for chrX represent the female rate. This track also includes a subtrack with all the individual deCODE recombination events and another subtrack with several thousand de-novo mutations found in the deCODE sequencing data. These two tracks are hidden by default and have to be switched on explicitly on the configuration page. Display Conventions and Configuration This is a super track that contains different subtracks, three with the deCODE recombination rates (paternal, maternal and average) and one with the 1000 Genomes recombination rate (average). These tracks are in signal graph (wiggle) format. By default, to show most recombination hotspots, their maximum value is set to 100 cM, even though many regions have values higher than 100. The maximum value can be changed on the configuration pages of the tracks. There are two more tracks that show additional details provided by deCODE: one subtrack with the raw data of all cross-overs tagged with their proband ID and another one with around 8000 human de-novo mutation variants that are linked to cross-over changes. Methods The deCODE genetic map was created at deCODE Genetics. It is based on microarrays assaying 626,828 SNP markers that allowed to identify 1,476,140 crossovers in 56,321 paternal meioses and 3,055,395 crossovers in 70,086 maternal meioses. In total, the data is based on 4,531,535 crossovers in 126,427 meioses. By using WGS data with 9,305,070 SNPs, the boundaries for 761,981 crossovers were refined: 247,942 crossovers in 9423 paternal meioses and 514,039 crossovers in 11,750 maternal meioses. The average resolution of the genetic map is 682 base pairs (bp): 655 and 708 bp for the paternal and maternal maps, respectively. The 1000 Genomes genetic map is based on the IMPUTE genetic map based on 1000 Genomes Phase 3, on hg19 coordinates. It was converted to hg38 by Po-Ru Loh at the Broad Institute. After a run of liftOver, he post-processed the data to deal with situations in which consecutive map locations became much closer/farther after lifting. The heuristic used is sufficient for statistical phasing but may not be optimal for other analyses. For this reason, and because of its higher resolution, the DeCODE map is therefore recommended for hg38. As with all other tracks, the data conversion commands and pointers to the original data files are documented in the makeDoc file of this track. Data Access The raw data can be explored interactively with the Table Browser, or the Data Integrator. For automated access, this track, like all others, is available via our API. However, for bulk processing, it is recommended to download the dataset. For automated download and analysis, the genome annotation is stored at UCSC in bigWig and bigBed files that can be downloaded from our download server. Individual regions or the whole genome annotation can be obtained using our tools bigWigToWig or bigBedToBed which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tools can also be used to obtain features confined to a given range, e.g., bigWigToBedGraph -chrom=chr17 -start=45941345 -end=45942345 http://hgdownload.soe.ucsc.edu/gbdb/hg38/recombRate/recombAvg.bw stdout Please refer to our Data Access FAQ for more information. Credits This track was produced at UCSC using data that are freely available for the deCODE and 1000 Genomes genetic maps. Thanks to Po-Ru Loh at the Broad Institute for providing the code to lift the hg19 1000 Genomes map data to hg38. References 1000 Genomes Project Consortium., Abecasis GR, Altshuler D, Auton A, Brooks LD, Durbin RM, Gibbs RA, Hurles ME, McVean GA. A map of human genome variation from population-scale sequencing. Nature. 2010 Oct 28;467(7319):1061-73. PMID: 20981092; PMC: PMC3042601 Halldorsson BV, Palsson G, Stefansson OA, Jonsson H, Hardarson MT, Eggertsson HP, Gunnarsson B, Oddsson A, Halldorsson GH, Zink F et al. Characterizing mutagenic effects of recombination through a sequence-level genetic map. Science. 2019 Jan 25;363(6425). PMID: 30679340 
joinedRmsk RepeatMasker Viz. Detailed Visualization of RepeatMasker Annotations Repeats Description This track was created using Arian Smit's RepeatMasker program, which screens DNA sequences for interspersed repeats and low complexity DNA sequences. The program outputs a detailed annotation of the repeats that are present in the query sequence (represented by this track), as well as a modified version of the query sequence in which all the annotated repeats have been masked (generally available on the Downloads page). RepeatMasker uses a separately curated version of the Repbase Update repeat library from the Genetic Information Research Institute (GIRI). Repbase Update is described in Jurka (2000) in the References section below. Alternatively, RepeatMasker can use the new Dfam database of repeat profile HMMs. Profile HMMs provide a richer description of the repeat families and when used with RepeatMasker + nhmmer provide a more sensitive approach to identifying repeats. Dfam is described in Wheeler et al. (2012) in the References section below. Display Conventions and Configuration In dense display mode, a single line is displayed denoting the coverage of repeats using a series of black boxes. In full display mode, the track view is controlled by the scale of the view. At scales between 10 Mb and 30 kb, this track displays up to ten different classes of repeats (see below) one class per line. The repeat ranges are denoted as grayscale boxes, reflecting both the size of the repeat and the amount of base mismatch, base deletion, and base insertion associated with a repeat element. The higher the combined number of these, the lighter the shading. In full display mode and at scales less than 30 kb, a new detailed display mode is used. Repeats are displayed as arrow boxes, indicating the size and orientation of the repeat. The interior grayscale shading represents the divergence of the repeat (see above) while the outline color represents the class of the repeat. Dotted lines above the repeat and extending left or right indicate the length of unaligned repeat consensus sequence. If the length of the unaligned sequence is large, a double interruption line is used to indicate that the unaligned sequence is not to scale. For example, the following repeat is a SINE element in the forward orientation with average divergence. Only the 5' proximal fragment of the consensus sequence is aligned to the genome. The 3' unaligned length (384bp) is not drawn to scale and is instead displayed using a set of interruption lines along with the length of the unaligned sequence. Layer 1 384 Repeats that have been fragmented by insertions or large internal deletions are now represented by join lines. In the example below, a LINE element is found as two fragments. The solid connection lines indicate that there are no unaligned consensus bases between the two fragments. Also note these fragments represent the end of the repeat, as there is no unaligned consensus sequence following the last fragment. Layer 1 In cases where there is unaligned consensus sequence between the fragments, the repeat will look like the following. The dotted line indicates the length of the unaligned sequence between the two fragments. In this case the unaligned consensus is longer than the actual genomic distance between these two fragments. Layer 1 If there is consensus overlap between the two fragments, the joining lines will be drawn to indicate how much of the left fragment is repeated in the right fragment. Layer 1 The following table lists the repeat class colors: Color Repeat Class SINE - Short Interspersed Nuclear Element LINE - Long Interspersed Nuclear Element LTR - Long Terminal Repeat DNA - DNA Transposon Simple - Single Nucleotide Stretches and Tandem Repeats Low_complexity - Low Complexity DNA Satellite - Satellite Repeats RNA - RNA Repeats (including RNA, tRNA, rRNA, snRNA, scRNA, srpRNA) Other - Other Repeats (including class RC - Rolling Circle) Unknown - Unknown Classification A &quot;?&quot; at the end of the &quot;Family&quot; or &quot;Class&quot; (for example, DNA?) signifies that the curator was unsure of the classification. At some point in the future, either the &quot;?&quot; will be removed or the classification will be changed. Methods UCSC has used the most current versions of the RepeatMasker software and repeat libraries available to generate these data. Note that these versions may be newer than those that are publicly available on the Internet. Data are generated using the RepeatMasker -s flag. Additional flags may be used for certain organisms. Repeats are soft-masked. Alignments may extend through repeats, but are not permitted to initiate in them. See the FAQ for more information. Credits Thanks to Arian Smit, Robert Hubley and GIRI for providing the tools and repeat libraries used to generate this track. References Smit AFA, Hubley R, Green P. RepeatMasker Open-3.0. https://www.repeatmasker.org/. 1996-2010. Dfam is described in: Wheeler TJ, Clements J, Eddy SR, Hubley R, Jones TA, Jurka J, Smit AF, Finn RD. Dfam: a database of repetitive DNA based on profile hidden Markov models. Nucleic Acids Res. 2013 Jan;41(Database issue):D70-82. PMID: 23203985; PMC: PMC3531169 Repbase Update is described in: Jurka J. Repbase Update: a database and an electronic journal of repetitive elements. Trends Genet. 2000 Sep;16(9):418-420. PMID: 10973072 For a discussion of repeats in mammalian genomes, see: Smit AF. Interspersed repeats and other mementos of transposable elements in mammalian genomes. Curr Opin Genet Dev. 1999 Dec;9(6):657-63. PMID: 10607616 Smit AF. The origin of interspersed repeats in the human genome. Curr Opin Genet Dev. 1996 Dec;6(6):743-8. PMID: 8994846 
rmskJoinedBaseline RepeatMasker Viz. RepeatMasker v3.0.1 db20100302 : Browser Baseline Dataset Repeats 
rmskJoinedCurrent RepeatMasker Viz. RepeatMasker v4.0.7 Dfam_2.0 : Current Dataset Repeats 
sgdp Simons Genome Diversity Project 0.3k WGS Phased Variants: Simons Genome Diversity Project - 279 samples, unmixed populations Variation Description This tracks contains variants of individual genotypes, usually phased, from the projects Human Diversity Genome Project, Simons Genome Diversity Project, gnomad's HGDP+1000 Genomes callset, and the Mexico Biobank. The original release of 1000 Genomes has its own, separate track. Projects where the released variants are not phased can be found in the container track "Variant Frequencies". Available on hg19 and hg38: Mexico Biobank (MXB): This track displays phased alleles from the Mexico Biobank Project (MXB), based on array genotyping of 6,011 individuals sampled across all 32 states of Mexico during the 2000 National Health Survey (ENSA 2000) conducted by the National Institute of Public Health (INSP). Frequencies can be plotted onto a map on MexVar. The hg38 track was lifted from hg19. Simons Genome Diversity Project (SGDP): Funded by the Simons Foundation, the Simons Genome Diversity Project is a large-scale effort that sequenced high-coverage genomes from 300 individuals (279 in this track) representing 142 diverse and often indigenous populations worldwide. Its goal was to capture the full range of human genetic diversity to better understand population history, migration, and adaptation. It is sampling populations in a way that represents as much anthropological, linguistic and cultural diversity as possible, and thus includes many deeply divergent human populations that are not well represented in other datasets. SGDP emphasizes breadth of global representation and population history, whereas HGDP emphasizes continuity and comparability across major population groups. Not all iits data is public, so this track contains only 279 genomes. For details, see (Mallick et al, Nature 2016). The hg38 track was lifted from hg19. Available only on hg38: Human Genome Diversity Project (HGDP): 929 high-coverage genome sequences from 54 diverse human populations, 26 of which are physically phased using linked-read sequencing. The Human Genome Diversity Project (HGDP) was launched in the early 1990s to study the genetic variation and evolutionary history of modern humans across global populations. Its goal was to document the full spectrum of human genetic diversity, particularly in indigenous and geographically isolated groups, to better understand population structure, migration, adaptation, and disease susceptibility.The project collected samples from ~1,000 individuals representing over 50 populations worldwide, including groups from Africa, Europe, Asia, Oceania, and the Americas. These data have become a foundational reference for population genetics and human evolution studies. Data can be downloaded from the Sanger Website. For details, see (Bergstr&ouml;m et al, Science 2020). gnomAD HGDP and 1000 Genomes callset: A reprocessed version by the gnomAD project for the 1000 Genomes and Human Genome Diversity Project (HGDP) data, with 4094 genomes from 80 populations. We already have separate, older tracks for 1000 Genomes on the main hg38 browser and for HGDP, just above. This track combines both datasets, with harmonized data quality. For details, see (Koenig et al, 2024). Display Conventions Full haplotype display: In &quot;pack&quot; mode, this track sorts the haplotypes. This can be useful for determining the similarity between the samples and inferring inheritance at a particular locus. Each sample's phased and/or homozygous genotypes are split into haplotypes, clustered by similarity around a central variant (in pink), and sorted for display by their position in the clustering tree. Click a variant to center on it. The tree (as space allows) is drawn in the label area next to the track image. Leaf clusters, in which all haplotypes are identical (at least for the variants used in clustering), are colored purple. For a full description of how the display works, please see our Haplotype Display help page. Data Access MXB: Allele frequencies by geographical state and ancestry are available via the MexVar platform. Raw genotype data are available under controlled access at the EGA (Study: EGAS00001005797; Dataset: EGAD00010002361). For the VCFs, email andres.moreno@cinvestav.mx. Methods SGDP: The version used was https://sharehost.hms.harvard.edu/genetics/reich_lab/sgdp/vcf_variants/, merged with bcftools and lifted to hg38 with CrossMap. Credits MXB: We thank the Center for Research and Advanced Studies (Cinvestav) of Mexico for generating and providing the frequency data, the National Institute of Medical Sciences and Nutrition (INCMNSZ) for DNA extraction, and the Ministry of Health together with the National Institute of Public Health (INSP) for the design and implementation of the National Health Survey 2000 (ENSA 2000). We also thank the ENSA-Genomics Consortium for their contributions to sample collection and data processing that made possible the construction of the MXB genomic resource. SGDP: This project was funded by the Simons Foundation. Thanks to David Reich and Swapan Mallick for help with importing the data. References Barberena-Jonas C, Medina-Mu&ntilde;oz SG, Cedillo-Castel&aacute;n V, Sep&uacute;lveda-Morales T, Gonzaga-J&aacute;uregui C, ENSA Genomics Consortium, Garc&iacute;a-Garc&iacute;a L, Ioannidis AG, Moreno-Estrada A. Clinical genetic variation across Hispanic populations in the Mexican Biobank. Nat Med. 2026 Jan 21;. DOI: 10.1038/s41591-025-04100-z; PMID: 41566040 Sohail M, Moreno-Estrada A. The Mexican Biobank Project promotes genetic discovery, inclusive science and local capacity building. Dis Model Mech. 2024 Jan 1;17(1). PMID: 38299665; PMC: PMC10855211 Sohail M, Palma-Mart&iacute;nez MJ, Chong AY, Quinto-Cor&eacute;s CD, Barberena-Jonas C, Medina-Mu&ntilde;oz SG, Ragsdale A, Delgado-S&aacute;nchez G, Cruz-Hervert LP, Ferreyra-Reyes L et al. Mexican Biobank advances population and medical genomics of diverse ancestries. Nature. 2023 Oct;622(7984):775-783. PMID: 37821706; PMC: PMC10600006 Bergstr&ouml;m A, McCarthy SA, Hui R, Almarri MA, Ayub Q, Danecek P, Chen Y, Felkel S, Hallast P, Kamm J et al. Insights into human genetic variation and population history from 929 diverse genomes. Science. 2020 Mar 20;367(6484). PMID: 32193295; PMC: PMC7115999 Koenig Z, Yohannes MT, Nkambule LL, Zhao X, Goodrich JK, Kim HA, Wilson MW, Tiao G, Hao SP, Sahakian N et al. A harmonized public resource of deeply sequenced diverse human genomes. Genome Res. 2024 Jun 25;34(5):796-809. PMID: 38749656; PMC: PMC11216312 Mallick S, Li H, Lipson M, Mathieson I, Gymrek M, Racimo F, Zhao M, Chennagiri N, Nordenfelt S, Tandon A et al. The Simons Genome Diversity Project: 300 genomes from 142 diverse populations. Nature. 2016 Oct 13;538(7624):201-206. PMID: 27654912; PMC: PMC5161557 
knownGeneV43 GENCODE V43 GENCODE V43 Genes and Gene Predictions Description The GENCODE Genes track (version 43, February 2023) shows high-quality manual annotations merged with evidence-based automated annotations across the entire human genome generated by the GENCODE project. By default, only the basic gene set is displayed, which is a subset of the comprehensive gene set. The basic set represents transcripts that GENCODE believes will be useful to the majority of users. The track includes protein-coding genes, non-coding RNA genes, and pseudo-genes, though pseudo-genes are not displayed by default. It contains annotations on the reference chromosomes as well as assembly patches and alternative loci (haplotypes). The following table provides statistics for the v43 release derived from the GTF file that contains annotations only on the main chromosomes. More information on how they were generated can be found in the GENCODE site. GENCODE v43 Release Stats GenesObservedTranscriptsObserved Protein-coding genes19,393Protein-coding transcripts89,411 Long non-coding RNA genes19,928- full length protein-coding64,004 Small non-coding RNA genes7,566- partial length protein-coding25,407 Pseudogenes14,737Nonsense mediated decay transcripts21,354 Immunoglobulin/T-cell receptor gene segments410Long non-coding RNA loci transcripts58,023 Total No of distinct translations65,519Genes that have more than one distinct translations13,618 For more information on the different gene tracks, see our Genes FAQ. Display Conventions and Configuration By default, this track displays only the basic GENCODE set, splice variants, and non-coding genes. It includes options to display the entire GENCODE set and pseudogenes. To customize these options, the respective boxes can be checked or unchecked at the top of this description page. This track also includes a variety of labels which identify the transcripts when visibility is set to &quot;full&quot; or &quot;pack&quot;. Gene symbols (e.g. NIPA1) are displayed by default, but additional options include GENCODE Transcript ID (ENST00000561183.5), UCSC Known Gene ID (uc001yve.4), UniProt Display ID (Q7RTP0). Additional information about gene and transcript names can be found in our FAQ. This track, in general, follows the display conventions for gene prediction tracks. The exons for putative non-coding genes and untranslated regions are represented by relatively thin blocks, while those for coding open reading frames are thicker. Coloring for the gene annotations is based on the annotation type: coding: protein coding transcripts, including polymorphic pseudogenes non-coding: non-protein coding transcripts pseudogene: pseudogene transcript annotations problem: problem transcripts (Biotypes of retained_intron, TEC, or disrupted_domain) This track contains an optional codon coloring feature that allows users to quickly validate and compare gene predictions. There is also an option to display the data as a density graph, which can be helpful for visualizing the distribution of items over a region. Squishy-pack Display Within a gene using the pack display mode, transcripts below a specified rank will be condensed into a view similar to squish mode. The transcript ranking approach is preliminary and will change in future releases. The transcripts rankings are defined by the following criteria for protein-coding and non-coding genes: Protein_coding genes MANE or Ensembl canonical 1st: MANE Select / Ensembl canonical 2nd: MANE Plus Clinical Coding biotypes 1st: protein_coding and protein_coding_LoF 2nd: NMDs and NSDs 3rd: retained intron and protein_coding_CDS_not_defined Completeness 1st: full length 2nd: CDS start/end not found CARS score (only for coding transcripts) Transcript genomic span and length (only for non-coding transcripts) Non-coding genes Transcript biotype 1st: transcript biotype identical to gene biotype Ensembl canonical GENCODE basic Transcript genomic span Transcript length Methods The GENCODE v43 track was built from the GENCODE downloads file gencode.v43.chr_patch_hapl_scaff.annotation.gff3.gz. Data from other sources were correlated with the GENCODE data to build association tables. Related Data The GENCODE Genes transcripts are annotated in numerous tables, each of which is also available as a downloadable file. One can see a full list of the associated tables in the Table Browser by selecting GENCODE Genes from the track menu; this list is then available on the table menu. Data access GENCODE Genes and its associated tables can be explored interactively using the REST API, the Table Browser or the Data Integrator. The genePred format files for hg38 are available from our downloads directory or in our GTF download directory. All the tables can also be queried directly from our public MySQL servers, with more information available on our help page as well as on our blog. Credits The GENCODE Genes track was produced at UCSC from the GENCODE comprehensive gene set using a computational pipeline developed by Jim Kent and Brian Raney. References Harrow J, Frankish A, Gonzalez JM, Tapanari E, Diekhans M, Kokocinski F, Aken BL, Barrell D, Zadissa A, Searle S et al. GENCODE: the reference human genome annotation for The ENCODE Project. Genome Res. 2012 Sep;22(9):1760-74. PMID: 22955987; PMC: PMC3431492 Harrow J, Denoeud F, Frankish A, Reymond A, Chen CK, Chrast J, Lagarde J, Gilbert JG, Storey R, Swarbreck D et al. GENCODE: producing a reference annotation for ENCODE. Genome Biol. 2006;7 Suppl 1:S4.1-9. PMID: 16925838; PMC: PMC1810553 A full list of GENCODE publications is available at The GENCODE Project web site. Data Release Policy GENCODE data are available for use without restrictions. 
hgdp1k gnomAD HGDP+1000G 4k WGS Phased Variants: gnomAD HGDP + 1000 genomes callset - 4094 whole genomes, 80 populations Variation Description This tracks contains variants of individual genotypes, usually phased, from the projects Human Diversity Genome Project, Simons Genome Diversity Project, gnomad's HGDP+1000 Genomes callset, and the Mexico Biobank. The original release of 1000 Genomes has its own, separate track. Projects where the released variants are not phased can be found in the container track "Variant Frequencies". Available on hg19 and hg38: Mexico Biobank (MXB): This track displays phased alleles from the Mexico Biobank Project (MXB), based on array genotyping of 6,011 individuals sampled across all 32 states of Mexico during the 2000 National Health Survey (ENSA 2000) conducted by the National Institute of Public Health (INSP). Frequencies can be plotted onto a map on MexVar. The hg38 track was lifted from hg19. Simons Genome Diversity Project (SGDP): Funded by the Simons Foundation, the Simons Genome Diversity Project is a large-scale effort that sequenced high-coverage genomes from 300 individuals (279 in this track) representing 142 diverse and often indigenous populations worldwide. Its goal was to capture the full range of human genetic diversity to better understand population history, migration, and adaptation. It is sampling populations in a way that represents as much anthropological, linguistic and cultural diversity as possible, and thus includes many deeply divergent human populations that are not well represented in other datasets. SGDP emphasizes breadth of global representation and population history, whereas HGDP emphasizes continuity and comparability across major population groups. Not all iits data is public, so this track contains only 279 genomes. For details, see (Mallick et al, Nature 2016). The hg38 track was lifted from hg19. Available only on hg38: Human Genome Diversity Project (HGDP): 929 high-coverage genome sequences from 54 diverse human populations, 26 of which are physically phased using linked-read sequencing. The Human Genome Diversity Project (HGDP) was launched in the early 1990s to study the genetic variation and evolutionary history of modern humans across global populations. Its goal was to document the full spectrum of human genetic diversity, particularly in indigenous and geographically isolated groups, to better understand population structure, migration, adaptation, and disease susceptibility.The project collected samples from ~1,000 individuals representing over 50 populations worldwide, including groups from Africa, Europe, Asia, Oceania, and the Americas. These data have become a foundational reference for population genetics and human evolution studies. Data can be downloaded from the Sanger Website. For details, see (Bergstr&ouml;m et al, Science 2020). gnomAD HGDP and 1000 Genomes callset: A reprocessed version by the gnomAD project for the 1000 Genomes and Human Genome Diversity Project (HGDP) data, with 4094 genomes from 80 populations. We already have separate, older tracks for 1000 Genomes on the main hg38 browser and for HGDP, just above. This track combines both datasets, with harmonized data quality. For details, see (Koenig et al, 2024). Display Conventions Full haplotype display: In &quot;pack&quot; mode, this track sorts the haplotypes. This can be useful for determining the similarity between the samples and inferring inheritance at a particular locus. Each sample's phased and/or homozygous genotypes are split into haplotypes, clustered by similarity around a central variant (in pink), and sorted for display by their position in the clustering tree. Click a variant to center on it. The tree (as space allows) is drawn in the label area next to the track image. Leaf clusters, in which all haplotypes are identical (at least for the variants used in clustering), are colored purple. For a full description of how the display works, please see our Haplotype Display help page. Data Access MXB: Allele frequencies by geographical state and ancestry are available via the MexVar platform. Raw genotype data are available under controlled access at the EGA (Study: EGAS00001005797; Dataset: EGAD00010002361). For the VCFs, email andres.moreno@cinvestav.mx. Methods SGDP: The version used was https://sharehost.hms.harvard.edu/genetics/reich_lab/sgdp/vcf_variants/, merged with bcftools and lifted to hg38 with CrossMap. Credits MXB: We thank the Center for Research and Advanced Studies (Cinvestav) of Mexico for generating and providing the frequency data, the National Institute of Medical Sciences and Nutrition (INCMNSZ) for DNA extraction, and the Ministry of Health together with the National Institute of Public Health (INSP) for the design and implementation of the National Health Survey 2000 (ENSA 2000). We also thank the ENSA-Genomics Consortium for their contributions to sample collection and data processing that made possible the construction of the MXB genomic resource. SGDP: This project was funded by the Simons Foundation. Thanks to David Reich and Swapan Mallick for help with importing the data. References Barberena-Jonas C, Medina-Mu&ntilde;oz SG, Cedillo-Castel&aacute;n V, Sep&uacute;lveda-Morales T, Gonzaga-J&aacute;uregui C, ENSA Genomics Consortium, Garc&iacute;a-Garc&iacute;a L, Ioannidis AG, Moreno-Estrada A. Clinical genetic variation across Hispanic populations in the Mexican Biobank. Nat Med. 2026 Jan 21;. DOI: 10.1038/s41591-025-04100-z; PMID: 41566040 Sohail M, Moreno-Estrada A. The Mexican Biobank Project promotes genetic discovery, inclusive science and local capacity building. Dis Model Mech. 2024 Jan 1;17(1). PMID: 38299665; PMC: PMC10855211 Sohail M, Palma-Mart&iacute;nez MJ, Chong AY, Quinto-Cor&eacute;s CD, Barberena-Jonas C, Medina-Mu&ntilde;oz SG, Ragsdale A, Delgado-S&aacute;nchez G, Cruz-Hervert LP, Ferreyra-Reyes L et al. Mexican Biobank advances population and medical genomics of diverse ancestries. Nature. 2023 Oct;622(7984):775-783. PMID: 37821706; PMC: PMC10600006 Bergstr&ouml;m A, McCarthy SA, Hui R, Almarri MA, Ayub Q, Danecek P, Chen Y, Felkel S, Hallast P, Kamm J et al. Insights into human genetic variation and population history from 929 diverse genomes. Science. 2020 Mar 20;367(6484). PMID: 32193295; PMC: PMC7115999 Koenig Z, Yohannes MT, Nkambule LL, Zhao X, Goodrich JK, Kim HA, Wilson MW, Tiao G, Hao SP, Sahakian N et al. A harmonized public resource of deeply sequenced diverse human genomes. Genome Res. 2024 Jun 25;34(5):796-809. PMID: 38749656; PMC: PMC11216312 Mallick S, Li H, Lipson M, Mathieson I, Gymrek M, Racimo F, Zhao M, Chennagiri N, Nordenfelt S, Tandon A et al. The Simons Genome Diversity Project: 300 genomes from 142 diverse populations. Nature. 2016 Oct 13;538(7624):201-206. PMID: 27654912; PMC: PMC5161557 
gnomad3Coverage gnomAD v3 Genome Coverage Genome Aggregation Database (gnomAD) Genome Sample Coverage v3.0.1 Variation Description The Genome Aggregation Database (gnomAD) v3 - Genome Coverage track shows how many times regions of the genomes were sequenced. This track includes several subtracks of average coverage metrics and sample percentage of coverage. There is no gnomAD v4 genome coverage track because the genomes were unchanged from V3. There is no gnomAD v3 exomes track because v3 was a genome-only release. Display Conventions The Average Sample Coverage tracks display the mean and median read depth of the samples at each base position. The details page shows calculated sample percentages for the range of sequence within the browser window. The nX Coverage Percentage tracks display the percentage of samples whose read depth is at least 1X, 5X, 10X, 15X, 20X, 25X, 30X, 50X, and 100X at each base position. The details page shows calculated sample percentages for the range of sequence within the browser window. Methods Coverage was computed using all 71,702 gnomAD v3.01 samples from their gVCFs. The gVCFs were produced using a 3-bin blocking scheme: No coverage Reference genotype quality &lt; Q20 Reference genotype quality &ge; Q20 The coverage was binned by quality using the thresholds above and the median coverage value for each of the resulting coverage blocks was used to compute the coverage metrics presented in the browser. Coverage was computed for all callable bases in the genome (all non-N bases, minus telomeres and centromeres). Data Access The raw data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API, and the genome annotations are stored in files that can be downloaded from our download server, subject to the conditions set forth by the gnomAD consortium (see below). Coverage values for the genome are in bigWig files in the coverage/ subdirectory. Variant VCFs can be found in the vcf/ subdirectory. The data can also be found directly from the gnomAD downloads page. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. More information about using and understanding the gnomAD data can be found in the gnomAD FAQ site. Credits Thanks to the Genome Aggregation Database Consortium for making these data available. The data are released under the ODC Open Database License (ODbL) as described here. References Lek M, Karczewski KJ, Minikel EV, Samocha KE, Banks E, Fennell T, O'Donnell-Luria AH, Ware JS, Hill AJ, Cummings BB et al. Analysis of protein-coding genetic variation in 60,706 humans. Nature. 2016 Aug 18;536(7616):285-91. PMID: 27535533; PMC: PMC5018207 Karczewski KJ, Francioli LC, Tiao G, Cummings BB, Alf&#246;ldi J, Wang Q, Collins RL, Laricchia KM, Ganna A, Birnbaum DP et al. The mutational constraint spectrum quantified from variation in 141,456 humans. Nature. 2020 May;581(7809):434-443. PMID: 32461654; PMC: PMC7334197 Collins RL, Brand H, Karczewski KJ, Zhao X, Alf&#246;ldi J, Francioli LC, Khera AV, Lowther C, Gauthier LD, Wang H et al. A structural variation reference for medical and population genetics. Nature. 2020 May;581(7809):444-451. PMID: 32461652; PMC: PMC7334194 Cummings BB, Karczewski KJ, Kosmicki JA, Seaby EG, Watts NA, Singer-Berk M, Mudge JM, Karjalainen J, Satterstrom FK, O'Donnell-Luria AH et al. Transcript expression-aware annotation improves rare variant interpretation. Nature. 2020 May;581(7809):452-458. PMID: 32461655; PMC: PMC7334198 
gnomad3100XPercentage Sample % > 100X gnomAD Percentage of Genome Samples with at least 100X Coverage v3.0.1 Variation 
gnomad350XPercentage Sample % > 50X gnomAD Percentage of Genome Samples with at least 50X Coverage v3.0.1 Variation 
gnomad330XPercentage Sample % > 30X gnomAD Percentage of Genome Samples with at least 30X Coverage v3.0.1 Variation 
gnomad325XPercentage Sample % > 25X gnomAD Percentage of Genome Samples with at least 25X Coverage v3.0.1 Variation 
gnomad320XPercentage Sample % > 20X gnomAD Percentage of Genome Samples with at least 20X Coverage v3.0.1 Variation 
gnomad315XPercentage Sample % > 15X gnomAD Percentage of Genome Samples with at least 15X Coverage v3.0.1 Variation 
gnomad310XPercentage Sample % > 10X gnomAD Percentage of Genome Samples with at least 10X Coverage v3.0.1 Variation 
gnomad35XPercentage Sample % > 5X gnomAD Percentage of Genome Samples with at least 5X Coverage v3.0.1 Variation 
gnomad31XPercentage Sample % > 1X gnomAD Percentage of Genome Samples with at least 1X Coverage v3.0.1 Variation 
gnomad3MedianCoverage Median Coverage gnomAD Median Genome Sample Coverage v3.0.1 Variation 
gnomad3MeanCoverage Mean Coverage gnomAD Mean Genome Sample Coverage v3.0.1 Variation 
nmdDetectiveB_ptc NMDetective-B PTC NMDetective-B: Decision tree NMD efficiency for first out-of-frame PTC Genes and Gene Predictions Description The NMDetective tracks display genome-wide predictions of nonsense-mediated mRNA decay (NMD) efficiency from Lindeboom et al. 2016. NMDetective scores predict whether a premature termination codon (PTC) at a given position will trigger NMD and mRNA degradation, or whether the transcript will escape NMD and potentially produce a truncated protein. Scores range from approximately &minus;1 to +1. Positive values indicate that a PTC at that position is predicted to trigger NMD (the mRNA is degraded). Negative values indicate that the PTC is predicted to escape NMD (the truncated mRNA may be translated into an aberrant protein). Values near zero indicate intermediate or uncertain NMD efficiency. Subtracks TrackDescription NMDetective-A Random forest model predicting NMD efficiency for all possible PTCs introduced by single-nucleotide variants. Explains ~71% of systematic variance in NMD efficiency. NMDetective-B Simplified decision tree model for all possible PTCs. Slightly lower accuracy (~68% variance explained) but more interpretable, making it suitable for clinical applications. NMDetective-A PTC Random forest model predicting NMD efficiency specifically for the first out-of-frame PTC introduced by frameshifting indel mutations. NMDetective-B PTC Decision tree model for the first out-of-frame PTC from frameshifting indels. Display Conventions and Configuration Each subtrack is displayed as a signal (bigWig) track. By default, the vertical axis ranges from &minus;1 to +1. Regions with positive values (predicted NMD-triggering) are shown above the baseline; regions with negative values (predicted NMD escape) are shown below. Blue tracks (NMDetective-A and -B): predictions for all possible PTCs from single-nucleotide nonsense variants. Green tracks (NMDetective-A PTC and -B PTC): predictions for the first out-of-frame PTC from frameshifting indels. Methods The NMDetective models were trained on somatic nonsense mutation data from 9,769 cancer patients and validated with frameshift mutations and germline variants (Lindeboom et al. 2019). The models incorporate the following features to predict NMD efficiency: Whether the PTC falls in the last exon Distance to the last 50 nt of the penultimate exon (the EJC-based &ldquo;50 bp rule&rdquo;) Distance from the coding start (start-proximal NMD insensitivity) Exon length mRNA half-life Distance to the downstream exon-junction complex Distance to the wild-type stop codon NMDetective-A (random forest regression) captures non-linear interactions among these features and achieves the highest predictive accuracy. NMDetective-B (decision tree) applies a simpler rule-based classification that is more transparent, with a modest reduction in accuracy. The predictions were generated for every possible PTC-introducing single-nucleotide variant and for the first out-of-frame PTC from every possible single-nucleotide frameshifting indel across all human protein-coding transcripts. The original bedGraph custom track files were downloaded from the NMDetective Figshare page resource and converted to bigWig format at UCSC. Data Access The data underlying these tracks can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credits Thanks to Rik Lindeboom for providing custom tracks and the original NMDetective data on Figshare. References Lindeboom RG, Supek F, Lehner B. The rules and impact of nonsense-mediated mRNA decay in human cancers. Nat Genet. 2016 Oct;48(10):1112-8. PMID: 27618451; PMC: PMC5045715 Lindeboom RGH, Vermeulen M, Lehner B, Supek F. The impact of nonsense-mediated mRNA decay on genetic disease, gene editing and cancer immunotherapy. Nat Genet. 2019 Nov;51(11):1645-1651. PMID: 31659324; PMC: PMC6858879 
recombDnm Recomb. deCODE Dmn Recombination rate: De-novo mutations found in deCODE samples Mapping and Sequencing Description The recombination rate track represents calculated rates of recombination based on the genetic maps from deCODE (Halldorsson et al., 2019) and 1000 Genomes (2013 Phase 3 release, lifted from hg19). The deCODE map is more recent, has a higher resolution and was natively created on hg38 and therefore recommended. For the Recomb. deCODE average track, the recombination rates for chrX represent the female rate. This track also includes a subtrack with all the individual deCODE recombination events and another subtrack with several thousand de-novo mutations found in the deCODE sequencing data. These two tracks are hidden by default and have to be switched on explicitly on the configuration page. Display Conventions and Configuration This is a super track that contains different subtracks, three with the deCODE recombination rates (paternal, maternal and average) and one with the 1000 Genomes recombination rate (average). These tracks are in signal graph (wiggle) format. By default, to show most recombination hotspots, their maximum value is set to 100 cM, even though many regions have values higher than 100. The maximum value can be changed on the configuration pages of the tracks. There are two more tracks that show additional details provided by deCODE: one subtrack with the raw data of all cross-overs tagged with their proband ID and another one with around 8000 human de-novo mutation variants that are linked to cross-over changes. Methods The deCODE genetic map was created at deCODE Genetics. It is based on microarrays assaying 626,828 SNP markers that allowed to identify 1,476,140 crossovers in 56,321 paternal meioses and 3,055,395 crossovers in 70,086 maternal meioses. In total, the data is based on 4,531,535 crossovers in 126,427 meioses. By using WGS data with 9,305,070 SNPs, the boundaries for 761,981 crossovers were refined: 247,942 crossovers in 9423 paternal meioses and 514,039 crossovers in 11,750 maternal meioses. The average resolution of the genetic map is 682 base pairs (bp): 655 and 708 bp for the paternal and maternal maps, respectively. The 1000 Genomes genetic map is based on the IMPUTE genetic map based on 1000 Genomes Phase 3, on hg19 coordinates. It was converted to hg38 by Po-Ru Loh at the Broad Institute. After a run of liftOver, he post-processed the data to deal with situations in which consecutive map locations became much closer/farther after lifting. The heuristic used is sufficient for statistical phasing but may not be optimal for other analyses. For this reason, and because of its higher resolution, the DeCODE map is therefore recommended for hg38. As with all other tracks, the data conversion commands and pointers to the original data files are documented in the makeDoc file of this track. Data Access The raw data can be explored interactively with the Table Browser, or the Data Integrator. For automated access, this track, like all others, is available via our API. However, for bulk processing, it is recommended to download the dataset. For automated download and analysis, the genome annotation is stored at UCSC in bigWig and bigBed files that can be downloaded from our download server. Individual regions or the whole genome annotation can be obtained using our tools bigWigToWig or bigBedToBed which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tools can also be used to obtain features confined to a given range, e.g., bigWigToBedGraph -chrom=chr17 -start=45941345 -end=45942345 http://hgdownload.soe.ucsc.edu/gbdb/hg38/recombRate/recombAvg.bw stdout Please refer to our Data Access FAQ for more information. Credits This track was produced at UCSC using data that are freely available for the deCODE and 1000 Genomes genetic maps. Thanks to Po-Ru Loh at the Broad Institute for providing the code to lift the hg19 1000 Genomes map data to hg38. References 1000 Genomes Project Consortium., Abecasis GR, Altshuler D, Auton A, Brooks LD, Durbin RM, Gibbs RA, Hurles ME, McVean GA. A map of human genome variation from population-scale sequencing. Nature. 2010 Oct 28;467(7319):1061-73. PMID: 20981092; PMC: PMC3042601 Halldorsson BV, Palsson G, Stefansson OA, Jonsson H, Hardarson MT, Eggertsson HP, Gunnarsson B, Oddsson A, Halldorsson GH, Zink F et al. Characterizing mutagenic effects of recombination through a sequence-level genetic map. Science. 2019 Jan 25;363(6425). PMID: 30679340 
genomicSuperDups Segmental Dups Duplications of >1000 Bases of Non-RepeatMasked Sequence Repeats Description This track shows regions detected as putative genomic duplications within the golden path. The following display conventions are used to distinguish levels of similarity: Light to dark gray: 90 - 98% similarity Light to dark yellow: 98 - 99% similarity Light to dark orange: greater than 99% similarity Red: duplications of greater than 98% similarity that lack sufficient Segmental Duplication Database evidence (most likely missed overlaps) For a region to be included in the track, at least 1 Kb of the total sequence (containing at least 500 bp of non-RepeatMasked sequence) had to align and a sequence identity of at least 90% was required. Methods Segmental duplications play an important role in both genomic disease and gene evolution. This track displays an analysis of the global organization of these long-range segments of identity in genomic sequence. Large recent duplications (&gt;= 1 kb and &gt;= 90% identity) were detected by identifying high-copy repeats, removing these repeats from the genomic sequence (&quot;fuguization&quot;) and searching all sequence for similarity. The repeats were then reinserted into the pairwise alignments, the ends of alignments trimmed, and global alignments were generated. For a full description of the &quot;fuguization&quot; detection method, see Bailey et al., 2001. This method has become known as WGAC (whole-genome assembly comparison); for example, see Bailey et al., 2002. Credits These data were provided by Ginger Cheng, Xinwei She, Archana Raja, Tin Louie and Evan Eichler at the University of Washington. References Bailey JA, Gu Z, Clark RA, Reinert K, Samonte RV, Schwartz S, Adams MD, Myers EW, Li PW, Eichler EE. Recent segmental duplications in the human genome. Science. 2002 Aug 9;297(5583):1003-7. PMID: 12169732 Bailey JA, Yavor AM, Massa HF, Trask BJ, Eichler EE. Segmental duplications: organization and impact within the current human genome project assembly. Genome Res. 2001 Jun;11(6):1005-17. PMID: 11381028; PMC: PMC311093 
knownGeneV39 GENCODE V39 GENCODE V39 Genes and Gene Predictions Description The GENCODE Genes track (version 39, December 2021) shows high-quality manual annotations merged with evidence-based automated annotations across the entire human genome generated by the GENCODE project. By default, only the basic gene set is displayed, which is a subset of the comprehensive gene set. The basic set represents transcripts that GENCODE believes will be useful to the majority of users. The track includes protein-coding genes, non-coding RNA genes, and pseudo-genes, though pseudo-genes are not displayed by default. It contains annotations on the reference chromosomes as well as assembly patches and alternative loci (haplotypes). The following table provides statistics for the v39 release derived from the GTF file that contains annotations only on the main chromosomes. More information on how they were generated can be found in the GENCODE site. GENCODE v39 Release Stats GenesObservedTranscriptsObserved Protein-coding genes19,982Protein-coding transcripts87,151 Long non-coding RNA genes18,811- full length protein-coding61,516 Small non-coding RNA genes7,567- partial length protein-coding25,635 Pseudogenes14,763Nonsense mediated decay transcripts19,762 Immunoglobulin/T-cell receptor gene segments409Long non-coding RNA loci transcripts53,009 For more information on the different gene tracks, see our Genes FAQ. Display Conventions and Configuration By default, this track displays only the basic GENCODE set, splice variants, and non-coding genes. It includes options to display the entire GENCODE set and pseudogenes. To customize these options, the respective boxes can be checked or unchecked at the top of this description page. This track also includes a variety of labels which identify the transcripts when visibility is set to &quot;full&quot; or &quot;pack&quot;. Gene symbols (e.g. NIPA1) are displayed by default, but additional options include GENCODE Transcript ID (ENST00000561183.5), UCSC Known Gene ID (uc001yve.4), UniProt Display ID (Q7RTP0). Additional information about gene and transcript names can be found in our FAQ. This track, in general, follows the display conventions for gene prediction tracks. The exons for putative non-coding genes and untranslated regions are represented by relatively thin blocks, while those for coding open reading frames are thicker. Coloring for the gene annotations is based on the annotation type: coding non-coding pseudogene problem This track contains an optional codon coloring feature that allows users to quickly validate and compare gene predictions. There is also an option to display the data as a density graph, which can be helpful for visualizing the distribution of items over a region. Methods The GENCODE v39 track was built from the GENCODE downloads file gencode.v39.chr_patch_hapl_scaff.annotation.gff3.gz. Data from other sources were correlated with the GENCODE data to build association tables. Related Data The GENCODE Genes transcripts are annotated in numerous tables, each of which is also available as a downloadable file. One can see a full list of the associated tables in the Table Browser by selecting GENCODE Genes from the track menu; this list is then available on the table menu. Data access GENCODE Genes and its associated tables can be explored interactively using the REST API, the Table Browser or the Data Integrator. The genePred format files for hg38 are available from our downloads directory or in our GTF download directory. All the tables can also be queried directly from our public MySQL servers, with more information available on our help page as well as on our blog. Credits The GENCODE Genes track was produced at UCSC from the GENCODE comprehensive gene set using a computational pipeline developed by Jim Kent and Brian Raney. References Harrow J, Frankish A, Gonzalez JM, Tapanari E, Diekhans M, Kokocinski F, Aken BL, Barrell D, Zadissa A, Searle S et al. GENCODE: the reference human genome annotation for The ENCODE Project. Genome Res. 2012 Sep;22(9):1760-74. PMID: 22955987; PMC: PMC3431492 Harrow J, Denoeud F, Frankish A, Reymond A, Chen CK, Chrast J, Lagarde J, Gilbert JG, Storey R, Swarbreck D et al. GENCODE: producing a reference annotation for ENCODE. Genome Biol. 2006;7 Suppl 1:S4.1-9. PMID: 16925838; PMC: PMC1810553 A full list of GENCODE publications is available at The GENCODE Project web site. Data Release Policy GENCODE data are available for use without restrictions. 
recomb1000GAvg Recomb. 1k Genomes Recombination rate: 1000 Genomes, lifted from hg19 (PR Loh) Mapping and Sequencing Description The recombination rate track represents calculated rates of recombination based on the genetic maps from deCODE (Halldorsson et al., 2019) and 1000 Genomes (2013 Phase 3 release, lifted from hg19). The deCODE map is more recent, has a higher resolution and was natively created on hg38 and therefore recommended. For the Recomb. deCODE average track, the recombination rates for chrX represent the female rate. This track also includes a subtrack with all the individual deCODE recombination events and another subtrack with several thousand de-novo mutations found in the deCODE sequencing data. These two tracks are hidden by default and have to be switched on explicitly on the configuration page. Display Conventions and Configuration This is a super track that contains different subtracks, three with the deCODE recombination rates (paternal, maternal and average) and one with the 1000 Genomes recombination rate (average). These tracks are in signal graph (wiggle) format. By default, to show most recombination hotspots, their maximum value is set to 100 cM, even though many regions have values higher than 100. The maximum value can be changed on the configuration pages of the tracks. There are two more tracks that show additional details provided by deCODE: one subtrack with the raw data of all cross-overs tagged with their proband ID and another one with around 8000 human de-novo mutation variants that are linked to cross-over changes. Methods The deCODE genetic map was created at deCODE Genetics. It is based on microarrays assaying 626,828 SNP markers that allowed to identify 1,476,140 crossovers in 56,321 paternal meioses and 3,055,395 crossovers in 70,086 maternal meioses. In total, the data is based on 4,531,535 crossovers in 126,427 meioses. By using WGS data with 9,305,070 SNPs, the boundaries for 761,981 crossovers were refined: 247,942 crossovers in 9423 paternal meioses and 514,039 crossovers in 11,750 maternal meioses. The average resolution of the genetic map is 682 base pairs (bp): 655 and 708 bp for the paternal and maternal maps, respectively. The 1000 Genomes genetic map is based on the IMPUTE genetic map based on 1000 Genomes Phase 3, on hg19 coordinates. It was converted to hg38 by Po-Ru Loh at the Broad Institute. After a run of liftOver, he post-processed the data to deal with situations in which consecutive map locations became much closer/farther after lifting. The heuristic used is sufficient for statistical phasing but may not be optimal for other analyses. For this reason, and because of its higher resolution, the DeCODE map is therefore recommended for hg38. As with all other tracks, the data conversion commands and pointers to the original data files are documented in the makeDoc file of this track. Data Access The raw data can be explored interactively with the Table Browser, or the Data Integrator. For automated access, this track, like all others, is available via our API. However, for bulk processing, it is recommended to download the dataset. For automated download and analysis, the genome annotation is stored at UCSC in bigWig and bigBed files that can be downloaded from our download server. Individual regions or the whole genome annotation can be obtained using our tools bigWigToWig or bigBedToBed which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tools can also be used to obtain features confined to a given range, e.g., bigWigToBedGraph -chrom=chr17 -start=45941345 -end=45942345 http://hgdownload.soe.ucsc.edu/gbdb/hg38/recombRate/recombAvg.bw stdout Please refer to our Data Access FAQ for more information. Credits This track was produced at UCSC using data that are freely available for the deCODE and 1000 Genomes genetic maps. Thanks to Po-Ru Loh at the Broad Institute for providing the code to lift the hg19 1000 Genomes map data to hg38. References 1000 Genomes Project Consortium., Abecasis GR, Altshuler D, Auton A, Brooks LD, Durbin RM, Gibbs RA, Hurles ME, McVean GA. A map of human genome variation from population-scale sequencing. Nature. 2010 Oct 28;467(7319):1061-73. PMID: 20981092; PMC: PMC3042601 Halldorsson BV, Palsson G, Stefansson OA, Jonsson H, Hardarson MT, Eggertsson HP, Gunnarsson B, Oddsson A, Halldorsson GH, Zink F et al. Characterizing mutagenic effects of recombination through a sequence-level genetic map. Science. 2019 Jan 25;363(6425). PMID: 30679340 
chainSelf Self Alignment Human Chained Self Alignments Repeats Description This track shows alignments of the human genome with itself, using a gap scoring system that allows longer gaps than traditional affine gap scoring systems. The system can also tolerate gaps in both sets of sequence simultaneously. After filtering out the &quot;trivial&quot; alignments produced when identical locations of the genome map to one another (e.g. chrN mapping to chrN), the remaining alignments point out areas of duplication within the human genome. The pseudoautosomal regions of chrX and chrY are an exception: in this assembly, these regions have been copied from chrX into chrY, resulting in a large amount of self chains aligning in these positions on both chromosomes. The chain track displays boxes joined together by either single or double lines. The boxes represent aligning regions. Single lines indicate gaps that are largely due to a deletion in the query assembly or an insertion in the target assembly. Double lines represent more complex gaps that involve substantial sequence in both the query and target assemblies. This may result from inversions, overlapping deletions, an abundance of local mutation, or an unsequenced gap in one of the assemblies. In cases where multiple chains align over a particular region of the human genome, the chains with single-lined gaps are often due to processed pseudogenes, while chains with double-lined gaps are more often due to paralogs and unprocessed pseudogenes. Chains have both a score and a normalized score. The score is derived by comparing sequence similarity, while penalizing both mismatches and gaps in a per base fashion. This leads to longer chains having greater scores, even if a smaller chain provides a better match. The normalized score divides the score by the length of the alignment, providing a more comparable score value not dependent on the match length. Display Conventions and Configuration By default, the chains are colored by the normalized score. This can be changed to color based on which chromosome they map to in the aligning organism. There is also an option to color all the chains black. To display only the chains of one chromosome in the aligning organism, enter the name of that chromosome (e.g. chr4) in box next to: Filter by chromosome. By default, chains with a score of 20,000 or more are displayed. This default value provides a conservative cutoff, filtering out many false-positive alignments with low sequence similarity, or high penalties. It should be noted however, that alignments below this threshold may still be indicative of homology. In the "pack" and "full" display modes, the individual feature names indicate the chromosome, strand, and location (in thousands) of the match for each matching alignment. Methods The genome was aligned to itself using blastz. Trivial alignments were filtered out, and the remaining alignments were converted into axt format using the lavToAxt program. The axt alignments were fed into axtChain, which organizes all alignments between a single target chromosome and a single query chromosome into a group and creates a kd-tree out of the gapless subsections (blocks) of the alignments. A dynamic program was then run over the kd-trees to find the maximally scoring chains of these blocks. Chains scoring below a threshold were discarded; the remaining chains are displayed in this track. Credits Blastz was developed at Pennsylvania State University by Minmei Hou, Scott Schwartz, Zheng Zhang, and Webb Miller with advice from Ross Hardison. Lineage-specific repeats were identified by Arian Smit and his RepeatMasker program. The axtChain program was developed at the University of California at Santa Cruz by Jim Kent with advice from Webb Miller and David Haussler. The browser display and database storage of the chains were generated by Robert Baertsch and Jim Kent. References Chiaromonte F, Yap VB, Miller W. Scoring pairwise genomic sequence alignments. Pac Symp Biocomput 2002, 115-26 (2002). Kent WJ, Baertsch R, Hinrichs A, Miller W, Haussler D. Evolution's cauldron: duplication, deletion, and rearrangement in the mouse and human genomes. Proc Natl Acad Sci U S A. 2003 Sep 30;100(20):11484-9. Schwartz S, Kent WJ, Smit A, Zhang Z, Baertsch R, Hardison RC, Haussler D, Miller W. Human-mouse alignments with BLASTZ. Genome Res. 2003 Jan;13(1):103-7. 
knownGeneV38 GENCODE V38 GENCODE V38 Genes and Gene Predictions Description The GENCODE Genes track (version 38, May 2021) shows high-quality manual annotations merged with evidence-based automated annotations across the entire human genome generated by the GENCODE project. By default, only the basic gene set is displayed, which is a subset of the comprehensive gene set. The basic set represents transcripts that GENCODE believes will be useful to the majority of users. The track includes protein-coding genes, non-coding RNA genes, and pseudo-genes, though pseudo-genes are not displayed by default. It contains annotations on the reference chromosomes as well as assembly patches and alternative loci (haplotypes). The following table provides statistics for the v38 release derived from the GTF file that contains annotations only on the main chromosomes. More information on how they were generated can be found in the GENCODE site. GENCODE v38 Release Stats GenesObservedTranscriptsObserved Protein-coding genes19,955Protein-coding transcripts86,757 Long non-coding RNA genes17,944- full length protein-coding61,015 Small non-coding RNA genes7,567- partial length protein-coding25,742 Pseudogenes14,773Nonsense mediated decay transcripts18,881 Immunoglobulin/T-cell receptor gene segments409Long non-coding RNA loci transcripts48,752 For more information on the different gene tracks, see our Genes FAQ. Display Conventions and Configuration By default, this track displays only the basic GENCODE set, splice variants, and non-coding genes. It includes options to display the entire GENCODE set and pseudogenes. To customize these options, the respective boxes can be checked or unchecked at the top of this description page. This track also includes a variety of labels which identify the transcripts when visibility is set to &quot;full&quot; or &quot;pack&quot;. Gene symbols (e.g. NIPA1) are displayed by default, but additional options include GENCODE Transcript ID (ENST00000561183.5), UCSC Known Gene ID (uc001yve.4), UniProt Display ID (Q7RTP0). Additional information about gene and transcript names can be found in our FAQ. This track, in general, follows the display conventions for gene prediction tracks. The exons for putative non-coding genes and untranslated regions are represented by relatively thin blocks, while those for coding open reading frames are thicker. Coloring for the gene annotations is based on the annotation type: coding non-coding pseudogene problem This track contains an optional codon coloring feature that allows users to quickly validate and compare gene predictions. There is also an option to display the data as a density graph, which can be helpful for visualizing the distribution of items over a region. Methods The GENCODE v38 track was built from the GENCODE downloads file gencode.v38.chr_patch_hapl_scaff.annotation.gff3.gz. Data from other sources were correlated with the GENCODE data to build association tables. Related Data The GENCODE Genes transcripts are annotated in numerous tables, each of which is also available as a downloadable file. One can see a full list of the associated tables in the Table Browser by selecting GENCODE Genes from the track menu; this list is then available on the table menu. Data access GENCODE Genes and its associated tables can be explored interactively using the REST API, the Table Browser or the Data Integrator. The genePred format files for hg38 are available from our downloads directory or in our GTF download directory. All the tables can also be queried directly from our public MySQL servers, with more information available on our help page as well as on our blog. Credits The GENCODE Genes track was produced at UCSC from the GENCODE comprehensive gene set using a computational pipeline developed by Jim Kent and Brian Raney. References Harrow J, Frankish A, Gonzalez JM, Tapanari E, Diekhans M, Kokocinski F, Aken BL, Barrell D, Zadissa A, Searle S et al. GENCODE: the reference human genome annotation for The ENCODE Project. Genome Res. 2012 Sep;22(9):1760-74. PMID: 22955987; PMC: PMC3431492 Harrow J, Denoeud F, Frankish A, Reymond A, Chen CK, Chrast J, Lagarde J, Gilbert JG, Storey R, Swarbreck D et al. GENCODE: producing a reference annotation for ENCODE. Genome Biol. 2006;7 Suppl 1:S4.1-9. PMID: 16925838; PMC: PMC1810553 A full list of GENCODE publications is available at The GENCODE Project web site. Data Release Policy GENCODE data are available for use without restrictions. 
primateChainNet Primate Chain/Net Primate Genomes, Chain and Net Alignments Comparative Genomics Description Chain Track The chain track shows alignments of human (Dec. 2013 (GRCh38/hg38)) to other genomes using a gap scoring system that allows longer gaps than traditional affine gap scoring systems. It can also tolerate gaps in both human and the other genome simultaneously. These &quot;double-sided&quot; gaps can be caused by local inversions and overlapping deletions in both species. The chain track displays boxes joined together by either single or double lines. The boxes represent aligning regions. Single lines indicate gaps that are largely due to a deletion in the other assembly or an insertion in the human assembly. Double lines represent more complex gaps that involve substantial sequence in both species. This may result from inversions, overlapping deletions, an abundance of local mutation, or an unsequenced gap in one species. In cases where multiple chains align over a particular region of the other genome, the chains with single-lined gaps are often due to processed pseudogenes, while chains with double-lined gaps are more often due to paralogs and unprocessed pseudogenes. In the &quot;pack&quot; and &quot;full&quot; display modes, the individual feature names indicate the chromosome, strand, and location (in thousands) of the match for each matching alignment. Net Track The net track shows only the alignments from the highest-scoring chain for each region of the human genome assembly. It is useful for finding orthologous regions and for studying genome rearrangement. The human sequence used in this annotation is from the Dec. 2013 (GRCh38/hg38) assembly. Display Conventions and Configuration Chain Track By default, the chains to chromosome-based assemblies are colored based on which chromosome they map to in the aligning organism. To turn off the coloring, check the &quot;off&quot; button next to: Color track based on chromosome. To display only the chains of one chromosome in the aligning organism, enter the name of that chromosome (e.g. chr4) in box next to: Filter by chromosome. Net Track In full display mode, the top-level (level 1) chains are the largest, highest-scoring chains that span this region. In many cases gaps exist in the top-level chain. When possible, these are filled in by other chains that are displayed at level 2. The gaps in level 2 chains may be filled by level 3 chains and so forth. In the graphical display, the boxes represent ungapped alignments; the lines represent gaps. Click on a box to view detailed information about the chain as a whole; click on a line to display information about the gap. The detailed information is useful in determining the cause of the gap or, for lower level chains, the genomic rearrangement. Individual items in the display are categorized as one of four types (other than gap): Top - the best, longest match. Displayed on level 1. Syn - line-ups on the same chromosome as the gap in the level above it. Inv - a line-up on the same chromosome as the gap above it, but in the opposite orientation. NonSyn - a match to a chromosome different from the gap in the level above. Methods Chain track The assemblies were examined for any transposons that had been inserted since the divergence of the two species. Any such transposons were removed before running the alignment. The abbreviated genomes were aligned with lastz, and the removed transposons were then added back in. The resulting alignments were converted into axt format using the lavToAxt program. The axt alignments were fed into axtChain, which organizes all alignments between a single human chromosome and a single chromosome from the other genome into a group and creates a kd-tree out of the gapless subsections (blocks) of the alignments. A dynamic program was then run over the kd-trees to find the maximally scoring chains of these blocks. The lastz matrices used for these alignments can be found in our download directory for the Dec. 2013 (GRCh38/hg38) assembly. See the README.txt file within the relevant vsAssembly directory for details (e.g., parameters for the alignment with tarSyr2 can be found in the vsTarSyr2/ subdirectory). For the alignments to Chimp and Rhesus, chains scoring below a minimum score of '5000' were discarded; the remaining chains are displayed in this track. The linear gap matrix used with axtChain: -linearGap=loose tablesize 11 smallSize 111 position 1 2 3 11 111 2111 12111 32111 72111 152111 252111 qGap 325 360 400 450 600 1100 3600 7600 15600 31600 56600 tGap 325 360 400 450 600 1100 3600 7600 15600 31600 56600 bothGap 625 660 700 750 900 1400 4000 8000 16000 32000 57000 For the alignments to Tarsier and Bonobo, chains scoring below a minimum score of '3000' were discarded; the remaining chains are displayed in this track. The same linear gap matrix shown above was used with axtChain. Chains for low-coverage assemblies for which no browser has been built are not available as browser tracks, but only from our downloads page. See also: lastz parameters and other details (e.g., update time) and chain minimum score and gap parameters used in these alignments. Net track Chains were derived from lastz alignments, using the methods described on the chain tracks description pages, and sorted with the highest-scoring chains in the genome ranked first. The program chainNet was then used to place the chains one at a time, trimming them as necessary to fit into sections not already covered by a higher-scoring chain. During this process, a natural hierarchy emerged in which a chain that filled a gap in a higher-scoring chain was placed underneath that chain. The program netSyntenic was used to fill in information about the relationship between higher- and lower-level chains, such as whether a lower-level chain was syntenic or inverted relative to the higher-level chain. The program netClass was then used to fill in how much of the gaps and chains contained Ns (sequencing gaps) in one or both species and how much was filled with transposons inserted before and after the two organisms diverged. Credits Harris, R.S. (2007) Improved pairwise alignment of genomic DNA. Ph.D. Thesis, The Pennsylvania State University. Lineage-specific repeats were identified by Arian Smit and his RepeatMasker program. The axtChain program was developed at the University of California at Santa Cruz by Jim Kent with advice from Webb Miller and David Haussler. The browser display and database storage of the chains and nets were created by Robert Baertsch and Jim Kent. The chainNet, netSyntenic, and netClass programs were developed at the University of California Santa Cruz by Jim Kent. References Chiaromonte F, Yap VB, Miller W. Scoring pairwise genomic sequence alignments. Pac Symp Biocomput. 2002:115-26. PMID: 11928468 Kent WJ, Baertsch R, Hinrichs A, Miller W, Haussler D. Evolution's cauldron: duplication, deletion, and rearrangement in the mouse and human genomes. Proc Natl Acad Sci U S A. 2003 Sep 30;100(20):11484-9. PMID: 14500911; PMC: PMC208784 
primateChainNetViewnet Nets Primate Genomes, Chain and Net Alignments Comparative Genomics 
netOtoGar3 Bushbaby Net Bushbaby (Mar. 2011 (Broad/otoGar3)) Alignment Net Comparative Genomics 
netMicMur2 Mouse lemur Net Mouse lemur (May 2015 (Mouse lemur/micMur2)) Alignment Net Comparative Genomics 
netTarSyr2 Tarsier Net Tarsier (Sep. 2013 (Tarsius_syrichta-2.0.1/tarSyr2)) Alignment Net Comparative Genomics 
netCalJac4 Marmoset Net Marmoset (May 2020 (Callithrix_jacchus_cj1700_1.1/calJac4)) Alignment Net Comparative Genomics 
netSaiBol1 saiBol1 Net Squirrel monkey (Oct. 2011 (Broad/saiBol1)) Alignment Net Comparative Genomics 
netChlSab2 Green monkey Net Green monkey (Mar. 2014 (Chlorocebus_sabeus 1.1/chlSab2)) Alignment Net Comparative Genomics 
netPapAnu4 papAnu4 Net Baboon (Apr. 2017 (Panu_3.0/papAnu4)) Alignment Net Comparative Genomics 
netRheMac10 Rhesus Net Rhesus (Feb. 2019 (Mmul_10/rheMac10)) Alignment Net Comparative Genomics 
netMacFas5 Crab-eating macaque Net Crab-eating macaque (Jun. 2013 (Macaca_fascicularis_5.0/macFas5)) Alignment Net Comparative Genomics 
netRhiRox1 rhiRox1 Net Golden snub-nosed monkey (Oct. 2014 (Rrox_v1/rhiRox1)) Alignment Net Comparative Genomics 
netNasLar1 Proboscis monkey Net Proboscis monkey (Nov. 2014 (Charlie1.0/nasLar1)) Alignment Net Comparative Genomics 
netNomLeu3 Gibbon Net Gibbon (Oct. 2012 (GGSC Nleu3.0/nomLeu3)) Alignment Net Comparative Genomics 
netPonAbe3 Orangutan Net Orangutan (Jan. 2018 (Susie_PABv2/ponAbe3)) Alignment Net Comparative Genomics 
netGorGor6 Gorilla Net Gorilla (Aug. 2019 (Kamilah_GGO_v0/gorGor6)) Alignment Net Comparative Genomics 
netPanPan3 Bonobo Net Bonobo (May 2020 (Mhudiblu_PPA_v0/panPan3)) Alignment Net Comparative Genomics 
netPanTro6 Chimp Net Chimp (Jan. 2018 (Clint_PTRv2/panTro6)) Alignment Net Comparative Genomics 
primateChainNetViewchain Chains Primate Genomes, Chain and Net Alignments Comparative Genomics 
chainOtoGar3 Bushbaby Chain Bushbaby (Mar. 2011 (Broad/otoGar3)) Chained Alignments Comparative Genomics 
chainMicMur2 Mouse lemur Chain Mouse lemur (May 2015 (Mouse lemur/micMur2)) Chained Alignments Comparative Genomics 
chainTarSyr2 Tarsier Chain Tarsier (Sep. 2013 (Tarsius_syrichta-2.0.1/tarSyr2)) Chained Alignments Comparative Genomics 
chainCalJac4 Marmoset Chain Marmoset (May 2020 (Callithrix_jacchus_cj1700_1.1/calJac4)) Chained Alignments Comparative Genomics 
chainSaiBol1 saiBol1 Chain Squirrel monkey (Oct. 2011 (Broad/saiBol1)) Chained Alignments Comparative Genomics 
chainChlSab2 Green monkey Chain Green monkey (Mar. 2014 (Chlorocebus_sabeus 1.1/chlSab2)) Chained Alignments Comparative Genomics 
chainPapAnu4 papAnu4 Chain Baboon (Apr. 2017 (Panu_3.0/papAnu4)) Chained Alignments Comparative Genomics 
chainRheMac10 Rhesus Chain Rhesus (Feb. 2019 (Mmul_10/rheMac10)) Chained Alignments Comparative Genomics 
chainMacFas5 Crab-eating macaque Chain Crab-eating macaque (Jun. 2013 (Macaca_fascicularis_5.0/macFas5)) Chained Alignments Comparative Genomics 
chainRhiRox1 rhiRox1 Chain Golden snub-nosed monkey (Oct. 2014 (Rrox_v1/rhiRox1)) Chained Alignments Comparative Genomics 
chainNasLar1 Proboscis monkey Chain Proboscis monkey (Nov. 2014 (Charlie1.0/nasLar1)) Chained Alignments Comparative Genomics 
chainNomLeu3 Gibbon Chain Gibbon (Oct. 2012 (GGSC Nleu3.0/nomLeu3)) Chained Alignments Comparative Genomics 
chainPonAbe3 Orangutan Chain Orangutan (Jan. 2018 (Susie_PABv2/ponAbe3)) Chained Alignments Comparative Genomics 
chainGorGor6 Gorilla Chain Gorilla (Aug. 2019 (Kamilah_GGO_v0/gorGor6)) Chained Alignments Comparative Genomics 
chainPanPan3 Bonobo Chain Bonobo (May 2020 (Mhudiblu_PPA_v0/panPan3)) Chained Alignments Comparative Genomics 
chainPanTro6 Chimp Chain Chimp (Jan. 2018 (Clint_PTRv2/panTro6)) Chained Alignments Comparative Genomics 
simpleRepeat Simple Repeats Simple Tandem Repeats by TRF Repeats Description This track displays simple tandem repeats (possibly imperfect repeats) located by Tandem Repeats Finder (TRF) which is specialized for this purpose. These repeats can occur within coding regions of genes and may be quite polymorphic. Repeat expansions are sometimes associated with specific diseases. Methods For more information about the TRF program, see Benson (1999). Credits TRF was written by Gary Benson. References Benson G. Tandem repeats finder: a program to analyze DNA sequences. Nucleic Acids Res. 1999 Jan 15;27(2):573-80. PMID: 9862982; PMC: PMC148217 
knownGeneV36 GENCODE V36 GENCODE V36 Genes and Gene Predictions Description The GENCODE Genes track (version 36, Oct 2020) shows high-quality manual annotations merged with evidence-based automated annotations across the entire human genome generated by the GENCODE project. By default, only the basic gene set is displayed, which is a subset of the comprehensive gene set. The basic set represents transcripts that GENCODE believes will be useful to the majority of users. The track includes protein-coding genes, non-coding RNA genes, and pseudo-genes, though pseudo-genes are not displayed by default. It contains annotations on the reference chromosomes as well as assembly patches and alternative loci (haplotypes). The following table provides statistics for the v36 release derived from the GTF file that contains annotations only on the main chromosomes. More information on how they were generated can be found in the GENCODE site. GENCODE v36 Release Stats GenesObservedTranscriptsObserved Protein-coding genes19,965Protein-coding transcripts83,986 Long non-coding RNA genes17,910- full length protein-coding57,935 Small non-coding RNA genes7,576- partial length protein-coding26,051 Pseudogenes14,749Nonsense mediated decay transcripts15,811 Immunoglobulin/T-cell receptor gene segments645Long non-coding RNA loci transcripts48,351 For more information on the different gene tracks, see our Genes FAQ. Display Conventions and Configuration By default, this track displays only the basic GENCODE set, splice variants, and non-coding genes. It includes options to display the entire GENCODE set and pseudogenes. To customize these options, the respective boxes can be checked or unchecked at the top of this description page. This track also includes a variety of labels which identify the transcripts when visibility is set to &quot;full&quot; or &quot;pack&quot;. Gene symbols (e.g. NIPA1) are displayed by default, but additional options include GENCODE Transcript ID (ENST00000561183.5), UCSC Known Gene ID (uc001yve.4), UniProt Display ID (Q7RTP0). Additional information about gene and transcript names can be found in our FAQ. This track, in general, follows the display conventions for gene prediction tracks. The exons for putative non-coding genes and untranslated regions are represented by relatively thin blocks, while those for coding open reading frames are thicker. Coloring for the gene annotations is based on the annotation type: coding non-coding pseudogene problem all 2-way pseudogenes all polyA annotations This track contains an optional codon coloring feature that allows users to quickly validate and compare gene predictions. There is also an option to display the data as a density graph, which can be helpful for visualizing the distribution of items over a region. Methods The GENCODE v36 track was built from the GENCODE downloads file gencode.v36.chr_patch_hapl_scaff.annotation.gff3.gz. Data from other sources were correlated with the GENCODE data to build association tables. Related Data The GENCODE Genes transcripts are annotated in numerous tables, each of which is also available as a downloadable file. One can see a full list of the associated tables in the Table Browser by selecting GENCODE Genes from the track menu; this list is then available on the table menu. Data access GENCODE Genes and its associated tables can be explored interactively using the REST API, the Table Browser or the Data Integrator. The genePred format files for hg38 are available from our downloads directory or in our GTF download directory. All the tables can also be queried directly from our public MySQL servers, with more information available on our help page as well as on our blog. Credits The GENCODE Genes track was produced at UCSC from the GENCODE comprehensive gene set using a computational pipeline developed by Jim Kent and Brian Raney. References Harrow J, Frankish A, Gonzalez JM, Tapanari E, Diekhans M, Kokocinski F, Aken BL, Barrell D, Zadissa A, Searle S et al. GENCODE: the reference human genome annotation for The ENCODE Project. Genome Res. 2012 Sep;22(9):1760-74. PMID: 22955987; PMC: PMC3431492 Harrow J, Denoeud F, Frankish A, Reymond A, Chen CK, Chrast J, Lagarde J, Gilbert JG, Storey R, Swarbreck D et al. GENCODE: producing a reference annotation for ENCODE. Genome Biol. 2006;7 Suppl 1:S4.1-9. PMID: 16925838; PMC: PMC1810553 A full list of GENCODE publications is available at The GENCODE Project web site. Data Release Policy GENCODE data are available for use without restrictions. 
placentalChainNet Placental Chain/Net Non-primate Placental Mammal Genomes, Chain and Net Alignments Comparative Genomics Description Chain Track The chain track shows alignments of human (Dec. 2013 (GRCh38/hg38)) to other genomes using a gap scoring system that allows longer gaps than traditional affine gap scoring systems. It can also tolerate gaps in both human and the other genome simultaneously. These &quot;double-sided&quot; gaps can be caused by local inversions and overlapping deletions in both species. The chain track displays boxes joined together by either single or double lines. The boxes represent aligning regions. Single lines indicate gaps that are largely due to a deletion in the other assembly or an insertion in the human assembly. Double lines represent more complex gaps that involve substantial sequence in both species. This may result from inversions, overlapping deletions, an abundance of local mutation, or an unsequenced gap in one species. In cases where multiple chains align over a particular region of the other genome, the chains with single-lined gaps are often due to processed pseudogenes, while chains with double-lined gaps are more often due to paralogs and unprocessed pseudogenes. In the &quot;pack&quot; and &quot;full&quot; display modes, the individual feature names indicate the chromosome, strand, and location (in thousands) of the match for each matching alignment. Net Track The net track shows the best human/other chain for every part of the other genome. It is useful for finding orthologous regions and for studying genome rearrangement. The human sequence used in this annotation is from the Dec. 2013 (GRCh38/hg38) assembly. Display Conventions and Configuration Chain Track By default, the chains to chromosome-based assemblies are colored based on which chromosome they map to in the aligning organism. To turn off the coloring, check the &quot;off&quot; button next to: Color track based on chromosome. To display only the chains of one chromosome in the aligning organism, enter the name of that chromosome (e.g. chr4) in box next to: Filter by chromosome. Net Track In full display mode, the top-level (level 1) chains are the largest, highest-scoring chains that span this region. In many cases gaps exist in the top-level chain. When possible, these are filled in by other chains that are displayed at level 2. The gaps in level 2 chains may be filled by level 3 chains and so forth. In the graphical display, the boxes represent ungapped alignments; the lines represent gaps. Click on a box to view detailed information about the chain as a whole; click on a line to display information about the gap. The detailed information is useful in determining the cause of the gap or, for lower level chains, the genomic rearrangement. Individual items in the display are categorized as one of four types (other than gap): Top - the best, longest match. Displayed on level 1. Syn - line-ups on the same chromosome as the gap in the level above it. Inv - a line-up on the same chromosome as the gap above it, but in the opposite orientation. NonSyn - a match to a chromosome different from the gap in the level above. Methods Chain track Transposons that have been inserted since the human/other split were removed from the assemblies. The abbreviated genomes were aligned with lastz, and the transposons were added back in. The resulting alignments were converted into axt format using the lavToAxt program. The axt alignments were fed into axtChain, which organizes all alignments between a single human chromosome and a single chromosome from the other genome into a group and creates a kd-tree out of the gapless subsections (blocks) of the alignments. A dynamic program was then run over the kd-trees to find the maximally scoring chains of these blocks. Chains scoring below a minimum score of '5000' were discarded; the remaining chains are displayed in this track. The linear gap matrix used with axtChain: -linearGap=loose tablesize 11 smallSize 111 position 1 2 3 11 111 2111 12111 32111 72111 152111 252111 qGap 325 360 400 450 600 1100 3600 7600 15600 31600 56600 tGap 325 360 400 450 600 1100 3600 7600 15600 31600 56600 bothGap 625 660 700 750 900 1400 4000 8000 16000 32000 57000 See also: lastz parameters used in these alignments, and chain minimum score and gap parameters used in these alignments. Net track Chains were derived from lastz alignments, using the methods described on the chain tracks description pages, and sorted with the highest-scoring chains in the genome ranked first. The program chainNet was then used to place the chains one at a time, trimming them as necessary to fit into sections not already covered by a higher-scoring chain. During this process, a natural hierarchy emerged in which a chain that filled a gap in a higher-scoring chain was placed underneath that chain. The program netSyntenic was used to fill in information about the relationship between higher- and lower-level chains, such as whether a lower-level chain was syntenic or inverted relative to the higher-level chain. The program netClass was then used to fill in how much of the gaps and chains contained Ns (sequencing gaps) in one or both species and how much was filled with transposons inserted before and after the two organisms diverged. Credits LASTZ was developed at Miller Lab at Pennsylvania State University by Bob Harris. Lineage-specific repeats were identified by Arian Smit and his RepeatMasker program. The axtChain program was developed at the University of California at Santa Cruz by Jim Kent with advice from Webb Miller and David Haussler. The browser display and database storage of the chains and nets were created by Robert Baertsch and Jim Kent. The chainNet, netSyntenic, and netClass programs were developed at the University of California Santa Cruz by Jim Kent. References Harris RS. Improved pairwise alignment of genomic DNA. Ph.D. Thesis. Pennsylvania State University, USA. 2007. Chiaromonte F, Yap VB, Miller W. Scoring pairwise genomic sequence alignments. Pac Symp Biocomput. 2002:115-26. PMID: 11928468 Kent WJ, Baertsch R, Hinrichs A, Miller W, Haussler D. Evolution's cauldron: duplication, deletion, and rearrangement in the mouse and human genomes. Proc Natl Acad Sci U S A. 2003 Sep 30;100(20):11484-9. PMID: 14500911; PMC: PMC208784 Schwartz S, Kent WJ, Smit A, Zhang Z, Baertsch R, Hardison RC, Haussler D, Miller W. Human-mouse alignments with BLASTZ. Genome Res. 2003 Jan;13(1):103-7. PMID: 12529312; PMC: PMC430961 
placentalChainNetViewnet Nets Non-primate Placental Mammal Genomes, Chain and Net Alignments Comparative Genomics 
netDasNov3 Armadillo Net Armadillo (Dec. 2011 (Baylor/dasNov3)) Alignment Net Comparative Genomics 
netEquCab3 Horse Net Horse (Jan. 2018 (EquCab3.0/equCab3)) Alignment Net Comparative Genomics 
netManPen1 Chinese pangolin Net Chinese pangolin (Aug 2014 (M_pentadactyla-1.1.1/manPen1)) Alignment Net Comparative Genomics 
netSusScr11 Pig Net Pig (Feb. 2017 (Sscrofa11.1/susScr11)) Alignment Net Comparative Genomics 
netOviAri4 Sheep Net Sheep (Nov. 2015 (Oar_v4.0/oviAri4)) Alignment Net Comparative Genomics 
netBosTau9 Cow Net Cow (Apr. 2018 (ARS-UCD1.2/bosTau9)) Alignment Net Comparative Genomics 
netNeoSch1 Hawaiian monk seal Net Hawaiian monk seal (Jun. 2017 (ASM220157v1/neoSch1)) Alignment Net Comparative Genomics 
netEnhLutNer1 Southern sea otter Net Southern sea otter (Jun. 2019 (ASM641071v1/enhLutNer1)) Alignment Net Comparative Genomics 
netFelCat9 Cat Net Cat (Nov. 2017 (Felis_catus_9.0/felCat9)) Alignment Net Comparative Genomics 
netCanFam4 Dog Net Dog (Mar. 2020 (UU_Cfam_GSD_1.0/canFam4)) Alignment Net Comparative Genomics 
netCanFam6 Dog Net Dog (Oct. 2020 (Dog10K_Boxer_Tasha/canFam6)) Alignment Net Comparative Genomics 
netRn6 Rat Net Rat (Jul. 2014 (RGSC 6.0/rn6)) Alignment Net Comparative Genomics 
netRn7 Rat Net Rat (Nov. 2020 (mRatBN7.2/rn7)) Alignment Net Comparative Genomics 
netMm39 Mouse Net Mouse (Jun. 2020 (GRCm39/mm39)) Alignment Net Comparative Genomics 
netMm10 Mouse Net Mouse (Dec. 2011 (GRCm38/mm10)) Alignment Net Comparative Genomics 
netGalVar1 Malayan flying lemur Net Malayan flying lemur (Jun. 2014 (G_variegatus-3.0.2/galVar1)) Alignment Net Comparative Genomics 
netCriGriChoV2 Chinese hamster Net Chinese hamster (Jun. 2017 (CHOK1S_HZDv1/criGriChoV2)) Alignment Net Comparative Genomics 
placentalChainNetViewchain Chains Non-primate Placental Mammal Genomes, Chain and Net Alignments Comparative Genomics 
chainDasNov3 Armadillo Chain Armadillo (Dec. 2011 (Baylor/dasNov3)) Chained Alignments Comparative Genomics 
chainEquCab3 Horse Chain Horse (Jan. 2018 (EquCab3.0/equCab3)) Chained Alignments Comparative Genomics 
chainManPen1 Chinese pangolin Chain Chinese pangolin (Aug 2014 (M_pentadactyla-1.1.1/manPen1)) Chained Alignments Comparative Genomics 
chainSusScr11 Pig Chain Pig (Feb. 2017 (Sscrofa11.1/susScr11)) Chained Alignments Comparative Genomics 
chainOviAri4 Sheep Chain Sheep (Nov. 2015 (Oar_v4.0/oviAri4)) Chained Alignments Comparative Genomics 
chainBosTau9 Cow Chain Cow (Apr. 2018 (ARS-UCD1.2/bosTau9)) Chained Alignments Comparative Genomics 
chainNeoSch1 Hawaiian monk seal Chain Hawaiian monk seal (Jun. 2017 (ASM220157v1/neoSch1)) Chained Alignments Comparative Genomics 
chainEnhLutNer1 Southern sea otter Chain Southern sea otter (Jun. 2019 (ASM641071v1/enhLutNer1)) Chained Alignments Comparative Genomics 
chainFelCat9 Cat Chain Cat (Nov. 2017 (Felis_catus_9.0/felCat9)) Chained Alignments Comparative Genomics 
chainCanFam4 Dog Chain Dog (Mar. 2020 (UU_Cfam_GSD_1.0/canFam4)) Chained Alignments Comparative Genomics 
chainCanFam6 Dog Chain Dog (Oct. 2020 (Dog10K_Boxer_Tasha/canFam6)) Chained Alignments Comparative Genomics 
chainRn6 Rat Chain Rat (Jul. 2014 (RGSC 6.0/rn6)) Chained Alignments Comparative Genomics 
chainRn7 Rat Chain Rat (Nov. 2020 (mRatBN7.2/rn7)) Chained Alignments Comparative Genomics 
chainMm39 Mouse Chain Mouse (Jun. 2020 (GRCm39/mm39)) Chained Alignments Comparative Genomics 
chainMm10 Mouse Chain Mouse (Dec. 2011 (GRCm38/mm10)) Chained Alignments Comparative Genomics 
chainGalVar1 Malayan flying lemur Chain Malayan flying lemur (Jun. 2014 (G_variegatus-3.0.2/galVar1)) Chained Alignments Comparative Genomics 
chainCriGriChoV2 Chinese hamster Chain Chinese hamster (Jun. 2017 (CHOK1S_HZDv1/criGriChoV2)) Chained Alignments Comparative Genomics 
windowmaskerSdust WM + SDust Genomic Intervals Masked by WindowMasker + SDust Repeats Description This track depicts masked sequence as determined by WindowMasker. The WindowMasker tool is included in the NCBI C++ toolkit. The source code for the entire toolkit is available from the NCBI FTP site. Methods To create this track, WindowMasker was run with the following parameters: windowmasker -mk_counts true -input hg38.fa -output wm_counts windowmasker -ustat wm_counts -sdust true -input hg38.fa -output repeats.bed The repeats.bed (BED3) file was loaded into the &quot;windowmaskerSdust&quot; table for this track. References Morgulis A, Gertz EM, Sch&auml;ffer AA, Agarwala R. WindowMasker: window-based masker for sequenced genomes. Bioinformatics. 2006 Jan 15;22(2):134-41. PMID: 16287941 
vertebrateChainNet Vertebrate Chain/Net Non-placental Vertebrate Genomes, Chain and Net Alignments Comparative Genomics Description Chain Track The chain track shows alignments of human (Dec. 2013 (GRCh38/hg38)) to other genomes using a gap scoring system that allows longer gaps than traditional affine gap scoring systems. It can also tolerate gaps in both human and the other genome simultaneously. These &quot;double-sided&quot; gaps can be caused by local inversions and overlapping deletions in both species. The chain track displays boxes joined together by either single or double lines. The boxes represent aligning regions. Single lines indicate gaps that are largely due to a deletion in the other assembly or an insertion in the human assembly. Double lines represent more complex gaps that involve substantial sequence in both species. This may result from inversions, overlapping deletions, an abundance of local mutation, or an unsequenced gap in one species. In cases where multiple chains align over a particular region of the other genome, the chains with single-lined gaps are often due to processed pseudogenes, while chains with double-lined gaps are more often due to paralogs and unprocessed pseudogenes. In the "pack" and "full" display modes, the individual feature names indicate the chromosome, strand, and location (in thousands) of the match for each matching alignment. Net Track The net track shows the best human/other chain for every part of the other genome. It is useful for finding orthologous regions and for studying genome rearrangement. The human sequence used in this annotation is from the Dec. 2013 (GRCh38/hg38) assembly. Display Conventions and Configuration Chain Track By default, the chains to chromosome-based assemblies are colored based on which chromosome they map to in the aligning organism. To turn off the coloring, check the &quot;off&quot; button next to: Color track based on chromosome. To display only the chains of one chromosome in the aligning organism, enter the name of that chromosome (e.g. chr4) in box next to: Filter by chromosome. Net Track In full display mode, the top-level (level 1) chains are the largest, highest-scoring chains that span this region. In many cases gaps exist in the top-level chain. When possible, these are filled in by other chains that are displayed at level 2. The gaps in level 2 chains may be filled by level 3 chains and so forth. In the graphical display, the boxes represent ungapped alignments; the lines represent gaps. Click on a box to view detailed information about the chain as a whole; click on a line to display information about the gap. The detailed information is useful in determining the cause of the gap or, for lower level chains, the genomic rearrangement. Individual items in the display are categorized as one of four types (other than gap): Top - the best, longest match. Displayed on level 1. Syn - line-ups on the same chromosome as the gap in the level above it. Inv - a line-up on the same chromosome as the gap above it, but in the opposite orientation. NonSyn - a match to a chromosome different from the gap in the level above. Methods Chain track Transposons that have been inserted since the human/other split were removed from the assemblies. The abbreviated genomes were aligned with lastz, and the transposons were added back in. The resulting alignments were converted into axt format using the lavToAxt program. The axt alignments were fed into axtChain, which organizes all alignments between a single human chromosome and a single chromosome from the other genome into a group and creates a kd-tree out of the gapless subsections (blocks) of the alignments. A dynamic program was then run over the kd-trees to find the maximally scoring chains of these blocks. The following lastz matrix was usedfor the alignments to: Wallaby, Tasmanian Devil &nbsp;ACGT A91-114-31-123 C-114100-125-31 G-31-125100-114 T-123-31-11491 &nbsp; The following lastz matrix was usedfor the alignments to: American Alligator, Medium Ground Finch, Opossum, Platypus, Chicken, Zebra Finch, Lizard, X. tropicalis, Stickleback, Fugu, Zebrafish, Tetraodon, Medaka, Lamprey &nbsp;ACGT A91-90-25-100 C-90100-100-25 G-25-100100-90 T-100-25-9091 For the Wallaby alignment, chains scoring below a minimum score of '3000' were discarded; the remaining chains are displayed in this track. The linear gap matrix used with axtChain: -linearGap=medium tableSize 11 smallSize 111 position 1 2 3 11 111 2111 12111 32111 72111 152111 252111 qGap 350 425 450 600 900 2900 22900 57900 117900 217900 317900 tGap 350 425 450 600 900 2900 22900 57900 117900 217900 317900 bothGap 750 825 850 1000 1300 3300 23300 58300 118300 218300 318300 For the alignments to: American Alligator, Medium Ground Finch, Tasmanian Devil, Opossum, Platypus, Chicken, Zebra Finch, Lizard, X. tropicalis, Stickleback, Fugu, Zebrafish, Tetraodon, Medaka and Lamprey, chains scoring below a minimum score of '5000' were discarded; the remaining chains are displayed in this track. The linear gap matrix used with axtChain: -linearGap=loose tablesize 11 smallSize 111 position 1 2 3 11 111 2111 12111 32111 72111 152111 252111 qGap 325 360 400 450 600 1100 3600 7600 15600 31600 56600 tGap 325 360 400 450 600 1100 3600 7600 15600 31600 56600 bothGap 625 660 700 750 900 1400 4000 8000 16000 32000 57000 See also: lastz parameters used in these alignments, and chain minimum score and gap parameters used in these alignments. Net track Chains were derived from lastz alignments, using the methods described on the chain tracks description pages, and sorted with the highest-scoring chains in the genome ranked first. The program chainNet was then used to place the chains one at a time, trimming them as necessary to fit into sections not already covered by a higher-scoring chain. During this process, a natural hierarchy emerged in which a chain that filled a gap in a higher-scoring chain was placed underneath that chain. The program netSyntenic was used to fill in information about the relationship between higher- and lower-level chains, such as whether a lower-level chain was syntenic or inverted relative to the higher-level chain. The program netClass was then used to fill in how much of the gaps and chains contained Ns (sequencing gaps) in one or both species and how much was filled with transposons inserted before and after the two organisms diverged. Credits LASTZ was developed at Miller Lab at Pennsylvania State University by Bob Harris. Lineage-specific repeats were identified by Arian Smit and his RepeatMasker program. The axtChain program was developed at the University of California at Santa Cruz by Jim Kent with advice from Webb Miller and David Haussler. The browser display and database storage of the chains and nets were created by Robert Baertsch and Jim Kent. The chainNet, netSyntenic, and netClass programs were developed at the University of California Santa Cruz by Jim Kent. References Harris RS. Improved pairwise alignment of genomic DNA. Ph.D. Thesis. Pennsylvania State University, USA. 2007. Chiaromonte F, Yap VB, Miller W. Scoring pairwise genomic sequence alignments. Pac Symp Biocomput. 2002:115-26. PMID: 11928468 Kent WJ, Baertsch R, Hinrichs A, Miller W, Haussler D. Evolution's cauldron: duplication, deletion, and rearrangement in the mouse and human genomes. Proc Natl Acad Sci U S A. 2003 Sep 30;100(20):11484-9. PMID: 14500911; PMC: PMC208784 Schwartz S, Kent WJ, Smit A, Zhang Z, Baertsch R, Hardison RC, Haussler D, Miller W. Human-mouse alignments with BLASTZ. Genome Res. 2003 Jan;13(1):103-7. PMID: 12529312; PMC: PMC430961 
vertebrateChainNetViewnet Nets Non-placental Vertebrate Genomes, Chain and Net Alignments Comparative Genomics 
netPetMar3 Lamprey Net Lamprey (Dec. 2017 (Pmar_germline 1.0/petMar3)) Alignment Net Comparative Genomics 
netDanRer11 Zebrafish Net Zebrafish (May 2017 (GRCz11/danRer11)) Alignment Net Comparative Genomics 
netXenLae2 xenLae2 Net African clawed frog (Aug. 2016 (Xenopus_laevis_v2/xenLae2)) Alignment Net Comparative Genomics 
netXenTro10 xenTro10 Net X. tropicalis (Nov. 2019 (UCB_Xtro_10.0/xenTro10)) Alignment Net Comparative Genomics 
netThaSir1 thaSir1 Net Garter snake (Jun. 2015 (Thamnophis_sirtalis-6.0/thaSir1)) Alignment Net Comparative Genomics 
netAquChr2 aquChr2 Net Golden eagle (Oct. 2014 (aquChr-1.0.2/aquChr2)) Alignment Net Comparative Genomics 
netGalGal6 Chicken Net Chicken (Mar. 2018 (GRCg6a/galGal6)) Alignment Net Comparative Genomics 
netMelGal5 Turkey Net Turkey (Nov. 2014 (Turkey_5.0/melGal5)) Alignment Net Comparative Genomics 
netMonDom5 Opossum Net Opossum (Oct. 2006 (Broad/monDom5)) Alignment Net Comparative Genomics 
vertebrateChainNetViewchain Chains Non-placental Vertebrate Genomes, Chain and Net Alignments Comparative Genomics 
chainPetMar3 Lamprey Chain Lamprey (Dec. 2017 (Pmar_germline 1.0/petMar3)) Chained Alignments Comparative Genomics 
chainDanRer11 Zebrafish Chain Zebrafish (May 2017 (GRCz11/danRer11)) Chained Alignments Comparative Genomics 
chainXenLae2 xenLae2 Chain African clawed frog (Aug. 2016 (Xenopus_laevis_v2/xenLae2)) Chained Alignments Comparative Genomics 
chainXenTro10 xenTro10 Chain X. tropicalis (Nov. 2019 (UCB_Xtro_10.0/xenTro10)) Chained Alignments Comparative Genomics 
chainThaSir1 thaSir1 Chain Garter snake (Jun. 2015 (Thamnophis_sirtalis-6.0/thaSir1)) Chained Alignments Comparative Genomics 
chainAquChr2 aquChr2 Chain Golden eagle (Oct. 2014 (aquChr-1.0.2/aquChr2)) Chained Alignments Comparative Genomics 
chainGalGal6 Chicken Chain Chicken (Mar. 2018 (GRCg6a/galGal6)) Chained Alignments Comparative Genomics 
chainMelGal5 Turkey Chain Turkey (Nov. 2014 (Turkey_5.0/melGal5)) Chained Alignments Comparative Genomics 
chainMonDom5 Opossum Chain Opossum (Oct. 2006 (Broad/monDom5)) Chained Alignments Comparative Genomics 
gnomadConstraint gnomAD Mut Constraint Gnocchi: Genome Aggregation Database (gnomAD) non-coding constraint of haploinsufficient variation, includes chrX Variation Description GnomAD Genome Mutational Constraint, also known as "Genome non-coding constraint of haploinsufficient variation (Gnocchi)", is based on v3.1.2 and is available only on hg38. It shows the reduced variation caused by purifying natural selection. This is similar to negative selection on loss-of-function (LoF) for genes, but can be calculated for non-coding regions too. Positive values are red and reflect stronger mutation constraint (and less variation), indicating higher natural selection pressure in a region. Negative values are green and reflect lower mutation constraint (and more variation), indicating less selection pressure and less functional effect. Briefly, for any 1kbp window in the genome, a model based on trinucleotide sequence context, base-level methylation, and regional genomic features predicts expected number of mutations, and compares this number to the observed number of mutations using a Z-score (see Chen et al 2024 in the Reference section for details). The chrX scores were added as received from the authors, as there are no de novo mutation data available on chrX (for estimating the effects of regional genomic features on mutation rates), they are more speculative than the ones on the autosomes. Data Access The raw data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API, and the genome annotations are stored in files that can be downloaded from our download server, subject to the conditions set forth by the gnomAD consortium (see below). The mutational constraints score was updated in October 2022 from a previous, now deprecated, pre-publication version. The old version can be found in our archive directory on the download server. It can be loaded by copying the URL into our "Custom tracks" input box. The data can also be found directly from the gnomAD downloads page. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credits Thanks to the Genome Aggregation Database Consortium for making these data available. The data are released under the Creative Commons Zero Public Domain Dedication as described here. Please note that some annotations within the provided files may have restrictions on usage. See here for more information. References Chen S, Francioli LC, Goodrich JK, Collins RL, Kanai M, Wang Q, Alf&#246;ldi J, Watts NA, Vittal C, Gauthier LD et al. A genomic mutational constraint map using variation in 76,156 human genomes. Nature. 2024 Jan;625(7993):92-100. PMID: 38057664 
transMapEnsemblV5 TransMap Ensembl TransMap Ensembl and GENCODE Mappings Version 5 Genes and Gene Predictions Description This track contains GENCODE or Ensembl alignments produced by the TransMap cross-species alignment algorithm from other vertebrate species in the UCSC Genome Browser. GENCODE is Ensembl for human and mouse, for other Ensembl sources, only ones with full gene builds are used. Projection Ensembl gene annotations will not be used as sources. For closer evolutionary distances, the alignments are created using syntenically filtered BLASTZ alignment chains, resulting in a prediction of the orthologous genes in human. Display Conventions and Configuration This track follows the display conventions for PSL alignment tracks. This track may also be configured to display codon coloring, a feature that allows the user to quickly compare cDNAs against the genomic sequence. For more information about this option, click here. Several types of alignment gap may also be colored; for more information, click here. Methods Source transcript alignments were obtained from vertebrate organisms in the UCSC Genome Browser Database. BLAT alignments of RefSeq Genes, GenBank mRNAs, and GenBank Spliced ESTs to the cognate genome, along with UCSC Genes, were used as available. For all vertebrate assemblies that had BLASTZ alignment chains and nets to the human (hg38) genome, a subset of the alignment chains were selected as follows: For organisms whose branch distance was no more than 0.5 (as computed by phyloFit, see Conservation track description for details), syntenic filtering was used. Reciprocal best nets were used if available; otherwise, nets were selected with the netfilter -syn command. The chains corresponding to the selected nets were used for mapping. For more distant species, where the determination of synteny is difficult, the full set of chains was used for mapping. This allows for more genes to map at the expense of some mapping to paralogous regions. The post-alignment filtering step removes some of the duplications. The pslMap program was used to do a base-level projection of the source transcript alignments via the selected chains to the human genome, resulting in pairwise alignments of the source transcripts to the genome. The resulting alignments were filtered with pslCDnaFilter with a global near-best criteria of 0.5% in finished genomes (human and mouse) and 1.0% in other genomes. Alignments where less than 20% of the transcript mapped were discarded. To ensure unique identifiers for each alignment, cDNA and gene accessions were made unique by appending a suffix for each location in the source genome and again for each mapped location in the destination genome. The format is: accession.version-srcUniq.destUniq Where srcUniq is a number added to make each source alignment unique, and destUniq is added to give the subsequent TransMap alignments unique identifiers. For example, in the cow genome, there are two alignments of mRNA BC149621.1. These are assigned the identifiers BC149621.1-1 and BC149621.1-2. When these are mapped to the human genome, BC149621.1-1 maps to a single location and is given the identifier BC149621.1-1.1. However, BC149621.1-2 maps to two locations, resulting in BC149621.1-2.1 and BC149621.1-2.2. Note that multiple TransMap mappings are usually the result of tandem duplications, where both chains are identified as syntenic. Data Access The raw data for these tracks can be accessed interactively through the Table Browser or the Data Integrator. For automated analysis, the annotations are stored in bigPsl files (containing a number of extra columns) and can be downloaded from our download server, or queried using our API. For more information on accessing track data see our Track Data Access FAQ. The files are associated with these tracks in the following way: TransMap Ensembl - hg38.ensembl.transMapV4.bigPsl TransMap RefGene - hg38.refseq.transMapV4.bigPsl TransMap RNA - hg38.rna.transMapV4.bigPsl TransMap ESTs - hg38.est.transMapV4.bigPsl Individual regions or the whole genome annotation can be obtained using our tool bigBedToBed which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tool can also be used to obtain only features within a given range, for example: bigBedToBed http://hgdownload.soe.ucsc.edu/gbdb/hg38/transMap/V4/hg38.refseq.transMapV4.bigPsl -chrom=chr6 -start=0 -end=1000000 stdout Credits This track was produced by Mark Diekhans at UCSC from cDNA and EST sequence data submitted to the international public sequence databases by scientists worldwide and annotations produced by the RefSeq, Ensembl, and GENCODE annotations projects. References Siepel A, Diekhans M, Brejov&#225; B, Langton L, Stevens M, Comstock CL, Davis C, Ewing B, Oommen S, Lau C et al. Targeted discovery of novel human exons by comparative genomics. Genome Res. 2007 Dec;17(12):1763-73. PMID: 17989246; PMC: PMC2099585 Stanke M, Diekhans M, Baertsch R, Haussler D. Using native and syntenically mapped cDNA alignments to improve de novo gene finding. Bioinformatics. 2008 Mar 1;24(5):637-44. PMID: 18218656 Zhu J, Sanborn JZ, Diekhans M, Lowe CB, Pringle TH, Haussler D. Comparative genomics search for losses of long-established genes on the human lineage. PLoS Comput Biol. 2007 Dec;3(12):e247. PMID: 18085818; PMC: PMC2134963 
transMapV5 TransMap V5 TransMap Alignments Version 5 Genes and Gene Predictions Description These tracks contain cDNA and gene alignments produced by the TransMap cross-species alignment algorithm from other vertebrate species in the UCSC Genome Browser. For closer evolutionary distances, the alignments are created using syntenically filtered LASTZ or BLASTZ alignment chains, resulting in a prediction of the orthologous genes in human. For more distant organisms, reciprocal best alignments are used. TransMap maps genes and related annotations in one species to another using synteny-filtered pairwise genome alignments (chains and nets) to determine the most likely orthologs. For example, for the mRNA TransMap track on the human assembly, more than 400,000 mRNAs from 25 vertebrate species were aligned at high stringency to the native assembly using BLAT. The alignments were then mapped to the human assembly using the chain and net alignments produced using BLASTZ, which has higher sensitivity than BLAT for diverged organisms. Compared to translated BLAT, TransMap finds fewer paralogs and aligns more UTR bases. Display Conventions and Configuration This track follows the display conventions for PSL alignment tracks. This track may also be configured to display codon coloring, a feature that allows the user to quickly compare cDNAs against the genomic sequence. For more information about this option, click here. Several types of alignment gap may also be colored; for more information, click here. Methods Source transcript alignments were obtained from vertebrate organisms in the UCSC Genome Browser Database. BLAT alignments of RefSeq Genes, GenBank mRNAs, and GenBank Spliced ESTs to the cognate genome, along with UCSC Genes, were used as available. For all vertebrate assemblies that had BLASTZ alignment chains and nets to the human (hg38) genome, a subset of the alignment chains were selected as follows: For organisms whose branch distance was no more than 0.5 (as computed by phyloFit, see Conservation track description for details), syntenic filtering was used. Reciprocal best nets were used if available; otherwise, nets were selected with the netfilter -syn command. The chains corresponding to the selected nets were used for mapping. For more distant species, where the determination of synteny is difficult, the full set of chains was used for mapping. This allows for more genes to map at the expense of some mapping to paralogous regions. The post-alignment filtering step removes some of the duplications. The pslMap program was used to do a base-level projection of the source transcript alignments via the selected chains to the human genome, resulting in pairwise alignments of the source transcripts to the genome. The resulting alignments were filtered with pslCDnaFilter with a global near-best criteria of 0.5% in finished genomes (human and mouse) and 1.0% in other genomes. Alignments where less than 20% of the transcript mapped were discarded. To ensure unique identifiers for each alignment, cDNA and gene accessions were made unique by appending a suffix for each location in the source genome and again for each mapped location in the destination genome. The format is: accession.version-srcUniq.destUniq Where srcUniq is a number added to make each source alignment unique, and destUniq is added to give the subsequent TransMap alignments unique identifiers. For example, in the cow genome, there are two alignments of mRNA BC149621.1. These are assigned the identifiers BC149621.1-1 and BC149621.1-2. When these are mapped to the human genome, BC149621.1-1 maps to a single location and is given the identifier BC149621.1-1.1. However, BC149621.1-2 maps to two locations, resulting in BC149621.1-2.1 and BC149621.1-2.2. Note that multiple TransMap mappings are usually the result of tandem duplications, where both chains are identified as syntenic. Data Access The raw data for these tracks can be accessed interactively through the Table Browser or the Data Integrator. For automated analysis, the annotations are stored in bigPsl files (containing a number of extra columns) and can be downloaded from our download server, or queried using our API. For more information on accessing track data see our Track Data Access FAQ. The files are associated with these tracks in the following way: TransMap Ensembl - hg38.ensembl.transMapV5.bigPsl TransMap RefGene - hg38.refseq.transMapV5.bigPsl TransMap RNA - hg38.rna.transMapV5.bigPsl TransMap ESTs - hg38.est.transMapV5.bigPsl Individual regions or the whole genome annotation can be obtained using our tool bigBedToBed, which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tool can also be used to obtain only features within a given range, for example: bigBedToBed http://hgdownload.soe.ucsc.edu/gbdb/hg38/transMap/V5/hg38.refseq.transMapV5.bigPsl -chrom=chr6 -start=0 -end=1000000 stdout Credits This track was produced by Mark Diekhans at UCSC from cDNA and EST sequence data submitted to the international public sequence databases by scientists worldwide and annotations produced by the RefSeq, Ensembl, and GENCODE annotations projects. References Siepel A, Diekhans M, Brejov&#225; B, Langton L, Stevens M, Comstock CL, Davis C, Ewing B, Oommen S, Lau C et al. Targeted discovery of novel human exons by comparative genomics. Genome Res. 2007 Dec;17(12):1763-73. PMID: 17989246; PMC: PMC2099585 Stanke M, Diekhans M, Baertsch R, Haussler D. Using native and syntenically mapped cDNA alignments to improve de novo gene finding. Bioinformatics. 2008 Mar 1;24(5):637-44. PMID: 18218656 Zhu J, Sanborn JZ, Diekhans M, Lowe CB, Pringle TH, Haussler D. Comparative genomics search for losses of long-established genes on the human lineage. PLoS Comput Biol. 2007 Dec;3(12):e247. PMID: 18085818; PMC: PMC2134963 
transMapRefSeqV5 TransMap RefGene TransMap RefSeq Gene Mappings Version 5 Genes and Gene Predictions Description This track contains RefSeq Gene alignments produced by the TransMap cross-species alignment algorithm from other vertebrate species in the UCSC Genome Browser. For closer evolutionary distances, the alignments are created using syntenically filtered BLASTZ alignment chains, resulting in a prediction of the orthologous genes in human. Display Conventions and Configuration This track follows the display conventions for PSL alignment tracks. This track may also be configured to display codon coloring, a feature that allows the user to quickly compare cDNAs against the genomic sequence. For more information about this option, click here. Several types of alignment gap may also be colored; for more information, click here. Methods Source transcript alignments were obtained from vertebrate organisms in the UCSC Genome Browser Database. BLAT alignments of RefSeq Genes, GenBank mRNAs, and GenBank Spliced ESTs to the cognate genome, along with UCSC Genes, were used as available. For all vertebrate assemblies that had BLASTZ alignment chains and nets to the human (hg38) genome, a subset of the alignment chains were selected as follows: For organisms whose branch distance was no more than 0.5 (as computed by phyloFit, see Conservation track description for details), syntenic filtering was used. Reciprocal best nets were used if available; otherwise, nets were selected with the netfilter -syn command. The chains corresponding to the selected nets were used for mapping. For more distant species, where the determination of synteny is difficult, the full set of chains was used for mapping. This allows for more genes to map at the expense of some mapping to paralogous regions. The post-alignment filtering step removes some of the duplications. The pslMap program was used to do a base-level projection of the source transcript alignments via the selected chains to the human genome, resulting in pairwise alignments of the source transcripts to the genome. The resulting alignments were filtered with pslCDnaFilter with a global near-best criteria of 0.5% in finished genomes (human and mouse) and 1.0% in other genomes. Alignments where less than 20% of the transcript mapped were discarded. To ensure unique identifiers for each alignment, cDNA and gene accessions were made unique by appending a suffix for each location in the source genome and again for each mapped location in the destination genome. The format is: accession.version-srcUniq.destUniq Where srcUniq is a number added to make each source alignment unique, and destUniq is added to give the subsequent TransMap alignments unique identifiers. For example, in the cow genome, there are two alignments of mRNA BC149621.1. These are assigned the identifiers BC149621.1-1 and BC149621.1-2. When these are mapped to the human genome, BC149621.1-1 maps to a single location and is given the identifier BC149621.1-1.1. However, BC149621.1-2 maps to two locations, resulting in BC149621.1-2.1 and BC149621.1-2.2. Note that multiple TransMap mappings are usually the result of tandem duplications, where both chains are identified as syntenic. Data Access The raw data for these tracks can be accessed interactively through the Table Browser or the Data Integrator. For automated analysis, the annotations are stored in bigPsl files (containing a number of extra columns) and can be downloaded from our download server, or queried using our API. For more information on accessing track data see our Track Data Access FAQ. The files are associated with these tracks in the following way: TransMap Ensembl - hg38.ensembl.transMapV4.bigPsl TransMap RefGene - hg38.refseq.transMapV4.bigPsl TransMap RNA - hg38.rna.transMapV4.bigPsl TransMap ESTs - hg38.est.transMapV4.bigPsl Individual regions or the whole genome annotation can be obtained using our tool bigBedToBed which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tool can also be used to obtain only features within a given range, for example: bigBedToBed http://hgdownload.soe.ucsc.edu/gbdb/hg38/transMap/V4/hg38.refseq.transMapV4.bigPsl -chrom=chr6 -start=0 -end=1000000 stdout Credits This track was produced by Mark Diekhans at UCSC from cDNA and EST sequence data submitted to the international public sequence databases by scientists worldwide and annotations produced by the RefSeq, Ensembl, and GENCODE annotations projects. References Siepel A, Diekhans M, Brejov&#225; B, Langton L, Stevens M, Comstock CL, Davis C, Ewing B, Oommen S, Lau C et al. Targeted discovery of novel human exons by comparative genomics. Genome Res. 2007 Dec;17(12):1763-73. PMID: 17989246; PMC: PMC2099585 Stanke M, Diekhans M, Baertsch R, Haussler D. Using native and syntenically mapped cDNA alignments to improve de novo gene finding. Bioinformatics. 2008 Mar 1;24(5):637-44. PMID: 18218656 Zhu J, Sanborn JZ, Diekhans M, Lowe CB, Pringle TH, Haussler D. Comparative genomics search for losses of long-established genes on the human lineage. PLoS Comput Biol. 2007 Dec;3(12):e247. PMID: 18085818; PMC: PMC2134963 
transMapRnaV5 TransMap RNA TransMap GenBank RNA Mappings Version 5 Genes and Gene Predictions Description This track contains GenBank mRNA alignments produced by the TransMap cross-species alignment algorithm from other vertebrate species in the UCSC Genome Browser. For closer evolutionary distances, the alignments are created using syntenically filtered BLASTZ alignment chains, resulting in a prediction of the orthologous genes in human. Display Conventions and Configuration This track follows the display conventions for PSL alignment tracks. This track may also be configured to display codon coloring, a feature that allows the user to quickly compare cDNAs against the genomic sequence. For more information about this option, click here. Several types of alignment gap may also be colored; for more information, click here. Methods Source transcript alignments were obtained from vertebrate organisms in the UCSC Genome Browser Database. BLAT alignments of RefSeq Genes, GenBank mRNAs, and GenBank Spliced ESTs to the cognate genome, along with UCSC Genes, were used as available. For all vertebrate assemblies that had BLASTZ alignment chains and nets to the human (hg38) genome, a subset of the alignment chains were selected as follows: For organisms whose branch distance was no more than 0.5 (as computed by phyloFit, see Conservation track description for details), syntenic filtering was used. Reciprocal best nets were used if available; otherwise, nets were selected with the netfilter -syn command. The chains corresponding to the selected nets were used for mapping. For more distant species, where the determination of synteny is difficult, the full set of chains was used for mapping. This allows for more genes to map at the expense of some mapping to paralogous regions. The post-alignment filtering step removes some of the duplications. The pslMap program was used to do a base-level projection of the source transcript alignments via the selected chains to the human genome, resulting in pairwise alignments of the source transcripts to the genome. The resulting alignments were filtered with pslCDnaFilter with a global near-best criteria of 0.5% in finished genomes (human and mouse) and 1.0% in other genomes. Alignments where less than 20% of the transcript mapped were discarded. To ensure unique identifiers for each alignment, cDNA and gene accessions were made unique by appending a suffix for each location in the source genome and again for each mapped location in the destination genome. The format is: accession.version-srcUniq.destUniq Where srcUniq is a number added to make each source alignment unique, and destUniq is added to give the subsequent TransMap alignments unique identifiers. For example, in the cow genome, there are two alignments of mRNA BC149621.1. These are assigned the identifiers BC149621.1-1 and BC149621.1-2. When these are mapped to the human genome, BC149621.1-1 maps to a single location and is given the identifier BC149621.1-1.1. However, BC149621.1-2 maps to two locations, resulting in BC149621.1-2.1 and BC149621.1-2.2. Note that multiple TransMap mappings are usually the result of tandem duplications, where both chains are identified as syntenic. Data Access The raw data for these tracks can be accessed interactively through the Table Browser or the Data Integrator. For automated analysis, the annotations are stored in bigPsl files (containing a number of extra columns) and can be downloaded from our download server, or queried using our API. For more information on accessing track data see our Track Data Access FAQ. The files are associated with these tracks in the following way: TransMap Ensembl - hg38.ensembl.transMapV4.bigPsl TransMap RefGene - hg38.refseq.transMapV4.bigPsl TransMap RNA - hg38.rna.transMapV4.bigPsl TransMap ESTs - hg38.est.transMapV4.bigPsl Individual regions or the whole genome annotation can be obtained using our tool bigBedToBed which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tool can also be used to obtain only features within a given range, for example: bigBedToBed http://hgdownload.soe.ucsc.edu/gbdb/hg38/transMap/V4/hg38.refseq.transMapV4.bigPsl -chrom=chr6 -start=0 -end=1000000 stdout Credits This track was produced by Mark Diekhans at UCSC from cDNA and EST sequence data submitted to the international public sequence databases by scientists worldwide and annotations produced by the RefSeq, Ensembl, and GENCODE annotations projects. References Siepel A, Diekhans M, Brejov&#225; B, Langton L, Stevens M, Comstock CL, Davis C, Ewing B, Oommen S, Lau C et al. Targeted discovery of novel human exons by comparative genomics. Genome Res. 2007 Dec;17(12):1763-73. PMID: 17989246; PMC: PMC2099585 Stanke M, Diekhans M, Baertsch R, Haussler D. Using native and syntenically mapped cDNA alignments to improve de novo gene finding. Bioinformatics. 2008 Mar 1;24(5):637-44. PMID: 18218656 Zhu J, Sanborn JZ, Diekhans M, Lowe CB, Pringle TH, Haussler D. Comparative genomics search for losses of long-established genes on the human lineage. PLoS Comput Biol. 2007 Dec;3(12):e247. PMID: 18085818; PMC: PMC2134963 
transMapEstV5 TransMap ESTs TransMap EST Mappings Version 5 Genes and Gene Predictions Description This track contains GenBank spliced EST alignments produced by the TransMap cross-species alignment algorithm from other vertebrate species in the UCSC Genome Browser. For closer evolutionary distances, the alignments are created using syntenically filtered BLASTZ alignment chains, resulting in a prediction of the orthologous genes in human. Display Conventions and Configuration This track follows the display conventions for PSL alignment tracks. This track may also be configured to display codon coloring, a feature that allows the user to quickly compare cDNAs against the genomic sequence. For more information about this option, click here. Several types of alignment gap may also be colored; for more information, click here. Methods Source transcript alignments were obtained from vertebrate organisms in the UCSC Genome Browser Database. BLAT alignments of RefSeq Genes, GenBank mRNAs, and GenBank Spliced ESTs to the cognate genome, along with UCSC Genes, were used as available. For all vertebrate assemblies that had BLASTZ alignment chains and nets to the human (hg38) genome, a subset of the alignment chains were selected as follows: For organisms whose branch distance was no more than 0.5 (as computed by phyloFit, see Conservation track description for details), syntenic filtering was used. Reciprocal best nets were used if available; otherwise, nets were selected with the netfilter -syn command. The chains corresponding to the selected nets were used for mapping. For more distant species, where the determination of synteny is difficult, the full set of chains was used for mapping. This allows for more genes to map at the expense of some mapping to paralogous regions. The post-alignment filtering step removes some of the duplications. The pslMap program was used to do a base-level projection of the source transcript alignments via the selected chains to the human genome, resulting in pairwise alignments of the source transcripts to the genome. The resulting alignments were filtered with pslCDnaFilter with a global near-best criteria of 0.5% in finished genomes (human and mouse) and 1.0% in other genomes. Alignments where less than 20% of the transcript mapped were discarded. To ensure unique identifiers for each alignment, cDNA and gene accessions were made unique by appending a suffix for each location in the source genome and again for each mapped location in the destination genome. The format is: accession.version-srcUniq.destUniq Where srcUniq is a number added to make each source alignment unique, and destUniq is added to give the subsequent TransMap alignments unique identifiers. For example, in the cow genome, there are two alignments of mRNA BC149621.1. These are assigned the identifiers BC149621.1-1 and BC149621.1-2. When these are mapped to the human genome, BC149621.1-1 maps to a single location and is given the identifier BC149621.1-1.1. However, BC149621.1-2 maps to two locations, resulting in BC149621.1-2.1 and BC149621.1-2.2. Note that multiple TransMap mappings are usually the result of tandem duplications, where both chains are identified as syntenic. Data Access The raw data for these tracks can be accessed interactively through the Table Browser or the Data Integrator. For automated analysis, the annotations are stored in bigPsl files (containing a number of extra columns) and can be downloaded from our download server, or queried using our API. For more information on accessing track data see our Track Data Access FAQ. The files are associated with these tracks in the following way: TransMap Ensembl - hg38.ensembl.transMapV4.bigPsl TransMap RefGene - hg38.refseq.transMapV4.bigPsl TransMap RNA - hg38.rna.transMapV4.bigPsl TransMap ESTs - hg38.est.transMapV4.bigPsl Individual regions or the whole genome annotation can be obtained using our tool bigBedToBed which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tool can also be used to obtain only features within a given range, for example: bigBedToBed http://hgdownload.soe.ucsc.edu/gbdb/hg38/transMap/V4/hg38.refseq.transMapV4.bigPsl -chrom=chr6 -start=0 -end=1000000 stdout Credits This track was produced by Mark Diekhans at UCSC from cDNA and EST sequence data submitted to the international public sequence databases by scientists worldwide and annotations produced by the RefSeq, Ensembl, and GENCODE annotations projects. References Siepel A, Diekhans M, Brejov&#225; B, Langton L, Stevens M, Comstock CL, Davis C, Ewing B, Oommen S, Lau C et al. Targeted discovery of novel human exons by comparative genomics. Genome Res. 2007 Dec;17(12):1763-73. PMID: 17989246; PMC: PMC2099585 Stanke M, Diekhans M, Baertsch R, Haussler D. Using native and syntenically mapped cDNA alignments to improve de novo gene finding. Bioinformatics. 2008 Mar 1;24(5):637-44. PMID: 18218656 Zhu J, Sanborn JZ, Diekhans M, Lowe CB, Pringle TH, Haussler D. Comparative genomics search for losses of long-established genes on the human lineage. PLoS Comput Biol. 2007 Dec;3(12):e247. PMID: 18085818; PMC: PMC2134963 
gtexCov GTEx RNA-Seq Coverage GTEx V8 RNA-Seq Read Coverage by Tissue Expression Description The NIH Genotype-Tissue Expression (GTEx) project determined genetic variation and gene expression in 52 tissues and 2 cell lines using RNA-seq data (V8, August 2019), on 17,382 samples from 948 adults. This track focuses on the gene expression part. It shows read coverage, from one single sample per tissue, selected for high-quality and high read depth. The data is summarized to one number per base pair, the number of sequencing reads that cover this position. The plot allows finding out if a given exon is transcribed primarily in certain tissues and also whether transcription is uniform over the length of a single exon. Display Conventions This track follows the display conventions for composite &quot;wiggle&quot; tracks. The subtracks, one per tissue, of this track may be configured in a variety of ways to highlight different aspects of the displayed data. The graphical configuration options are shown at the top of the track description page, followed by a list of subtracks. To display only selected subtracks, uncheck the boxes next to the tracks you wish to hide. For more information about the graphical configuration options, click the Graph configuration help link. Tissue colors were assigned to conform to the GTEx Consortium publication conventions. In Dense mode, the darkness of the grayscale rectangle displayed for the gene reflects the absolute read count. Methods For background information about GTEx sample selection, see our GTEx gene expression track. In short, samples were sequenced with the Illumina TrueSeq protocol on unstranded polyA+ librarires to obtain 76-bp paired end reads with HiSeq 2000 and 2500 machines. Sequence reads were aligned to the hg38/GRCh38 human genome using STAR v2.5.3a and the GENCODE 26 transcriptome. The alignment pipeline is available here. For further method details, see the GTEx Portal Documentation page. To obtain read coverage, the GTEx Laboratory, Data Analysis and Coordinating Center (LDACC) at the Broad Institute decided to select a single, high-quality representative sample for each tissue type, since aggregated tracks may obscure certain features or even introduce some artifacts (e.g. intronic coverage). For each tissue, the selected sample has the highest RIN value with a high coverage (&gt;80M reads) and exonic rate (&gt;85%). The alignment-to-coverage pipeline is available from Github: Python script, Docker file and Pipeline WDL description. To show the exact GTEx sample that was used for each tissue, click the &quot;Schema&quot; link on the track configuration page (above), the filename under &quot;bigDataUrl&quot; includes the identifier. Subject and Sample Characteristics The scientific goal of the GTEx project required that the donors and their biospecimen present with no evidence of disease. The tissue types collected were chosen based on their clinical significance, logistical feasibility and their relevance to the scientific goal of the project and the research community. Summary plots of GTEx sample characteristics are available at the GTEx Portal Tissue Summary page. Data Access The raw data for the GTEx Read Coverage track can be accessed interactively through the Table Browser. For automated analysis and downloads, the track data files can be downloaded from our downloads server or the JSON API. Individual regions or the whole genome annotation can be accessed as text using our utility bigBedToBed. Instructions for downloading the utility can be found here. That utility can also be used to obtain features within a given range, e.g. bigBedToBed http://hgdownload.soe.ucsc.edu/gbdb/hg38/gtex/gtexGeneV8.bb -chrom=chr21 -start=0 -end=100000000 stdout Data can also be obtained directly from GTEx at the following link: https://gtexportal.org/home/datasets Credits Statistical analysis and data interpretation was performed by The GTEx Consortium Analysis Working Group. Data was provided by the GTEx LDACC at The Broad Institute of MIT and Harvard. References GTEx Consortium. The GTEx Consortium atlas of genetic regulatory effects across human tissues. Science. 2020 Sep 11;369(6509):1318-1330. PMID: 32913098; PMC: PMC7737656 GTEx Consortium. The Genotype-Tissue Expression (GTEx) project. Nat Genet. 2013 Jun;45(6):580-5. PMID: 23715323; PMC: PMC4010069 Carithers LJ, Ardlie K, Barcus M, Branton PA, Britton A, Buia SA, Compton CC, DeLuca DS, Peter-Demchok J, Gelfand ET et al. A Novel Approach to High-Quality Postmortem Tissue Procurement: The GTEx Project. Biopreserv Biobank. 2015 Oct;13(5):311-9. PMID: 26484571; PMC: PMC4675181 Mel&#233; M, Ferreira PG, Reverter F, DeLuca DS, Monlong J, Sammeth M, Young TR, Goldmann JM, Pervouchine DD, Sullivan TJ et al. Human genomics. The human transcriptome across tissues and individuals. Science. 2015 May 8;348(6235):660-5. PMID: 25954002; PMC: PMC4547472 DeLuca DS, Levin JZ, Sivachenko A, Fennell T, Nazaire MD, Williams C, Reich M, Winckler W, Getz G. RNA-SeQC: RNA-seq metrics for quality control and process optimization. Bioinformatics. 2012 Jun 1;28(11):1530-2. PMID: 22539670; PMC: PMC3356847 
gtexCovWholeBlood Whole Blood Whole Blood Expression 
gtexCovVagina Vagina Vagina Expression 
gtexCovUterus Uterus Uterus Expression 
gtexCovThyroid Thyroid Thyroid Expression 
gtexCovTestis Testis Testis Expression 
gtexCovStomach Stomach Stomach Expression 
gtexCovSpleen Spleen Spleen Expression 
gtexCovSmallIntestineTerminalIleum Small Intestine Small Intestine Terminal Ileum Expression 
gtexCovSkinSunExposedLowerleg Skin sun exp Skin Sun Exposed Lower leg Expression 
gtexCovSkinNotSunExposedSuprapubic Skin not sun exp Skin Not Sun Exposed Suprapubic Expression 
gtexCovProstate Prostate Prostate Expression 
gtexCovPituitary Pituitary Pituitary Expression 
gtexCovPancreas Pancreas Pancreas Expression 
gtexCovOvary Ovary Ovary Expression 
gtexCovNerveTibial Nerve Tibial Nerve Tibial Expression 
gtexCovMuscleSkeletal Muscle Skeletal Muscle Skeletal Expression 
gtexCovMinorSalivaryGland Minor Saliv Gland Minor Salivary Gland Expression 
gtexCovLung Lung Lung Expression 
gtexCovLiver Liver Liver Expression 
gtexCovKidneyMedulla Kidney Medulla Kidney Medulla Expression 
gtexCovKidneyCortex Kidney Cortex Kidney Cortex Expression 
gtexCovHeartLeftVentricle Heart Left Ventr Heart Left Ventricle Expression 
gtexCovHeartAtrialAppendage Heart Atr Append Heart Atrial Appendage Expression 
gtexCovFallopianTube Fallopian Tube Fallopian Tube Expression 
gtexCovEsophagusMuscularis Esoph Muscularis Esophagus Muscularis Expression 
gtexCovEsophagusMucosa Esoph Mucosa Esophagus Mucosa Expression 
gtexCovEsophagusGastroesophagealJunction Esoph Gastroes Junc Esophagus Gastroesophageal Junction Expression 
gtexCovColonTransverse Colon Transverse Colon Transverse Expression 
gtexCovColonSigmoid Colon Sigmoid Colon Sigmoid Expression 
gtexCovCervixEndocervix Cervix Endocerv Cervix Endocervix Expression 
gtexCovCervixEctocervix Cervix Ectocerv Cervix Ectocervix Expression 
gtexCovCellsCulturedfibroblasts Cells fibrobl cult Cells Cultured fibroblasts Expression 
gtexCovCellsEBV-transformedlymphocytes Cells EBV lymphoc Cells EBV-transformed lymphocytes Expression 
gtexCovBreastMammaryTissue Breast Mammary Breast Mammary Tissue Expression 
gtexCovBrainSubstantianigra Brain Subst nigr Brain Substantia nigra Expression 
gtexCovBrainSpinalcordcervicalc-1 Brain Spinal cord cerv Brain Spinal cord cervical c-1 Expression 
gtexCovBrainPutamenbasalganglia Brain Put bas gang Brain Putamen basal ganglia Expression 
gtexCovBrainNucleusaccumbensbasalganglia Brain Nucl acc bas gang Brain Nucleus accumbens basal ganglia Expression 
gtexCovBrainHypothalamus Brain Hypothal Brain Hypothalamus Expression 
gtexCovBrainHippocampus Brain Hippocamp Brain Hippocampus Expression 
gtexCovBrainFrontalCortexBA9 Brain Front Cortex Brain Frontal Cortex BA9 Expression 
gtexCovBrainCortex Brain Cortex Brain Cortex Expression 
gtexCovBrainCerebellarHemisphere Brain Cereb Hemisph Brain Cerebellar Hemisphere Expression 
gtexCovBrainCerebellum Brain Cereb Brain Cerebellum Expression 
gtexCovBrainCaudatebasalganglia Brain Caud bas gangl Brain Caudate basal ganglia Expression 
gtexCovBrainAnteriorcingulatecortexBA24 Brain Ant cin cort Brain Anterior cingulate cortex BA24 Expression 
gtexCovBrainAmygdala Brain Amygd Brain Amygdala Expression 
gtexCovBladder Bladder Bladder Expression 
gtexCovArteryTibial Artery Tibia Artery Tibial Expression 
gtexCovArteryCoronary Artery Coron Artery Coronary Expression 
gtexCovArteryAorta Artery Aorta Artery Aorta Expression 
gtexCovAdrenalGland Adren Gland Adrenal Gland Expression 
gtexCovAdiposeVisceralOmentum Adip Visc Om Adipose Visceral Omentum - GTEX-14BMU-0626-SM-73KZ6 Expression 
gtexCovAdiposeSubcutaneous Adip Subcut Adipose Subcutaneous Expression 
ukbDepletion UKB Depl. Rank Score UK Biobank / deCODE Genetics Depletion Rank Score Phenotypes, Variants, and Literature Description The "Constraint scores" container track includes several subtracks showing the results of constraint prediction algorithms. These try to find regions of negative selection, where variations likely have functional impact. The algorithms do not use multi-species alignments to derive evolutionary constraint, but use primarily human variation, usually from variants collected by gnomAD (see the gnomAD V2 or V3 tracks on hg19 and hg38) or TOPMED (contained in our dbSNP tracks and available as a filter). One of the subtracks is based on UK Biobank variants, which are not available publicly, so we have no track with the raw data. The number of human genomes that are used as the input for these scores are 76k, 53k and 110k for gnomAD, TOPMED and UK Biobank, respectively. Note that another important constraint score, gnomAD constraint, is not part of this container track but can be found in the hg38 gnomAD track. The algorithms included in this track are: JARVIS - "Junk" Annotation genome-wide Residual Variation Intolerance Score: JARVIS scores were created by first scanning the entire genome with a sliding-window approach (using a 1-nucleotide step), recording the number of all TOPMED variants and common variants, irrespective of their predicted effect, within each window, to eventually calculate a single-nucleotide resolution genome-wide residual variation intolerance score (gwRVIS). That score, gwRVIS was then combined with primary genomic sequence context, and additional genomic annotations with a multi-module deep learning framework to infer pathogenicity of noncoding regions that still remains naive to existing phylogenetic conservation metrics. The higher the score, the more deleterious the prediction. This score covers the entire genome, except the gaps. HMC - Homologous Missense Constraint: Homologous Missense Constraint (HMC) is a amino acid level measure of genetic intolerance of missense variants within human populations. For all assessable amino-acid positions in Pfam domains, the number of missense substitutions directly observed in gnomAD (Observed) was counted and compared to the expected value under a neutral evolution model (Expected). The upper limit of a 95% confidence interval for the Observed/Expected ratio is defined as the HMC score. Missense variants disrupting the amino-acid positions with HMC&lt;0.8 are predicted to be likely deleterious. This score only covers PFAM domains within coding regions. MetaDome - Tolerance Landscape Score (hg19 only): MetaDome Tolerance Landscape scores are computed as a missense over synonymous variant count ratio, which is calculated in a sliding window (with a size of 21 codons/residues) to provide a per-position indication of regional tolerance to missense variation. The variant database was gnomAD and the score corrected for codon composition. Scores &lt;0.7 are considered intolerant. This score covers only coding regions. MTR - Missense Tolerance Ratio (hg19 only): Missense Tolerance Ratio (MTR) scores aim to quantify the amount of purifying selection acting specifically on missense variants in a given window of protein-coding sequence. It is estimated across sliding windows of 31 codons (default) and uses observed standing variation data from the WES component of gnomAD version 2.0. Scores were computed using Ensembl v95 release. The number of gnomAD 2 exomes used here is higher than the number of gnomAD 3 samples (125 exoms versus 76k full genomes), and this score only covers coding regions so gnomAD 2 was more appropriate. LINSIGHT (hg19 only): LINSIGHT is a statistical model for estimating negative selection on noncoding sequences in the human genome. The LINSIGHT score measures the probability of negative selection on non-coding sites which can be used to prioritize SNVs associated with genetic diseases or quantify evolutionary constraint on regulatory sequences, e.g., enhancers or promoters. More specifically, if a non-coding site is under negative selection, it will be less likely to have a substitution or SNV in the human lineage. In addition, even if we see a SNV at the site, it will tend to segregate at low frequency because of selection. See (Huang et al, Nat Genet 2017). UK Biobank depletion rank score (hg38 only): Halldorsson et al. tabulated the number of UK Biobank variants in each 500bp window of the genome and compared this number to an expected number given the heptamer nucleotide composition of the window and the fraction of heptamers with a sequence variant across the genome and their mutational classes. A variant depletion score was computed for every overlapping set of 500-bp windows in the genome with a 50-bp step size. They then assigned a rank (depletion rank (DR)) from 0 (most depletion) to 100 (least depletion) for each 500-bp window. Since the windows are overlapping, we plot the value only in the central 50bp of the 500bp window, following advice from the author of the score, Hakon Jonsson, deCODE Genetics. He suggested that the value of the central window, rather than the worst possible score of all overlapping windows, is the most informative for a position. This score covers almost the entire genome, only very few regions were excluded, where the genome sequence had too many gap characters. Display Conventions and Configuration JARVIS JARVIS scores are shown as a signal ("wiggle") track, with one score per genome position. Mousing over the bars displays the exact values. The scores were downloaded and converted to a single bigWig file. Move the mouse over the bars to display the exact values. A horizontal line is shown at the 0.733 value which signifies the 90th percentile. See hg19 makeDoc and hg38 makeDoc. Interpretation: The authors offer a suggested guideline of > 0.9998 for identifying higher confidence calls and minimizing false positives. In addition to that strict threshold, the following two more relaxed cutoffs can be used to explore additional hits. Note that these thresholds are offered as guidelines and are not necessarily representative of pathogenicity. PercentileJARVIS score threshold 99th0.9998 95th0.9826 90th0.7338 HMC HMC scores are displayed as a signal ("wiggle") track, with one score per genome position. Mousing over the bars displays the exact values. The highly-constrained cutoff of 0.8 is indicated with a line. Interpretation: A protein residue with HMC score &lt;1 indicates that missense variants affecting the homologous residues are significantly under negative selection (P-value &lt; 0.05) and likely to be deleterious. A more stringent score threshold of HMC&lt;0.8 is recommended to prioritize predicted disease-associated variants. MetaDome MetaDome data can be found on two tracks, MetaDome and MetaDome All Data. The MetaDome track should be used by default for data exploration. In this track the raw data containing the MetaDome tolerance scores were converted into a signal ("wiggle") track. Since this data was computed on the proteome, there was a small amount of coordinate overlap, roughly 0.42%. In these regions the lowest possible score was chosen for display in the track to maintain sensitivity. For this reason, if a protein variant is being evaluated, the MetaDome All Data track can be used to validate the score. More information on this data can be found in the MetaDome FAQ. Interpretation: The authors suggest the following guidelines for evaluating intolerance. By default, the MetaDome track displays a horizontal line at 0.7 which signifies the first intolerant bin. For more information see the MetaDome publication. ClassificationMetaDome Tolerance Score Highly intolerant&le; 0.175 Intolerant&le; 0.525 Slightly intolerant&le; 0.7 MTR MTR data can be found on two tracks, MTR All data and MTR Scores. In the MTR Scores track the data has been converted into 4 separate signal tracks representing each base pair mutation, with the lowest possible score shown when multiple transcripts overlap at a position. Overlaps can happen since this score is derived from transcripts and multiple transcripts can overlap. A horizontal line is drawn on the 0.8 score line to roughly represent the 25th percentile, meaning the items below may be of particular interest. It is recommended that the data be explored using this version of the track, as it condenses the information substantially while retaining the magnitude of the data. Any specific point mutations of interest can then be researched in the MTR All data track. This track contains all of the information from MTRV2 including more than 3 possible scores per base when transcripts overlap. A mouse-over on this track shows the ref and alt allele, as well as the MTR score and the MTR score percentile. Filters are available for MTR score, False Discovery Rate (FDR), MTR percentile, and variant consequence. By default, only items in the bottom 25 percentile are shown. Items in the track are colored according to their MTR percentile: Green items MTR percentiles over 75 Black items MTR percentiles between 25 and 75 Red items MTR percentiles below 25 Blue items No MTR score Interpretation: Regions with low MTR scores were seen to be enriched with pathogenic variants. For example, ClinVar pathogenic variants were seen to have an average score of 0.77 whereas ClinVar benign variants had an average score of 0.92. Further validation using the FATHMM cancer-associated training dataset saw that scores less than 0.5 contained 8.6% of the pathogenic variants while only containing 0.9% of neutral variants. In summary, lower scores are more likely to represent pathogenic variants whereas higher scores could be pathogenic, but have a higher chance to be a false positive. For more information see the MTR-Viewer publication. Methods JARVIS Scores were downloaded and converted to a single bigWig file. See the hg19 makeDoc and the hg38 makeDoc for more info. HMC Scores were downloaded and converted to .bedGraph files with a custom Python script. The bedGraph files were then converted to bigWig files, as documented in our makeDoc hg19 build log. MetaDome The authors provided a bed file containing codon coordinates along with the scores. This file was parsed with a python script to create the two tracks. For the first track the scores were aggregated for each coordinate, then the lowest score chosen for any overlaps and the result written out to bedGraph format. The file was then converted to bigWig with the bedGraphToBigWig utility. For the second track the file was reorganized into a bed 4+3 and conveted to bigBed with the bedToBigBed utility. See the hg19 makeDoc for details including the build script. The raw MetaDome data can also be accessed via their Zenodo handle. MTR V2 file was downloaded and columns were reshuffled as well as itemRgb added for the MTR All data track. For the MTR Scores track the file was parsed with a python script to pull out the highest possible MTR score for each of the 3 possible mutations at each base pair and 4 tracks built out of these values representing each mutation. See the hg19 makeDoc entry on MTR for more info. Data Access The raw data can be explored interactively with the Table Browser, or the Data Integrator. For automated access, this track, like all others, is available via our API. However, for bulk processing, it is recommended to download the dataset. For automated download and analysis, the genome annotation is stored at UCSC in bigWig and bigBed files that can be downloaded from our download server. Individual regions or the whole genome annotation can be obtained using our tools bigWigToWig or bigBedToBed which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tools can also be used to obtain features confined to a given range, e.g., bigWigToBedGraph -chrom=chr1 -start=100000 -end=100500 http://hgdownload.soe.ucsc.edu/gbdb/hg38/hmc/hmc.bw stdout Please refer to our Data Access FAQ for more information. Credits Thanks to Jean-Madeleine Desainteagathe (APHP Paris, France) for suggesting the JARVIS, MTR, HMC tracks. Thanks to Xialei Zhang for providing the HMC data file and to Dimitrios Vitsios and Slave Petrovski for helping clean up the hg38 JARVIS files for providing guidance on interpretation. Additional thanks to Laurens van de Wiel for providing the MetaDome data as well as guidance on the track development and interpretation. References Vitsios D, Dhindsa RS, Middleton L, Gussow AB, Petrovski S. Prioritizing non-coding regions based on human genomic constraint and sequence context with deep learning. Nat Commun. 2021 Mar 8;12(1):1504. PMID: 33686085; PMC: PMC7940646 Xiaolei Zhang, Pantazis I. Theotokis, Nicholas Li, the SHaRe Investigators, Caroline F. Wright, Kaitlin E. Samocha, Nicola Whiffin, James S. Ware Genetic constraint at single amino acid resolution improves missense variant prioritisation and gene discovery. Medrxiv 2022.02.16.22271023 Wiel L, Baakman C, Gilissen D, Veltman JA, Vriend G, Gilissen C. MetaDome: Pathogenicity analysis of genetic variants through aggregation of homologous human protein domains. Hum Mutat. 2019 Aug;40(8):1030-1038. PMID: 31116477; PMC: PMC6772141 Silk M, Petrovski S, Ascher DB. MTR-Viewer: identifying regions within genes under purifying selection. Nucleic Acids Res. 2019 Jul 2;47(W1):W121-W126. PMID: 31170280; PMC: PMC6602522 Halldorsson BV, Eggertsson HP, Moore KHS, Hauswedell H, Eiriksson O, Ulfarsson MO, Palsson G, Hardarson MT, Oddsson A, Jensson BO et al. The sequences of 150,119 genomes in the UK Biobank. Nature. 2022 Jul;607(7920):732-740. PMID: 35859178; PMC: PMC9329122 Huang YF, Gulko B, Siepel A. Fast, scalable prediction of deleterious noncoding variants from functional and population genomic data. Nat Genet. 2017 Apr;49(4):618-624. PMID: 28288115; PMC: PMC5395419 
wgEncodeGencodeV49 All GENCODE V49 All GENCODE annotations from V49 (Ensembl 115) Genes and Gene Predictions Description The GENCODE Genes track (version 49, Sept 2025) shows high-quality manual annotations merged with evidence-based automated annotations across the entire human genome generated by the GENCODE project. The GENCODE gene set presents a full merge between HAVANA manual annotation process and Ensembl automatic annotation pipeline. Priority is given to the manually curated HAVANA annotation using predicted Ensembl annotations when there are no corresponding manual annotations. The 49 annotation was carried out on genome assembly GRCh38 (hg38). The Ensembl human and mouse data sets are the same gene annotations as GENCODE for the corresponding release. Display Conventions and Configuration This track is a multi-view composite track that contains differing data sets (views). Instructions for configuring multi-view tracks are here. To show only selected subtracks, uncheck the boxes next to the tracks that you wish to hide. Views available on this track are: Genes The gene annotations in this view are divided into three subtracks: GENCODE Basic set is a subset of the Comprehensive set. The selection criteria are described in the methods section. GENCODE Comprehensive set contains all GENCODE coding and non-coding transcript annotations, including polymorphic pseudogenes. This includes both manual and automatic annotations. This is a super-set of the Basic set. GENCODE Pseudogenes include all annotations except polymorphic pseudogenes. PolyA GENCODE PolyA contains polyA signals and sites manually annotated on the genome based on transcribed evidence (ESTs and cDNAs) of 3' end of transcripts containing at least 3 A's not matching the genome. Maximum number of transcripts to display is available for the items in the GENCODE Basic, Comprehensive and Pseudogene tracks. Starting with the GENCODE human V42 and mouse VM31 releases, transcripts are assigned rank within the gene. The ranks may be used to filter the number of transcripts displayed in a principled manner. Transcript ranking is not available in the lift37 releases. See Methods for details of rank assignment. Filtering is available for the items in the GENCODE Basic, Comprehensive and Pseudogene tracks using the following criteria: Transcript class: filter by the basic biological function of a transcript annotation All - don't filter by transcript class coding - display protein coding transcripts, including polymorphic pseudogenes nonCoding - display non-protein coding transcripts pseudo - display pseudogene transcript annotations problem - display problem transcripts (Biotypes of retained_intron, TEC, or disrupted_domain) Transcript Annotation Method: filter by the method used to create the annotation All - don't filter by transcript class manual - display manually created annotations, including those that are also created automatically automatic - display automatically created annotations, including those that are also created manually manual_only - display manually created annotations that were not annotated by the automatic method automatic_only - display automatically created annotations that were not annotated by the manual method Transcript Biotype: filter transcripts by Biotype Support Level: filter transcripts by transcription support level Coloring for the gene annotations is based on the annotation type: coding non-coding pseudogene problem all polyA annotations Methods The GENCODE project aims to annotate all evidence-based gene features on the human and mouse reference sequence with high accuracy by integrating computational approaches (including comparative methods), manual annotation and targeted experimental verification. This goal includes identifying all protein-coding loci with associated alternative variants, non-coding loci which have transcript evidence, and pseudogenes. For a detailed description of the methods and references used, see Harrow et al. (2006). GENCODE Basic Set selection: The GENCODE Basic Set is intended to provide a simplified subset of the GENCODE transcript annotations that will be useful to the majority of users. The goal was to have a high-quality basic set that also covered all loci. Selection of GENCODE annotations for inclusion in the basic set was determined independently for the coding and non-coding transcripts at each gene locus. Criteria for selection of coding transcripts (including polymorphic pseudogenes) at a given locus: All full-length coding transcripts (except problem transcripts or transcripts that are nonsense-mediated decay) were included in the basic set. If there were no transcripts meeting the above criteria, then the partial coding transcript with the largest CDS was included in the basic set (excluding problem transcripts). Criteria for selection of non-coding transcripts at a given locus: All full-length non-coding transcripts (except problem transcripts) with a well characterized Biotype (see below) were included in the basic set. If there were no transcripts meeting the above criteria, then the largest non-coding transcript was included in the basic set (excluding problem transcripts). If no transcripts were included by either of the above criteria, the longest problem transcript is included. Non-coding transcript categorization: Non-coding transcripts are categorized using their biotype and the following criteria: well characterized: antisense, Mt_rRNA, Mt_tRNA, miRNA, rRNA, snRNA, snoRNA poorly characterized: 3prime_overlapping_ncrna, lincRNA, misc_RNA, non_coding, processed_transcript, sense_intronic, sense_overlapping Transcript ranking: Within each gene, transcripts have been ranked according to the following criteria. The ranking approach is preliminary and will change is future releases. Protein_coding genes MANE or Ensembl canonical -1st: MANE Select / Ensembl canonical -2nd: MANE Plus Clinical Coding biotypes -1st: protein_coding and protein_coding_LoF -2nd: NMDs and NSDs -3rd: retained intron and protein_coding_CDS_not_defined Completeness -1st: full length -2nd: CDS start/end not found CARS score (only for coding transcripts) Transcript genomic span and length (only for non-coding transcripts) Non-coding genes Transcript biotype -1st: transcript biotype identical to gene biotype Ensembl canonical GENCODE basic Transcript genomic span Transcript length Transcription Support Level (TSL): It is important that users understand how to assess transcript annotations that they see in GENCODE. While some transcript models have a high level of support through the full length of their exon structure, there are also transcripts that are poorly supported and that should be considered speculative. The Transcription Support Level (TSL) is a method to highlight the well-supported and poorly-supported transcript models for users. The method relies on the primary data that can support full-length transcript structure: mRNA and EST alignments supplied by UCSC and Ensembl. The mRNA and EST alignments are compared to the GENCODE transcripts and the transcripts are scored according to how well the alignment matches over its full length. The GENCODE TSL provides a consistent method of evaluating the level of support that a GENCODE transcript annotation is actually expressed in mouse. Mouse transcript sequences from the International Nucleotide Sequence Database Collaboration (GenBank, ENA, and DDBJ) are used as the evidence for this analysis. Exonerate RNA alignments from Ensembl, BLAT RNA and EST alignments from the UCSC Genome Browser Database are used in the analysis. Erroneous transcripts and libraries identified in lists maintained by the Ensembl, UCSC, HAVANA and RefSeq groups are flagged as suspect. GENCODE annotations for protein-coding and non-protein-coding transcripts are compared with the evidence alignments. Annotations in the MHC region and other immunological genes are not evaluated, as automatic alignments tend to be very problematic. Methods for evaluating single-exon genes are still being developed and they are not included in the current analysis. Multi-exon GENCODE annotations are evaluated using the criteria that all introns are supported by an evidence alignment and the evidence alignment does not indicate that there are unannotated exons. Small insertions and deletions in evidence alignments are assumed to be due to polymorphisms and not considered as differing from the annotations. All intron boundaries must match exactly. The transcript start and end locations are allowed to differ. The following categories are assigned to each of the evaluated annotations: tsl1 - all splice junctions of the transcript are supported by at least one non-suspect mRNA tsl2 - the best supporting mRNA is flagged as suspect or the support is from multiple ESTs tsl3 - the only support is from a single EST tsl4 - the best supporting EST is flagged as suspect tsl5 - no single transcript supports the model structure tslNA - the transcript was not analyzed for one of the following reasons: pseudogene annotation, including transcribed pseudogenes immunoglobin gene transcript T-cell receptor transcript single-exon transcript (will be included in a future version) APPRIS is a system to annotate alternatively spliced transcripts based on a range of computational methods. It provides value to the annotations of the human, mouse, zebrafish, rat, and pig genomes. APPRIS has selected a single CDS variant for each gene as the 'PRINCIPAL' isoform. Principal isoforms are tagged with the numbers 1 to 5, with 1 being the most reliable. PRINCIPAL:1 - Transcript(s) expected to code for the main functional isoform based solely on the core modules in the APPRIS. PRINCIPAL:2 - Where the APPRIS core modules are unable to choose a clear principal variant (approximately 25% of human protein coding genes), the database chooses two or more of the CDS variants as "candidates" to be the principal variant. PRINCIPAL:3 - Where the APPRIS core modules are unable to choose a clear principal variant and more than one of the variants have distinct CCDS identifiers, APPRIS selects the variant with lowest CCDS identifier as the principal variant. The lower the CCDS identifier, the earlier it was annotated. PRINCIPAL:4 - Where the APPRIS core modules are unable to choose a clear principal CDS and there is more than one variant with distinct (but consecutive) CCDS identifiers, APPRIS selects the longest CCDS isoform as the principal variant. PRINCIPAL:5 - Where the APPRIS core modules are unable to choose a clear principal variant and none of the candidate variants are annotated by CCDS, APPRIS selects the longest of the candidate isoforms as the principal variant. For genes in which the APPRIS core modules are unable to choose a clear principal variant (approximately 25% of human protein coding genes), the "candidate" variants not chosen as principal are labeled in the following way: ALTERNATIVE:1 - Candidate transcript(s) models that are conserved in at least three tested species. ALTERNATIVE:2 - Candidate transcript(s) models that appear to be conserved in fewer than three tested species. Non-candidate transcripts are not tagged and are considered as "Minor" transcripts. Further information and additional web services can be found at the APPRIS website. Downloads GENCODE GFF3 and GTF files are available from the GENCODE release 49 site. Verification Selected transcript models are verified experimentally by RT-PCR amplification followed by sequencing. Those experiments can be found at GEO: GSE30619:[E-MTAB-612] - Batch I is based on annotation from July 2008 (without pseudogenes). GSE25711:[E-MTAB-407] - Batch II is based on annotation from April 2009. GSE30612:[E-MTAB-533] - Batch III is verifying RGASP models for c.elegans and human. GSE34797:[E-MTAB-684] - Batch IV is based on chromosome 3, 4 and 5 annotations from GENCODE 4 (January 2010). GSE34820:[E-MTAB-737] - Batch V is based on annotations from GENCODE 6 (November 2010). GSE34821:[E-MTAB-831] - Batch VI is based on annotations from GENCODE 6 (November 2010) as well as transcript models predicted by the Ensembl Genebuild group based on the Illumina Human BodyMap 2.0 data. See Harrow et al. (2006) for information on verification techniques. Release Notes GENCODE version 49 corresponds to Ensembl 115. See also: The GENCODE Project Credits The GENCODE project is an international collaboration funded by NIH/NHGRI grant U41HG007234. More information is available at www.gencodegenes.org, Participating GENCODE institutions and personnel can be found here. References Frankish A, Diekhans M, Jungreis I, Lagarde J, Loveland JE, Mudge JM, Sisu C, Wright JC, Armstrong J, Barnes I et al. GENCODE 2021. Nucleic Acids Res. 2021 Jan 8;49(D1):D916-D923. PMID: 33270111; PMC: PMC7778937; DOI: 10.1093/nar/gkaa1087 A full list of GENCODE publications are available at The GENCODE Project web site. Data Release Policy GENCODE data are available for use without restrictions. 
wgEncodeGencodeSuper GENCODE Versions Container of all new and previous GENCODE releases Genes and Gene Predictions Description The aim of the GENCODE Genes project (Harrow et al., 2006) is to produce a set of highly accurate annotations of evidence-based gene features on the human reference genome. This includes the identification of all protein-coding loci with associated alternative splice variants, non-coding with transcript evidence in the public databases (NCBI/EMBL/DDBJ) and pseudogenes. A high quality set of gene structures is necessary for many research studies such as comparative or evolutionary analyses, or for experimental design and interpretation of the results. The GENCODE Genes tracks display the high-quality manual annotations merged with evidence-based automated annotations across the entire human genome. The GENCODE gene set presents a full merge between HAVANA manual annotation and Ensembl automatic annotation. Priority is given to the manually curated HAVANA annotation using predicted Ensembl annotations when there are no corresponding manual annotations. With each release, there is an increase in the number of annotations that have undergone manual curation. This annotation was carried out on the GRCh38 (hg38) genome assembly. For more information on the different gene tracks, see our Genes FAQ. Display Conventions These are multi-view composite tracks that contain differing data sets (views). Instructions for configuring multi-view tracks are here. Only some subtracks are shown by default. The user can select which subtracks are displayed via the display controls on the track details pages. Further details on display conventions and data interpretation are available in the track descriptions. Data access GENCODE Genes and its associated tables can be explored interactively using the REST API, the Table Browser or the Data Integrator. The GENCODE data files for hg38 are available in our downloads directory as wgEncodeGencode* files in genePred format. All the tables can also be queried directly from our public MySQL servers, with instructions on this method available on our MySQL help page as well as on our blog. Release Notes GENCODE version 49 corresponds to Ensembl 115. GENCODE version 48 corresponds to Ensembl 114. GENCODE version 47 corresponds to Ensembl 113. GENCODE version 46 corresponds to Ensembl 112. GENCODE version 45 corresponds to Ensembl 111. GENCODE version 44 corresponds to Ensembl 110. GENCODE version 43 corresponds to Ensembl 109. GENCODE version 42 corresponds to Ensembl 108. GENCODE version 41 corresponds to Ensembl 107. GENCODE version 40 corresponds to Ensembl 106. GENCODE version 39 corresponds to Ensembl 105. GENCODE version 38 corresponds to Ensembl 104. GENCODE version 37 corresponds to Ensembl 103. GENCODE version 36 corresponds to Ensembl 102. GENCODE version 35 corresponds to Ensembl 101. GENCODE version 34 corresponds to Ensembl 100. GENCODE version 33 corresponds to Ensembl 99. GENCODE version 30 corresponds to Ensembl 96. GENCODE version 29 corresponds to Ensembl 94. GENCODE version 28 corresponds to Ensembl 92. GENCODE version 27 corresponds to Ensembl 90. GENCODE version 26 corresponds to Ensembl 88. GENCODE version 24 corresponds to Ensembl 84. GENCODE version 23 corresponds to Ensembl 81. GENCODE version 22 corresponds to Ensembl 79. GENCODE version 20 corresponds to Ensembl 76. See also: The GENCODE Project Release History. Credits The GENCODE project is an international collaboration funded by NIH/NHGRI grant U41HG007234. More information is available at www.gencodegenes.org, Participating GENCODE institutions and personnel can be found here. References Frankish A, Diekhans M, Jungreis I, Lagarde J, Loveland JE, Mudge JM, Sisu C, Wright JC, Armstrong J, Barnes I et al. GENCODE 2021. Nucleic Acids Res. 2021 Jan 8;49(D1):D916-D923. PMID: 33270111; PMC: PMC7778937; DOI: 10.1093/nar/gkaa1087 A full list of GENCODE publications are available at The GENCODE Project web site. Data Release Policy GENCODE data are available for use without restrictions. 
wgEncodeGencodeV49ViewPolya PolyA All GENCODE annotations from V49 (Ensembl 115) Genes and Gene Predictions 
wgEncodeGencodePolyaV49 PolyA PolyA Transcript Annotation Set from GENCODE Version 49 (Ensembl 115) Genes and Gene Predictions 
wgEncodeGencodeV49ViewGenes Genes All GENCODE annotations from V49 (Ensembl 115) Genes and Gene Predictions 
wgEncodeGencodePseudoGeneV49 Pseudogenes Pseudogene Annotation Set from GENCODE Version 49 (Ensembl 115) Genes and Gene Predictions 
wgEncodeGencodeCompV49 Comprehensive Comprehensive Gene Annotation Set from GENCODE Version 49 (Ensembl 115) Genes and Gene Predictions 
wgEncodeGencodeBasicV49 Basic Basic Gene Annotation Set from GENCODE Version 49 (Ensembl 115) Genes and Gene Predictions 
wgEncodeGencodeV48 All GENCODE V48 All GENCODE annotations from V48 (Ensembl 114) Genes and Gene Predictions Description The GENCODE Genes track (version 48, May 2025) shows high-quality manual annotations merged with evidence-based automated annotations across the entire human genome generated by the GENCODE project. The GENCODE gene set presents a full merge between HAVANA manual annotation process and Ensembl automatic annotation pipeline. Priority is given to the manually curated HAVANA annotation using predicted Ensembl annotations when there are no corresponding manual annotations. The 48 annotation was carried out on genome assembly GRCh38 (hg38). The Ensembl human and mouse data sets are the same gene annotations as GENCODE for the corresponding release. Display Conventions and Configuration This track is a multi-view composite track that contains differing data sets (views). Instructions for configuring multi-view tracks are here. To show only selected subtracks, uncheck the boxes next to the tracks that you wish to hide. Views available on this track are: Genes The gene annotations in this view are divided into three subtracks: GENCODE Basic set is a subset of the Comprehensive set. The selection criteria are described in the methods section. GENCODE Comprehensive set contains all GENCODE coding and non-coding transcript annotations, including polymorphic pseudogenes. This includes both manual and automatic annotations. This is a super-set of the Basic set. GENCODE Pseudogenes include all annotations except polymorphic pseudogenes. PolyA GENCODE PolyA contains polyA signals and sites manually annotated on the genome based on transcribed evidence (ESTs and cDNAs) of 3' end of transcripts containing at least 3 A's not matching the genome. Maximum number of transcripts to display is available for the items in the GENCODE Basic, Comprehensive and Pseudogene tracks. Starting with the GENCODE human V42 and mouse VM31 releases, transcripts are assigned rank within the gene. The ranks may be used to filter the number of transcripts displayed in a principled manner. Transcript ranking is not available in the lift37 releases. See Methods for details of rank assignment. Filtering is available for the items in the GENCODE Basic, Comprehensive and Pseudogene tracks using the following criteria: Transcript class: filter by the basic biological function of a transcript annotation All - don't filter by transcript class coding - display protein coding transcripts, including polymorphic pseudogenes nonCoding - display non-protein coding transcripts pseudo - display pseudogene transcript annotations problem - display problem transcripts (Biotypes of retained_intron, TEC, or disrupted_domain) Transcript Annotation Method: filter by the method used to create the annotation All - don't filter by transcript class manual - display manually created annotations, including those that are also created automatically automatic - display automatically created annotations, including those that are also created manually manual_only - display manually created annotations that were not annotated by the automatic method automatic_only - display automatically created annotations that were not annotated by the manual method Transcript Biotype: filter transcripts by Biotype Support Level: filter transcripts by transcription support level Coloring for the gene annotations is based on the annotation type: coding non-coding pseudogene problem all polyA annotations Methods The GENCODE project aims to annotate all evidence-based gene features on the human and mouse reference sequence with high accuracy by integrating computational approaches (including comparative methods), manual annotation and targeted experimental verification. This goal includes identifying all protein-coding loci with associated alternative variants, non-coding loci which have transcript evidence, and pseudogenes. For a detailed description of the methods and references used, see Harrow et al. (2006). GENCODE Basic Set selection: The GENCODE Basic Set is intended to provide a simplified subset of the GENCODE transcript annotations that will be useful to the majority of users. The goal was to have a high-quality basic set that also covered all loci. Selection of GENCODE annotations for inclusion in the basic set was determined independently for the coding and non-coding transcripts at each gene locus. Criteria for selection of coding transcripts (including polymorphic pseudogenes) at a given locus: All full-length coding transcripts (except problem transcripts or transcripts that are nonsense-mediated decay) were included in the basic set. If there were no transcripts meeting the above criteria, then the partial coding transcript with the largest CDS was included in the basic set (excluding problem transcripts). Criteria for selection of non-coding transcripts at a given locus: All full-length non-coding transcripts (except problem transcripts) with a well characterized Biotype (see below) were included in the basic set. If there were no transcripts meeting the above criteria, then the largest non-coding transcript was included in the basic set (excluding problem transcripts). If no transcripts were included by either of the above criteria, the longest problem transcript is included. Non-coding transcript categorization: Non-coding transcripts are categorized using their biotype and the following criteria: well characterized: antisense, Mt_rRNA, Mt_tRNA, miRNA, rRNA, snRNA, snoRNA poorly characterized: 3prime_overlapping_ncrna, lincRNA, misc_RNA, non_coding, processed_transcript, sense_intronic, sense_overlapping Transcript ranking: Within each gene, transcripts have been ranked according to the following criteria. The ranking approach is preliminary and will change is future releases. Protein_coding genes MANE or Ensembl canonical -1st: MANE Select / Ensembl canonical -2nd: MANE Plus Clinical Coding biotypes -1st: protein_coding and protein_coding_LoF -2nd: NMDs and NSDs -3rd: retained intron and protein_coding_CDS_not_defined Completeness -1st: full length -2nd: CDS start/end not found CARS score (only for coding transcripts) Transcript genomic span and length (only for non-coding transcripts) Non-coding genes Transcript biotype -1st: transcript biotype identical to gene biotype Ensembl canonical GENCODE basic Transcript genomic span Transcript length Transcription Support Level (TSL): It is important that users understand how to assess transcript annotations that they see in GENCODE. While some transcript models have a high level of support through the full length of their exon structure, there are also transcripts that are poorly supported and that should be considered speculative. The Transcription Support Level (TSL) is a method to highlight the well-supported and poorly-supported transcript models for users. The method relies on the primary data that can support full-length transcript structure: mRNA and EST alignments supplied by UCSC and Ensembl. The mRNA and EST alignments are compared to the GENCODE transcripts and the transcripts are scored according to how well the alignment matches over its full length. The GENCODE TSL provides a consistent method of evaluating the level of support that a GENCODE transcript annotation is actually expressed in mouse. Mouse transcript sequences from the International Nucleotide Sequence Database Collaboration (GenBank, ENA, and DDBJ) are used as the evidence for this analysis. Exonerate RNA alignments from Ensembl, BLAT RNA and EST alignments from the UCSC Genome Browser Database are used in the analysis. Erroneous transcripts and libraries identified in lists maintained by the Ensembl, UCSC, HAVANA and RefSeq groups are flagged as suspect. GENCODE annotations for protein-coding and non-protein-coding transcripts are compared with the evidence alignments. Annotations in the MHC region and other immunological genes are not evaluated, as automatic alignments tend to be very problematic. Methods for evaluating single-exon genes are still being developed and they are not included in the current analysis. Multi-exon GENCODE annotations are evaluated using the criteria that all introns are supported by an evidence alignment and the evidence alignment does not indicate that there are unannotated exons. Small insertions and deletions in evidence alignments are assumed to be due to polymorphisms and not considered as differing from the annotations. All intron boundaries must match exactly. The transcript start and end locations are allowed to differ. The following categories are assigned to each of the evaluated annotations: tsl1 - all splice junctions of the transcript are supported by at least one non-suspect mRNA tsl2 - the best supporting mRNA is flagged as suspect or the support is from multiple ESTs tsl3 - the only support is from a single EST tsl4 - the best supporting EST is flagged as suspect tsl5 - no single transcript supports the model structure tslNA - the transcript was not analyzed for one of the following reasons: pseudogene annotation, including transcribed pseudogenes immunoglobin gene transcript T-cell receptor transcript single-exon transcript (will be included in a future version) APPRIS is a system to annotate alternatively spliced transcripts based on a range of computational methods. It provides value to the annotations of the human, mouse, zebrafish, rat, and pig genomes. APPRIS has selected a single CDS variant for each gene as the 'PRINCIPAL' isoform. Principal isoforms are tagged with the numbers 1 to 5, with 1 being the most reliable. PRINCIPAL:1 - Transcript(s) expected to code for the main functional isoform based solely on the core modules in the APPRIS. PRINCIPAL:2 - Where the APPRIS core modules are unable to choose a clear principal variant (approximately 25% of human protein coding genes), the database chooses two or more of the CDS variants as "candidates" to be the principal variant. PRINCIPAL:3 - Where the APPRIS core modules are unable to choose a clear principal variant and more than one of the variants have distinct CCDS identifiers, APPRIS selects the variant with lowest CCDS identifier as the principal variant. The lower the CCDS identifier, the earlier it was annotated. PRINCIPAL:4 - Where the APPRIS core modules are unable to choose a clear principal CDS and there is more than one variant with distinct (but consecutive) CCDS identifiers, APPRIS selects the longest CCDS isoform as the principal variant. PRINCIPAL:5 - Where the APPRIS core modules are unable to choose a clear principal variant and none of the candidate variants are annotated by CCDS, APPRIS selects the longest of the candidate isoforms as the principal variant. For genes in which the APPRIS core modules are unable to choose a clear principal variant (approximately 25% of human protein coding genes), the "candidate" variants not chosen as principal are labeled in the following way: ALTERNATIVE:1 - Candidate transcript(s) models that are conserved in at least three tested species. ALTERNATIVE:2 - Candidate transcript(s) models that appear to be conserved in fewer than three tested species. Non-candidate transcripts are not tagged and are considered as "Minor" transcripts. Further information and additional web services can be found at the APPRIS website. Downloads GENCODE GFF3 and GTF files are available from the GENCODE release 48 site. Verification Selected transcript models are verified experimentally by RT-PCR amplification followed by sequencing. Those experiments can be found at GEO: GSE30619:[E-MTAB-612] - Batch I is based on annotation from July 2008 (without pseudogenes). GSE25711:[E-MTAB-407] - Batch II is based on annotation from April 2009. GSE30612:[E-MTAB-533] - Batch III is verifying RGASP models for c.elegans and human. GSE34797:[E-MTAB-684] - Batch IV is based on chromosome 3, 4 and 5 annotations from GENCODE 4 (January 2010). GSE34820:[E-MTAB-737] - Batch V is based on annotations from GENCODE 6 (November 2010). GSE34821:[E-MTAB-831] - Batch VI is based on annotations from GENCODE 6 (November 2010) as well as transcript models predicted by the Ensembl Genebuild group based on the Illumina Human BodyMap 2.0 data. See Harrow et al. (2006) for information on verification techniques. Release Notes GENCODE version 48 corresponds to Ensembl 114. See also: The GENCODE Project Credits The GENCODE project is an international collaboration funded by NIH/NHGRI grant U41HG007234. More information is available at www.gencodegenes.org, Participating GENCODE institutions and personnel can be found here. References Frankish A, Diekhans M, Jungreis I, Lagarde J, Loveland JE, Mudge JM, Sisu C, Wright JC, Armstrong J, Barnes I et al. GENCODE 2021. Nucleic Acids Res. 2021 Jan 8;49(D1):D916-D923. PMID: 33270111; PMC: PMC7778937; DOI: 10.1093/nar/gkaa1087 A full list of GENCODE publications are available at The GENCODE Project web site. Data Release Policy GENCODE data are available for use without restrictions. 
wgEncodeGencodeV48ViewPolya PolyA All GENCODE annotations from V48 (Ensembl 114) Genes and Gene Predictions 
wgEncodeGencodePolyaV48 PolyA PolyA Transcript Annotation Set from GENCODE Version 48 (Ensembl 114) Genes and Gene Predictions 
wgEncodeGencodeV48ViewGenes Genes All GENCODE annotations from V48 (Ensembl 114) Genes and Gene Predictions 
wgEncodeGencodePseudoGeneV48 Pseudogenes Pseudogene Annotation Set from GENCODE Version 48 (Ensembl 114) Genes and Gene Predictions 
wgEncodeGencodeCompV48 Comprehensive Comprehensive Gene Annotation Set from GENCODE Version 48 (Ensembl 114) Genes and Gene Predictions 
wgEncodeGencodeBasicV48 Basic Basic Gene Annotation Set from GENCODE Version 48 (Ensembl 114) Genes and Gene Predictions 
wgEncodeGencodeV47 All GENCODE V47 All GENCODE annotations from V47 (Ensembl 113) Genes and Gene Predictions Description The GENCODE Genes track (version 47, Oct 2024) shows high-quality manual annotations merged with evidence-based automated annotations across the entire human genome generated by the GENCODE project. The GENCODE gene set presents a full merge between HAVANA manual annotation process and Ensembl automatic annotation pipeline. Priority is given to the manually curated HAVANA annotation using predicted Ensembl annotations when there are no corresponding manual annotations. The 47 annotation was carried out on genome assembly GRCh38 (hg38). The Ensembl human and mouse data sets are the same gene annotations as GENCODE for the corresponding release. Display Conventions and Configuration This track is a multi-view composite track that contains differing data sets (views). Instructions for configuring multi-view tracks are here. To show only selected subtracks, uncheck the boxes next to the tracks that you wish to hide. Views available on this track are: Genes The gene annotations in this view are divided into three subtracks: GENCODE Basic set is a subset of the Comprehensive set. The selection criteria are described in the methods section. GENCODE Comprehensive set contains all GENCODE coding and non-coding transcript annotations, including polymorphic pseudogenes. This includes both manual and automatic annotations. This is a super-set of the Basic set. GENCODE Pseudogenes include all annotations except polymorphic pseudogenes. PolyA GENCODE PolyA contains polyA signals and sites manually annotated on the genome based on transcribed evidence (ESTs and cDNAs) of 3' end of transcripts containing at least 3 A's not matching the genome. Maximum number of transcripts to display is available for the items in the GENCODE Basic, Comprehensive and Pseudogene tracks. Starting with the GENCODE human V42 and mouse VM31 releases, transcripts are assigned rank within the gene. The ranks may be used to filter the number of transcripts displayed in a principled manner. Transcript ranking is not available in the lift37 releases. See Methods for details of rank assignment. Filtering is available for the items in the GENCODE Basic, Comprehensive and Pseudogene tracks using the following criteria: Transcript class: filter by the basic biological function of a transcript annotation All - don't filter by transcript class coding - display protein coding transcripts, including polymorphic pseudogenes nonCoding - display non-protein coding transcripts pseudo - display pseudogene transcript annotations problem - display problem transcripts (Biotypes of retained_intron, TEC, or disrupted_domain) Transcript Annotation Method: filter by the method used to create the annotation All - don't filter by transcript class manual - display manually created annotations, including those that are also created automatically automatic - display automatically created annotations, including those that are also created manually manual_only - display manually created annotations that were not annotated by the automatic method automatic_only - display automatically created annotations that were not annotated by the manual method Transcript Biotype: filter transcripts by Biotype Support Level: filter transcripts by transcription support level Coloring for the gene annotations is based on the annotation type: coding non-coding pseudogene problem all polyA annotations Methods The GENCODE project aims to annotate all evidence-based gene features on the human and mouse reference sequence with high accuracy by integrating computational approaches (including comparative methods), manual annotation and targeted experimental verification. This goal includes identifying all protein-coding loci with associated alternative variants, non-coding loci which have transcript evidence, and pseudogenes. For a detailed description of the methods and references used, see Harrow et al. (2006). GENCODE Basic Set selection: The GENCODE Basic Set is intended to provide a simplified subset of the GENCODE transcript annotations that will be useful to the majority of users. The goal was to have a high-quality basic set that also covered all loci. Selection of GENCODE annotations for inclusion in the basic set was determined independently for the coding and non-coding transcripts at each gene locus. Criteria for selection of coding transcripts (including polymorphic pseudogenes) at a given locus: All full-length coding transcripts (except problem transcripts or transcripts that are nonsense-mediated decay) were included in the basic set. If there were no transcripts meeting the above criteria, then the partial coding transcript with the largest CDS was included in the basic set (excluding problem transcripts). Criteria for selection of non-coding transcripts at a given locus: All full-length non-coding transcripts (except problem transcripts) with a well characterized Biotype (see below) were included in the basic set. If there were no transcripts meeting the above criteria, then the largest non-coding transcript was included in the basic set (excluding problem transcripts). If no transcripts were included by either of the above criteria, the longest problem transcript is included. Non-coding transcript categorization: Non-coding transcripts are categorized using their biotype and the following criteria: well characterized: antisense, Mt_rRNA, Mt_tRNA, miRNA, rRNA, snRNA, snoRNA poorly characterized: 3prime_overlapping_ncrna, lincRNA, misc_RNA, non_coding, processed_transcript, sense_intronic, sense_overlapping Transcript ranking: Within each gene, transcripts have been ranked according to the following criteria. The ranking approach is preliminary and will change is future releases. Protein_coding genes MANE or Ensembl canonical -1st: MANE Select / Ensembl canonical -2nd: MANE Plus Clinical Coding biotypes -1st: protein_coding and protein_coding_LoF -2nd: NMDs and NSDs -3rd: retained intron and protein_coding_CDS_not_defined Completeness -1st: full length -2nd: CDS start/end not found CARS score (only for coding transcripts) Transcript genomic span and length (only for non-coding transcripts) Non-coding genes Transcript biotype -1st: transcript biotype identical to gene biotype Ensembl canonical GENCODE basic Transcript genomic span Transcript length Transcription Support Level (TSL): It is important that users understand how to assess transcript annotations that they see in GENCODE. While some transcript models have a high level of support through the full length of their exon structure, there are also transcripts that are poorly supported and that should be considered speculative. The Transcription Support Level (TSL) is a method to highlight the well-supported and poorly-supported transcript models for users. The method relies on the primary data that can support full-length transcript structure: mRNA and EST alignments supplied by UCSC and Ensembl. The mRNA and EST alignments are compared to the GENCODE transcripts and the transcripts are scored according to how well the alignment matches over its full length. The GENCODE TSL provides a consistent method of evaluating the level of support that a GENCODE transcript annotation is actually expressed in mouse. Mouse transcript sequences from the International Nucleotide Sequence Database Collaboration (GenBank, ENA, and DDBJ) are used as the evidence for this analysis. Exonerate RNA alignments from Ensembl, BLAT RNA and EST alignments from the UCSC Genome Browser Database are used in the analysis. Erroneous transcripts and libraries identified in lists maintained by the Ensembl, UCSC, HAVANA and RefSeq groups are flagged as suspect. GENCODE annotations for protein-coding and non-protein-coding transcripts are compared with the evidence alignments. Annotations in the MHC region and other immunological genes are not evaluated, as automatic alignments tend to be very problematic. Methods for evaluating single-exon genes are still being developed and they are not included in the current analysis. Multi-exon GENCODE annotations are evaluated using the criteria that all introns are supported by an evidence alignment and the evidence alignment does not indicate that there are unannotated exons. Small insertions and deletions in evidence alignments are assumed to be due to polymorphisms and not considered as differing from the annotations. All intron boundaries must match exactly. The transcript start and end locations are allowed to differ. The following categories are assigned to each of the evaluated annotations: tsl1 - all splice junctions of the transcript are supported by at least one non-suspect mRNA tsl2 - the best supporting mRNA is flagged as suspect or the support is from multiple ESTs tsl3 - the only support is from a single EST tsl4 - the best supporting EST is flagged as suspect tsl5 - no single transcript supports the model structure tslNA - the transcript was not analyzed for one of the following reasons: pseudogene annotation, including transcribed pseudogenes immunoglobin gene transcript T-cell receptor transcript single-exon transcript (will be included in a future version) APPRIS is a system to annotate alternatively spliced transcripts based on a range of computational methods. It provides value to the annotations of the human, mouse, zebrafish, rat, and pig genomes. APPRIS has selected a single CDS variant for each gene as the 'PRINCIPAL' isoform. Principal isoforms are tagged with the numbers 1 to 5, with 1 being the most reliable. PRINCIPAL:1 - Transcript(s) expected to code for the main functional isoform based solely on the core modules in the APPRIS. PRINCIPAL:2 - Where the APPRIS core modules are unable to choose a clear principal variant (approximately 25% of human protein coding genes), the database chooses two or more of the CDS variants as "candidates" to be the principal variant. PRINCIPAL:3 - Where the APPRIS core modules are unable to choose a clear principal variant and more than one of the variants have distinct CCDS identifiers, APPRIS selects the variant with lowest CCDS identifier as the principal variant. The lower the CCDS identifier, the earlier it was annotated. PRINCIPAL:4 - Where the APPRIS core modules are unable to choose a clear principal CDS and there is more than one variant with distinct (but consecutive) CCDS identifiers, APPRIS selects the longest CCDS isoform as the principal variant. PRINCIPAL:5 - Where the APPRIS core modules are unable to choose a clear principal variant and none of the candidate variants are annotated by CCDS, APPRIS selects the longest of the candidate isoforms as the principal variant. For genes in which the APPRIS core modules are unable to choose a clear principal variant (approximately 25% of human protein coding genes), the "candidate" variants not chosen as principal are labeled in the following way: ALTERNATIVE:1 - Candidate transcript(s) models that are conserved in at least three tested species. ALTERNATIVE:2 - Candidate transcript(s) models that appear to be conserved in fewer than three tested species. Non-candidate transcripts are not tagged and are considered as "Minor" transcripts. Further information and additional web services can be found at the APPRIS website. Downloads GENCODE GFF3 and GTF files are available from the GENCODE release 47 site. Verification Selected transcript models are verified experimentally by RT-PCR amplification followed by sequencing. Those experiments can be found at GEO: GSE30619:[E-MTAB-612] - Batch I is based on annotation from July 2008 (without pseudogenes). GSE25711:[E-MTAB-407] - Batch II is based on annotation from April 2009. GSE30612:[E-MTAB-533] - Batch III is verifying RGASP models for c.elegans and human. GSE34797:[E-MTAB-684] - Batch IV is based on chromosome 3, 4 and 5 annotations from GENCODE 4 (January 2010). GSE34820:[E-MTAB-737] - Batch V is based on annotations from GENCODE 6 (November 2010). GSE34821:[E-MTAB-831] - Batch VI is based on annotations from GENCODE 6 (November 2010) as well as transcript models predicted by the Ensembl Genebuild group based on the Illumina Human BodyMap 2.0 data. See Harrow et al. (2006) for information on verification techniques. Release Notes GENCODE version 47 corresponds to Ensembl 113. See also: The GENCODE Project Credits The GENCODE project is an international collaboration funded by NIH/NHGRI grant U41HG007234. More information is available at www.gencodegenes.org, Participating GENCODE institutions and personnel can be found here. References Frankish A, Diekhans M, Jungreis I, Lagarde J, Loveland JE, Mudge JM, Sisu C, Wright JC, Armstrong J, Barnes I et al. GENCODE 2021. Nucleic Acids Res. 2021 Jan 8;49(D1):D916-D923. PMID: 33270111; PMC: PMC7778937; DOI: 10.1093/nar/gkaa1087 A full list of GENCODE publications are available at The GENCODE Project web site. Data Release Policy GENCODE data are available for use without restrictions. 
wgEncodeGencodeV47ViewPolya PolyA All GENCODE annotations from V47 (Ensembl 113) Genes and Gene Predictions 
wgEncodeGencodePolyaV47 PolyA PolyA Transcript Annotation Set from GENCODE Version 47 (Ensembl 113) Genes and Gene Predictions 
wgEncodeGencodeV47ViewGenes Genes All GENCODE annotations from V47 (Ensembl 113) Genes and Gene Predictions 
wgEncodeGencodePseudoGeneV47 Pseudogenes Pseudogene Annotation Set from GENCODE Version 47 (Ensembl 113) Genes and Gene Predictions 
wgEncodeGencodeCompV47 Comprehensive Comprehensive Gene Annotation Set from GENCODE Version 47 (Ensembl 113) Genes and Gene Predictions 
wgEncodeGencodeBasicV47 Basic Basic Gene Annotation Set from GENCODE Version 47 (Ensembl 113) Genes and Gene Predictions 
wgEncodeGencodeV46 All GENCODE V46 All GENCODE annotations from V46 (Ensembl 112) Genes and Gene Predictions Description The GENCODE Genes track (version 46, May 2024) shows high-quality manual annotations merged with evidence-based automated annotations across the entire human genome generated by the GENCODE project. The GENCODE gene set presents a full merge between HAVANA manual annotation process and Ensembl automatic annotation pipeline. Priority is given to the manually curated HAVANA annotation using predicted Ensembl annotations when there are no corresponding manual annotations. The 46 annotation was carried out on genome assembly GRCh38 (hg38). The Ensembl human and mouse data sets are the same gene annotations as GENCODE for the corresponding release. Display Conventions and Configuration This track is a multi-view composite track that contains differing data sets (views). Instructions for configuring multi-view tracks are here. To show only selected subtracks, uncheck the boxes next to the tracks that you wish to hide. Views available on this track are: Genes The gene annotations in this view are divided into three subtracks: GENCODE Basic set is a subset of the Comprehensive set. The selection criteria are described in the methods section. GENCODE Comprehensive set contains all GENCODE coding and non-coding transcript annotations, including polymorphic pseudogenes. This includes both manual and automatic annotations. This is a super-set of the Basic set. GENCODE Pseudogenes include all annotations except polymorphic pseudogenes. PolyA GENCODE PolyA contains polyA signals and sites manually annotated on the genome based on transcribed evidence (ESTs and cDNAs) of 3' end of transcripts containing at least 3 A's not matching the genome. Maximum number of transcripts to display is available for the items in the GENCODE Basic, Comprehensive and Pseudogene tracks. Starting with the GENCODE human V42 and mouse VM31 releases, transcripts are assigned rank within the gene. The ranks may be used to filter the number of transcripts displayed in a principled manner. Transcript ranking is not available in the lift37 releases. See Methods for details of rank assignment. Filtering is available for the items in the GENCODE Basic, Comprehensive and Pseudogene tracks using the following criteria: Transcript class: filter by the basic biological function of a transcript annotation All - don't filter by transcript class coding - display protein coding transcripts, including polymorphic pseudogenes nonCoding - display non-protein coding transcripts pseudo - display pseudogene transcript annotations problem - display problem transcripts (Biotypes of retained_intron, TEC, or disrupted_domain) Transcript Annotation Method: filter by the method used to create the annotation All - don't filter by transcript class manual - display manually created annotations, including those that are also created automatically automatic - display automatically created annotations, including those that are also created manually manual_only - display manually created annotations that were not annotated by the automatic method automatic_only - display automatically created annotations that were not annotated by the manual method Transcript Biotype: filter transcripts by Biotype Support Level: filter transcripts by transcription support level Coloring for the gene annotations is based on the annotation type: coding non-coding pseudogene problem all polyA annotations Methods The GENCODE project aims to annotate all evidence-based gene features on the human and mouse reference sequence with high accuracy by integrating computational approaches (including comparative methods), manual annotation and targeted experimental verification. This goal includes identifying all protein-coding loci with associated alternative variants, non-coding loci which have transcript evidence, and pseudogenes. For a detailed description of the methods and references used, see Harrow et al. (2006). GENCODE Basic Set selection: The GENCODE Basic Set is intended to provide a simplified subset of the GENCODE transcript annotations that will be useful to the majority of users. The goal was to have a high-quality basic set that also covered all loci. Selection of GENCODE annotations for inclusion in the basic set was determined independently for the coding and non-coding transcripts at each gene locus. Criteria for selection of coding transcripts (including polymorphic pseudogenes) at a given locus: All full-length coding transcripts (except problem transcripts or transcripts that are nonsense-mediated decay) were included in the basic set. If there were no transcripts meeting the above criteria, then the partial coding transcript with the largest CDS was included in the basic set (excluding problem transcripts). Criteria for selection of non-coding transcripts at a given locus: All full-length non-coding transcripts (except problem transcripts) with a well characterized Biotype (see below) were included in the basic set. If there were no transcripts meeting the above criteria, then the largest non-coding transcript was included in the basic set (excluding problem transcripts). If no transcripts were included by either of the above criteria, the longest problem transcript is included. Non-coding transcript categorization: Non-coding transcripts are categorized using their biotype and the following criteria: well characterized: antisense, Mt_rRNA, Mt_tRNA, miRNA, rRNA, snRNA, snoRNA poorly characterized: 3prime_overlapping_ncrna, lincRNA, misc_RNA, non_coding, processed_transcript, sense_intronic, sense_overlapping Transcript ranking: Within each gene, transcripts have been ranked according to the following criteria. The ranking approach is preliminary and will change is future releases. Protein_coding genes MANE or Ensembl canonical -1st: MANE Select / Ensembl canonical -2nd: MANE Plus Clinical Coding biotypes -1st: protein_coding and protein_coding_LoF -2nd: NMDs and NSDs -3rd: retained intron and protein_coding_CDS_not_defined Completeness -1st: full length -2nd: CDS start/end not found CARS score (only for coding transcripts) Transcript genomic span and length (only for non-coding transcripts) Non-coding genes Transcript biotype -1st: transcript biotype identical to gene biotype Ensembl canonical GENCODE basic Transcript genomic span Transcript length Transcription Support Level (TSL): It is important that users understand how to assess transcript annotations that they see in GENCODE. While some transcript models have a high level of support through the full length of their exon structure, there are also transcripts that are poorly supported and that should be considered speculative. The Transcription Support Level (TSL) is a method to highlight the well-supported and poorly-supported transcript models for users. The method relies on the primary data that can support full-length transcript structure: mRNA and EST alignments supplied by UCSC and Ensembl. The mRNA and EST alignments are compared to the GENCODE transcripts and the transcripts are scored according to how well the alignment matches over its full length. The GENCODE TSL provides a consistent method of evaluating the level of support that a GENCODE transcript annotation is actually expressed in mouse. Mouse transcript sequences from the International Nucleotide Sequence Database Collaboration (GenBank, ENA, and DDBJ) are used as the evidence for this analysis. Exonerate RNA alignments from Ensembl, BLAT RNA and EST alignments from the UCSC Genome Browser Database are used in the analysis. Erroneous transcripts and libraries identified in lists maintained by the Ensembl, UCSC, HAVANA and RefSeq groups are flagged as suspect. GENCODE annotations for protein-coding and non-protein-coding transcripts are compared with the evidence alignments. Annotations in the MHC region and other immunological genes are not evaluated, as automatic alignments tend to be very problematic. Methods for evaluating single-exon genes are still being developed and they are not included in the current analysis. Multi-exon GENCODE annotations are evaluated using the criteria that all introns are supported by an evidence alignment and the evidence alignment does not indicate that there are unannotated exons. Small insertions and deletions in evidence alignments are assumed to be due to polymorphisms and not considered as differing from the annotations. All intron boundaries must match exactly. The transcript start and end locations are allowed to differ. The following categories are assigned to each of the evaluated annotations: tsl1 - all splice junctions of the transcript are supported by at least one non-suspect mRNA tsl2 - the best supporting mRNA is flagged as suspect or the support is from multiple ESTs tsl3 - the only support is from a single EST tsl4 - the best supporting EST is flagged as suspect tsl5 - no single transcript supports the model structure tslNA - the transcript was not analyzed for one of the following reasons: pseudogene annotation, including transcribed pseudogenes immunoglobin gene transcript T-cell receptor transcript single-exon transcript (will be included in a future version) APPRIS is a system to annotate alternatively spliced transcripts based on a range of computational methods. It provides value to the annotations of the human, mouse, zebrafish, rat, and pig genomes. APPRIS has selected a single CDS variant for each gene as the 'PRINCIPAL' isoform. Principal isoforms are tagged with the numbers 1 to 5, with 1 being the most reliable. PRINCIPAL:1 - Transcript(s) expected to code for the main functional isoform based solely on the core modules in the APPRIS. PRINCIPAL:2 - Where the APPRIS core modules are unable to choose a clear principal variant (approximately 25% of human protein coding genes), the database chooses two or more of the CDS variants as "candidates" to be the principal variant. PRINCIPAL:3 - Where the APPRIS core modules are unable to choose a clear principal variant and more than one of the variants have distinct CCDS identifiers, APPRIS selects the variant with lowest CCDS identifier as the principal variant. The lower the CCDS identifier, the earlier it was annotated. PRINCIPAL:4 - Where the APPRIS core modules are unable to choose a clear principal CDS and there is more than one variant with distinct (but consecutive) CCDS identifiers, APPRIS selects the longest CCDS isoform as the principal variant. PRINCIPAL:5 - Where the APPRIS core modules are unable to choose a clear principal variant and none of the candidate variants are annotated by CCDS, APPRIS selects the longest of the candidate isoforms as the principal variant. For genes in which the APPRIS core modules are unable to choose a clear principal variant (approximately 25% of human protein coding genes), the "candidate" variants not chosen as principal are labeled in the following way: ALTERNATIVE:1 - Candidate transcript(s) models that are conserved in at least three tested species. ALTERNATIVE:2 - Candidate transcript(s) models that appear to be conserved in fewer than three tested species. Non-candidate transcripts are not tagged and are considered as "Minor" transcripts. Further information and additional web services can be found at the APPRIS website. Downloads GENCODE GFF3 and GTF files are available from the GENCODE release 46 site. Verification Selected transcript models are verified experimentally by RT-PCR amplification followed by sequencing. Those experiments can be found at GEO: GSE30619:[E-MTAB-612] - Batch I is based on annotation from July 2008 (without pseudogenes). GSE25711:[E-MTAB-407] - Batch II is based on annotation from April 2009. GSE30612:[E-MTAB-533] - Batch III is verifying RGASP models for c.elegans and human. GSE34797:[E-MTAB-684] - Batch IV is based on chromosome 3, 4 and 5 annotations from GENCODE 4 (January 2010). GSE34820:[E-MTAB-737] - Batch V is based on annotations from GENCODE 6 (November 2010). GSE34821:[E-MTAB-831] - Batch VI is based on annotations from GENCODE 6 (November 2010) as well as transcript models predicted by the Ensembl Genebuild group based on the Illumina Human BodyMap 2.0 data. See Harrow et al. (2006) for information on verification techniques. Release Notes GENCODE version 46 corresponds to Ensembl 112. See also: The GENCODE Project Credits The GENCODE project is an international collaboration funded by NIH/NHGRI grant U41HG007234. More information is available at www.gencodegenes.org, Participating GENCODE institutions and personnel can be found here. References Frankish A, Diekhans M, Jungreis I, Lagarde J, Loveland JE, Mudge JM, Sisu C, Wright JC, Armstrong J, Barnes I et al. GENCODE 2021. Nucleic Acids Res. 2021 Jan 8;49(D1):D916-D923. PMID: 33270111; PMC: PMC7778937; DOI: 10.1093/nar/gkaa1087 A full list of GENCODE publications are available at The GENCODE Project web site. Data Release Policy GENCODE data are available for use without restrictions. 
wgEncodeGencodeV46ViewPolya PolyA All GENCODE annotations from V46 (Ensembl 112) Genes and Gene Predictions 
wgEncodeGencodePolyaV46 PolyA PolyA Transcript Annotation Set from GENCODE Version 46 (Ensembl 112) Genes and Gene Predictions 
wgEncodeGencodeV46ViewGenes Genes All GENCODE annotations from V46 (Ensembl 112) Genes and Gene Predictions 
wgEncodeGencodePseudoGeneV46 Pseudogenes Pseudogene Annotation Set from GENCODE Version 46 (Ensembl 112) Genes and Gene Predictions 
wgEncodeGencodeCompV46 Comprehensive Comprehensive Gene Annotation Set from GENCODE Version 46 (Ensembl 112) Genes and Gene Predictions 
wgEncodeGencodeBasicV46 Basic Basic Gene Annotation Set from GENCODE Version 46 (Ensembl 112) Genes and Gene Predictions 
wgEncodeGencodeV45 All GENCODE V45 All GENCODE annotations from V45 (Ensembl 111) Genes and Gene Predictions Description The GENCODE Genes track (version 45, Jan 2024) shows high-quality manual annotations merged with evidence-based automated annotations across the entire human genome generated by the GENCODE project. The GENCODE gene set presents a full merge between HAVANA manual annotation process and Ensembl automatic annotation pipeline. Priority is given to the manually curated HAVANA annotation using predicted Ensembl annotations when there are no corresponding manual annotations. The 45 annotation was carried out on genome assembly GRCh38 (hg38). The Ensembl human and mouse data sets are the same gene annotations as GENCODE for the corresponding release. Display Conventions and Configuration This track is a multi-view composite track that contains differing data sets (views). Instructions for configuring multi-view tracks are here. To show only selected subtracks, uncheck the boxes next to the tracks that you wish to hide. Views available on this track are: Genes The gene annotations in this view are divided into three subtracks: GENCODE Basic set is a subset of the Comprehensive set. The selection criteria are described in the methods section. GENCODE Comprehensive set contains all GENCODE coding and non-coding transcript annotations, including polymorphic pseudogenes. This includes both manual and automatic annotations. This is a super-set of the Basic set. GENCODE Pseudogenes include all annotations except polymorphic pseudogenes. PolyA GENCODE PolyA contains polyA signals and sites manually annotated on the genome based on transcribed evidence (ESTs and cDNAs) of 3' end of transcripts containing at least 3 A's not matching the genome. Maximum number of transcripts to display is available for the items in the GENCODE Basic, Comprehensive and Pseudogene tracks. Starting with the GENCODE human V42 and mouse VM31 releases, transcripts are assigned rank within the gene. The ranks may be used to filter the number of transcripts displayed in a principled manner. Transcript ranking is not available in the lift37 releases. See Methods for details of rank assignment. Filtering is available for the items in the GENCODE Basic, Comprehensive and Pseudogene tracks using the following criteria: Transcript class: filter by the basic biological function of a transcript annotation All - don't filter by transcript class coding - display protein coding transcripts, including polymorphic pseudogenes nonCoding - display non-protein coding transcripts pseudo - display pseudogene transcript annotations problem - display problem transcripts (Biotypes of retained_intron, TEC, or disrupted_domain) Transcript Annotation Method: filter by the method used to create the annotation All - don't filter by transcript class manual - display manually created annotations, including those that are also created automatically automatic - display automatically created annotations, including those that are also created manually manual_only - display manually created annotations that were not annotated by the automatic method automatic_only - display automatically created annotations that were not annotated by the manual method Transcript Biotype: filter transcripts by Biotype Support Level: filter transcripts by transcription support level Coloring for the gene annotations is based on the annotation type: coding non-coding pseudogene problem all polyA annotations Methods The GENCODE project aims to annotate all evidence-based gene features on the human and mouse reference sequence with high accuracy by integrating computational approaches (including comparative methods), manual annotation and targeted experimental verification. This goal includes identifying all protein-coding loci with associated alternative variants, non-coding loci which have transcript evidence, and pseudogenes. For a detailed description of the methods and references used, see Harrow et al. (2006). GENCODE Basic Set selection: The GENCODE Basic Set is intended to provide a simplified subset of the GENCODE transcript annotations that will be useful to the majority of users. The goal was to have a high-quality basic set that also covered all loci. Selection of GENCODE annotations for inclusion in the basic set was determined independently for the coding and non-coding transcripts at each gene locus. Criteria for selection of coding transcripts (including polymorphic pseudogenes) at a given locus: All full-length coding transcripts (except problem transcripts or transcripts that are nonsense-mediated decay) were included in the basic set. If there were no transcripts meeting the above criteria, then the partial coding transcript with the largest CDS was included in the basic set (excluding problem transcripts). Criteria for selection of non-coding transcripts at a given locus: All full-length non-coding transcripts (except problem transcripts) with a well characterized Biotype (see below) were included in the basic set. If there were no transcripts meeting the above criteria, then the largest non-coding transcript was included in the basic set (excluding problem transcripts). If no transcripts were included by either of the above criteria, the longest problem transcript is included. Non-coding transcript categorization: Non-coding transcripts are categorized using their biotype and the following criteria: well characterized: antisense, Mt_rRNA, Mt_tRNA, miRNA, rRNA, snRNA, snoRNA poorly characterized: 3prime_overlapping_ncrna, lincRNA, misc_RNA, non_coding, processed_transcript, sense_intronic, sense_overlapping Transcript ranking: Within each gene, transcripts have been ranked according to the following criteria. The ranking approach is preliminary and will change is future releases. Protein_coding genes MANE or Ensembl canonical -1st: MANE Select / Ensembl canonical -2nd: MANE Plus Clinical Coding biotypes -1st: protein_coding and protein_coding_LoF -2nd: NMDs and NSDs -3rd: retained intron and protein_coding_CDS_not_defined Completeness -1st: full length -2nd: CDS start/end not found CARS score (only for coding transcripts) Transcript genomic span and length (only for non-coding transcripts) Non-coding genes Transcript biotype -1st: transcript biotype identical to gene biotype Ensembl canonical GENCODE basic Transcript genomic span Transcript length Transcription Support Level (TSL): It is important that users understand how to assess transcript annotations that they see in GENCODE. While some transcript models have a high level of support through the full length of their exon structure, there are also transcripts that are poorly supported and that should be considered speculative. The Transcription Support Level (TSL) is a method to highlight the well-supported and poorly-supported transcript models for users. The method relies on the primary data that can support full-length transcript structure: mRNA and EST alignments supplied by UCSC and Ensembl. The mRNA and EST alignments are compared to the GENCODE transcripts and the transcripts are scored according to how well the alignment matches over its full length. The GENCODE TSL provides a consistent method of evaluating the level of support that a GENCODE transcript annotation is actually expressed in mouse. Mouse transcript sequences from the International Nucleotide Sequence Database Collaboration (GenBank, ENA, and DDBJ) are used as the evidence for this analysis. Exonerate RNA alignments from Ensembl, BLAT RNA and EST alignments from the UCSC Genome Browser Database are used in the analysis. Erroneous transcripts and libraries identified in lists maintained by the Ensembl, UCSC, HAVANA and RefSeq groups are flagged as suspect. GENCODE annotations for protein-coding and non-protein-coding transcripts are compared with the evidence alignments. Annotations in the MHC region and other immunological genes are not evaluated, as automatic alignments tend to be very problematic. Methods for evaluating single-exon genes are still being developed and they are not included in the current analysis. Multi-exon GENCODE annotations are evaluated using the criteria that all introns are supported by an evidence alignment and the evidence alignment does not indicate that there are unannotated exons. Small insertions and deletions in evidence alignments are assumed to be due to polymorphisms and not considered as differing from the annotations. All intron boundaries must match exactly. The transcript start and end locations are allowed to differ. The following categories are assigned to each of the evaluated annotations: tsl1 - all splice junctions of the transcript are supported by at least one non-suspect mRNA tsl2 - the best supporting mRNA is flagged as suspect or the support is from multiple ESTs tsl3 - the only support is from a single EST tsl4 - the best supporting EST is flagged as suspect tsl5 - no single transcript supports the model structure tslNA - the transcript was not analyzed for one of the following reasons: pseudogene annotation, including transcribed pseudogenes immunoglobin gene transcript T-cell receptor transcript single-exon transcript (will be included in a future version) APPRIS is a system to annotate alternatively spliced transcripts based on a range of computational methods. It provides value to the annotations of the human, mouse, zebrafish, rat, and pig genomes. APPRIS has selected a single CDS variant for each gene as the 'PRINCIPAL' isoform. Principal isoforms are tagged with the numbers 1 to 5, with 1 being the most reliable. PRINCIPAL:1 - Transcript(s) expected to code for the main functional isoform based solely on the core modules in the APPRIS. PRINCIPAL:2 - Where the APPRIS core modules are unable to choose a clear principal variant (approximately 25% of human protein coding genes), the database chooses two or more of the CDS variants as "candidates" to be the principal variant. PRINCIPAL:3 - Where the APPRIS core modules are unable to choose a clear principal variant and more than one of the variants have distinct CCDS identifiers, APPRIS selects the variant with lowest CCDS identifier as the principal variant. The lower the CCDS identifier, the earlier it was annotated. PRINCIPAL:4 - Where the APPRIS core modules are unable to choose a clear principal CDS and there is more than one variant with distinct (but consecutive) CCDS identifiers, APPRIS selects the longest CCDS isoform as the principal variant. PRINCIPAL:5 - Where the APPRIS core modules are unable to choose a clear principal variant and none of the candidate variants are annotated by CCDS, APPRIS selects the longest of the candidate isoforms as the principal variant. For genes in which the APPRIS core modules are unable to choose a clear principal variant (approximately 25% of human protein coding genes), the "candidate" variants not chosen as principal are labeled in the following way: ALTERNATIVE:1 - Candidate transcript(s) models that are conserved in at least three tested species. ALTERNATIVE:2 - Candidate transcript(s) models that appear to be conserved in fewer than three tested species. Non-candidate transcripts are not tagged and are considered as "Minor" transcripts. Further information and additional web services can be found at the APPRIS website. Downloads GENCODE GFF3 and GTF files are available from the GENCODE release 45 site. Verification Selected transcript models are verified experimentally by RT-PCR amplification followed by sequencing. Those experiments can be found at GEO: GSE30619:[E-MTAB-612] - Batch I is based on annotation from July 2008 (without pseudogenes). GSE25711:[E-MTAB-407] - Batch II is based on annotation from April 2009. GSE30612:[E-MTAB-533] - Batch III is verifying RGASP models for c.elegans and human. GSE34797:[E-MTAB-684] - Batch IV is based on chromosome 3, 4 and 5 annotations from GENCODE 4 (January 2010). GSE34820:[E-MTAB-737] - Batch V is based on annotations from GENCODE 6 (November 2010). GSE34821:[E-MTAB-831] - Batch VI is based on annotations from GENCODE 6 (November 2010) as well as transcript models predicted by the Ensembl Genebuild group based on the Illumina Human BodyMap 2.0 data. See Harrow et al. (2006) for information on verification techniques. Release Notes GENCODE version 45 corresponds to Ensembl 111. See also: The GENCODE Project Credits The GENCODE project is an international collaboration funded by NIH/NHGRI grant U41HG007234. More information is available at www.gencodegenes.org, Participating GENCODE institutions and personnel can be found here. References Frankish A, Diekhans M, Jungreis I, Lagarde J, Loveland JE, Mudge JM, Sisu C, Wright JC, Armstrong J, Barnes I et al. GENCODE 2021. Nucleic Acids Res. 2021 Jan 8;49(D1):D916-D923. PMID: 33270111; PMC: PMC7778937; DOI: 10.1093/nar/gkaa1087 A full list of GENCODE publications are available at The GENCODE Project web site. Data Release Policy GENCODE data are available for use without restrictions. 
wgEncodeGencodeV45ViewPolya PolyA All GENCODE annotations from V45 (Ensembl 111) Genes and Gene Predictions 
wgEncodeGencodePolyaV45 PolyA PolyA Transcript Annotation Set from GENCODE Version 45 (Ensembl 111) Genes and Gene Predictions 
wgEncodeGencodeV45ViewGenes Genes All GENCODE annotations from V45 (Ensembl 111) Genes and Gene Predictions 
wgEncodeGencodePseudoGeneV45 Pseudogenes Pseudogene Annotation Set from GENCODE Version 45 (Ensembl 111) Genes and Gene Predictions 
wgEncodeGencodeCompV45 Comprehensive Comprehensive Gene Annotation Set from GENCODE Version 45 (Ensembl 111) Genes and Gene Predictions 
wgEncodeGencodeBasicV45 Basic Basic Gene Annotation Set from GENCODE Version 45 (Ensembl 111) Genes and Gene Predictions 
wgEncodeGencodeV44 All GENCODE V44 All GENCODE annotations from V44 (Ensembl 110) Genes and Gene Predictions Description The GENCODE Genes track (version 44, July 2023) shows high-quality manual annotations merged with evidence-based automated annotations across the entire human genome generated by the GENCODE project. The GENCODE gene set presents a full merge between HAVANA manual annotation process and Ensembl automatic annotation pipeline. Priority is given to the manually curated HAVANA annotation using predicted Ensembl annotations when there are no corresponding manual annotations. The 44 annotation was carried out on genome assembly GRCh38 (hg38). The Ensembl human and mouse data sets are the same gene annotations as GENCODE for the corresponding release. Display Conventions and Configuration This track is a multi-view composite track that contains differing data sets (views). Instructions for configuring multi-view tracks are here. To show only selected subtracks, uncheck the boxes next to the tracks that you wish to hide. Views available on this track are: Genes The gene annotations in this view are divided into three subtracks: GENCODE Basic set is a subset of the Comprehensive set. The selection criteria are described in the methods section. GENCODE Comprehensive set contains all GENCODE coding and non-coding transcript annotations, including polymorphic pseudogenes. This includes both manual and automatic annotations. This is a super-set of the Basic set. GENCODE Pseudogenes include all annotations except polymorphic pseudogenes. PolyA GENCODE PolyA contains polyA signals and sites manually annotated on the genome based on transcribed evidence (ESTs and cDNAs) of 3' end of transcripts containing at least 3 A's not matching the genome. Maximum number of transcripts to display is available for the items in the GENCODE Basic, Comprehensive and Pseudogene tracks. Starting with the GENCODE human V42 and mouse VM31 releases, transcripts are assigned rank within the gene. The ranks may be used to filter the number of transcripts displayed in a principled manner. Transcript ranking is not available in the lift37 releases. See Methods for details of rank assignment. Filtering is available for the items in the GENCODE Basic, Comprehensive and Pseudogene tracks using the following criteria: Transcript class: filter by the basic biological function of a transcript annotation All - don't filter by transcript class coding - display protein coding transcripts, including polymorphic pseudogenes nonCoding - display non-protein coding transcripts pseudo - display pseudogene transcript annotations problem - display problem transcripts (Biotypes of retained_intron, TEC, or disrupted_domain) Transcript Annotation Method: filter by the method used to create the annotation All - don't filter by transcript class manual - display manually created annotations, including those that are also created automatically automatic - display automatically created annotations, including those that are also created manually manual_only - display manually created annotations that were not annotated by the automatic method automatic_only - display automatically created annotations that were not annotated by the manual method Transcript Biotype: filter transcripts by Biotype Support Level: filter transcripts by transcription support level Coloring for the gene annotations is based on the annotation type: coding non-coding pseudogene problem all polyA annotations Methods The GENCODE project aims to annotate all evidence-based gene features on the human and mouse reference sequence with high accuracy by integrating computational approaches (including comparative methods), manual annotation and targeted experimental verification. This goal includes identifying all protein-coding loci with associated alternative variants, non-coding loci which have transcript evidence, and pseudogenes. For a detailed description of the methods and references used, see Harrow et al. (2006). GENCODE Basic Set selection: The GENCODE Basic Set is intended to provide a simplified subset of the GENCODE transcript annotations that will be useful to the majority of users. The goal was to have a high-quality basic set that also covered all loci. Selection of GENCODE annotations for inclusion in the basic set was determined independently for the coding and non-coding transcripts at each gene locus. Criteria for selection of coding transcripts (including polymorphic pseudogenes) at a given locus: All full-length coding transcripts (except problem transcripts or transcripts that are nonsense-mediated decay) were included in the basic set. If there were no transcripts meeting the above criteria, then the partial coding transcript with the largest CDS was included in the basic set (excluding problem transcripts). Criteria for selection of non-coding transcripts at a given locus: All full-length non-coding transcripts (except problem transcripts) with a well characterized Biotype (see below) were included in the basic set. If there were no transcripts meeting the above criteria, then the largest non-coding transcript was included in the basic set (excluding problem transcripts). If no transcripts were included by either of the above criteria, the longest problem transcript is included. Non-coding transcript categorization: Non-coding transcripts are categorized using their biotype and the following criteria: well characterized: antisense, Mt_rRNA, Mt_tRNA, miRNA, rRNA, snRNA, snoRNA poorly characterized: 3prime_overlapping_ncrna, lincRNA, misc_RNA, non_coding, processed_transcript, sense_intronic, sense_overlapping Transcript ranking: Within each gene, transcripts have been ranked according to the following criteria. The ranking approach is preliminary and will change is future releases. Protein_coding genes MANE or Ensembl canonical -1st: MANE Select / Ensembl canonical -2nd: MANE Plus Clinical Coding biotypes -1st: protein_coding and protein_coding_LoF -2nd: NMDs and NSDs -3rd: retained intron and protein_coding_CDS_not_defined Completeness -1st: full length -2nd: CDS start/end not found CARS score (only for coding transcripts) Transcript genomic span and length (only for non-coding transcripts) Non-coding genes Transcript biotype -1st: transcript biotype identical to gene biotype Ensembl canonical GENCODE basic Transcript genomic span Transcript length Transcription Support Level (TSL): It is important that users understand how to assess transcript annotations that they see in GENCODE. While some transcript models have a high level of support through the full length of their exon structure, there are also transcripts that are poorly supported and that should be considered speculative. The Transcription Support Level (TSL) is a method to highlight the well-supported and poorly-supported transcript models for users. The method relies on the primary data that can support full-length transcript structure: mRNA and EST alignments supplied by UCSC and Ensembl. The mRNA and EST alignments are compared to the GENCODE transcripts and the transcripts are scored according to how well the alignment matches over its full length. The GENCODE TSL provides a consistent method of evaluating the level of support that a GENCODE transcript annotation is actually expressed in mouse. Mouse transcript sequences from the International Nucleotide Sequence Database Collaboration (GenBank, ENA, and DDBJ) are used as the evidence for this analysis. Exonerate RNA alignments from Ensembl, BLAT RNA and EST alignments from the UCSC Genome Browser Database are used in the analysis. Erroneous transcripts and libraries identified in lists maintained by the Ensembl, UCSC, HAVANA and RefSeq groups are flagged as suspect. GENCODE annotations for protein-coding and non-protein-coding transcripts are compared with the evidence alignments. Annotations in the MHC region and other immunological genes are not evaluated, as automatic alignments tend to be very problematic. Methods for evaluating single-exon genes are still being developed and they are not included in the current analysis. Multi-exon GENCODE annotations are evaluated using the criteria that all introns are supported by an evidence alignment and the evidence alignment does not indicate that there are unannotated exons. Small insertions and deletions in evidence alignments are assumed to be due to polymorphisms and not considered as differing from the annotations. All intron boundaries must match exactly. The transcript start and end locations are allowed to differ. The following categories are assigned to each of the evaluated annotations: tsl1 - all splice junctions of the transcript are supported by at least one non-suspect mRNA tsl2 - the best supporting mRNA is flagged as suspect or the support is from multiple ESTs tsl3 - the only support is from a single EST tsl4 - the best supporting EST is flagged as suspect tsl5 - no single transcript supports the model structure tslNA - the transcript was not analyzed for one of the following reasons: pseudogene annotation, including transcribed pseudogenes immunoglobin gene transcript T-cell receptor transcript single-exon transcript (will be included in a future version) APPRIS is a system to annotate alternatively spliced transcripts based on a range of computational methods. It provides value to the annotations of the human, mouse, zebrafish, rat, and pig genomes. APPRIS has selected a single CDS variant for each gene as the 'PRINCIPAL' isoform. Principal isoforms are tagged with the numbers 1 to 5, with 1 being the most reliable. PRINCIPAL:1 - Transcript(s) expected to code for the main functional isoform based solely on the core modules in the APPRIS. PRINCIPAL:2 - Where the APPRIS core modules are unable to choose a clear principal variant (approximately 25% of human protein coding genes), the database chooses two or more of the CDS variants as "candidates" to be the principal variant. PRINCIPAL:3 - Where the APPRIS core modules are unable to choose a clear principal variant and more than one of the variants have distinct CCDS identifiers, APPRIS selects the variant with lowest CCDS identifier as the principal variant. The lower the CCDS identifier, the earlier it was annotated. PRINCIPAL:4 - Where the APPRIS core modules are unable to choose a clear principal CDS and there is more than one variant with distinct (but consecutive) CCDS identifiers, APPRIS selects the longest CCDS isoform as the principal variant. PRINCIPAL:5 - Where the APPRIS core modules are unable to choose a clear principal variant and none of the candidate variants are annotated by CCDS, APPRIS selects the longest of the candidate isoforms as the principal variant. For genes in which the APPRIS core modules are unable to choose a clear principal variant (approximately 25% of human protein coding genes), the "candidate" variants not chosen as principal are labeled in the following way: ALTERNATIVE:1 - Candidate transcript(s) models that are conserved in at least three tested species. ALTERNATIVE:2 - Candidate transcript(s) models that appear to be conserved in fewer than three tested species. Non-candidate transcripts are not tagged and are considered as "Minor" transcripts. Further information and additional web services can be found at the APPRIS website. Downloads GENCODE GFF3 and GTF files are available from the GENCODE release 44 site. Verification Selected transcript models are verified experimentally by RT-PCR amplification followed by sequencing. Those experiments can be found at GEO: GSE30619:[E-MTAB-612] - Batch I is based on annotation from July 2008 (without pseudogenes). GSE25711:[E-MTAB-407] - Batch II is based on annotation from April 2009. GSE30612:[E-MTAB-533] - Batch III is verifying RGASP models for c.elegans and human. GSE34797:[E-MTAB-684] - Batch IV is based on chromosome 3, 4 and 5 annotations from GENCODE 4 (January 2010). GSE34820:[E-MTAB-737] - Batch V is based on annotations from GENCODE 6 (November 2010). GSE34821:[E-MTAB-831] - Batch VI is based on annotations from GENCODE 6 (November 2010) as well as transcript models predicted by the Ensembl Genebuild group based on the Illumina Human BodyMap 2.0 data. See Harrow et al. (2006) for information on verification techniques. Release Notes GENCODE version 44 corresponds to Ensembl 110. See also: The GENCODE Project Credits The GENCODE project is an international collaboration funded by NIH/NHGRI grant U41HG007234. More information is available at www.gencodegenes.org, Participating GENCODE institutions and personnel can be found here. References Frankish A, Diekhans M, Jungreis I, Lagarde J, Loveland JE, Mudge JM, Sisu C, Wright JC, Armstrong J, Barnes I et al. GENCODE 2021. Nucleic Acids Res. 2021 Jan 8;49(D1):D916-D923. PMID: 33270111; PMC: PMC7778937; DOI: 10.1093/nar/gkaa1087 A full list of GENCODE publications are available at The GENCODE Project web site. Data Release Policy GENCODE data are available for use without restrictions. 
wgEncodeGencodeV44ViewPolya PolyA All GENCODE annotations from V44 (Ensembl 110) Genes and Gene Predictions 
wgEncodeGencodePolyaV44 PolyA PolyA Transcript Annotation Set from GENCODE Version 44 (Ensembl 110) Genes and Gene Predictions 
wgEncodeGencodeV44ViewGenes Genes All GENCODE annotations from V44 (Ensembl 110) Genes and Gene Predictions 
wgEncodeGencodePseudoGeneV44 Pseudogenes Pseudogene Annotation Set from GENCODE Version 44 (Ensembl 110) Genes and Gene Predictions 
wgEncodeGencodeCompV44 Comprehensive Comprehensive Gene Annotation Set from GENCODE Version 44 (Ensembl 110) Genes and Gene Predictions 
wgEncodeGencodeBasicV44 Basic Basic Gene Annotation Set from GENCODE Version 44 (Ensembl 110) Genes and Gene Predictions 
wgEncodeGencodeV43 All GENCODE V43 All GENCODE annotations from V43 (Ensembl 109) Genes and Gene Predictions Description The GENCODE Genes track (version 43, Feb 2023) shows high-quality manual annotations merged with evidence-based automated annotations across the entire human genome generated by the GENCODE project. The GENCODE gene set presents a full merge between HAVANA manual annotation process and Ensembl automatic annotation pipeline. Priority is given to the manually curated HAVANA annotation using predicted Ensembl annotations when there are no corresponding manual annotations. The 43 annotation was carried out on genome assembly GRCh38 (hg38). The Ensembl human and mouse data sets are the same gene annotations as GENCODE for the corresponding release. Display Conventions and Configuration This track is a multi-view composite track that contains differing data sets (views). Instructions for configuring multi-view tracks are here. To show only selected subtracks, uncheck the boxes next to the tracks that you wish to hide. Views available on this track are: Genes The gene annotations in this view are divided into three subtracks: GENCODE Basic set is a subset of the Comprehensive set. The selection criteria are described in the methods section. GENCODE Comprehensive set contains all GENCODE coding and non-coding transcript annotations, including polymorphic pseudogenes. This includes both manual and automatic annotations. This is a super-set of the Basic set. GENCODE Pseudogenes include all annotations except polymorphic pseudogenes. PolyA GENCODE PolyA contains polyA signals and sites manually annotated on the genome based on transcribed evidence (ESTs and cDNAs) of 3' end of transcripts containing at least 3 A's not matching the genome. Maximum number of transcripts to display is available for the items in the GENCODE Basic, Comprehensive and Pseudogene tracks. Starting with the GENCODE human V42 and mouse VM31 releases, transcripts are assigned rank within the gene. The ranks may be used to filter the number of transcripts displayed in a principled manner. Transcript ranking is not available in the lift37 releases. See Methods for details of rank assignment. Filtering is available for the items in the GENCODE Basic, Comprehensive and Pseudogene tracks using the following criteria: Transcript class: filter by the basic biological function of a transcript annotation All - don't filter by transcript class coding - display protein coding transcripts, including polymorphic pseudogenes nonCoding - display non-protein coding transcripts pseudo - display pseudogene transcript annotations problem - display problem transcripts (Biotypes of retained_intron, TEC, or disrupted_domain) Transcript Annotation Method: filter by the method used to create the annotation All - don't filter by transcript class manual - display manually created annotations, including those that are also created automatically automatic - display automatically created annotations, including those that are also created manually manual_only - display manually created annotations that were not annotated by the automatic method automatic_only - display automatically created annotations that were not annotated by the manual method Transcript Biotype: filter transcripts by Biotype Support Level: filter transcripts by transcription support level Coloring for the gene annotations is based on the annotation type: coding non-coding pseudogene problem all polyA annotations Methods The GENCODE project aims to annotate all evidence-based gene features on the human and mouse reference sequence with high accuracy by integrating computational approaches (including comparative methods), manual annotation and targeted experimental verification. This goal includes identifying all protein-coding loci with associated alternative variants, non-coding loci which have transcript evidence, and pseudogenes. For a detailed description of the methods and references used, see Harrow et al. (2006). GENCODE Basic Set selection: The GENCODE Basic Set is intended to provide a simplified subset of the GENCODE transcript annotations that will be useful to the majority of users. The goal was to have a high-quality basic set that also covered all loci. Selection of GENCODE annotations for inclusion in the basic set was determined independently for the coding and non-coding transcripts at each gene locus. Criteria for selection of coding transcripts (including polymorphic pseudogenes) at a given locus: All full-length coding transcripts (except problem transcripts or transcripts that are nonsense-mediated decay) were included in the basic set. If there were no transcripts meeting the above criteria, then the partial coding transcript with the largest CDS was included in the basic set (excluding problem transcripts). Criteria for selection of non-coding transcripts at a given locus: All full-length non-coding transcripts (except problem transcripts) with a well characterized Biotype (see below) were included in the basic set. If there were no transcripts meeting the above criteria, then the largest non-coding transcript was included in the basic set (excluding problem transcripts). If no transcripts were included by either of the above criteria, the longest problem transcript is included. Non-coding transcript categorization: Non-coding transcripts are categorized using their biotype and the following criteria: well characterized: antisense, Mt_rRNA, Mt_tRNA, miRNA, rRNA, snRNA, snoRNA poorly characterized: 3prime_overlapping_ncrna, lincRNA, misc_RNA, non_coding, processed_transcript, sense_intronic, sense_overlapping Transcript ranking: Within each gene, transcripts have been ranked according to the following criteria. The ranking approach is preliminary and will change is future releases. Protein_coding genes MANE or Ensembl canonical -1st: MANE Select / Ensembl canonical -2nd: MANE Plus Clinical Coding biotypes -1st: protein_coding and protein_coding_LoF -2nd: NMDs and NSDs -3rd: retained intron and protein_coding_CDS_not_defined Completeness -1st: full length -2nd: CDS start/end not found CARS score (only for coding transcripts) Transcript genomic span and length (only for non-coding transcripts) Non-coding genes Transcript biotype -1st: transcript biotype identical to gene biotype Ensembl canonical GENCODE basic Transcript genomic span Transcript length Transcription Support Level (TSL): It is important that users understand how to assess transcript annotations that they see in GENCODE. While some transcript models have a high level of support through the full length of their exon structure, there are also transcripts that are poorly supported and that should be considered speculative. The Transcription Support Level (TSL) is a method to highlight the well-supported and poorly-supported transcript models for users. The method relies on the primary data that can support full-length transcript structure: mRNA and EST alignments supplied by UCSC and Ensembl. The mRNA and EST alignments are compared to the GENCODE transcripts and the transcripts are scored according to how well the alignment matches over its full length. The GENCODE TSL provides a consistent method of evaluating the level of support that a GENCODE transcript annotation is actually expressed in mouse. Mouse transcript sequences from the International Nucleotide Sequence Database Collaboration (GenBank, ENA, and DDBJ) are used as the evidence for this analysis. Exonerate RNA alignments from Ensembl, BLAT RNA and EST alignments from the UCSC Genome Browser Database are used in the analysis. Erroneous transcripts and libraries identified in lists maintained by the Ensembl, UCSC, HAVANA and RefSeq groups are flagged as suspect. GENCODE annotations for protein-coding and non-protein-coding transcripts are compared with the evidence alignments. Annotations in the MHC region and other immunological genes are not evaluated, as automatic alignments tend to be very problematic. Methods for evaluating single-exon genes are still being developed and they are not included in the current analysis. Multi-exon GENCODE annotations are evaluated using the criteria that all introns are supported by an evidence alignment and the evidence alignment does not indicate that there are unannotated exons. Small insertions and deletions in evidence alignments are assumed to be due to polymorphisms and not considered as differing from the annotations. All intron boundaries must match exactly. The transcript start and end locations are allowed to differ. The following categories are assigned to each of the evaluated annotations: tsl1 - all splice junctions of the transcript are supported by at least one non-suspect mRNA tsl2 - the best supporting mRNA is flagged as suspect or the support is from multiple ESTs tsl3 - the only support is from a single EST tsl4 - the best supporting EST is flagged as suspect tsl5 - no single transcript supports the model structure tslNA - the transcript was not analyzed for one of the following reasons: pseudogene annotation, including transcribed pseudogenes immunoglobin gene transcript T-cell receptor transcript single-exon transcript (will be included in a future version) APPRIS is a system to annotate alternatively spliced transcripts based on a range of computational methods. It provides value to the annotations of the human, mouse, zebrafish, rat, and pig genomes. APPRIS has selected a single CDS variant for each gene as the 'PRINCIPAL' isoform. Principal isoforms are tagged with the numbers 1 to 5, with 1 being the most reliable. PRINCIPAL:1 - Transcript(s) expected to code for the main functional isoform based solely on the core modules in the APPRIS. PRINCIPAL:2 - Where the APPRIS core modules are unable to choose a clear principal variant (approximately 25% of human protein coding genes), the database chooses two or more of the CDS variants as "candidates" to be the principal variant. PRINCIPAL:3 - Where the APPRIS core modules are unable to choose a clear principal variant and more than one of the variants have distinct CCDS identifiers, APPRIS selects the variant with lowest CCDS identifier as the principal variant. The lower the CCDS identifier, the earlier it was annotated. PRINCIPAL:4 - Where the APPRIS core modules are unable to choose a clear principal CDS and there is more than one variant with distinct (but consecutive) CCDS identifiers, APPRIS selects the longest CCDS isoform as the principal variant. PRINCIPAL:5 - Where the APPRIS core modules are unable to choose a clear principal variant and none of the candidate variants are annotated by CCDS, APPRIS selects the longest of the candidate isoforms as the principal variant. For genes in which the APPRIS core modules are unable to choose a clear principal variant (approximately 25% of human protein coding genes), the "candidate" variants not chosen as principal are labeled in the following way: ALTERNATIVE:1 - Candidate transcript(s) models that are conserved in at least three tested species. ALTERNATIVE:2 - Candidate transcript(s) models that appear to be conserved in fewer than three tested species. Non-candidate transcripts are not tagged and are considered as "Minor" transcripts. Further information and additional web services can be found at the APPRIS website. Downloads GENCODE GFF3 and GTF files are available from the GENCODE release 43 site. Verification Selected transcript models are verified experimentally by RT-PCR amplification followed by sequencing. Those experiments can be found at GEO: GSE30619:[E-MTAB-612] - Batch I is based on annotation from July 2008 (without pseudogenes). GSE25711:[E-MTAB-407] - Batch II is based on annotation from April 2009. GSE30612:[E-MTAB-533] - Batch III is verifying RGASP models for c.elegans and human. GSE34797:[E-MTAB-684] - Batch IV is based on chromosome 3, 4 and 5 annotations from GENCODE 4 (January 2010). GSE34820:[E-MTAB-737] - Batch V is based on annotations from GENCODE 6 (November 2010). GSE34821:[E-MTAB-831] - Batch VI is based on annotations from GENCODE 6 (November 2010) as well as transcript models predicted by the Ensembl Genebuild group based on the Illumina Human BodyMap 2.0 data. See Harrow et al. (2006) for information on verification techniques. Release Notes GENCODE version 43 corresponds to Ensembl 109. See also: The GENCODE Project Credits The GENCODE project is an international collaboration funded by NIH/NHGRI grant U41HG007234. More information is available at www.gencodegenes.org, Participating GENCODE institutions and personnel can be found here. References Frankish A, Diekhans M, Jungreis I, Lagarde J, Loveland JE, Mudge JM, Sisu C, Wright JC, Armstrong J, Barnes I et al. GENCODE 2021. Nucleic Acids Res. 2021 Jan 8;49(D1):D916-D923. PMID: 33270111; PMC: PMC7778937; DOI: 10.1093/nar/gkaa1087 A full list of GENCODE publications are available at The GENCODE Project web site. Data Release Policy GENCODE data are available for use without restrictions. 
wgEncodeGencodeV43ViewPolya PolyA All GENCODE annotations from V43 (Ensembl 109) Genes and Gene Predictions 
wgEncodeGencodePolyaV43 PolyA PolyA Transcript Annotation Set from GENCODE Version 43 (Ensembl 109) Genes and Gene Predictions 
wgEncodeGencodeV43ViewGenes Genes All GENCODE annotations from V43 (Ensembl 109) Genes and Gene Predictions 
wgEncodeGencodePseudoGeneV43 Pseudogenes Pseudogene Annotation Set from GENCODE Version 43 (Ensembl 109) Genes and Gene Predictions 
wgEncodeGencodeCompV43 Comprehensive Comprehensive Gene Annotation Set from GENCODE Version 43 (Ensembl 109) Genes and Gene Predictions 
wgEncodeGencodeBasicV43 Basic Basic Gene Annotation Set from GENCODE Version 43 (Ensembl 109) Genes and Gene Predictions 
wgEncodeGencodeV42 All GENCODE V42 All GENCODE annotations from V42 (Ensembl 108) Genes and Gene Predictions Description The GENCODE Genes track (version 42, Oct 2022) shows high-quality manual annotations merged with evidence-based automated annotations across the entire human genome generated by the GENCODE project. The GENCODE gene set presents a full merge between HAVANA manual annotation process and Ensembl automatic annotation pipeline. Priority is given to the manually curated HAVANA annotation using predicted Ensembl annotations when there are no corresponding manual annotations. The 42 annotation was carried out on genome assembly GRCh38 (hg38). The Ensembl human and mouse data sets are the same gene annotations as GENCODE for the corresponding release. Display Conventions and Configuration This track is a multi-view composite track that contains differing data sets (views). Instructions for configuring multi-view tracks are here. To show only selected subtracks, uncheck the boxes next to the tracks that you wish to hide. Views available on this track are: Genes The gene annotations in this view are divided into three subtracks: GENCODE Basic set is a subset of the Comprehensive set. The selection criteria are described in the methods section. GENCODE Comprehensive set contains all GENCODE coding and non-coding transcript annotations, including polymorphic pseudogenes. This includes both manual and automatic annotations. This is a super-set of the Basic set. GENCODE Pseudogenes include all annotations except polymorphic pseudogenes. PolyA GENCODE PolyA contains polyA signals and sites manually annotated on the genome based on transcribed evidence (ESTs and cDNAs) of 3' end of transcripts containing at least 3 A's not matching the genome. Maximum number of transcripts to display is available for the items in the GENCODE Basic, Comprehensive and Pseudogene tracks. Starting with the GENCODE human V42 and mouse VM31 releases, transcripts are assigned rank within the gene. The ranks may be used to filter the number of transcripts displayed in a principled manner. Transcript ranking is not available in the lift37 releases. See Methods for details of rank assignment. Filtering is available for the items in the GENCODE Basic, Comprehensive and Pseudogene tracks using the following criteria: Transcript class: filter by the basic biological function of a transcript annotation All - don't filter by transcript class coding - display protein coding transcripts, including polymorphic pseudogenes nonCoding - display non-protein coding transcripts pseudo - display pseudogene transcript annotations problem - display problem transcripts (Biotypes of retained_intron, TEC, or disrupted_domain) Transcript Annotation Method: filter by the method used to create the annotation All - don't filter by transcript class manual - display manually created annotations, including those that are also created automatically automatic - display automatically created annotations, including those that are also created manually manual_only - display manually created annotations that were not annotated by the automatic method automatic_only - display automatically created annotations that were not annotated by the manual method Transcript Biotype: filter transcripts by Biotype Support Level: filter transcripts by transcription support level Coloring for the gene annotations is based on the annotation type: coding non-coding pseudogene problem all polyA annotations Methods The GENCODE project aims to annotate all evidence-based gene features on the human and mouse reference sequence with high accuracy by integrating computational approaches (including comparative methods), manual annotation and targeted experimental verification. This goal includes identifying all protein-coding loci with associated alternative variants, non-coding loci which have transcript evidence, and pseudogenes. For a detailed description of the methods and references used, see Harrow et al. (2006). GENCODE Basic Set selection: The GENCODE Basic Set is intended to provide a simplified subset of the GENCODE transcript annotations that will be useful to the majority of users. The goal was to have a high-quality basic set that also covered all loci. Selection of GENCODE annotations for inclusion in the basic set was determined independently for the coding and non-coding transcripts at each gene locus. Criteria for selection of coding transcripts (including polymorphic pseudogenes) at a given locus: All full-length coding transcripts (except problem transcripts or transcripts that are nonsense-mediated decay) were included in the basic set. If there were no transcripts meeting the above criteria, then the partial coding transcript with the largest CDS was included in the basic set (excluding problem transcripts). Criteria for selection of non-coding transcripts at a given locus: All full-length non-coding transcripts (except problem transcripts) with a well characterized Biotype (see below) were included in the basic set. If there were no transcripts meeting the above criteria, then the largest non-coding transcript was included in the basic set (excluding problem transcripts). If no transcripts were included by either of the above criteria, the longest problem transcript is included. Non-coding transcript categorization: Non-coding transcripts are categorized using their biotype and the following criteria: well characterized: antisense, Mt_rRNA, Mt_tRNA, miRNA, rRNA, snRNA, snoRNA poorly characterized: 3prime_overlapping_ncrna, lincRNA, misc_RNA, non_coding, processed_transcript, sense_intronic, sense_overlapping Transcript ranking: Within each gene, transcripts have been ranked according to the following criteria. The ranking approach is preliminary and will change is future releases. Protein_coding genes MANE or Ensembl canonical -1st: MANE Select / Ensembl canonical -2nd: MANE Plus Clinical Coding biotypes -1st: protein_coding and protein_coding_LoF -2nd: NMDs and NSDs -3rd: retained intron and protein_coding_CDS_not_defined Completeness -1st: full length -2nd: CDS start/end not found CARS score (only for coding transcripts) Transcript genomic span and length (only for non-coding transcripts) Non-coding genes Transcript biotype -1st: transcript biotype identical to gene biotype Ensembl canonical GENCODE basic Transcript genomic span Transcript length Transcription Support Level (TSL): It is important that users understand how to assess transcript annotations that they see in GENCODE. While some transcript models have a high level of support through the full length of their exon structure, there are also transcripts that are poorly supported and that should be considered speculative. The Transcription Support Level (TSL) is a method to highlight the well-supported and poorly-supported transcript models for users. The method relies on the primary data that can support full-length transcript structure: mRNA and EST alignments supplied by UCSC and Ensembl. The mRNA and EST alignments are compared to the GENCODE transcripts and the transcripts are scored according to how well the alignment matches over its full length. The GENCODE TSL provides a consistent method of evaluating the level of support that a GENCODE transcript annotation is actually expressed in mouse. Mouse transcript sequences from the International Nucleotide Sequence Database Collaboration (GenBank, ENA, and DDBJ) are used as the evidence for this analysis. Exonerate RNA alignments from Ensembl, BLAT RNA and EST alignments from the UCSC Genome Browser Database are used in the analysis. Erroneous transcripts and libraries identified in lists maintained by the Ensembl, UCSC, HAVANA and RefSeq groups are flagged as suspect. GENCODE annotations for protein-coding and non-protein-coding transcripts are compared with the evidence alignments. Annotations in the MHC region and other immunological genes are not evaluated, as automatic alignments tend to be very problematic. Methods for evaluating single-exon genes are still being developed and they are not included in the current analysis. Multi-exon GENCODE annotations are evaluated using the criteria that all introns are supported by an evidence alignment and the evidence alignment does not indicate that there are unannotated exons. Small insertions and deletions in evidence alignments are assumed to be due to polymorphisms and not considered as differing from the annotations. All intron boundaries must match exactly. The transcript start and end locations are allowed to differ. The following categories are assigned to each of the evaluated annotations: tsl1 - all splice junctions of the transcript are supported by at least one non-suspect mRNA tsl2 - the best supporting mRNA is flagged as suspect or the support is from multiple ESTs tsl3 - the only support is from a single EST tsl4 - the best supporting EST is flagged as suspect tsl5 - no single transcript supports the model structure tslNA - the transcript was not analyzed for one of the following reasons: pseudogene annotation, including transcribed pseudogenes immunoglobin gene transcript T-cell receptor transcript single-exon transcript (will be included in a future version) APPRIS is a system to annotate alternatively spliced transcripts based on a range of computational methods. It provides value to the annotations of the human, mouse, zebrafish, rat, and pig genomes. APPRIS has selected a single CDS variant for each gene as the 'PRINCIPAL' isoform. Principal isoforms are tagged with the numbers 1 to 5, with 1 being the most reliable. PRINCIPAL:1 - Transcript(s) expected to code for the main functional isoform based solely on the core modules in the APPRIS. PRINCIPAL:2 - Where the APPRIS core modules are unable to choose a clear principal variant (approximately 25% of human protein coding genes), the database chooses two or more of the CDS variants as "candidates" to be the principal variant. PRINCIPAL:3 - Where the APPRIS core modules are unable to choose a clear principal variant and more than one of the variants have distinct CCDS identifiers, APPRIS selects the variant with lowest CCDS identifier as the principal variant. The lower the CCDS identifier, the earlier it was annotated. PRINCIPAL:4 - Where the APPRIS core modules are unable to choose a clear principal CDS and there is more than one variant with distinct (but consecutive) CCDS identifiers, APPRIS selects the longest CCDS isoform as the principal variant. PRINCIPAL:5 - Where the APPRIS core modules are unable to choose a clear principal variant and none of the candidate variants are annotated by CCDS, APPRIS selects the longest of the candidate isoforms as the principal variant. For genes in which the APPRIS core modules are unable to choose a clear principal variant (approximately 25% of human protein coding genes), the "candidate" variants not chosen as principal are labeled in the following way: ALTERNATIVE:1 - Candidate transcript(s) models that are conserved in at least three tested species. ALTERNATIVE:2 - Candidate transcript(s) models that appear to be conserved in fewer than three tested species. Non-candidate transcripts are not tagged and are considered as "Minor" transcripts. Further information and additional web services can be found at the APPRIS website. Downloads GENCODE GFF3 and GTF files are available from the GENCODE release 42 site. Verification Selected transcript models are verified experimentally by RT-PCR amplification followed by sequencing. Those experiments can be found at GEO: GSE30619:[E-MTAB-612] - Batch I is based on annotation from July 2008 (without pseudogenes). GSE25711:[E-MTAB-407] - Batch II is based on annotation from April 2009. GSE30612:[E-MTAB-533] - Batch III is verifying RGASP models for c.elegans and human. GSE34797:[E-MTAB-684] - Batch IV is based on chromosome 3, 4 and 5 annotations from GENCODE 4 (January 2010). GSE34820:[E-MTAB-737] - Batch V is based on annotations from GENCODE 6 (November 2010). GSE34821:[E-MTAB-831] - Batch VI is based on annotations from GENCODE 6 (November 2010) as well as transcript models predicted by the Ensembl Genebuild group based on the Illumina Human BodyMap 2.0 data. See Harrow et al. (2006) for information on verification techniques. Release Notes GENCODE version 42 corresponds to Ensembl 108. See also: The GENCODE Project Credits The GENCODE project is an international collaboration funded by NIH/NHGRI grant U41HG007234. More information is available at www.gencodegenes.org, Participating GENCODE institutions and personnel can be found here. References Frankish A, Diekhans M, Jungreis I, Lagarde J, Loveland JE, Mudge JM, Sisu C, Wright JC, Armstrong J, Barnes I et al. GENCODE 2021. Nucleic Acids Res. 2021 Jan 8;49(D1):D916-D923. PMID: 33270111; PMC: PMC7778937; DOI: 10.1093/nar/gkaa1087 A full list of GENCODE publications are available at The GENCODE Project web site. Data Release Policy GENCODE data are available for use without restrictions. 
wgEncodeGencodeV42ViewPolya PolyA All GENCODE annotations from V42 (Ensembl 108) Genes and Gene Predictions 
wgEncodeGencodePolyaV42 PolyA PolyA Transcript Annotation Set from GENCODE Version 42 (Ensembl 108) Genes and Gene Predictions 
wgEncodeGencodeV42ViewGenes Genes All GENCODE annotations from V42 (Ensembl 108) Genes and Gene Predictions 
wgEncodeGencodePseudoGeneV42 Pseudogenes Pseudogene Annotation Set from GENCODE Version 42 (Ensembl 108) Genes and Gene Predictions 
wgEncodeGencodeCompV42 Comprehensive Comprehensive Gene Annotation Set from GENCODE Version 42 (Ensembl 108) Genes and Gene Predictions 
wgEncodeGencodeBasicV42 Basic Basic Gene Annotation Set from GENCODE Version 42 (Ensembl 108) Genes and Gene Predictions 
wgEncodeGencodeV41 All GENCODE V41 All GENCODE annotations from V41 (Ensembl 107) Genes and Gene Predictions Description The GENCODE Genes track (version 41, July 2022) shows high-quality manual annotations merged with evidence-based automated annotations across the entire human genome generated by the GENCODE project. The GENCODE gene set presents a full merge between HAVANA manual annotation process and Ensembl automatic annotation pipeline. Priority is given to the manually curated HAVANA annotation using predicted Ensembl annotations when there are no corresponding manual annotations. The 41 annotation was carried out on genome assembly GRCh38 (hg38). The Ensembl human and mouse data sets are the same gene annotations as GENCODE for the corresponding release. Display Conventions and Configuration This track is a multi-view composite track that contains differing data sets (views). Instructions for configuring multi-view tracks are here. To show only selected subtracks, uncheck the boxes next to the tracks that you wish to hide. Views available on this track are: Genes The gene annotations in this view are divided into three subtracks: GENCODE Basic set is a subset of the Comprehensive set. The selection criteria are described in the methods section. GENCODE Comprehensive set contains all GENCODE coding and non-coding transcript annotations, including polymorphic pseudogenes. This includes both manual and automatic annotations. This is a super-set of the Basic set. GENCODE Pseudogenes include all annotations except polymorphic pseudogenes. PolyA GENCODE PolyA contains polyA signals and sites manually annotated on the genome based on transcribed evidence (ESTs and cDNAs) of 3' end of transcripts containing at least 3 A's not matching the genome. Maximum number of transcripts to display is available for the items in the GENCODE Basic, Comprehensive and Pseudogene tracks. Starting with the GENCODE human V42 and mouse VM31 releases, transcripts are assigned rank within the gene. The ranks may be used to filter the number of transcripts displayed in a principled manner. Transcript ranking is not available in the lift37 releases. See Methods for details of rank assignment. Filtering is available for the items in the GENCODE Basic, Comprehensive and Pseudogene tracks using the following criteria: Transcript class: filter by the basic biological function of a transcript annotation All - don't filter by transcript class coding - display protein coding transcripts, including polymorphic pseudogenes nonCoding - display non-protein coding transcripts pseudo - display pseudogene transcript annotations problem - display problem transcripts (Biotypes of retained_intron, TEC, or disrupted_domain) Transcript Annotation Method: filter by the method used to create the annotation All - don't filter by transcript class manual - display manually created annotations, including those that are also created automatically automatic - display automatically created annotations, including those that are also created manually manual_only - display manually created annotations that were not annotated by the automatic method automatic_only - display automatically created annotations that were not annotated by the manual method Transcript Biotype: filter transcripts by Biotype Support Level: filter transcripts by transcription support level Coloring for the gene annotations is based on the annotation type: coding non-coding pseudogene problem all polyA annotations Methods The GENCODE project aims to annotate all evidence-based gene features on the human and mouse reference sequence with high accuracy by integrating computational approaches (including comparative methods), manual annotation and targeted experimental verification. This goal includes identifying all protein-coding loci with associated alternative variants, non-coding loci which have transcript evidence, and pseudogenes. For a detailed description of the methods and references used, see Harrow et al. (2006). GENCODE Basic Set selection: The GENCODE Basic Set is intended to provide a simplified subset of the GENCODE transcript annotations that will be useful to the majority of users. The goal was to have a high-quality basic set that also covered all loci. Selection of GENCODE annotations for inclusion in the basic set was determined independently for the coding and non-coding transcripts at each gene locus. Criteria for selection of coding transcripts (including polymorphic pseudogenes) at a given locus: All full-length coding transcripts (except problem transcripts or transcripts that are nonsense-mediated decay) were included in the basic set. If there were no transcripts meeting the above criteria, then the partial coding transcript with the largest CDS was included in the basic set (excluding problem transcripts). Criteria for selection of non-coding transcripts at a given locus: All full-length non-coding transcripts (except problem transcripts) with a well characterized Biotype (see below) were included in the basic set. If there were no transcripts meeting the above criteria, then the largest non-coding transcript was included in the basic set (excluding problem transcripts). If no transcripts were included by either of the above criteria, the longest problem transcript is included. Non-coding transcript categorization: Non-coding transcripts are categorized using their biotype and the following criteria: well characterized: antisense, Mt_rRNA, Mt_tRNA, miRNA, rRNA, snRNA, snoRNA poorly characterized: 3prime_overlapping_ncrna, lincRNA, misc_RNA, non_coding, processed_transcript, sense_intronic, sense_overlapping Transcript ranking: Within each gene, transcripts have been ranked according to the following criteria. The ranking approach is preliminary and will change is future releases. Protein_coding genes MANE or Ensembl canonical -1st: MANE Select / Ensembl canonical -2nd: MANE Plus Clinical Coding biotypes -1st: protein_coding and protein_coding_LoF -2nd: NMDs and NSDs -3rd: retained intron and protein_coding_CDS_not_defined Completeness -1st: full length -2nd: CDS start/end not found CARS score (only for coding transcripts) Transcript genomic span and length (only for non-coding transcripts) Non-coding genes Transcript biotype -1st: transcript biotype identical to gene biotype Ensembl canonical GENCODE basic Transcript genomic span Transcript length Transcription Support Level (TSL): It is important that users understand how to assess transcript annotations that they see in GENCODE. While some transcript models have a high level of support through the full length of their exon structure, there are also transcripts that are poorly supported and that should be considered speculative. The Transcription Support Level (TSL) is a method to highlight the well-supported and poorly-supported transcript models for users. The method relies on the primary data that can support full-length transcript structure: mRNA and EST alignments supplied by UCSC and Ensembl. The mRNA and EST alignments are compared to the GENCODE transcripts and the transcripts are scored according to how well the alignment matches over its full length. The GENCODE TSL provides a consistent method of evaluating the level of support that a GENCODE transcript annotation is actually expressed in mouse. Mouse transcript sequences from the International Nucleotide Sequence Database Collaboration (GenBank, ENA, and DDBJ) are used as the evidence for this analysis. Exonerate RNA alignments from Ensembl, BLAT RNA and EST alignments from the UCSC Genome Browser Database are used in the analysis. Erroneous transcripts and libraries identified in lists maintained by the Ensembl, UCSC, HAVANA and RefSeq groups are flagged as suspect. GENCODE annotations for protein-coding and non-protein-coding transcripts are compared with the evidence alignments. Annotations in the MHC region and other immunological genes are not evaluated, as automatic alignments tend to be very problematic. Methods for evaluating single-exon genes are still being developed and they are not included in the current analysis. Multi-exon GENCODE annotations are evaluated using the criteria that all introns are supported by an evidence alignment and the evidence alignment does not indicate that there are unannotated exons. Small insertions and deletions in evidence alignments are assumed to be due to polymorphisms and not considered as differing from the annotations. All intron boundaries must match exactly. The transcript start and end locations are allowed to differ. The following categories are assigned to each of the evaluated annotations: tsl1 - all splice junctions of the transcript are supported by at least one non-suspect mRNA tsl2 - the best supporting mRNA is flagged as suspect or the support is from multiple ESTs tsl3 - the only support is from a single EST tsl4 - the best supporting EST is flagged as suspect tsl5 - no single transcript supports the model structure tslNA - the transcript was not analyzed for one of the following reasons: pseudogene annotation, including transcribed pseudogenes immunoglobin gene transcript T-cell receptor transcript single-exon transcript (will be included in a future version) APPRIS is a system to annotate alternatively spliced transcripts based on a range of computational methods. It provides value to the annotations of the human, mouse, zebrafish, rat, and pig genomes. APPRIS has selected a single CDS variant for each gene as the 'PRINCIPAL' isoform. Principal isoforms are tagged with the numbers 1 to 5, with 1 being the most reliable. PRINCIPAL:1 - Transcript(s) expected to code for the main functional isoform based solely on the core modules in the APPRIS. PRINCIPAL:2 - Where the APPRIS core modules are unable to choose a clear principal variant (approximately 25% of human protein coding genes), the database chooses two or more of the CDS variants as "candidates" to be the principal variant. PRINCIPAL:3 - Where the APPRIS core modules are unable to choose a clear principal variant and more than one of the variants have distinct CCDS identifiers, APPRIS selects the variant with lowest CCDS identifier as the principal variant. The lower the CCDS identifier, the earlier it was annotated. PRINCIPAL:4 - Where the APPRIS core modules are unable to choose a clear principal CDS and there is more than one variant with distinct (but consecutive) CCDS identifiers, APPRIS selects the longest CCDS isoform as the principal variant. PRINCIPAL:5 - Where the APPRIS core modules are unable to choose a clear principal variant and none of the candidate variants are annotated by CCDS, APPRIS selects the longest of the candidate isoforms as the principal variant. For genes in which the APPRIS core modules are unable to choose a clear principal variant (approximately 25% of human protein coding genes), the "candidate" variants not chosen as principal are labeled in the following way: ALTERNATIVE:1 - Candidate transcript(s) models that are conserved in at least three tested species. ALTERNATIVE:2 - Candidate transcript(s) models that appear to be conserved in fewer than three tested species. Non-candidate transcripts are not tagged and are considered as "Minor" transcripts. Further information and additional web services can be found at the APPRIS website. Downloads GENCODE GFF3 and GTF files are available from the GENCODE release 41 site. Verification Selected transcript models are verified experimentally by RT-PCR amplification followed by sequencing. Those experiments can be found at GEO: GSE30619:[E-MTAB-612] - Batch I is based on annotation from July 2008 (without pseudogenes). GSE25711:[E-MTAB-407] - Batch II is based on annotation from April 2009. GSE30612:[E-MTAB-533] - Batch III is verifying RGASP models for c.elegans and human. GSE34797:[E-MTAB-684] - Batch IV is based on chromosome 3, 4 and 5 annotations from GENCODE 4 (January 2010). GSE34820:[E-MTAB-737] - Batch V is based on annotations from GENCODE 6 (November 2010). GSE34821:[E-MTAB-831] - Batch VI is based on annotations from GENCODE 6 (November 2010) as well as transcript models predicted by the Ensembl Genebuild group based on the Illumina Human BodyMap 2.0 data. See Harrow et al. (2006) for information on verification techniques. Release Notes GENCODE version 41 corresponds to Ensembl 107. See also: The GENCODE Project Credits The GENCODE project is an international collaboration funded by NIH/NHGRI grant U41HG007234. More information is available at www.gencodegenes.org, Participating GENCODE institutions and personnel can be found here. References Frankish A, Diekhans M, Jungreis I, Lagarde J, Loveland JE, Mudge JM, Sisu C, Wright JC, Armstrong J, Barnes I et al. GENCODE 2021. Nucleic Acids Res. 2021 Jan 8;49(D1):D916-D923. PMID: 33270111; PMC: PMC7778937; DOI: 10.1093/nar/gkaa1087 A full list of GENCODE publications are available at The GENCODE Project web site. Data Release Policy GENCODE data are available for use without restrictions. 
wgEncodeGencodeV41ViewPolya PolyA All GENCODE annotations from V41 (Ensembl 107) Genes and Gene Predictions 
wgEncodeGencodePolyaV41 PolyA PolyA Transcript Annotation Set from GENCODE Version 41 (Ensembl 107) Genes and Gene Predictions 
wgEncodeGencodeV41ViewGenes Genes All GENCODE annotations from V41 (Ensembl 107) Genes and Gene Predictions 
wgEncodeGencodePseudoGeneV41 Pseudogenes Pseudogene Annotation Set from GENCODE Version 41 (Ensembl 107) Genes and Gene Predictions 
wgEncodeGencodeCompV41 Comprehensive Comprehensive Gene Annotation Set from GENCODE Version 41 (Ensembl 107) Genes and Gene Predictions 
wgEncodeGencodeBasicV41 Basic Basic Gene Annotation Set from GENCODE Version 41 (Ensembl 107) Genes and Gene Predictions 
wgEncodeGencodeV41View2Way 2-Way All GENCODE annotations from V41 (Ensembl 107) Genes and Gene Predictions 
wgEncodeGencode2wayConsPseudoV41 2-way Pseudogenes 2-way Pseudogene Annotation Set from GENCODE Version 41 (Ensembl 107) Genes and Gene Predictions 
wgEncodeGencodeV40 All GENCODE V40 All GENCODE annotations from V40 (Ensembl 106) Genes and Gene Predictions Description The GENCODE Genes track (version 40, Feb 2022) shows high-quality manual annotations merged with evidence-based automated annotations across the entire human genome generated by the GENCODE project. The GENCODE gene set presents a full merge between HAVANA manual annotation process and Ensembl automatic annotation pipeline. Priority is given to the manually curated HAVANA annotation using predicted Ensembl annotations when there are no corresponding manual annotations. The 40 annotation was carried out on genome assembly GRCh38 (hg38). The Ensembl human and mouse data sets are the same gene annotations as GENCODE for the corresponding release. Display Conventions and Configuration This track is a multi-view composite track that contains differing data sets (views). Instructions for configuring multi-view tracks are here. To show only selected subtracks, uncheck the boxes next to the tracks that you wish to hide. Views available on this track are: Genes The gene annotations in this view are divided into three subtracks: GENCODE Basic set is a subset of the Comprehensive set. The selection criteria are described in the methods section. GENCODE Comprehensive set contains all GENCODE coding and non-coding transcript annotations, including polymorphic pseudogenes. This includes both manual and automatic annotations. This is a super-set of the Basic set. GENCODE Pseudogenes include all annotations except polymorphic pseudogenes. PolyA GENCODE PolyA contains polyA signals and sites manually annotated on the genome based on transcribed evidence (ESTs and cDNAs) of 3' end of transcripts containing at least 3 A's not matching the genome. Maximum number of transcripts to display is available for the items in the GENCODE Basic, Comprehensive and Pseudogene tracks. Starting with the GENCODE human V42 and mouse VM31 releases, transcripts are assigned rank within the gene. The ranks may be used to filter the number of transcripts displayed in a principled manner. Transcript ranking is not available in the lift37 releases. See Methods for details of rank assignment. Filtering is available for the items in the GENCODE Basic, Comprehensive and Pseudogene tracks using the following criteria: Transcript class: filter by the basic biological function of a transcript annotation All - don't filter by transcript class coding - display protein coding transcripts, including polymorphic pseudogenes nonCoding - display non-protein coding transcripts pseudo - display pseudogene transcript annotations problem - display problem transcripts (Biotypes of retained_intron, TEC, or disrupted_domain) Transcript Annotation Method: filter by the method used to create the annotation All - don't filter by transcript class manual - display manually created annotations, including those that are also created automatically automatic - display automatically created annotations, including those that are also created manually manual_only - display manually created annotations that were not annotated by the automatic method automatic_only - display automatically created annotations that were not annotated by the manual method Transcript Biotype: filter transcripts by Biotype Support Level: filter transcripts by transcription support level Coloring for the gene annotations is based on the annotation type: coding non-coding pseudogene problem all polyA annotations Methods The GENCODE project aims to annotate all evidence-based gene features on the human and mouse reference sequence with high accuracy by integrating computational approaches (including comparative methods), manual annotation and targeted experimental verification. This goal includes identifying all protein-coding loci with associated alternative variants, non-coding loci which have transcript evidence, and pseudogenes. For a detailed description of the methods and references used, see Harrow et al. (2006). GENCODE Basic Set selection: The GENCODE Basic Set is intended to provide a simplified subset of the GENCODE transcript annotations that will be useful to the majority of users. The goal was to have a high-quality basic set that also covered all loci. Selection of GENCODE annotations for inclusion in the basic set was determined independently for the coding and non-coding transcripts at each gene locus. Criteria for selection of coding transcripts (including polymorphic pseudogenes) at a given locus: All full-length coding transcripts (except problem transcripts or transcripts that are nonsense-mediated decay) were included in the basic set. If there were no transcripts meeting the above criteria, then the partial coding transcript with the largest CDS was included in the basic set (excluding problem transcripts). Criteria for selection of non-coding transcripts at a given locus: All full-length non-coding transcripts (except problem transcripts) with a well characterized Biotype (see below) were included in the basic set. If there were no transcripts meeting the above criteria, then the largest non-coding transcript was included in the basic set (excluding problem transcripts). If no transcripts were included by either of the above criteria, the longest problem transcript is included. Non-coding transcript categorization: Non-coding transcripts are categorized using their biotype and the following criteria: well characterized: antisense, Mt_rRNA, Mt_tRNA, miRNA, rRNA, snRNA, snoRNA poorly characterized: 3prime_overlapping_ncrna, lincRNA, misc_RNA, non_coding, processed_transcript, sense_intronic, sense_overlapping Transcript ranking: Within each gene, transcripts have been ranked according to the following criteria. The ranking approach is preliminary and will change is future releases. Protein_coding genes MANE or Ensembl canonical -1st: MANE Select / Ensembl canonical -2nd: MANE Plus Clinical Coding biotypes -1st: protein_coding and protein_coding_LoF -2nd: NMDs and NSDs -3rd: retained intron and protein_coding_CDS_not_defined Completeness -1st: full length -2nd: CDS start/end not found CARS score (only for coding transcripts) Transcript genomic span and length (only for non-coding transcripts) Non-coding genes Transcript biotype -1st: transcript biotype identical to gene biotype Ensembl canonical GENCODE basic Transcript genomic span Transcript length Transcription Support Level (TSL): It is important that users understand how to assess transcript annotations that they see in GENCODE. While some transcript models have a high level of support through the full length of their exon structure, there are also transcripts that are poorly supported and that should be considered speculative. The Transcription Support Level (TSL) is a method to highlight the well-supported and poorly-supported transcript models for users. The method relies on the primary data that can support full-length transcript structure: mRNA and EST alignments supplied by UCSC and Ensembl. The mRNA and EST alignments are compared to the GENCODE transcripts and the transcripts are scored according to how well the alignment matches over its full length. The GENCODE TSL provides a consistent method of evaluating the level of support that a GENCODE transcript annotation is actually expressed in mouse. Mouse transcript sequences from the International Nucleotide Sequence Database Collaboration (GenBank, ENA, and DDBJ) are used as the evidence for this analysis. Exonerate RNA alignments from Ensembl, BLAT RNA and EST alignments from the UCSC Genome Browser Database are used in the analysis. Erroneous transcripts and libraries identified in lists maintained by the Ensembl, UCSC, HAVANA and RefSeq groups are flagged as suspect. GENCODE annotations for protein-coding and non-protein-coding transcripts are compared with the evidence alignments. Annotations in the MHC region and other immunological genes are not evaluated, as automatic alignments tend to be very problematic. Methods for evaluating single-exon genes are still being developed and they are not included in the current analysis. Multi-exon GENCODE annotations are evaluated using the criteria that all introns are supported by an evidence alignment and the evidence alignment does not indicate that there are unannotated exons. Small insertions and deletions in evidence alignments are assumed to be due to polymorphisms and not considered as differing from the annotations. All intron boundaries must match exactly. The transcript start and end locations are allowed to differ. The following categories are assigned to each of the evaluated annotations: tsl1 - all splice junctions of the transcript are supported by at least one non-suspect mRNA tsl2 - the best supporting mRNA is flagged as suspect or the support is from multiple ESTs tsl3 - the only support is from a single EST tsl4 - the best supporting EST is flagged as suspect tsl5 - no single transcript supports the model structure tslNA - the transcript was not analyzed for one of the following reasons: pseudogene annotation, including transcribed pseudogenes immunoglobin gene transcript T-cell receptor transcript single-exon transcript (will be included in a future version) APPRIS is a system to annotate alternatively spliced transcripts based on a range of computational methods. It provides value to the annotations of the human, mouse, zebrafish, rat, and pig genomes. APPRIS has selected a single CDS variant for each gene as the 'PRINCIPAL' isoform. Principal isoforms are tagged with the numbers 1 to 5, with 1 being the most reliable. PRINCIPAL:1 - Transcript(s) expected to code for the main functional isoform based solely on the core modules in the APPRIS. PRINCIPAL:2 - Where the APPRIS core modules are unable to choose a clear principal variant (approximately 25% of human protein coding genes), the database chooses two or more of the CDS variants as "candidates" to be the principal variant. PRINCIPAL:3 - Where the APPRIS core modules are unable to choose a clear principal variant and more than one of the variants have distinct CCDS identifiers, APPRIS selects the variant with lowest CCDS identifier as the principal variant. The lower the CCDS identifier, the earlier it was annotated. PRINCIPAL:4 - Where the APPRIS core modules are unable to choose a clear principal CDS and there is more than one variant with distinct (but consecutive) CCDS identifiers, APPRIS selects the longest CCDS isoform as the principal variant. PRINCIPAL:5 - Where the APPRIS core modules are unable to choose a clear principal variant and none of the candidate variants are annotated by CCDS, APPRIS selects the longest of the candidate isoforms as the principal variant. For genes in which the APPRIS core modules are unable to choose a clear principal variant (approximately 25% of human protein coding genes), the "candidate" variants not chosen as principal are labeled in the following way: ALTERNATIVE:1 - Candidate transcript(s) models that are conserved in at least three tested species. ALTERNATIVE:2 - Candidate transcript(s) models that appear to be conserved in fewer than three tested species. Non-candidate transcripts are not tagged and are considered as "Minor" transcripts. Further information and additional web services can be found at the APPRIS website. Downloads GENCODE GFF3 and GTF files are available from the GENCODE release 40 site. Verification Selected transcript models are verified experimentally by RT-PCR amplification followed by sequencing. Those experiments can be found at GEO: GSE30619:[E-MTAB-612] - Batch I is based on annotation from July 2008 (without pseudogenes). GSE25711:[E-MTAB-407] - Batch II is based on annotation from April 2009. GSE30612:[E-MTAB-533] - Batch III is verifying RGASP models for c.elegans and human. GSE34797:[E-MTAB-684] - Batch IV is based on chromosome 3, 4 and 5 annotations from GENCODE 4 (January 2010). GSE34820:[E-MTAB-737] - Batch V is based on annotations from GENCODE 6 (November 2010). GSE34821:[E-MTAB-831] - Batch VI is based on annotations from GENCODE 6 (November 2010) as well as transcript models predicted by the Ensembl Genebuild group based on the Illumina Human BodyMap 2.0 data. See Harrow et al. (2006) for information on verification techniques. Release Notes GENCODE version 40 corresponds to Ensembl 106. See also: The GENCODE Project Credits The GENCODE project is an international collaboration funded by NIH/NHGRI grant U41HG007234. More information is available at www.gencodegenes.org, Participating GENCODE institutions and personnel can be found here. References Frankish A, Diekhans M, Jungreis I, Lagarde J, Loveland JE, Mudge JM, Sisu C, Wright JC, Armstrong J, Barnes I et al. GENCODE 2021. Nucleic Acids Res. 2021 Jan 8;49(D1):D916-D923. PMID: 33270111; PMC: PMC7778937; DOI: 10.1093/nar/gkaa1087 A full list of GENCODE publications are available at The GENCODE Project web site. Data Release Policy GENCODE data are available for use without restrictions. 
wgEncodeGencodeV40ViewPolya PolyA All GENCODE annotations from V40 (Ensembl 106) Genes and Gene Predictions 
wgEncodeGencodePolyaV40 PolyA PolyA Transcript Annotation Set from GENCODE Version 40 (Ensembl 106) Genes and Gene Predictions 
wgEncodeGencodeV40ViewGenes Genes All GENCODE annotations from V40 (Ensembl 106) Genes and Gene Predictions 
wgEncodeGencodePseudoGeneV40 Pseudogenes Pseudogene Annotation Set from GENCODE Version 40 (Ensembl 106) Genes and Gene Predictions 
wgEncodeGencodeCompV40 Comprehensive Comprehensive Gene Annotation Set from GENCODE Version 40 (Ensembl 106) Genes and Gene Predictions 
wgEncodeGencodeBasicV40 Basic Basic Gene Annotation Set from GENCODE Version 40 (Ensembl 106) Genes and Gene Predictions 
wgEncodeGencodeV40View2Way 2-Way All GENCODE annotations from V40 (Ensembl 106) Genes and Gene Predictions 
wgEncodeGencode2wayConsPseudoV40 2-way Pseudogenes 2-way Pseudogene Annotation Set from GENCODE Version 40 (Ensembl 106) Genes and Gene Predictions 
wgEncodeGencodeV39 All GENCODE V39 All GENCODE annotations from V39 (Ensembl 105) Genes and Gene Predictions Description The GENCODE Genes track (version 39, Oct 2021) shows high-quality manual annotations merged with evidence-based automated annotations across the entire human genome generated by the GENCODE project. The GENCODE gene set presents a full merge between HAVANA manual annotation process and Ensembl automatic annotation pipeline. Priority is given to the manually curated HAVANA annotation using predicted Ensembl annotations when there are no corresponding manual annotations. The 39 annotation was carried out on genome assembly GRCh38 (hg38). The Ensembl human and mouse data sets are the same gene annotations as GENCODE for the corresponding release. Display Conventions and Configuration This track is a multi-view composite track that contains differing data sets (views). Instructions for configuring multi-view tracks are here. To show only selected subtracks, uncheck the boxes next to the tracks that you wish to hide. Views available on this track are: Genes The gene annotations in this view are divided into three subtracks: GENCODE Basic set is a subset of the Comprehensive set. The selection criteria are described in the methods section. GENCODE Comprehensive set contains all GENCODE coding and non-coding transcript annotations, including polymorphic pseudogenes. This includes both manual and automatic annotations. This is a super-set of the Basic set. GENCODE Pseudogenes include all annotations except polymorphic pseudogenes. PolyA GENCODE PolyA contains polyA signals and sites manually annotated on the genome based on transcribed evidence (ESTs and cDNAs) of 3' end of transcripts containing at least 3 A's not matching the genome. Maximum number of transcripts to display is available for the items in the GENCODE Basic, Comprehensive and Pseudogene tracks. Starting with the GENCODE human V42 and mouse VM31 releases, transcripts are assigned rank within the gene. The ranks may be used to filter the number of transcripts displayed in a principled manner. Transcript ranking is not available in the lift37 releases. See Methods for details of rank assignment. Filtering is available for the items in the GENCODE Basic, Comprehensive and Pseudogene tracks using the following criteria: Transcript class: filter by the basic biological function of a transcript annotation All - don't filter by transcript class coding - display protein coding transcripts, including polymorphic pseudogenes nonCoding - display non-protein coding transcripts pseudo - display pseudogene transcript annotations problem - display problem transcripts (Biotypes of retained_intron, TEC, or disrupted_domain) Transcript Annotation Method: filter by the method used to create the annotation All - don't filter by transcript class manual - display manually created annotations, including those that are also created automatically automatic - display automatically created annotations, including those that are also created manually manual_only - display manually created annotations that were not annotated by the automatic method automatic_only - display automatically created annotations that were not annotated by the manual method Transcript Biotype: filter transcripts by Biotype Support Level: filter transcripts by transcription support level Coloring for the gene annotations is based on the annotation type: coding non-coding pseudogene problem all polyA annotations Methods The GENCODE project aims to annotate all evidence-based gene features on the human and mouse reference sequence with high accuracy by integrating computational approaches (including comparative methods), manual annotation and targeted experimental verification. This goal includes identifying all protein-coding loci with associated alternative variants, non-coding loci which have transcript evidence, and pseudogenes. For a detailed description of the methods and references used, see Harrow et al. (2006). GENCODE Basic Set selection: The GENCODE Basic Set is intended to provide a simplified subset of the GENCODE transcript annotations that will be useful to the majority of users. The goal was to have a high-quality basic set that also covered all loci. Selection of GENCODE annotations for inclusion in the basic set was determined independently for the coding and non-coding transcripts at each gene locus. Criteria for selection of coding transcripts (including polymorphic pseudogenes) at a given locus: All full-length coding transcripts (except problem transcripts or transcripts that are nonsense-mediated decay) were included in the basic set. If there were no transcripts meeting the above criteria, then the partial coding transcript with the largest CDS was included in the basic set (excluding problem transcripts). Criteria for selection of non-coding transcripts at a given locus: All full-length non-coding transcripts (except problem transcripts) with a well characterized Biotype (see below) were included in the basic set. If there were no transcripts meeting the above criteria, then the largest non-coding transcript was included in the basic set (excluding problem transcripts). If no transcripts were included by either of the above criteria, the longest problem transcript is included. Non-coding transcript categorization: Non-coding transcripts are categorized using their biotype and the following criteria: well characterized: antisense, Mt_rRNA, Mt_tRNA, miRNA, rRNA, snRNA, snoRNA poorly characterized: 3prime_overlapping_ncrna, lincRNA, misc_RNA, non_coding, processed_transcript, sense_intronic, sense_overlapping Transcript ranking: Within each gene, transcripts have been ranked according to the following criteria. The ranking approach is preliminary and will change is future releases. Protein_coding genes MANE or Ensembl canonical -1st: MANE Select / Ensembl canonical -2nd: MANE Plus Clinical Coding biotypes -1st: protein_coding and protein_coding_LoF -2nd: NMDs and NSDs -3rd: retained intron and protein_coding_CDS_not_defined Completeness -1st: full length -2nd: CDS start/end not found CARS score (only for coding transcripts) Transcript genomic span and length (only for non-coding transcripts) Non-coding genes Transcript biotype -1st: transcript biotype identical to gene biotype Ensembl canonical GENCODE basic Transcript genomic span Transcript length Transcription Support Level (TSL): It is important that users understand how to assess transcript annotations that they see in GENCODE. While some transcript models have a high level of support through the full length of their exon structure, there are also transcripts that are poorly supported and that should be considered speculative. The Transcription Support Level (TSL) is a method to highlight the well-supported and poorly-supported transcript models for users. The method relies on the primary data that can support full-length transcript structure: mRNA and EST alignments supplied by UCSC and Ensembl. The mRNA and EST alignments are compared to the GENCODE transcripts and the transcripts are scored according to how well the alignment matches over its full length. The GENCODE TSL provides a consistent method of evaluating the level of support that a GENCODE transcript annotation is actually expressed in mouse. Mouse transcript sequences from the International Nucleotide Sequence Database Collaboration (GenBank, ENA, and DDBJ) are used as the evidence for this analysis. Exonerate RNA alignments from Ensembl, BLAT RNA and EST alignments from the UCSC Genome Browser Database are used in the analysis. Erroneous transcripts and libraries identified in lists maintained by the Ensembl, UCSC, HAVANA and RefSeq groups are flagged as suspect. GENCODE annotations for protein-coding and non-protein-coding transcripts are compared with the evidence alignments. Annotations in the MHC region and other immunological genes are not evaluated, as automatic alignments tend to be very problematic. Methods for evaluating single-exon genes are still being developed and they are not included in the current analysis. Multi-exon GENCODE annotations are evaluated using the criteria that all introns are supported by an evidence alignment and the evidence alignment does not indicate that there are unannotated exons. Small insertions and deletions in evidence alignments are assumed to be due to polymorphisms and not considered as differing from the annotations. All intron boundaries must match exactly. The transcript start and end locations are allowed to differ. The following categories are assigned to each of the evaluated annotations: tsl1 - all splice junctions of the transcript are supported by at least one non-suspect mRNA tsl2 - the best supporting mRNA is flagged as suspect or the support is from multiple ESTs tsl3 - the only support is from a single EST tsl4 - the best supporting EST is flagged as suspect tsl5 - no single transcript supports the model structure tslNA - the transcript was not analyzed for one of the following reasons: pseudogene annotation, including transcribed pseudogenes immunoglobin gene transcript T-cell receptor transcript single-exon transcript (will be included in a future version) APPRIS is a system to annotate alternatively spliced transcripts based on a range of computational methods. It provides value to the annotations of the human, mouse, zebrafish, rat, and pig genomes. APPRIS has selected a single CDS variant for each gene as the 'PRINCIPAL' isoform. Principal isoforms are tagged with the numbers 1 to 5, with 1 being the most reliable. PRINCIPAL:1 - Transcript(s) expected to code for the main functional isoform based solely on the core modules in the APPRIS. PRINCIPAL:2 - Where the APPRIS core modules are unable to choose a clear principal variant (approximately 25% of human protein coding genes), the database chooses two or more of the CDS variants as "candidates" to be the principal variant. PRINCIPAL:3 - Where the APPRIS core modules are unable to choose a clear principal variant and more than one of the variants have distinct CCDS identifiers, APPRIS selects the variant with lowest CCDS identifier as the principal variant. The lower the CCDS identifier, the earlier it was annotated. PRINCIPAL:4 - Where the APPRIS core modules are unable to choose a clear principal CDS and there is more than one variant with distinct (but consecutive) CCDS identifiers, APPRIS selects the longest CCDS isoform as the principal variant. PRINCIPAL:5 - Where the APPRIS core modules are unable to choose a clear principal variant and none of the candidate variants are annotated by CCDS, APPRIS selects the longest of the candidate isoforms as the principal variant. For genes in which the APPRIS core modules are unable to choose a clear principal variant (approximately 25% of human protein coding genes), the "candidate" variants not chosen as principal are labeled in the following way: ALTERNATIVE:1 - Candidate transcript(s) models that are conserved in at least three tested species. ALTERNATIVE:2 - Candidate transcript(s) models that appear to be conserved in fewer than three tested species. Non-candidate transcripts are not tagged and are considered as "Minor" transcripts. Further information and additional web services can be found at the APPRIS website. Downloads GENCODE GFF3 and GTF files are available from the GENCODE release 39 site. Verification Selected transcript models are verified experimentally by RT-PCR amplification followed by sequencing. Those experiments can be found at GEO: GSE30619:[E-MTAB-612] - Batch I is based on annotation from July 2008 (without pseudogenes). GSE25711:[E-MTAB-407] - Batch II is based on annotation from April 2009. GSE30612:[E-MTAB-533] - Batch III is verifying RGASP models for c.elegans and human. GSE34797:[E-MTAB-684] - Batch IV is based on chromosome 3, 4 and 5 annotations from GENCODE 4 (January 2010). GSE34820:[E-MTAB-737] - Batch V is based on annotations from GENCODE 6 (November 2010). GSE34821:[E-MTAB-831] - Batch VI is based on annotations from GENCODE 6 (November 2010) as well as transcript models predicted by the Ensembl Genebuild group based on the Illumina Human BodyMap 2.0 data. See Harrow et al. (2006) for information on verification techniques. Release Notes GENCODE version 39 corresponds to Ensembl 105. See also: The GENCODE Project Credits The GENCODE project is an international collaboration funded by NIH/NHGRI grant U41HG007234. More information is available at www.gencodegenes.org, Participating GENCODE institutions and personnel can be found here. References Frankish A, Diekhans M, Jungreis I, Lagarde J, Loveland JE, Mudge JM, Sisu C, Wright JC, Armstrong J, Barnes I et al. GENCODE 2021. Nucleic Acids Res. 2021 Jan 8;49(D1):D916-D923. PMID: 33270111; PMC: PMC7778937; DOI: 10.1093/nar/gkaa1087 A full list of GENCODE publications are available at The GENCODE Project web site. Data Release Policy GENCODE data are available for use without restrictions. 
wgEncodeGencodeV39ViewPolya PolyA All GENCODE annotations from V39 (Ensembl 105) Genes and Gene Predictions 
wgEncodeGencodePolyaV39 PolyA PolyA Transcript Annotation Set from GENCODE Version 39 (Ensembl 105) Genes and Gene Predictions 
wgEncodeGencodeV39ViewGenes Genes All GENCODE annotations from V39 (Ensembl 105) Genes and Gene Predictions 
wgEncodeGencodePseudoGeneV39 Pseudogenes Pseudogene Annotation Set from GENCODE Version 39 (Ensembl 105) Genes and Gene Predictions 
wgEncodeGencodeCompV39 Comprehensive Comprehensive Gene Annotation Set from GENCODE Version 39 (Ensembl 105) Genes and Gene Predictions 
wgEncodeGencodeBasicV39 Basic Basic Gene Annotation Set from GENCODE Version 39 (Ensembl 105) Genes and Gene Predictions 
wgEncodeGencodeV39View2Way 2-Way All GENCODE annotations from V39 (Ensembl 105) Genes and Gene Predictions 
wgEncodeGencode2wayConsPseudoV39 2-way Pseudogenes 2-way Pseudogene Annotation Set from GENCODE Version 39 (Ensembl 105) Genes and Gene Predictions 
wgEncodeGencodeV38 All GENCODE V38 All GENCODE annotations from V38 (Ensembl 104) Genes and Gene Predictions Description The GENCODE Genes track (version 38, May 2021) shows high-quality manual annotations merged with evidence-based automated annotations across the entire human genome generated by the GENCODE project. The GENCODE gene set presents a full merge between HAVANA manual annotation process and Ensembl automatic annotation pipeline. Priority is given to the manually curated HAVANA annotation using predicted Ensembl annotations when there are no corresponding manual annotations. The 38 annotation was carried out on genome assembly GRCh38 (hg38). The Ensembl human and mouse data sets are the same gene annotations as GENCODE for the corresponding release. Display Conventions and Configuration This track is a multi-view composite track that contains differing data sets (views). Instructions for configuring multi-view tracks are here. To show only selected subtracks, uncheck the boxes next to the tracks that you wish to hide. Views available on this track are: Genes The gene annotations in this view are divided into three subtracks: GENCODE Basic set is a subset of the Comprehensive set. The selection criteria are described in the methods section. GENCODE Comprehensive set contains all GENCODE coding and non-coding transcript annotations, including polymorphic pseudogenes. This includes both manual and automatic annotations. This is a super-set of the Basic set. GENCODE Pseudogenes include all annotations except polymorphic pseudogenes. PolyA GENCODE PolyA contains polyA signals and sites manually annotated on the genome based on transcribed evidence (ESTs and cDNAs) of 3' end of transcripts containing at least 3 A's not matching the genome. Maximum number of transcripts to display is available for the items in the GENCODE Basic, Comprehensive and Pseudogene tracks. Starting with the GENCODE human V42 and mouse VM31 releases, transcripts are assigned rank within the gene. The ranks may be used to filter the number of transcripts displayed in a principled manner. Transcript ranking is not available in the lift37 releases. See Methods for details of rank assignment. Filtering is available for the items in the GENCODE Basic, Comprehensive and Pseudogene tracks using the following criteria: Transcript class: filter by the basic biological function of a transcript annotation All - don't filter by transcript class coding - display protein coding transcripts, including polymorphic pseudogenes nonCoding - display non-protein coding transcripts pseudo - display pseudogene transcript annotations problem - display problem transcripts (Biotypes of retained_intron, TEC, or disrupted_domain) Transcript Annotation Method: filter by the method used to create the annotation All - don't filter by transcript class manual - display manually created annotations, including those that are also created automatically automatic - display automatically created annotations, including those that are also created manually manual_only - display manually created annotations that were not annotated by the automatic method automatic_only - display automatically created annotations that were not annotated by the manual method Transcript Biotype: filter transcripts by Biotype Support Level: filter transcripts by transcription support level Coloring for the gene annotations is based on the annotation type: coding non-coding pseudogene problem all polyA annotations Methods The GENCODE project aims to annotate all evidence-based gene features on the human and mouse reference sequence with high accuracy by integrating computational approaches (including comparative methods), manual annotation and targeted experimental verification. This goal includes identifying all protein-coding loci with associated alternative variants, non-coding loci which have transcript evidence, and pseudogenes. For a detailed description of the methods and references used, see Harrow et al. (2006). GENCODE Basic Set selection: The GENCODE Basic Set is intended to provide a simplified subset of the GENCODE transcript annotations that will be useful to the majority of users. The goal was to have a high-quality basic set that also covered all loci. Selection of GENCODE annotations for inclusion in the basic set was determined independently for the coding and non-coding transcripts at each gene locus. Criteria for selection of coding transcripts (including polymorphic pseudogenes) at a given locus: All full-length coding transcripts (except problem transcripts or transcripts that are nonsense-mediated decay) were included in the basic set. If there were no transcripts meeting the above criteria, then the partial coding transcript with the largest CDS was included in the basic set (excluding problem transcripts). Criteria for selection of non-coding transcripts at a given locus: All full-length non-coding transcripts (except problem transcripts) with a well characterized Biotype (see below) were included in the basic set. If there were no transcripts meeting the above criteria, then the largest non-coding transcript was included in the basic set (excluding problem transcripts). If no transcripts were included by either of the above criteria, the longest problem transcript is included. Non-coding transcript categorization: Non-coding transcripts are categorized using their biotype and the following criteria: well characterized: antisense, Mt_rRNA, Mt_tRNA, miRNA, rRNA, snRNA, snoRNA poorly characterized: 3prime_overlapping_ncrna, lincRNA, misc_RNA, non_coding, processed_transcript, sense_intronic, sense_overlapping Transcript ranking: Within each gene, transcripts have been ranked according to the following criteria. The ranking approach is preliminary and will change is future releases. Protein_coding genes MANE or Ensembl canonical -1st: MANE Select / Ensembl canonical -2nd: MANE Plus Clinical Coding biotypes -1st: protein_coding and protein_coding_LoF -2nd: NMDs and NSDs -3rd: retained intron and protein_coding_CDS_not_defined Completeness -1st: full length -2nd: CDS start/end not found CARS score (only for coding transcripts) Transcript genomic span and length (only for non-coding transcripts) Non-coding genes Transcript biotype -1st: transcript biotype identical to gene biotype Ensembl canonical GENCODE basic Transcript genomic span Transcript length Transcription Support Level (TSL): It is important that users understand how to assess transcript annotations that they see in GENCODE. While some transcript models have a high level of support through the full length of their exon structure, there are also transcripts that are poorly supported and that should be considered speculative. The Transcription Support Level (TSL) is a method to highlight the well-supported and poorly-supported transcript models for users. The method relies on the primary data that can support full-length transcript structure: mRNA and EST alignments supplied by UCSC and Ensembl. The mRNA and EST alignments are compared to the GENCODE transcripts and the transcripts are scored according to how well the alignment matches over its full length. The GENCODE TSL provides a consistent method of evaluating the level of support that a GENCODE transcript annotation is actually expressed in mouse. Mouse transcript sequences from the International Nucleotide Sequence Database Collaboration (GenBank, ENA, and DDBJ) are used as the evidence for this analysis. Exonerate RNA alignments from Ensembl, BLAT RNA and EST alignments from the UCSC Genome Browser Database are used in the analysis. Erroneous transcripts and libraries identified in lists maintained by the Ensembl, UCSC, HAVANA and RefSeq groups are flagged as suspect. GENCODE annotations for protein-coding and non-protein-coding transcripts are compared with the evidence alignments. Annotations in the MHC region and other immunological genes are not evaluated, as automatic alignments tend to be very problematic. Methods for evaluating single-exon genes are still being developed and they are not included in the current analysis. Multi-exon GENCODE annotations are evaluated using the criteria that all introns are supported by an evidence alignment and the evidence alignment does not indicate that there are unannotated exons. Small insertions and deletions in evidence alignments are assumed to be due to polymorphisms and not considered as differing from the annotations. All intron boundaries must match exactly. The transcript start and end locations are allowed to differ. The following categories are assigned to each of the evaluated annotations: tsl1 - all splice junctions of the transcript are supported by at least one non-suspect mRNA tsl2 - the best supporting mRNA is flagged as suspect or the support is from multiple ESTs tsl3 - the only support is from a single EST tsl4 - the best supporting EST is flagged as suspect tsl5 - no single transcript supports the model structure tslNA - the transcript was not analyzed for one of the following reasons: pseudogene annotation, including transcribed pseudogenes immunoglobin gene transcript T-cell receptor transcript single-exon transcript (will be included in a future version) APPRIS is a system to annotate alternatively spliced transcripts based on a range of computational methods. It provides value to the annotations of the human, mouse, zebrafish, rat, and pig genomes. APPRIS has selected a single CDS variant for each gene as the 'PRINCIPAL' isoform. Principal isoforms are tagged with the numbers 1 to 5, with 1 being the most reliable. PRINCIPAL:1 - Transcript(s) expected to code for the main functional isoform based solely on the core modules in the APPRIS. PRINCIPAL:2 - Where the APPRIS core modules are unable to choose a clear principal variant (approximately 25% of human protein coding genes), the database chooses two or more of the CDS variants as "candidates" to be the principal variant. PRINCIPAL:3 - Where the APPRIS core modules are unable to choose a clear principal variant and more than one of the variants have distinct CCDS identifiers, APPRIS selects the variant with lowest CCDS identifier as the principal variant. The lower the CCDS identifier, the earlier it was annotated. PRINCIPAL:4 - Where the APPRIS core modules are unable to choose a clear principal CDS and there is more than one variant with distinct (but consecutive) CCDS identifiers, APPRIS selects the longest CCDS isoform as the principal variant. PRINCIPAL:5 - Where the APPRIS core modules are unable to choose a clear principal variant and none of the candidate variants are annotated by CCDS, APPRIS selects the longest of the candidate isoforms as the principal variant. For genes in which the APPRIS core modules are unable to choose a clear principal variant (approximately 25% of human protein coding genes), the "candidate" variants not chosen as principal are labeled in the following way: ALTERNATIVE:1 - Candidate transcript(s) models that are conserved in at least three tested species. ALTERNATIVE:2 - Candidate transcript(s) models that appear to be conserved in fewer than three tested species. Non-candidate transcripts are not tagged and are considered as "Minor" transcripts. Further information and additional web services can be found at the APPRIS website. Downloads GENCODE GFF3 and GTF files are available from the GENCODE release 38 site. Verification Selected transcript models are verified experimentally by RT-PCR amplification followed by sequencing. Those experiments can be found at GEO: GSE30619:[E-MTAB-612] - Batch I is based on annotation from July 2008 (without pseudogenes). GSE25711:[E-MTAB-407] - Batch II is based on annotation from April 2009. GSE30612:[E-MTAB-533] - Batch III is verifying RGASP models for c.elegans and human. GSE34797:[E-MTAB-684] - Batch IV is based on chromosome 3, 4 and 5 annotations from GENCODE 4 (January 2010). GSE34820:[E-MTAB-737] - Batch V is based on annotations from GENCODE 6 (November 2010). GSE34821:[E-MTAB-831] - Batch VI is based on annotations from GENCODE 6 (November 2010) as well as transcript models predicted by the Ensembl Genebuild group based on the Illumina Human BodyMap 2.0 data. See Harrow et al. (2006) for information on verification techniques. Release Notes GENCODE version 38 corresponds to Ensembl 104. See also: The GENCODE Project Credits The GENCODE project is an international collaboration funded by NIH/NHGRI grant U41HG007234. More information is available at www.gencodegenes.org, Participating GENCODE institutions and personnel can be found here. References Frankish A, Diekhans M, Jungreis I, Lagarde J, Loveland JE, Mudge JM, Sisu C, Wright JC, Armstrong J, Barnes I et al. GENCODE 2021. Nucleic Acids Res. 2021 Jan 8;49(D1):D916-D923. PMID: 33270111; PMC: PMC7778937; DOI: 10.1093/nar/gkaa1087 A full list of GENCODE publications are available at The GENCODE Project web site. Data Release Policy GENCODE data are available for use without restrictions. 
wgEncodeGencodeV38ViewPolya PolyA All GENCODE annotations from V38 (Ensembl 104) Genes and Gene Predictions 
wgEncodeGencodePolyaV38 PolyA PolyA Transcript Annotation Set from GENCODE Version 38 (Ensembl 104) Genes and Gene Predictions 
wgEncodeGencodeV38ViewGenes Genes All GENCODE annotations from V38 (Ensembl 104) Genes and Gene Predictions 
wgEncodeGencodePseudoGeneV38 Pseudogenes Pseudogene Annotation Set from GENCODE Version 38 (Ensembl 104) Genes and Gene Predictions 
wgEncodeGencodeCompV38 Comprehensive Comprehensive Gene Annotation Set from GENCODE Version 38 (Ensembl 104) Genes and Gene Predictions 
wgEncodeGencodeBasicV38 Basic Basic Gene Annotation Set from GENCODE Version 38 (Ensembl 104) Genes and Gene Predictions 
wgEncodeGencodeV38View2Way 2-Way All GENCODE annotations from V38 (Ensembl 104) Genes and Gene Predictions 
wgEncodeGencode2wayConsPseudoV38 2-way Pseudogenes 2-way Pseudogene Annotation Set from GENCODE Version 38 (Ensembl 104) Genes and Gene Predictions 
wgEncodeGencodeV37 All GENCODE V37 All GENCODE annotations from V37 (Ensembl 103) Genes and Gene Predictions Description The GENCODE Genes track (version 37, Feb 2021) shows high-quality manual annotations merged with evidence-based automated annotations across the entire human genome generated by the GENCODE project. The GENCODE gene set presents a full merge between HAVANA manual annotation process and Ensembl automatic annotation pipeline. Priority is given to the manually curated HAVANA annotation using predicted Ensembl annotations when there are no corresponding manual annotations. The 37 annotation was carried out on genome assembly GRCh38 (hg38). The Ensembl human and mouse data sets are the same gene annotations as GENCODE for the corresponding release. Display Conventions and Configuration This track is a multi-view composite track that contains differing data sets (views). Instructions for configuring multi-view tracks are here. To show only selected subtracks, uncheck the boxes next to the tracks that you wish to hide. Views available on this track are: Genes The gene annotations in this view are divided into three subtracks: GENCODE Basic set is a subset of the Comprehensive set. The selection criteria are described in the methods section. GENCODE Comprehensive set contains all GENCODE coding and non-coding transcript annotations, including polymorphic pseudogenes. This includes both manual and automatic annotations. This is a super-set of the Basic set. GENCODE Pseudogenes include all annotations except polymorphic pseudogenes. PolyA GENCODE PolyA contains polyA signals and sites manually annotated on the genome based on transcribed evidence (ESTs and cDNAs) of 3' end of transcripts containing at least 3 A's not matching the genome. Maximum number of transcripts to display is available for the items in the GENCODE Basic, Comprehensive and Pseudogene tracks. Starting with the GENCODE human V42 and mouse VM31 releases, transcripts are assigned rank within the gene. The ranks may be used to filter the number of transcripts displayed in a principled manner. Transcript ranking is not available in the lift37 releases. See Methods for details of rank assignment. Filtering is available for the items in the GENCODE Basic, Comprehensive and Pseudogene tracks using the following criteria: Transcript class: filter by the basic biological function of a transcript annotation All - don't filter by transcript class coding - display protein coding transcripts, including polymorphic pseudogenes nonCoding - display non-protein coding transcripts pseudo - display pseudogene transcript annotations problem - display problem transcripts (Biotypes of retained_intron, TEC, or disrupted_domain) Transcript Annotation Method: filter by the method used to create the annotation All - don't filter by transcript class manual - display manually created annotations, including those that are also created automatically automatic - display automatically created annotations, including those that are also created manually manual_only - display manually created annotations that were not annotated by the automatic method automatic_only - display automatically created annotations that were not annotated by the manual method Transcript Biotype: filter transcripts by Biotype Support Level: filter transcripts by transcription support level Coloring for the gene annotations is based on the annotation type: coding non-coding pseudogene problem all polyA annotations Methods The GENCODE project aims to annotate all evidence-based gene features on the human and mouse reference sequence with high accuracy by integrating computational approaches (including comparative methods), manual annotation and targeted experimental verification. This goal includes identifying all protein-coding loci with associated alternative variants, non-coding loci which have transcript evidence, and pseudogenes. For a detailed description of the methods and references used, see Harrow et al. (2006). GENCODE Basic Set selection: The GENCODE Basic Set is intended to provide a simplified subset of the GENCODE transcript annotations that will be useful to the majority of users. The goal was to have a high-quality basic set that also covered all loci. Selection of GENCODE annotations for inclusion in the basic set was determined independently for the coding and non-coding transcripts at each gene locus. Criteria for selection of coding transcripts (including polymorphic pseudogenes) at a given locus: All full-length coding transcripts (except problem transcripts or transcripts that are nonsense-mediated decay) were included in the basic set. If there were no transcripts meeting the above criteria, then the partial coding transcript with the largest CDS was included in the basic set (excluding problem transcripts). Criteria for selection of non-coding transcripts at a given locus: All full-length non-coding transcripts (except problem transcripts) with a well characterized Biotype (see below) were included in the basic set. If there were no transcripts meeting the above criteria, then the largest non-coding transcript was included in the basic set (excluding problem transcripts). If no transcripts were included by either of the above criteria, the longest problem transcript is included. Non-coding transcript categorization: Non-coding transcripts are categorized using their biotype and the following criteria: well characterized: antisense, Mt_rRNA, Mt_tRNA, miRNA, rRNA, snRNA, snoRNA poorly characterized: 3prime_overlapping_ncrna, lincRNA, misc_RNA, non_coding, processed_transcript, sense_intronic, sense_overlapping Transcript ranking: Within each gene, transcripts have been ranked according to the following criteria. The ranking approach is preliminary and will change is future releases. Protein_coding genes MANE or Ensembl canonical -1st: MANE Select / Ensembl canonical -2nd: MANE Plus Clinical Coding biotypes -1st: protein_coding and protein_coding_LoF -2nd: NMDs and NSDs -3rd: retained intron and protein_coding_CDS_not_defined Completeness -1st: full length -2nd: CDS start/end not found CARS score (only for coding transcripts) Transcript genomic span and length (only for non-coding transcripts) Non-coding genes Transcript biotype -1st: transcript biotype identical to gene biotype Ensembl canonical GENCODE basic Transcript genomic span Transcript length Transcription Support Level (TSL): It is important that users understand how to assess transcript annotations that they see in GENCODE. While some transcript models have a high level of support through the full length of their exon structure, there are also transcripts that are poorly supported and that should be considered speculative. The Transcription Support Level (TSL) is a method to highlight the well-supported and poorly-supported transcript models for users. The method relies on the primary data that can support full-length transcript structure: mRNA and EST alignments supplied by UCSC and Ensembl. The mRNA and EST alignments are compared to the GENCODE transcripts and the transcripts are scored according to how well the alignment matches over its full length. The GENCODE TSL provides a consistent method of evaluating the level of support that a GENCODE transcript annotation is actually expressed in mouse. Mouse transcript sequences from the International Nucleotide Sequence Database Collaboration (GenBank, ENA, and DDBJ) are used as the evidence for this analysis. Exonerate RNA alignments from Ensembl, BLAT RNA and EST alignments from the UCSC Genome Browser Database are used in the analysis. Erroneous transcripts and libraries identified in lists maintained by the Ensembl, UCSC, HAVANA and RefSeq groups are flagged as suspect. GENCODE annotations for protein-coding and non-protein-coding transcripts are compared with the evidence alignments. Annotations in the MHC region and other immunological genes are not evaluated, as automatic alignments tend to be very problematic. Methods for evaluating single-exon genes are still being developed and they are not included in the current analysis. Multi-exon GENCODE annotations are evaluated using the criteria that all introns are supported by an evidence alignment and the evidence alignment does not indicate that there are unannotated exons. Small insertions and deletions in evidence alignments are assumed to be due to polymorphisms and not considered as differing from the annotations. All intron boundaries must match exactly. The transcript start and end locations are allowed to differ. The following categories are assigned to each of the evaluated annotations: tsl1 - all splice junctions of the transcript are supported by at least one non-suspect mRNA tsl2 - the best supporting mRNA is flagged as suspect or the support is from multiple ESTs tsl3 - the only support is from a single EST tsl4 - the best supporting EST is flagged as suspect tsl5 - no single transcript supports the model structure tslNA - the transcript was not analyzed for one of the following reasons: pseudogene annotation, including transcribed pseudogenes immunoglobin gene transcript T-cell receptor transcript single-exon transcript (will be included in a future version) APPRIS is a system to annotate alternatively spliced transcripts based on a range of computational methods. It provides value to the annotations of the human, mouse, zebrafish, rat, and pig genomes. APPRIS has selected a single CDS variant for each gene as the 'PRINCIPAL' isoform. Principal isoforms are tagged with the numbers 1 to 5, with 1 being the most reliable. PRINCIPAL:1 - Transcript(s) expected to code for the main functional isoform based solely on the core modules in the APPRIS. PRINCIPAL:2 - Where the APPRIS core modules are unable to choose a clear principal variant (approximately 25% of human protein coding genes), the database chooses two or more of the CDS variants as "candidates" to be the principal variant. PRINCIPAL:3 - Where the APPRIS core modules are unable to choose a clear principal variant and more than one of the variants have distinct CCDS identifiers, APPRIS selects the variant with lowest CCDS identifier as the principal variant. The lower the CCDS identifier, the earlier it was annotated. PRINCIPAL:4 - Where the APPRIS core modules are unable to choose a clear principal CDS and there is more than one variant with distinct (but consecutive) CCDS identifiers, APPRIS selects the longest CCDS isoform as the principal variant. PRINCIPAL:5 - Where the APPRIS core modules are unable to choose a clear principal variant and none of the candidate variants are annotated by CCDS, APPRIS selects the longest of the candidate isoforms as the principal variant. For genes in which the APPRIS core modules are unable to choose a clear principal variant (approximately 25% of human protein coding genes), the "candidate" variants not chosen as principal are labeled in the following way: ALTERNATIVE:1 - Candidate transcript(s) models that are conserved in at least three tested species. ALTERNATIVE:2 - Candidate transcript(s) models that appear to be conserved in fewer than three tested species. Non-candidate transcripts are not tagged and are considered as "Minor" transcripts. Further information and additional web services can be found at the APPRIS website. Downloads GENCODE GFF3 and GTF files are available from the GENCODE release 37 site. Verification Selected transcript models are verified experimentally by RT-PCR amplification followed by sequencing. Those experiments can be found at GEO: GSE30619:[E-MTAB-612] - Batch I is based on annotation from July 2008 (without pseudogenes). GSE25711:[E-MTAB-407] - Batch II is based on annotation from April 2009. GSE30612:[E-MTAB-533] - Batch III is verifying RGASP models for c.elegans and human. GSE34797:[E-MTAB-684] - Batch IV is based on chromosome 3, 4 and 5 annotations from GENCODE 4 (January 2010). GSE34820:[E-MTAB-737] - Batch V is based on annotations from GENCODE 6 (November 2010). GSE34821:[E-MTAB-831] - Batch VI is based on annotations from GENCODE 6 (November 2010) as well as transcript models predicted by the Ensembl Genebuild group based on the Illumina Human BodyMap 2.0 data. See Harrow et al. (2006) for information on verification techniques. Release Notes GENCODE version 37 corresponds to Ensembl 103. See also: The GENCODE Project Credits The GENCODE project is an international collaboration funded by NIH/NHGRI grant U41HG007234. More information is available at www.gencodegenes.org, Participating GENCODE institutions and personnel can be found here. References Frankish A, Diekhans M, Jungreis I, Lagarde J, Loveland JE, Mudge JM, Sisu C, Wright JC, Armstrong J, Barnes I et al. GENCODE 2021. Nucleic Acids Res. 2021 Jan 8;49(D1):D916-D923. PMID: 33270111; PMC: PMC7778937; DOI: 10.1093/nar/gkaa1087 A full list of GENCODE publications are available at The GENCODE Project web site. Data Release Policy GENCODE data are available for use without restrictions. 
wgEncodeGencodeV37ViewPolya PolyA All GENCODE annotations from V37 (Ensembl 103) Genes and Gene Predictions 
wgEncodeGencodePolyaV37 PolyA PolyA Transcript Annotation Set from GENCODE Version 37 (Ensembl 103) Genes and Gene Predictions 
wgEncodeGencodeV37ViewGenes Genes All GENCODE annotations from V37 (Ensembl 103) Genes and Gene Predictions 
wgEncodeGencodePseudoGeneV37 Pseudogenes Pseudogene Annotation Set from GENCODE Version 37 (Ensembl 103) Genes and Gene Predictions 
wgEncodeGencodeCompV37 Comprehensive Comprehensive Gene Annotation Set from GENCODE Version 37 (Ensembl 103) Genes and Gene Predictions 
wgEncodeGencodeBasicV37 Basic Basic Gene Annotation Set from GENCODE Version 37 (Ensembl 103) Genes and Gene Predictions 
wgEncodeGencodeV37View2Way 2-Way All GENCODE annotations from V37 (Ensembl 103) Genes and Gene Predictions 
wgEncodeGencode2wayConsPseudoV37 2-way Pseudogenes 2-way Pseudogene Annotation Set from GENCODE Version 37 (Ensembl 103) Genes and Gene Predictions 
wgEncodeGencodeV36 All GENCODE V36 All GENCODE annotations from V36 (Ensembl 102) Genes and Gene Predictions Description The GENCODE Genes track (version 36, Nov 2020) shows high-quality manual annotations merged with evidence-based automated annotations across the entire human genome generated by the GENCODE project. The GENCODE gene set presents a full merge between HAVANA manual annotation process and Ensembl automatic annotation pipeline. Priority is given to the manually curated HAVANA annotation using predicted Ensembl annotations when there are no corresponding manual annotations. The 36 annotation was carried out on genome assembly GRCh38 (hg38). The Ensembl human and mouse data sets are the same gene annotations as GENCODE for the corresponding release. Display Conventions and Configuration This track is a multi-view composite track that contains differing data sets (views). Instructions for configuring multi-view tracks are here. To show only selected subtracks, uncheck the boxes next to the tracks that you wish to hide. Views available on this track are: Genes The gene annotations in this view are divided into three subtracks: GENCODE Basic set is a subset of the Comprehensive set. The selection criteria are described in the methods section. GENCODE Comprehensive set contains all GENCODE coding and non-coding transcript annotations, including polymorphic pseudogenes. This includes both manual and automatic annotations. This is a super-set of the Basic set. GENCODE Pseudogenes include all annotations except polymorphic pseudogenes. PolyA GENCODE PolyA contains polyA signals and sites manually annotated on the genome based on transcribed evidence (ESTs and cDNAs) of 3' end of transcripts containing at least 3 A's not matching the genome. Maximum number of transcripts to display is available for the items in the GENCODE Basic, Comprehensive and Pseudogene tracks. Starting with the GENCODE human V42 and mouse VM31 releases, transcripts are assigned rank within the gene. The ranks may be used to filter the number of transcripts displayed in a principled manner. Transcript ranking is not available in the lift37 releases. See Methods for details of rank assignment. Filtering is available for the items in the GENCODE Basic, Comprehensive and Pseudogene tracks using the following criteria: Transcript class: filter by the basic biological function of a transcript annotation All - don't filter by transcript class coding - display protein coding transcripts, including polymorphic pseudogenes nonCoding - display non-protein coding transcripts pseudo - display pseudogene transcript annotations problem - display problem transcripts (Biotypes of retained_intron, TEC, or disrupted_domain) Transcript Annotation Method: filter by the method used to create the annotation All - don't filter by transcript class manual - display manually created annotations, including those that are also created automatically automatic - display automatically created annotations, including those that are also created manually manual_only - display manually created annotations that were not annotated by the automatic method automatic_only - display automatically created annotations that were not annotated by the manual method Transcript Biotype: filter transcripts by Biotype Support Level: filter transcripts by transcription support level Coloring for the gene annotations is based on the annotation type: coding non-coding pseudogene problem all polyA annotations Methods The GENCODE project aims to annotate all evidence-based gene features on the human and mouse reference sequence with high accuracy by integrating computational approaches (including comparative methods), manual annotation and targeted experimental verification. This goal includes identifying all protein-coding loci with associated alternative variants, non-coding loci which have transcript evidence, and pseudogenes. For a detailed description of the methods and references used, see Harrow et al. (2006). GENCODE Basic Set selection: The GENCODE Basic Set is intended to provide a simplified subset of the GENCODE transcript annotations that will be useful to the majority of users. The goal was to have a high-quality basic set that also covered all loci. Selection of GENCODE annotations for inclusion in the basic set was determined independently for the coding and non-coding transcripts at each gene locus. Criteria for selection of coding transcripts (including polymorphic pseudogenes) at a given locus: All full-length coding transcripts (except problem transcripts or transcripts that are nonsense-mediated decay) were included in the basic set. If there were no transcripts meeting the above criteria, then the partial coding transcript with the largest CDS was included in the basic set (excluding problem transcripts). Criteria for selection of non-coding transcripts at a given locus: All full-length non-coding transcripts (except problem transcripts) with a well characterized Biotype (see below) were included in the basic set. If there were no transcripts meeting the above criteria, then the largest non-coding transcript was included in the basic set (excluding problem transcripts). If no transcripts were included by either of the above criteria, the longest problem transcript is included. Non-coding transcript categorization: Non-coding transcripts are categorized using their biotype and the following criteria: well characterized: antisense, Mt_rRNA, Mt_tRNA, miRNA, rRNA, snRNA, snoRNA poorly characterized: 3prime_overlapping_ncrna, lincRNA, misc_RNA, non_coding, processed_transcript, sense_intronic, sense_overlapping Transcript ranking: Within each gene, transcripts have been ranked according to the following criteria. The ranking approach is preliminary and will change is future releases. Protein_coding genes MANE or Ensembl canonical -1st: MANE Select / Ensembl canonical -2nd: MANE Plus Clinical Coding biotypes -1st: protein_coding and protein_coding_LoF -2nd: NMDs and NSDs -3rd: retained intron and protein_coding_CDS_not_defined Completeness -1st: full length -2nd: CDS start/end not found CARS score (only for coding transcripts) Transcript genomic span and length (only for non-coding transcripts) Non-coding genes Transcript biotype -1st: transcript biotype identical to gene biotype Ensembl canonical GENCODE basic Transcript genomic span Transcript length Transcription Support Level (TSL): It is important that users understand how to assess transcript annotations that they see in GENCODE. While some transcript models have a high level of support through the full length of their exon structure, there are also transcripts that are poorly supported and that should be considered speculative. The Transcription Support Level (TSL) is a method to highlight the well-supported and poorly-supported transcript models for users. The method relies on the primary data that can support full-length transcript structure: mRNA and EST alignments supplied by UCSC and Ensembl. The mRNA and EST alignments are compared to the GENCODE transcripts and the transcripts are scored according to how well the alignment matches over its full length. The GENCODE TSL provides a consistent method of evaluating the level of support that a GENCODE transcript annotation is actually expressed in mouse. Mouse transcript sequences from the International Nucleotide Sequence Database Collaboration (GenBank, ENA, and DDBJ) are used as the evidence for this analysis. Exonerate RNA alignments from Ensembl, BLAT RNA and EST alignments from the UCSC Genome Browser Database are used in the analysis. Erroneous transcripts and libraries identified in lists maintained by the Ensembl, UCSC, HAVANA and RefSeq groups are flagged as suspect. GENCODE annotations for protein-coding and non-protein-coding transcripts are compared with the evidence alignments. Annotations in the MHC region and other immunological genes are not evaluated, as automatic alignments tend to be very problematic. Methods for evaluating single-exon genes are still being developed and they are not included in the current analysis. Multi-exon GENCODE annotations are evaluated using the criteria that all introns are supported by an evidence alignment and the evidence alignment does not indicate that there are unannotated exons. Small insertions and deletions in evidence alignments are assumed to be due to polymorphisms and not considered as differing from the annotations. All intron boundaries must match exactly. The transcript start and end locations are allowed to differ. The following categories are assigned to each of the evaluated annotations: tsl1 - all splice junctions of the transcript are supported by at least one non-suspect mRNA tsl2 - the best supporting mRNA is flagged as suspect or the support is from multiple ESTs tsl3 - the only support is from a single EST tsl4 - the best supporting EST is flagged as suspect tsl5 - no single transcript supports the model structure tslNA - the transcript was not analyzed for one of the following reasons: pseudogene annotation, including transcribed pseudogenes immunoglobin gene transcript T-cell receptor transcript single-exon transcript (will be included in a future version) APPRIS is a system to annotate alternatively spliced transcripts based on a range of computational methods. It provides value to the annotations of the human, mouse, zebrafish, rat, and pig genomes. APPRIS has selected a single CDS variant for each gene as the 'PRINCIPAL' isoform. Principal isoforms are tagged with the numbers 1 to 5, with 1 being the most reliable. PRINCIPAL:1 - Transcript(s) expected to code for the main functional isoform based solely on the core modules in the APPRIS. PRINCIPAL:2 - Where the APPRIS core modules are unable to choose a clear principal variant (approximately 25% of human protein coding genes), the database chooses two or more of the CDS variants as "candidates" to be the principal variant. PRINCIPAL:3 - Where the APPRIS core modules are unable to choose a clear principal variant and more than one of the variants have distinct CCDS identifiers, APPRIS selects the variant with lowest CCDS identifier as the principal variant. The lower the CCDS identifier, the earlier it was annotated. PRINCIPAL:4 - Where the APPRIS core modules are unable to choose a clear principal CDS and there is more than one variant with distinct (but consecutive) CCDS identifiers, APPRIS selects the longest CCDS isoform as the principal variant. PRINCIPAL:5 - Where the APPRIS core modules are unable to choose a clear principal variant and none of the candidate variants are annotated by CCDS, APPRIS selects the longest of the candidate isoforms as the principal variant. For genes in which the APPRIS core modules are unable to choose a clear principal variant (approximately 25% of human protein coding genes), the "candidate" variants not chosen as principal are labeled in the following way: ALTERNATIVE:1 - Candidate transcript(s) models that are conserved in at least three tested species. ALTERNATIVE:2 - Candidate transcript(s) models that appear to be conserved in fewer than three tested species. Non-candidate transcripts are not tagged and are considered as "Minor" transcripts. Further information and additional web services can be found at the APPRIS website. Downloads GENCODE GFF3 and GTF files are available from the GENCODE release 36 site. Verification Selected transcript models are verified experimentally by RT-PCR amplification followed by sequencing. Those experiments can be found at GEO: GSE30619:[E-MTAB-612] - Batch I is based on annotation from July 2008 (without pseudogenes). GSE25711:[E-MTAB-407] - Batch II is based on annotation from April 2009. GSE30612:[E-MTAB-533] - Batch III is verifying RGASP models for c.elegans and human. GSE34797:[E-MTAB-684] - Batch IV is based on chromosome 3, 4 and 5 annotations from GENCODE 4 (January 2010). GSE34820:[E-MTAB-737] - Batch V is based on annotations from GENCODE 6 (November 2010). GSE34821:[E-MTAB-831] - Batch VI is based on annotations from GENCODE 6 (November 2010) as well as transcript models predicted by the Ensembl Genebuild group based on the Illumina Human BodyMap 2.0 data. See Harrow et al. (2006) for information on verification techniques. Release Notes GENCODE version 36 corresponds to Ensembl 102. See also: The GENCODE Project Credits The GENCODE project is an international collaboration funded by NIH/NHGRI grant U41HG007234. More information is available at www.gencodegenes.org, Participating GENCODE institutions and personnel can be found here. References Frankish A, Diekhans M, Jungreis I, Lagarde J, Loveland JE, Mudge JM, Sisu C, Wright JC, Armstrong J, Barnes I et al. GENCODE 2021. Nucleic Acids Res. 2021 Jan 8;49(D1):D916-D923. PMID: 33270111; PMC: PMC7778937; DOI: 10.1093/nar/gkaa1087 A full list of GENCODE publications are available at The GENCODE Project web site. Data Release Policy GENCODE data are available for use without restrictions. 
wgEncodeGencodeV36ViewPolya PolyA All GENCODE annotations from V36 (Ensembl 102) Genes and Gene Predictions 
wgEncodeGencodePolyaV36 PolyA PolyA Transcript Annotation Set from GENCODE Version 36 (Ensembl 102) Genes and Gene Predictions 
wgEncodeGencodeV36ViewGenes Genes All GENCODE annotations from V36 (Ensembl 102) Genes and Gene Predictions 
wgEncodeGencodePseudoGeneV36 Pseudogenes Pseudogene Annotation Set from GENCODE Version 36 (Ensembl 102) Genes and Gene Predictions 
wgEncodeGencodeCompV36 Comprehensive Comprehensive Gene Annotation Set from GENCODE Version 36 (Ensembl 102) Genes and Gene Predictions 
wgEncodeGencodeBasicV36 Basic Basic Gene Annotation Set from GENCODE Version 36 (Ensembl 102) Genes and Gene Predictions 
wgEncodeGencodeV36View2Way 2-Way All GENCODE annotations from V36 (Ensembl 102) Genes and Gene Predictions 
wgEncodeGencode2wayConsPseudoV36 2-way Pseudogenes 2-way Pseudogene Annotation Set from GENCODE Version 36 (Ensembl 102) Genes and Gene Predictions 
wgEncodeGencodeV35 All GENCODE V35 All GENCODE annotations from V35 (Ensembl 101) Genes and Gene Predictions Description The GENCODE Genes track (version 35, Aug 2020) shows high-quality manual annotations merged with evidence-based automated annotations across the entire human genome generated by the GENCODE project. The GENCODE gene set presents a full merge between HAVANA manual annotation process and Ensembl automatic annotation pipeline. Priority is given to the manually curated HAVANA annotation using predicted Ensembl annotations when there are no corresponding manual annotations. The 35 annotation was carried out on genome assembly GRCh38 (hg38). The Ensembl human and mouse data sets are the same gene annotations as GENCODE for the corresponding release. Display Conventions and Configuration This track is a multi-view composite track that contains differing data sets (views). Instructions for configuring multi-view tracks are here. To show only selected subtracks, uncheck the boxes next to the tracks that you wish to hide. Views available on this track are: Genes The gene annotations in this view are divided into three subtracks: GENCODE Basic set is a subset of the Comprehensive set. The selection criteria are described in the methods section. GENCODE Comprehensive set contains all GENCODE coding and non-coding transcript annotations, including polymorphic pseudogenes. This includes both manual and automatic annotations. This is a super-set of the Basic set. GENCODE Pseudogenes include all annotations except polymorphic pseudogenes. PolyA GENCODE PolyA contains polyA signals and sites manually annotated on the genome based on transcribed evidence (ESTs and cDNAs) of 3' end of transcripts containing at least 3 A's not matching the genome. Maximum number of transcripts to display is available for the items in the GENCODE Basic, Comprehensive and Pseudogene tracks. Starting with the GENCODE human V42 and mouse VM31 releases, transcripts are assigned rank within the gene. The ranks may be used to filter the number of transcripts displayed in a principled manner. Transcript ranking is not available in the lift37 releases. See Methods for details of rank assignment. Filtering is available for the items in the GENCODE Basic, Comprehensive and Pseudogene tracks using the following criteria: Transcript class: filter by the basic biological function of a transcript annotation All - don't filter by transcript class coding - display protein coding transcripts, including polymorphic pseudogenes nonCoding - display non-protein coding transcripts pseudo - display pseudogene transcript annotations problem - display problem transcripts (Biotypes of retained_intron, TEC, or disrupted_domain) Transcript Annotation Method: filter by the method used to create the annotation All - don't filter by transcript class manual - display manually created annotations, including those that are also created automatically automatic - display automatically created annotations, including those that are also created manually manual_only - display manually created annotations that were not annotated by the automatic method automatic_only - display automatically created annotations that were not annotated by the manual method Transcript Biotype: filter transcripts by Biotype Support Level: filter transcripts by transcription support level Coloring for the gene annotations is based on the annotation type: coding non-coding pseudogene problem all polyA annotations Methods The GENCODE project aims to annotate all evidence-based gene features on the human and mouse reference sequence with high accuracy by integrating computational approaches (including comparative methods), manual annotation and targeted experimental verification. This goal includes identifying all protein-coding loci with associated alternative variants, non-coding loci which have transcript evidence, and pseudogenes. For a detailed description of the methods and references used, see Harrow et al. (2006). GENCODE Basic Set selection: The GENCODE Basic Set is intended to provide a simplified subset of the GENCODE transcript annotations that will be useful to the majority of users. The goal was to have a high-quality basic set that also covered all loci. Selection of GENCODE annotations for inclusion in the basic set was determined independently for the coding and non-coding transcripts at each gene locus. Criteria for selection of coding transcripts (including polymorphic pseudogenes) at a given locus: All full-length coding transcripts (except problem transcripts or transcripts that are nonsense-mediated decay) were included in the basic set. If there were no transcripts meeting the above criteria, then the partial coding transcript with the largest CDS was included in the basic set (excluding problem transcripts). Criteria for selection of non-coding transcripts at a given locus: All full-length non-coding transcripts (except problem transcripts) with a well characterized Biotype (see below) were included in the basic set. If there were no transcripts meeting the above criteria, then the largest non-coding transcript was included in the basic set (excluding problem transcripts). If no transcripts were included by either of the above criteria, the longest problem transcript is included. Non-coding transcript categorization: Non-coding transcripts are categorized using their biotype and the following criteria: well characterized: antisense, Mt_rRNA, Mt_tRNA, miRNA, rRNA, snRNA, snoRNA poorly characterized: 3prime_overlapping_ncrna, lincRNA, misc_RNA, non_coding, processed_transcript, sense_intronic, sense_overlapping Transcript ranking: Within each gene, transcripts have been ranked according to the following criteria. The ranking approach is preliminary and will change is future releases. Protein_coding genes MANE or Ensembl canonical -1st: MANE Select / Ensembl canonical -2nd: MANE Plus Clinical Coding biotypes -1st: protein_coding and protein_coding_LoF -2nd: NMDs and NSDs -3rd: retained intron and protein_coding_CDS_not_defined Completeness -1st: full length -2nd: CDS start/end not found CARS score (only for coding transcripts) Transcript genomic span and length (only for non-coding transcripts) Non-coding genes Transcript biotype -1st: transcript biotype identical to gene biotype Ensembl canonical GENCODE basic Transcript genomic span Transcript length Transcription Support Level (TSL): It is important that users understand how to assess transcript annotations that they see in GENCODE. While some transcript models have a high level of support through the full length of their exon structure, there are also transcripts that are poorly supported and that should be considered speculative. The Transcription Support Level (TSL) is a method to highlight the well-supported and poorly-supported transcript models for users. The method relies on the primary data that can support full-length transcript structure: mRNA and EST alignments supplied by UCSC and Ensembl. The mRNA and EST alignments are compared to the GENCODE transcripts and the transcripts are scored according to how well the alignment matches over its full length. The GENCODE TSL provides a consistent method of evaluating the level of support that a GENCODE transcript annotation is actually expressed in mouse. Mouse transcript sequences from the International Nucleotide Sequence Database Collaboration (GenBank, ENA, and DDBJ) are used as the evidence for this analysis. Exonerate RNA alignments from Ensembl, BLAT RNA and EST alignments from the UCSC Genome Browser Database are used in the analysis. Erroneous transcripts and libraries identified in lists maintained by the Ensembl, UCSC, HAVANA and RefSeq groups are flagged as suspect. GENCODE annotations for protein-coding and non-protein-coding transcripts are compared with the evidence alignments. Annotations in the MHC region and other immunological genes are not evaluated, as automatic alignments tend to be very problematic. Methods for evaluating single-exon genes are still being developed and they are not included in the current analysis. Multi-exon GENCODE annotations are evaluated using the criteria that all introns are supported by an evidence alignment and the evidence alignment does not indicate that there are unannotated exons. Small insertions and deletions in evidence alignments are assumed to be due to polymorphisms and not considered as differing from the annotations. All intron boundaries must match exactly. The transcript start and end locations are allowed to differ. The following categories are assigned to each of the evaluated annotations: tsl1 - all splice junctions of the transcript are supported by at least one non-suspect mRNA tsl2 - the best supporting mRNA is flagged as suspect or the support is from multiple ESTs tsl3 - the only support is from a single EST tsl4 - the best supporting EST is flagged as suspect tsl5 - no single transcript supports the model structure tslNA - the transcript was not analyzed for one of the following reasons: pseudogene annotation, including transcribed pseudogenes immunoglobin gene transcript T-cell receptor transcript single-exon transcript (will be included in a future version) APPRIS is a system to annotate alternatively spliced transcripts based on a range of computational methods. It provides value to the annotations of the human, mouse, zebrafish, rat, and pig genomes. APPRIS has selected a single CDS variant for each gene as the 'PRINCIPAL' isoform. Principal isoforms are tagged with the numbers 1 to 5, with 1 being the most reliable. PRINCIPAL:1 - Transcript(s) expected to code for the main functional isoform based solely on the core modules in the APPRIS. PRINCIPAL:2 - Where the APPRIS core modules are unable to choose a clear principal variant (approximately 25% of human protein coding genes), the database chooses two or more of the CDS variants as "candidates" to be the principal variant. PRINCIPAL:3 - Where the APPRIS core modules are unable to choose a clear principal variant and more than one of the variants have distinct CCDS identifiers, APPRIS selects the variant with lowest CCDS identifier as the principal variant. The lower the CCDS identifier, the earlier it was annotated. PRINCIPAL:4 - Where the APPRIS core modules are unable to choose a clear principal CDS and there is more than one variant with distinct (but consecutive) CCDS identifiers, APPRIS selects the longest CCDS isoform as the principal variant. PRINCIPAL:5 - Where the APPRIS core modules are unable to choose a clear principal variant and none of the candidate variants are annotated by CCDS, APPRIS selects the longest of the candidate isoforms as the principal variant. For genes in which the APPRIS core modules are unable to choose a clear principal variant (approximately 25% of human protein coding genes), the "candidate" variants not chosen as principal are labeled in the following way: ALTERNATIVE:1 - Candidate transcript(s) models that are conserved in at least three tested species. ALTERNATIVE:2 - Candidate transcript(s) models that appear to be conserved in fewer than three tested species. Non-candidate transcripts are not tagged and are considered as "Minor" transcripts. Further information and additional web services can be found at the APPRIS website. Downloads GENCODE GFF3 and GTF files are available from the GENCODE release 35 site. Verification Selected transcript models are verified experimentally by RT-PCR amplification followed by sequencing. Those experiments can be found at GEO: GSE30619:[E-MTAB-612] - Batch I is based on annotation from July 2008 (without pseudogenes). GSE25711:[E-MTAB-407] - Batch II is based on annotation from April 2009. GSE30612:[E-MTAB-533] - Batch III is verifying RGASP models for c.elegans and human. GSE34797:[E-MTAB-684] - Batch IV is based on chromosome 3, 4 and 5 annotations from GENCODE 4 (January 2010). GSE34820:[E-MTAB-737] - Batch V is based on annotations from GENCODE 6 (November 2010). GSE34821:[E-MTAB-831] - Batch VI is based on annotations from GENCODE 6 (November 2010) as well as transcript models predicted by the Ensembl Genebuild group based on the Illumina Human BodyMap 2.0 data. See Harrow et al. (2006) for information on verification techniques. Release Notes GENCODE version 35 corresponds to Ensembl 101. See also: The GENCODE Project Credits The GENCODE project is an international collaboration funded by NIH/NHGRI grant U41HG007234. More information is available at www.gencodegenes.org, Participating GENCODE institutions and personnel can be found here. References Frankish A, Diekhans M, Jungreis I, Lagarde J, Loveland JE, Mudge JM, Sisu C, Wright JC, Armstrong J, Barnes I et al. GENCODE 2021. Nucleic Acids Res. 2021 Jan 8;49(D1):D916-D923. PMID: 33270111; PMC: PMC7778937; DOI: 10.1093/nar/gkaa1087 A full list of GENCODE publications are available at The GENCODE Project web site. Data Release Policy GENCODE data are available for use without restrictions. 
wgEncodeGencodeV35ViewPolya PolyA All GENCODE annotations from V35 (Ensembl 101) Genes and Gene Predictions 
wgEncodeGencodePolyaV35 PolyA PolyA Transcript Annotation Set from GENCODE Version 35 (Ensembl 101) Genes and Gene Predictions 
wgEncodeGencodeV35ViewGenes Genes All GENCODE annotations from V35 (Ensembl 101) Genes and Gene Predictions 
wgEncodeGencodePseudoGeneV35 Pseudogenes Pseudogene Annotation Set from GENCODE Version 35 (Ensembl 101) Genes and Gene Predictions 
wgEncodeGencodeCompV35 Comprehensive Comprehensive Gene Annotation Set from GENCODE Version 35 (Ensembl 101) Genes and Gene Predictions 
wgEncodeGencodeBasicV35 Basic Basic Gene Annotation Set from GENCODE Version 35 (Ensembl 101) Genes and Gene Predictions 
wgEncodeGencodeV35View2Way 2-Way All GENCODE annotations from V35 (Ensembl 101) Genes and Gene Predictions 
wgEncodeGencode2wayConsPseudoV35 2-way Pseudogenes 2-way Pseudogene Annotation Set from GENCODE Version 35 (Ensembl 101) Genes and Gene Predictions 
wgEncodeGencodeV34 All GENCODE V34 All GENCODE annotations from V34 (Ensembl 100) Genes and Gene Predictions Description The GENCODE Genes track (version 34, April 2020) shows high-quality manual annotations merged with evidence-based automated annotations across the entire human genome generated by the GENCODE project. The GENCODE gene set presents a full merge between HAVANA manual annotation process and Ensembl automatic annotation pipeline. Priority is given to the manually curated HAVANA annotation using predicted Ensembl annotations when there are no corresponding manual annotations. The 34 annotation was carried out on genome assembly GRCh38 (hg38). The Ensembl human and mouse data sets are the same gene annotations as GENCODE for the corresponding release. Display Conventions and Configuration This track is a multi-view composite track that contains differing data sets (views). Instructions for configuring multi-view tracks are here. To show only selected subtracks, uncheck the boxes next to the tracks that you wish to hide. Views available on this track are: Genes The gene annotations in this view are divided into three subtracks: GENCODE Basic set is a subset of the Comprehensive set. The selection criteria are described in the methods section. GENCODE Comprehensive set contains all GENCODE coding and non-coding transcript annotations, including polymorphic pseudogenes. This includes both manual and automatic annotations. This is a super-set of the Basic set. GENCODE Pseudogenes include all annotations except polymorphic pseudogenes. PolyA GENCODE PolyA contains polyA signals and sites manually annotated on the genome based on transcribed evidence (ESTs and cDNAs) of 3' end of transcripts containing at least 3 A's not matching the genome. Maximum number of transcripts to display is available for the items in the GENCODE Basic, Comprehensive and Pseudogene tracks. Starting with the GENCODE human V42 and mouse VM31 releases, transcripts are assigned rank within the gene. The ranks may be used to filter the number of transcripts displayed in a principled manner. Transcript ranking is not available in the lift37 releases. See Methods for details of rank assignment. Filtering is available for the items in the GENCODE Basic, Comprehensive and Pseudogene tracks using the following criteria: Transcript class: filter by the basic biological function of a transcript annotation All - don't filter by transcript class coding - display protein coding transcripts, including polymorphic pseudogenes nonCoding - display non-protein coding transcripts pseudo - display pseudogene transcript annotations problem - display problem transcripts (Biotypes of retained_intron, TEC, or disrupted_domain) Transcript Annotation Method: filter by the method used to create the annotation All - don't filter by transcript class manual - display manually created annotations, including those that are also created automatically automatic - display automatically created annotations, including those that are also created manually manual_only - display manually created annotations that were not annotated by the automatic method automatic_only - display automatically created annotations that were not annotated by the manual method Transcript Biotype: filter transcripts by Biotype Support Level: filter transcripts by transcription support level Coloring for the gene annotations is based on the annotation type: coding non-coding pseudogene problem all polyA annotations Methods The GENCODE project aims to annotate all evidence-based gene features on the human and mouse reference sequence with high accuracy by integrating computational approaches (including comparative methods), manual annotation and targeted experimental verification. This goal includes identifying all protein-coding loci with associated alternative variants, non-coding loci which have transcript evidence, and pseudogenes. For a detailed description of the methods and references used, see Harrow et al. (2006). GENCODE Basic Set selection: The GENCODE Basic Set is intended to provide a simplified subset of the GENCODE transcript annotations that will be useful to the majority of users. The goal was to have a high-quality basic set that also covered all loci. Selection of GENCODE annotations for inclusion in the basic set was determined independently for the coding and non-coding transcripts at each gene locus. Criteria for selection of coding transcripts (including polymorphic pseudogenes) at a given locus: All full-length coding transcripts (except problem transcripts or transcripts that are nonsense-mediated decay) were included in the basic set. If there were no transcripts meeting the above criteria, then the partial coding transcript with the largest CDS was included in the basic set (excluding problem transcripts). Criteria for selection of non-coding transcripts at a given locus: All full-length non-coding transcripts (except problem transcripts) with a well characterized Biotype (see below) were included in the basic set. If there were no transcripts meeting the above criteria, then the largest non-coding transcript was included in the basic set (excluding problem transcripts). If no transcripts were included by either of the above criteria, the longest problem transcript is included. Non-coding transcript categorization: Non-coding transcripts are categorized using their biotype and the following criteria: well characterized: antisense, Mt_rRNA, Mt_tRNA, miRNA, rRNA, snRNA, snoRNA poorly characterized: 3prime_overlapping_ncrna, lincRNA, misc_RNA, non_coding, processed_transcript, sense_intronic, sense_overlapping Transcript ranking: Within each gene, transcripts have been ranked according to the following criteria. The ranking approach is preliminary and will change is future releases. Protein_coding genes MANE or Ensembl canonical -1st: MANE Select / Ensembl canonical -2nd: MANE Plus Clinical Coding biotypes -1st: protein_coding and protein_coding_LoF -2nd: NMDs and NSDs -3rd: retained intron and protein_coding_CDS_not_defined Completeness -1st: full length -2nd: CDS start/end not found CARS score (only for coding transcripts) Transcript genomic span and length (only for non-coding transcripts) Non-coding genes Transcript biotype -1st: transcript biotype identical to gene biotype Ensembl canonical GENCODE basic Transcript genomic span Transcript length Transcription Support Level (TSL): It is important that users understand how to assess transcript annotations that they see in GENCODE. While some transcript models have a high level of support through the full length of their exon structure, there are also transcripts that are poorly supported and that should be considered speculative. The Transcription Support Level (TSL) is a method to highlight the well-supported and poorly-supported transcript models for users. The method relies on the primary data that can support full-length transcript structure: mRNA and EST alignments supplied by UCSC and Ensembl. The mRNA and EST alignments are compared to the GENCODE transcripts and the transcripts are scored according to how well the alignment matches over its full length. The GENCODE TSL provides a consistent method of evaluating the level of support that a GENCODE transcript annotation is actually expressed in mouse. Mouse transcript sequences from the International Nucleotide Sequence Database Collaboration (GenBank, ENA, and DDBJ) are used as the evidence for this analysis. Exonerate RNA alignments from Ensembl, BLAT RNA and EST alignments from the UCSC Genome Browser Database are used in the analysis. Erroneous transcripts and libraries identified in lists maintained by the Ensembl, UCSC, HAVANA and RefSeq groups are flagged as suspect. GENCODE annotations for protein-coding and non-protein-coding transcripts are compared with the evidence alignments. Annotations in the MHC region and other immunological genes are not evaluated, as automatic alignments tend to be very problematic. Methods for evaluating single-exon genes are still being developed and they are not included in the current analysis. Multi-exon GENCODE annotations are evaluated using the criteria that all introns are supported by an evidence alignment and the evidence alignment does not indicate that there are unannotated exons. Small insertions and deletions in evidence alignments are assumed to be due to polymorphisms and not considered as differing from the annotations. All intron boundaries must match exactly. The transcript start and end locations are allowed to differ. The following categories are assigned to each of the evaluated annotations: tsl1 - all splice junctions of the transcript are supported by at least one non-suspect mRNA tsl2 - the best supporting mRNA is flagged as suspect or the support is from multiple ESTs tsl3 - the only support is from a single EST tsl4 - the best supporting EST is flagged as suspect tsl5 - no single transcript supports the model structure tslNA - the transcript was not analyzed for one of the following reasons: pseudogene annotation, including transcribed pseudogenes immunoglobin gene transcript T-cell receptor transcript single-exon transcript (will be included in a future version) APPRIS is a system to annotate alternatively spliced transcripts based on a range of computational methods. It provides value to the annotations of the human, mouse, zebrafish, rat, and pig genomes. APPRIS has selected a single CDS variant for each gene as the 'PRINCIPAL' isoform. Principal isoforms are tagged with the numbers 1 to 5, with 1 being the most reliable. PRINCIPAL:1 - Transcript(s) expected to code for the main functional isoform based solely on the core modules in the APPRIS. PRINCIPAL:2 - Where the APPRIS core modules are unable to choose a clear principal variant (approximately 25% of human protein coding genes), the database chooses two or more of the CDS variants as "candidates" to be the principal variant. PRINCIPAL:3 - Where the APPRIS core modules are unable to choose a clear principal variant and more than one of the variants have distinct CCDS identifiers, APPRIS selects the variant with lowest CCDS identifier as the principal variant. The lower the CCDS identifier, the earlier it was annotated. PRINCIPAL:4 - Where the APPRIS core modules are unable to choose a clear principal CDS and there is more than one variant with distinct (but consecutive) CCDS identifiers, APPRIS selects the longest CCDS isoform as the principal variant. PRINCIPAL:5 - Where the APPRIS core modules are unable to choose a clear principal variant and none of the candidate variants are annotated by CCDS, APPRIS selects the longest of the candidate isoforms as the principal variant. For genes in which the APPRIS core modules are unable to choose a clear principal variant (approximately 25% of human protein coding genes), the "candidate" variants not chosen as principal are labeled in the following way: ALTERNATIVE:1 - Candidate transcript(s) models that are conserved in at least three tested species. ALTERNATIVE:2 - Candidate transcript(s) models that appear to be conserved in fewer than three tested species. Non-candidate transcripts are not tagged and are considered as "Minor" transcripts. Further information and additional web services can be found at the APPRIS website. Downloads GENCODE GFF3 and GTF files are available from the GENCODE release 34 site. Verification Selected transcript models are verified experimentally by RT-PCR amplification followed by sequencing. Those experiments can be found at GEO: GSE30619:[E-MTAB-612] - Batch I is based on annotation from July 2008 (without pseudogenes). GSE25711:[E-MTAB-407] - Batch II is based on annotation from April 2009. GSE30612:[E-MTAB-533] - Batch III is verifying RGASP models for c.elegans and human. GSE34797:[E-MTAB-684] - Batch IV is based on chromosome 3, 4 and 5 annotations from GENCODE 4 (January 2010). GSE34820:[E-MTAB-737] - Batch V is based on annotations from GENCODE 6 (November 2010). GSE34821:[E-MTAB-831] - Batch VI is based on annotations from GENCODE 6 (November 2010) as well as transcript models predicted by the Ensembl Genebuild group based on the Illumina Human BodyMap 2.0 data. See Harrow et al. (2006) for information on verification techniques. Release Notes GENCODE version 34 corresponds to Ensembl 100. See also: The GENCODE Project Credits The GENCODE project is an international collaboration funded by NIH/NHGRI grant U41HG007234. More information is available at www.gencodegenes.org, Participating GENCODE institutions and personnel can be found here. References Frankish A, Diekhans M, Jungreis I, Lagarde J, Loveland JE, Mudge JM, Sisu C, Wright JC, Armstrong J, Barnes I et al. GENCODE 2021. Nucleic Acids Res. 2021 Jan 8;49(D1):D916-D923. PMID: 33270111; PMC: PMC7778937; DOI: 10.1093/nar/gkaa1087 A full list of GENCODE publications are available at The GENCODE Project web site. Data Release Policy GENCODE data are available for use without restrictions. 
wgEncodeGencodeV34ViewPolya PolyA All GENCODE annotations from V34 (Ensembl 100) Genes and Gene Predictions 
wgEncodeGencodePolyaV34 PolyA PolyA Transcript Annotation Set from GENCODE Version 34 (Ensembl 100) Genes and Gene Predictions 
wgEncodeGencodeV34ViewGenes Genes All GENCODE annotations from V34 (Ensembl 100) Genes and Gene Predictions 
wgEncodeGencodePseudoGeneV34 Pseudogenes Pseudogene Annotation Set from GENCODE Version 34 (Ensembl 100) Genes and Gene Predictions 
wgEncodeGencodeCompV34 Comprehensive Comprehensive Gene Annotation Set from GENCODE Version 34 (Ensembl 100) Genes and Gene Predictions 
wgEncodeGencodeBasicV34 Basic Basic Gene Annotation Set from GENCODE Version 34 (Ensembl 100) Genes and Gene Predictions 
wgEncodeGencodeV34View2Way 2-Way All GENCODE annotations from V34 (Ensembl 100) Genes and Gene Predictions 
wgEncodeGencode2wayConsPseudoV34 2-way Pseudogenes 2-way Pseudogene Annotation Set from GENCODE Version 34 (Ensembl 100) Genes and Gene Predictions 
wgEncodeGencodeV33 All GENCODE V33 All GENCODE annotations from V33 (Ensembl 99) Genes and Gene Predictions Description The GENCODE Genes track (version 33, Jan 2020) shows high-quality manual annotations merged with evidence-based automated annotations across the entire human genome generated by the GENCODE project. The GENCODE gene set presents a full merge between HAVANA manual annotation process and Ensembl automatic annotation pipeline. Priority is given to the manually curated HAVANA annotation using predicted Ensembl annotations when there are no corresponding manual annotations. The 33 annotation was carried out on genome assembly GRCh38 (hg38). The Ensembl human and mouse data sets are the same gene annotations as GENCODE for the corresponding release. Display Conventions and Configuration This track is a multi-view composite track that contains differing data sets (views). Instructions for configuring multi-view tracks are here. To show only selected subtracks, uncheck the boxes next to the tracks that you wish to hide. Views available on this track are: Genes The gene annotations in this view are divided into three subtracks: GENCODE Basic set is a subset of the Comprehensive set. The selection criteria are described in the methods section. GENCODE Comprehensive set contains all GENCODE coding and non-coding transcript annotations, including polymorphic pseudogenes. This includes both manual and automatic annotations. This is a super-set of the Basic set. GENCODE Pseudogenes include all annotations except polymorphic pseudogenes. PolyA GENCODE PolyA contains polyA signals and sites manually annotated on the genome based on transcribed evidence (ESTs and cDNAs) of 3' end of transcripts containing at least 3 A's not matching the genome. Maximum number of transcripts to display is available for the items in the GENCODE Basic, Comprehensive and Pseudogene tracks. Starting with the GENCODE human V42 and mouse VM31 releases, transcripts are assigned rank within the gene. The ranks may be used to filter the number of transcripts displayed in a principled manner. Transcript ranking is not available in the lift37 releases. See Methods for details of rank assignment. Filtering is available for the items in the GENCODE Basic, Comprehensive and Pseudogene tracks using the following criteria: Transcript class: filter by the basic biological function of a transcript annotation All - don't filter by transcript class coding - display protein coding transcripts, including polymorphic pseudogenes nonCoding - display non-protein coding transcripts pseudo - display pseudogene transcript annotations problem - display problem transcripts (Biotypes of retained_intron, TEC, or disrupted_domain) Transcript Annotation Method: filter by the method used to create the annotation All - don't filter by transcript class manual - display manually created annotations, including those that are also created automatically automatic - display automatically created annotations, including those that are also created manually manual_only - display manually created annotations that were not annotated by the automatic method automatic_only - display automatically created annotations that were not annotated by the manual method Transcript Biotype: filter transcripts by Biotype Support Level: filter transcripts by transcription support level Coloring for the gene annotations is based on the annotation type: coding non-coding pseudogene problem all polyA annotations Methods The GENCODE project aims to annotate all evidence-based gene features on the human and mouse reference sequence with high accuracy by integrating computational approaches (including comparative methods), manual annotation and targeted experimental verification. This goal includes identifying all protein-coding loci with associated alternative variants, non-coding loci which have transcript evidence, and pseudogenes. For a detailed description of the methods and references used, see Harrow et al. (2006). GENCODE Basic Set selection: The GENCODE Basic Set is intended to provide a simplified subset of the GENCODE transcript annotations that will be useful to the majority of users. The goal was to have a high-quality basic set that also covered all loci. Selection of GENCODE annotations for inclusion in the basic set was determined independently for the coding and non-coding transcripts at each gene locus. Criteria for selection of coding transcripts (including polymorphic pseudogenes) at a given locus: All full-length coding transcripts (except problem transcripts or transcripts that are nonsense-mediated decay) were included in the basic set. If there were no transcripts meeting the above criteria, then the partial coding transcript with the largest CDS was included in the basic set (excluding problem transcripts). Criteria for selection of non-coding transcripts at a given locus: All full-length non-coding transcripts (except problem transcripts) with a well characterized Biotype (see below) were included in the basic set. If there were no transcripts meeting the above criteria, then the largest non-coding transcript was included in the basic set (excluding problem transcripts). If no transcripts were included by either of the above criteria, the longest problem transcript is included. Non-coding transcript categorization: Non-coding transcripts are categorized using their biotype and the following criteria: well characterized: antisense, Mt_rRNA, Mt_tRNA, miRNA, rRNA, snRNA, snoRNA poorly characterized: 3prime_overlapping_ncrna, lincRNA, misc_RNA, non_coding, processed_transcript, sense_intronic, sense_overlapping Transcript ranking: Within each gene, transcripts have been ranked according to the following criteria. The ranking approach is preliminary and will change is future releases. Protein_coding genes MANE or Ensembl canonical -1st: MANE Select / Ensembl canonical -2nd: MANE Plus Clinical Coding biotypes -1st: protein_coding and protein_coding_LoF -2nd: NMDs and NSDs -3rd: retained intron and protein_coding_CDS_not_defined Completeness -1st: full length -2nd: CDS start/end not found CARS score (only for coding transcripts) Transcript genomic span and length (only for non-coding transcripts) Non-coding genes Transcript biotype -1st: transcript biotype identical to gene biotype Ensembl canonical GENCODE basic Transcript genomic span Transcript length Transcription Support Level (TSL): It is important that users understand how to assess transcript annotations that they see in GENCODE. While some transcript models have a high level of support through the full length of their exon structure, there are also transcripts that are poorly supported and that should be considered speculative. The Transcription Support Level (TSL) is a method to highlight the well-supported and poorly-supported transcript models for users. The method relies on the primary data that can support full-length transcript structure: mRNA and EST alignments supplied by UCSC and Ensembl. The mRNA and EST alignments are compared to the GENCODE transcripts and the transcripts are scored according to how well the alignment matches over its full length. The GENCODE TSL provides a consistent method of evaluating the level of support that a GENCODE transcript annotation is actually expressed in mouse. Mouse transcript sequences from the International Nucleotide Sequence Database Collaboration (GenBank, ENA, and DDBJ) are used as the evidence for this analysis. Exonerate RNA alignments from Ensembl, BLAT RNA and EST alignments from the UCSC Genome Browser Database are used in the analysis. Erroneous transcripts and libraries identified in lists maintained by the Ensembl, UCSC, HAVANA and RefSeq groups are flagged as suspect. GENCODE annotations for protein-coding and non-protein-coding transcripts are compared with the evidence alignments. Annotations in the MHC region and other immunological genes are not evaluated, as automatic alignments tend to be very problematic. Methods for evaluating single-exon genes are still being developed and they are not included in the current analysis. Multi-exon GENCODE annotations are evaluated using the criteria that all introns are supported by an evidence alignment and the evidence alignment does not indicate that there are unannotated exons. Small insertions and deletions in evidence alignments are assumed to be due to polymorphisms and not considered as differing from the annotations. All intron boundaries must match exactly. The transcript start and end locations are allowed to differ. The following categories are assigned to each of the evaluated annotations: tsl1 - all splice junctions of the transcript are supported by at least one non-suspect mRNA tsl2 - the best supporting mRNA is flagged as suspect or the support is from multiple ESTs tsl3 - the only support is from a single EST tsl4 - the best supporting EST is flagged as suspect tsl5 - no single transcript supports the model structure tslNA - the transcript was not analyzed for one of the following reasons: pseudogene annotation, including transcribed pseudogenes immunoglobin gene transcript T-cell receptor transcript single-exon transcript (will be included in a future version) APPRIS is a system to annotate alternatively spliced transcripts based on a range of computational methods. It provides value to the annotations of the human, mouse, zebrafish, rat, and pig genomes. APPRIS has selected a single CDS variant for each gene as the 'PRINCIPAL' isoform. Principal isoforms are tagged with the numbers 1 to 5, with 1 being the most reliable. PRINCIPAL:1 - Transcript(s) expected to code for the main functional isoform based solely on the core modules in the APPRIS. PRINCIPAL:2 - Where the APPRIS core modules are unable to choose a clear principal variant (approximately 25% of human protein coding genes), the database chooses two or more of the CDS variants as "candidates" to be the principal variant. PRINCIPAL:3 - Where the APPRIS core modules are unable to choose a clear principal variant and more than one of the variants have distinct CCDS identifiers, APPRIS selects the variant with lowest CCDS identifier as the principal variant. The lower the CCDS identifier, the earlier it was annotated. PRINCIPAL:4 - Where the APPRIS core modules are unable to choose a clear principal CDS and there is more than one variant with distinct (but consecutive) CCDS identifiers, APPRIS selects the longest CCDS isoform as the principal variant. PRINCIPAL:5 - Where the APPRIS core modules are unable to choose a clear principal variant and none of the candidate variants are annotated by CCDS, APPRIS selects the longest of the candidate isoforms as the principal variant. For genes in which the APPRIS core modules are unable to choose a clear principal variant (approximately 25% of human protein coding genes), the "candidate" variants not chosen as principal are labeled in the following way: ALTERNATIVE:1 - Candidate transcript(s) models that are conserved in at least three tested species. ALTERNATIVE:2 - Candidate transcript(s) models that appear to be conserved in fewer than three tested species. Non-candidate transcripts are not tagged and are considered as "Minor" transcripts. Further information and additional web services can be found at the APPRIS website. Downloads GENCODE GFF3 and GTF files are available from the GENCODE release 33 site. Verification Selected transcript models are verified experimentally by RT-PCR amplification followed by sequencing. Those experiments can be found at GEO: GSE30619:[E-MTAB-612] - Batch I is based on annotation from July 2008 (without pseudogenes). GSE25711:[E-MTAB-407] - Batch II is based on annotation from April 2009. GSE30612:[E-MTAB-533] - Batch III is verifying RGASP models for c.elegans and human. GSE34797:[E-MTAB-684] - Batch IV is based on chromosome 3, 4 and 5 annotations from GENCODE 4 (January 2010). GSE34820:[E-MTAB-737] - Batch V is based on annotations from GENCODE 6 (November 2010). GSE34821:[E-MTAB-831] - Batch VI is based on annotations from GENCODE 6 (November 2010) as well as transcript models predicted by the Ensembl Genebuild group based on the Illumina Human BodyMap 2.0 data. See Harrow et al. (2006) for information on verification techniques. Release Notes GENCODE version 33 corresponds to Ensembl 99. See also: The GENCODE Project Credits The GENCODE project is an international collaboration funded by NIH/NHGRI grant U41HG007234. More information is available at www.gencodegenes.org, Participating GENCODE institutions and personnel can be found here. References Frankish A, Diekhans M, Jungreis I, Lagarde J, Loveland JE, Mudge JM, Sisu C, Wright JC, Armstrong J, Barnes I et al. GENCODE 2021. Nucleic Acids Res. 2021 Jan 8;49(D1):D916-D923. PMID: 33270111; PMC: PMC7778937; DOI: 10.1093/nar/gkaa1087 A full list of GENCODE publications are available at The GENCODE Project web site. Data Release Policy GENCODE data are available for use without restrictions. 
wgEncodeGencodeV33ViewPolya PolyA All GENCODE annotations from V33 (Ensembl 99) Genes and Gene Predictions 
wgEncodeGencodePolyaV33 PolyA PolyA Transcript Annotation Set from GENCODE Version 33 (Ensembl 99) Genes and Gene Predictions 
wgEncodeGencodeV33ViewGenes Genes All GENCODE annotations from V33 (Ensembl 99) Genes and Gene Predictions 
wgEncodeGencodePseudoGeneV33 Pseudogenes Pseudogene Annotation Set from GENCODE Version 33 (Ensembl 99) Genes and Gene Predictions 
wgEncodeGencodeCompV33 Comprehensive Comprehensive Gene Annotation Set from GENCODE Version 33 (Ensembl 99) Genes and Gene Predictions 
wgEncodeGencodeBasicV33 Basic Basic Gene Annotation Set from GENCODE Version 33 (Ensembl 99) Genes and Gene Predictions 
wgEncodeGencodeV33View2Way 2-Way All GENCODE annotations from V33 (Ensembl 99) Genes and Gene Predictions 
wgEncodeGencode2wayConsPseudoV33 2-way Pseudogenes 2-way Pseudogene Annotation Set from GENCODE Version 33 (Ensembl 99) Genes and Gene Predictions 
wgEncodeGencodeV32 All GENCODE V32 All GENCODE annotations from V32 (Ensembl 98) Genes and Gene Predictions Description The GENCODE Genes track (version 32, Sept 2019) shows high-quality manual annotations merged with evidence-based automated annotations across the entire human genome generated by the GENCODE project. The GENCODE gene set presents a full merge between HAVANA manual annotation process and Ensembl automatic annotation pipeline. Priority is given to the manually curated HAVANA annotation using predicted Ensembl annotations when there are no corresponding manual annotations. The 32 annotation was carried out on genome assembly GRCh38 (hg38). The Ensembl human and mouse data sets are the same gene annotations as GENCODE for the corresponding release. Display Conventions and Configuration This track is a multi-view composite track that contains differing data sets (views). Instructions for configuring multi-view tracks are here. To show only selected subtracks, uncheck the boxes next to the tracks that you wish to hide. Views available on this track are: Genes The gene annotations in this view are divided into three subtracks: GENCODE Basic set is a subset of the Comprehensive set. The selection criteria are described in the methods section. GENCODE Comprehensive set contains all GENCODE coding and non-coding transcript annotations, including polymorphic pseudogenes. This includes both manual and automatic annotations. This is a super-set of the Basic set. GENCODE Pseudogenes include all annotations except polymorphic pseudogenes. PolyA GENCODE PolyA contains polyA signals and sites manually annotated on the genome based on transcribed evidence (ESTs and cDNAs) of 3' end of transcripts containing at least 3 A's not matching the genome. Maximum number of transcripts to display is available for the items in the GENCODE Basic, Comprehensive and Pseudogene tracks. Starting with the GENCODE human V42 and mouse VM31 releases, transcripts are assigned rank within the gene. The ranks may be used to filter the number of transcripts displayed in a principled manner. Transcript ranking is not available in the lift37 releases. See Methods for details of rank assignment. Filtering is available for the items in the GENCODE Basic, Comprehensive and Pseudogene tracks using the following criteria: Transcript class: filter by the basic biological function of a transcript annotation All - don't filter by transcript class coding - display protein coding transcripts, including polymorphic pseudogenes nonCoding - display non-protein coding transcripts pseudo - display pseudogene transcript annotations problem - display problem transcripts (Biotypes of retained_intron, TEC, or disrupted_domain) Transcript Annotation Method: filter by the method used to create the annotation All - don't filter by transcript class manual - display manually created annotations, including those that are also created automatically automatic - display automatically created annotations, including those that are also created manually manual_only - display manually created annotations that were not annotated by the automatic method automatic_only - display automatically created annotations that were not annotated by the manual method Transcript Biotype: filter transcripts by Biotype Support Level: filter transcripts by transcription support level Coloring for the gene annotations is based on the annotation type: coding non-coding pseudogene problem all polyA annotations Methods The GENCODE project aims to annotate all evidence-based gene features on the human and mouse reference sequence with high accuracy by integrating computational approaches (including comparative methods), manual annotation and targeted experimental verification. This goal includes identifying all protein-coding loci with associated alternative variants, non-coding loci which have transcript evidence, and pseudogenes. For a detailed description of the methods and references used, see Harrow et al. (2006). GENCODE Basic Set selection: The GENCODE Basic Set is intended to provide a simplified subset of the GENCODE transcript annotations that will be useful to the majority of users. The goal was to have a high-quality basic set that also covered all loci. Selection of GENCODE annotations for inclusion in the basic set was determined independently for the coding and non-coding transcripts at each gene locus. Criteria for selection of coding transcripts (including polymorphic pseudogenes) at a given locus: All full-length coding transcripts (except problem transcripts or transcripts that are nonsense-mediated decay) were included in the basic set. If there were no transcripts meeting the above criteria, then the partial coding transcript with the largest CDS was included in the basic set (excluding problem transcripts). Criteria for selection of non-coding transcripts at a given locus: All full-length non-coding transcripts (except problem transcripts) with a well characterized Biotype (see below) were included in the basic set. If there were no transcripts meeting the above criteria, then the largest non-coding transcript was included in the basic set (excluding problem transcripts). If no transcripts were included by either of the above criteria, the longest problem transcript is included. Non-coding transcript categorization: Non-coding transcripts are categorized using their biotype and the following criteria: well characterized: antisense, Mt_rRNA, Mt_tRNA, miRNA, rRNA, snRNA, snoRNA poorly characterized: 3prime_overlapping_ncrna, lincRNA, misc_RNA, non_coding, processed_transcript, sense_intronic, sense_overlapping Transcript ranking: Within each gene, transcripts have been ranked according to the following criteria. The ranking approach is preliminary and will change is future releases. Protein_coding genes MANE or Ensembl canonical -1st: MANE Select / Ensembl canonical -2nd: MANE Plus Clinical Coding biotypes -1st: protein_coding and protein_coding_LoF -2nd: NMDs and NSDs -3rd: retained intron and protein_coding_CDS_not_defined Completeness -1st: full length -2nd: CDS start/end not found CARS score (only for coding transcripts) Transcript genomic span and length (only for non-coding transcripts) Non-coding genes Transcript biotype -1st: transcript biotype identical to gene biotype Ensembl canonical GENCODE basic Transcript genomic span Transcript length Transcription Support Level (TSL): It is important that users understand how to assess transcript annotations that they see in GENCODE. While some transcript models have a high level of support through the full length of their exon structure, there are also transcripts that are poorly supported and that should be considered speculative. The Transcription Support Level (TSL) is a method to highlight the well-supported and poorly-supported transcript models for users. The method relies on the primary data that can support full-length transcript structure: mRNA and EST alignments supplied by UCSC and Ensembl. The mRNA and EST alignments are compared to the GENCODE transcripts and the transcripts are scored according to how well the alignment matches over its full length. The GENCODE TSL provides a consistent method of evaluating the level of support that a GENCODE transcript annotation is actually expressed in mouse. Mouse transcript sequences from the International Nucleotide Sequence Database Collaboration (GenBank, ENA, and DDBJ) are used as the evidence for this analysis. Exonerate RNA alignments from Ensembl, BLAT RNA and EST alignments from the UCSC Genome Browser Database are used in the analysis. Erroneous transcripts and libraries identified in lists maintained by the Ensembl, UCSC, HAVANA and RefSeq groups are flagged as suspect. GENCODE annotations for protein-coding and non-protein-coding transcripts are compared with the evidence alignments. Annotations in the MHC region and other immunological genes are not evaluated, as automatic alignments tend to be very problematic. Methods for evaluating single-exon genes are still being developed and they are not included in the current analysis. Multi-exon GENCODE annotations are evaluated using the criteria that all introns are supported by an evidence alignment and the evidence alignment does not indicate that there are unannotated exons. Small insertions and deletions in evidence alignments are assumed to be due to polymorphisms and not considered as differing from the annotations. All intron boundaries must match exactly. The transcript start and end locations are allowed to differ. The following categories are assigned to each of the evaluated annotations: tsl1 - all splice junctions of the transcript are supported by at least one non-suspect mRNA tsl2 - the best supporting mRNA is flagged as suspect or the support is from multiple ESTs tsl3 - the only support is from a single EST tsl4 - the best supporting EST is flagged as suspect tsl5 - no single transcript supports the model structure tslNA - the transcript was not analyzed for one of the following reasons: pseudogene annotation, including transcribed pseudogenes immunoglobin gene transcript T-cell receptor transcript single-exon transcript (will be included in a future version) APPRIS is a system to annotate alternatively spliced transcripts based on a range of computational methods. It provides value to the annotations of the human, mouse, zebrafish, rat, and pig genomes. APPRIS has selected a single CDS variant for each gene as the 'PRINCIPAL' isoform. Principal isoforms are tagged with the numbers 1 to 5, with 1 being the most reliable. PRINCIPAL:1 - Transcript(s) expected to code for the main functional isoform based solely on the core modules in the APPRIS. PRINCIPAL:2 - Where the APPRIS core modules are unable to choose a clear principal variant (approximately 25% of human protein coding genes), the database chooses two or more of the CDS variants as "candidates" to be the principal variant. PRINCIPAL:3 - Where the APPRIS core modules are unable to choose a clear principal variant and more than one of the variants have distinct CCDS identifiers, APPRIS selects the variant with lowest CCDS identifier as the principal variant. The lower the CCDS identifier, the earlier it was annotated. PRINCIPAL:4 - Where the APPRIS core modules are unable to choose a clear principal CDS and there is more than one variant with distinct (but consecutive) CCDS identifiers, APPRIS selects the longest CCDS isoform as the principal variant. PRINCIPAL:5 - Where the APPRIS core modules are unable to choose a clear principal variant and none of the candidate variants are annotated by CCDS, APPRIS selects the longest of the candidate isoforms as the principal variant. For genes in which the APPRIS core modules are unable to choose a clear principal variant (approximately 25% of human protein coding genes), the "candidate" variants not chosen as principal are labeled in the following way: ALTERNATIVE:1 - Candidate transcript(s) models that are conserved in at least three tested species. ALTERNATIVE:2 - Candidate transcript(s) models that appear to be conserved in fewer than three tested species. Non-candidate transcripts are not tagged and are considered as "Minor" transcripts. Further information and additional web services can be found at the APPRIS website. Downloads GENCODE GFF3 and GTF files are available from the GENCODE release 32 site. Verification Selected transcript models are verified experimentally by RT-PCR amplification followed by sequencing. Those experiments can be found at GEO: GSE30619:[E-MTAB-612] - Batch I is based on annotation from July 2008 (without pseudogenes). GSE25711:[E-MTAB-407] - Batch II is based on annotation from April 2009. GSE30612:[E-MTAB-533] - Batch III is verifying RGASP models for c.elegans and human. GSE34797:[E-MTAB-684] - Batch IV is based on chromosome 3, 4 and 5 annotations from GENCODE 4 (January 2010). GSE34820:[E-MTAB-737] - Batch V is based on annotations from GENCODE 6 (November 2010). GSE34821:[E-MTAB-831] - Batch VI is based on annotations from GENCODE 6 (November 2010) as well as transcript models predicted by the Ensembl Genebuild group based on the Illumina Human BodyMap 2.0 data. See Harrow et al. (2006) for information on verification techniques. Release Notes GENCODE version 32 corresponds to Ensembl 98. See also: The GENCODE Project Credits The GENCODE project is an international collaboration funded by NIH/NHGRI grant U41HG007234. More information is available at www.gencodegenes.org, Participating GENCODE institutions and personnel can be found here. References Frankish A, Diekhans M, Jungreis I, Lagarde J, Loveland JE, Mudge JM, Sisu C, Wright JC, Armstrong J, Barnes I et al. GENCODE 2021. Nucleic Acids Res. 2021 Jan 8;49(D1):D916-D923. PMID: 33270111; PMC: PMC7778937; DOI: 10.1093/nar/gkaa1087 A full list of GENCODE publications are available at The GENCODE Project web site. Data Release Policy GENCODE data are available for use without restrictions. 
wgEncodeGencodeV32ViewPolya PolyA All GENCODE annotations from V32 (Ensembl 98) Genes and Gene Predictions 
wgEncodeGencodePolyaV32 PolyA PolyA Transcript Annotation Set from GENCODE Version 32 (Ensembl 98) Genes and Gene Predictions 
wgEncodeGencodeV32ViewGenes Genes All GENCODE annotations from V32 (Ensembl 98) Genes and Gene Predictions 
wgEncodeGencodePseudoGeneV32 Pseudogenes Pseudogene Annotation Set from GENCODE Version 32 (Ensembl 98) Genes and Gene Predictions 
wgEncodeGencodeCompV32 Comprehensive Comprehensive Gene Annotation Set from GENCODE Version 32 (Ensembl 98) Genes and Gene Predictions 
wgEncodeGencodeBasicV32 Basic Basic Gene Annotation Set from GENCODE Version 32 (Ensembl 98) Genes and Gene Predictions 
wgEncodeGencodeV32View2Way 2-Way All GENCODE annotations from V32 (Ensembl 98) Genes and Gene Predictions 
wgEncodeGencode2wayConsPseudoV32 2-way Pseudogenes 2-way Pseudogene Annotation Set from GENCODE Version 32 (Ensembl 98) Genes and Gene Predictions 
wgEncodeGencodeV31 All GENCODE V31 All GENCODE annotations from V31 (Ensembl 97) Genes and Gene Predictions Description The GENCODE Genes track (version 31, June 2019) shows high-quality manual annotations merged with evidence-based automated annotations across the entire human genome generated by the GENCODE project. The GENCODE gene set presents a full merge between HAVANA manual annotation process and Ensembl automatic annotation pipeline. Priority is given to the manually curated HAVANA annotation using predicted Ensembl annotations when there are no corresponding manual annotations. The 31 annotation was carried out on genome assembly GRCh38 (hg38). The Ensembl human and mouse data sets are the same gene annotations as GENCODE for the corresponding release. Display Conventions and Configuration This track is a multi-view composite track that contains differing data sets (views). Instructions for configuring multi-view tracks are here. To show only selected subtracks, uncheck the boxes next to the tracks that you wish to hide. Views available on this track are: Genes The gene annotations in this view are divided into three subtracks: GENCODE Basic set is a subset of the Comprehensive set. The selection criteria are described in the methods section. GENCODE Comprehensive set contains all GENCODE coding and non-coding transcript annotations, including polymorphic pseudogenes. This includes both manual and automatic annotations. This is a super-set of the Basic set. GENCODE Pseudogenes include all annotations except polymorphic pseudogenes. PolyA GENCODE PolyA contains polyA signals and sites manually annotated on the genome based on transcribed evidence (ESTs and cDNAs) of 3' end of transcripts containing at least 3 A's not matching the genome. Maximum number of transcripts to display is available for the items in the GENCODE Basic, Comprehensive and Pseudogene tracks. Starting with the GENCODE human V42 and mouse VM31 releases, transcripts are assigned rank within the gene. The ranks may be used to filter the number of transcripts displayed in a principled manner. Transcript ranking is not available in the lift37 releases. See Methods for details of rank assignment. Filtering is available for the items in the GENCODE Basic, Comprehensive and Pseudogene tracks using the following criteria: Transcript class: filter by the basic biological function of a transcript annotation All - don't filter by transcript class coding - display protein coding transcripts, including polymorphic pseudogenes nonCoding - display non-protein coding transcripts pseudo - display pseudogene transcript annotations problem - display problem transcripts (Biotypes of retained_intron, TEC, or disrupted_domain) Transcript Annotation Method: filter by the method used to create the annotation All - don't filter by transcript class manual - display manually created annotations, including those that are also created automatically automatic - display automatically created annotations, including those that are also created manually manual_only - display manually created annotations that were not annotated by the automatic method automatic_only - display automatically created annotations that were not annotated by the manual method Transcript Biotype: filter transcripts by Biotype Support Level: filter transcripts by transcription support level Coloring for the gene annotations is based on the annotation type: coding non-coding pseudogene problem all polyA annotations Methods The GENCODE project aims to annotate all evidence-based gene features on the human and mouse reference sequence with high accuracy by integrating computational approaches (including comparative methods), manual annotation and targeted experimental verification. This goal includes identifying all protein-coding loci with associated alternative variants, non-coding loci which have transcript evidence, and pseudogenes. For a detailed description of the methods and references used, see Harrow et al. (2006). GENCODE Basic Set selection: The GENCODE Basic Set is intended to provide a simplified subset of the GENCODE transcript annotations that will be useful to the majority of users. The goal was to have a high-quality basic set that also covered all loci. Selection of GENCODE annotations for inclusion in the basic set was determined independently for the coding and non-coding transcripts at each gene locus. Criteria for selection of coding transcripts (including polymorphic pseudogenes) at a given locus: All full-length coding transcripts (except problem transcripts or transcripts that are nonsense-mediated decay) were included in the basic set. If there were no transcripts meeting the above criteria, then the partial coding transcript with the largest CDS was included in the basic set (excluding problem transcripts). Criteria for selection of non-coding transcripts at a given locus: All full-length non-coding transcripts (except problem transcripts) with a well characterized Biotype (see below) were included in the basic set. If there were no transcripts meeting the above criteria, then the largest non-coding transcript was included in the basic set (excluding problem transcripts). If no transcripts were included by either of the above criteria, the longest problem transcript is included. Non-coding transcript categorization: Non-coding transcripts are categorized using their biotype and the following criteria: well characterized: antisense, Mt_rRNA, Mt_tRNA, miRNA, rRNA, snRNA, snoRNA poorly characterized: 3prime_overlapping_ncrna, lincRNA, misc_RNA, non_coding, processed_transcript, sense_intronic, sense_overlapping Transcript ranking: Within each gene, transcripts have been ranked according to the following criteria. The ranking approach is preliminary and will change is future releases. Protein_coding genes MANE or Ensembl canonical -1st: MANE Select / Ensembl canonical -2nd: MANE Plus Clinical Coding biotypes -1st: protein_coding and protein_coding_LoF -2nd: NMDs and NSDs -3rd: retained intron and protein_coding_CDS_not_defined Completeness -1st: full length -2nd: CDS start/end not found CARS score (only for coding transcripts) Transcript genomic span and length (only for non-coding transcripts) Non-coding genes Transcript biotype -1st: transcript biotype identical to gene biotype Ensembl canonical GENCODE basic Transcript genomic span Transcript length Transcription Support Level (TSL): It is important that users understand how to assess transcript annotations that they see in GENCODE. While some transcript models have a high level of support through the full length of their exon structure, there are also transcripts that are poorly supported and that should be considered speculative. The Transcription Support Level (TSL) is a method to highlight the well-supported and poorly-supported transcript models for users. The method relies on the primary data that can support full-length transcript structure: mRNA and EST alignments supplied by UCSC and Ensembl. The mRNA and EST alignments are compared to the GENCODE transcripts and the transcripts are scored according to how well the alignment matches over its full length. The GENCODE TSL provides a consistent method of evaluating the level of support that a GENCODE transcript annotation is actually expressed in mouse. Mouse transcript sequences from the International Nucleotide Sequence Database Collaboration (GenBank, ENA, and DDBJ) are used as the evidence for this analysis. Exonerate RNA alignments from Ensembl, BLAT RNA and EST alignments from the UCSC Genome Browser Database are used in the analysis. Erroneous transcripts and libraries identified in lists maintained by the Ensembl, UCSC, HAVANA and RefSeq groups are flagged as suspect. GENCODE annotations for protein-coding and non-protein-coding transcripts are compared with the evidence alignments. Annotations in the MHC region and other immunological genes are not evaluated, as automatic alignments tend to be very problematic. Methods for evaluating single-exon genes are still being developed and they are not included in the current analysis. Multi-exon GENCODE annotations are evaluated using the criteria that all introns are supported by an evidence alignment and the evidence alignment does not indicate that there are unannotated exons. Small insertions and deletions in evidence alignments are assumed to be due to polymorphisms and not considered as differing from the annotations. All intron boundaries must match exactly. The transcript start and end locations are allowed to differ. The following categories are assigned to each of the evaluated annotations: tsl1 - all splice junctions of the transcript are supported by at least one non-suspect mRNA tsl2 - the best supporting mRNA is flagged as suspect or the support is from multiple ESTs tsl3 - the only support is from a single EST tsl4 - the best supporting EST is flagged as suspect tsl5 - no single transcript supports the model structure tslNA - the transcript was not analyzed for one of the following reasons: pseudogene annotation, including transcribed pseudogenes immunoglobin gene transcript T-cell receptor transcript single-exon transcript (will be included in a future version) APPRIS is a system to annotate alternatively spliced transcripts based on a range of computational methods. It provides value to the annotations of the human, mouse, zebrafish, rat, and pig genomes. APPRIS has selected a single CDS variant for each gene as the 'PRINCIPAL' isoform. Principal isoforms are tagged with the numbers 1 to 5, with 1 being the most reliable. PRINCIPAL:1 - Transcript(s) expected to code for the main functional isoform based solely on the core modules in the APPRIS. PRINCIPAL:2 - Where the APPRIS core modules are unable to choose a clear principal variant (approximately 25% of human protein coding genes), the database chooses two or more of the CDS variants as "candidates" to be the principal variant. PRINCIPAL:3 - Where the APPRIS core modules are unable to choose a clear principal variant and more than one of the variants have distinct CCDS identifiers, APPRIS selects the variant with lowest CCDS identifier as the principal variant. The lower the CCDS identifier, the earlier it was annotated. PRINCIPAL:4 - Where the APPRIS core modules are unable to choose a clear principal CDS and there is more than one variant with distinct (but consecutive) CCDS identifiers, APPRIS selects the longest CCDS isoform as the principal variant. PRINCIPAL:5 - Where the APPRIS core modules are unable to choose a clear principal variant and none of the candidate variants are annotated by CCDS, APPRIS selects the longest of the candidate isoforms as the principal variant. For genes in which the APPRIS core modules are unable to choose a clear principal variant (approximately 25% of human protein coding genes), the "candidate" variants not chosen as principal are labeled in the following way: ALTERNATIVE:1 - Candidate transcript(s) models that are conserved in at least three tested species. ALTERNATIVE:2 - Candidate transcript(s) models that appear to be conserved in fewer than three tested species. Non-candidate transcripts are not tagged and are considered as "Minor" transcripts. Further information and additional web services can be found at the APPRIS website. Downloads GENCODE GFF3 and GTF files are available from the GENCODE release 31 site. Verification Selected transcript models are verified experimentally by RT-PCR amplification followed by sequencing. Those experiments can be found at GEO: GSE30619:[E-MTAB-612] - Batch I is based on annotation from July 2008 (without pseudogenes). GSE25711:[E-MTAB-407] - Batch II is based on annotation from April 2009. GSE30612:[E-MTAB-533] - Batch III is verifying RGASP models for c.elegans and human. GSE34797:[E-MTAB-684] - Batch IV is based on chromosome 3, 4 and 5 annotations from GENCODE 4 (January 2010). GSE34820:[E-MTAB-737] - Batch V is based on annotations from GENCODE 6 (November 2010). GSE34821:[E-MTAB-831] - Batch VI is based on annotations from GENCODE 6 (November 2010) as well as transcript models predicted by the Ensembl Genebuild group based on the Illumina Human BodyMap 2.0 data. See Harrow et al. (2006) for information on verification techniques. Release Notes GENCODE version 31 corresponds to Ensembl 97. See also: The GENCODE Project Credits The GENCODE project is an international collaboration funded by NIH/NHGRI grant U41HG007234. More information is available at www.gencodegenes.org, Participating GENCODE institutions and personnel can be found here. References Frankish A, Diekhans M, Jungreis I, Lagarde J, Loveland JE, Mudge JM, Sisu C, Wright JC, Armstrong J, Barnes I et al. GENCODE 2021. Nucleic Acids Res. 2021 Jan 8;49(D1):D916-D923. PMID: 33270111; PMC: PMC7778937; DOI: 10.1093/nar/gkaa1087 A full list of GENCODE publications are available at The GENCODE Project web site. Data Release Policy GENCODE data are available for use without restrictions. 
wgEncodeGencodeV31ViewPolya PolyA All GENCODE annotations from V31 (Ensembl 97) Genes and Gene Predictions 
wgEncodeGencodePolyaV31 PolyA PolyA Transcript Annotation Set from GENCODE Version 31 (Ensembl 97) Genes and Gene Predictions 
wgEncodeGencodeV31ViewGenes Genes All GENCODE annotations from V31 (Ensembl 97) Genes and Gene Predictions 
wgEncodeGencodePseudoGeneV31 Pseudogenes Pseudogene Annotation Set from GENCODE Version 31 (Ensembl 97) Genes and Gene Predictions 
wgEncodeGencodeCompV31 Comprehensive Comprehensive Gene Annotation Set from GENCODE Version 31 (Ensembl 97) Genes and Gene Predictions 
wgEncodeGencodeBasicV31 Basic Basic Gene Annotation Set from GENCODE Version 31 (Ensembl 97) Genes and Gene Predictions 
wgEncodeGencodeV31View2Way 2-Way All GENCODE annotations from V31 (Ensembl 97) Genes and Gene Predictions 
wgEncodeGencode2wayConsPseudoV31 2-way Pseudogenes 2-way Pseudogene Annotation Set from GENCODE Version 31 (Ensembl 97) Genes and Gene Predictions 
wgEncodeGencodeV30 All GENCODE V30 All GENCODE annotations from V30 (Ensembl 96) Genes and Gene Predictions Description The GENCODE Genes track (version 30, Apr 2019) shows high-quality manual annotations merged with evidence-based automated annotations across the entire human genome generated by the GENCODE project. The GENCODE gene set presents a full merge between HAVANA manual annotation process and Ensembl automatic annotation pipeline. Priority is given to the manually curated HAVANA annotation using predicted Ensembl annotations when there are no corresponding manual annotations. The 30 annotation was carried out on genome assembly GRCh38 (hg38). The Ensembl human and mouse data sets are the same gene annotations as GENCODE for the corresponding release. Display Conventions and Configuration This track is a multi-view composite track that contains differing data sets (views). Instructions for configuring multi-view tracks are here. To show only selected subtracks, uncheck the boxes next to the tracks that you wish to hide. Views available on this track are: Genes The gene annotations in this view are divided into three subtracks: GENCODE Basic set is a subset of the Comprehensive set. The selection criteria are described in the methods section. GENCODE Comprehensive set contains all GENCODE coding and non-coding transcript annotations, including polymorphic pseudogenes. This includes both manual and automatic annotations. This is a super-set of the Basic set. GENCODE Pseudogenes include all annotations except polymorphic pseudogenes. PolyA GENCODE PolyA contains polyA signals and sites manually annotated on the genome based on transcribed evidence (ESTs and cDNAs) of 3' end of transcripts containing at least 3 A's not matching the genome. Maximum number of transcripts to display is available for the items in the GENCODE Basic, Comprehensive and Pseudogene tracks. Starting with the GENCODE human V42 and mouse VM31 releases, transcripts are assigned rank within the gene. The ranks may be used to filter the number of transcripts displayed in a principled manner. Transcript ranking is not available in the lift37 releases. See Methods for details of rank assignment. Filtering is available for the items in the GENCODE Basic, Comprehensive and Pseudogene tracks using the following criteria: Transcript class: filter by the basic biological function of a transcript annotation All - don't filter by transcript class coding - display protein coding transcripts, including polymorphic pseudogenes nonCoding - display non-protein coding transcripts pseudo - display pseudogene transcript annotations problem - display problem transcripts (Biotypes of retained_intron, TEC, or disrupted_domain) Transcript Annotation Method: filter by the method used to create the annotation All - don't filter by transcript class manual - display manually created annotations, including those that are also created automatically automatic - display automatically created annotations, including those that are also created manually manual_only - display manually created annotations that were not annotated by the automatic method automatic_only - display automatically created annotations that were not annotated by the manual method Transcript Biotype: filter transcripts by Biotype Support Level: filter transcripts by transcription support level Coloring for the gene annotations is based on the annotation type: coding non-coding pseudogene problem all polyA annotations Methods The GENCODE project aims to annotate all evidence-based gene features on the human and mouse reference sequence with high accuracy by integrating computational approaches (including comparative methods), manual annotation and targeted experimental verification. This goal includes identifying all protein-coding loci with associated alternative variants, non-coding loci which have transcript evidence, and pseudogenes. For a detailed description of the methods and references used, see Harrow et al. (2006). GENCODE Basic Set selection: The GENCODE Basic Set is intended to provide a simplified subset of the GENCODE transcript annotations that will be useful to the majority of users. The goal was to have a high-quality basic set that also covered all loci. Selection of GENCODE annotations for inclusion in the basic set was determined independently for the coding and non-coding transcripts at each gene locus. Criteria for selection of coding transcripts (including polymorphic pseudogenes) at a given locus: All full-length coding transcripts (except problem transcripts or transcripts that are nonsense-mediated decay) were included in the basic set. If there were no transcripts meeting the above criteria, then the partial coding transcript with the largest CDS was included in the basic set (excluding problem transcripts). Criteria for selection of non-coding transcripts at a given locus: All full-length non-coding transcripts (except problem transcripts) with a well characterized Biotype (see below) were included in the basic set. If there were no transcripts meeting the above criteria, then the largest non-coding transcript was included in the basic set (excluding problem transcripts). If no transcripts were included by either of the above criteria, the longest problem transcript is included. Non-coding transcript categorization: Non-coding transcripts are categorized using their biotype and the following criteria: well characterized: antisense, Mt_rRNA, Mt_tRNA, miRNA, rRNA, snRNA, snoRNA poorly characterized: 3prime_overlapping_ncrna, lincRNA, misc_RNA, non_coding, processed_transcript, sense_intronic, sense_overlapping Transcript ranking: Within each gene, transcripts have been ranked according to the following criteria. The ranking approach is preliminary and will change is future releases. Protein_coding genes MANE or Ensembl canonical -1st: MANE Select / Ensembl canonical -2nd: MANE Plus Clinical Coding biotypes -1st: protein_coding and protein_coding_LoF -2nd: NMDs and NSDs -3rd: retained intron and protein_coding_CDS_not_defined Completeness -1st: full length -2nd: CDS start/end not found CARS score (only for coding transcripts) Transcript genomic span and length (only for non-coding transcripts) Non-coding genes Transcript biotype -1st: transcript biotype identical to gene biotype Ensembl canonical GENCODE basic Transcript genomic span Transcript length Transcription Support Level (TSL): It is important that users understand how to assess transcript annotations that they see in GENCODE. While some transcript models have a high level of support through the full length of their exon structure, there are also transcripts that are poorly supported and that should be considered speculative. The Transcription Support Level (TSL) is a method to highlight the well-supported and poorly-supported transcript models for users. The method relies on the primary data that can support full-length transcript structure: mRNA and EST alignments supplied by UCSC and Ensembl. The mRNA and EST alignments are compared to the GENCODE transcripts and the transcripts are scored according to how well the alignment matches over its full length. The GENCODE TSL provides a consistent method of evaluating the level of support that a GENCODE transcript annotation is actually expressed in mouse. Mouse transcript sequences from the International Nucleotide Sequence Database Collaboration (GenBank, ENA, and DDBJ) are used as the evidence for this analysis. Exonerate RNA alignments from Ensembl, BLAT RNA and EST alignments from the UCSC Genome Browser Database are used in the analysis. Erroneous transcripts and libraries identified in lists maintained by the Ensembl, UCSC, HAVANA and RefSeq groups are flagged as suspect. GENCODE annotations for protein-coding and non-protein-coding transcripts are compared with the evidence alignments. Annotations in the MHC region and other immunological genes are not evaluated, as automatic alignments tend to be very problematic. Methods for evaluating single-exon genes are still being developed and they are not included in the current analysis. Multi-exon GENCODE annotations are evaluated using the criteria that all introns are supported by an evidence alignment and the evidence alignment does not indicate that there are unannotated exons. Small insertions and deletions in evidence alignments are assumed to be due to polymorphisms and not considered as differing from the annotations. All intron boundaries must match exactly. The transcript start and end locations are allowed to differ. The following categories are assigned to each of the evaluated annotations: tsl1 - all splice junctions of the transcript are supported by at least one non-suspect mRNA tsl2 - the best supporting mRNA is flagged as suspect or the support is from multiple ESTs tsl3 - the only support is from a single EST tsl4 - the best supporting EST is flagged as suspect tsl5 - no single transcript supports the model structure tslNA - the transcript was not analyzed for one of the following reasons: pseudogene annotation, including transcribed pseudogenes immunoglobin gene transcript T-cell receptor transcript single-exon transcript (will be included in a future version) APPRIS is a system to annotate alternatively spliced transcripts based on a range of computational methods. It provides value to the annotations of the human, mouse, zebrafish, rat, and pig genomes. APPRIS has selected a single CDS variant for each gene as the 'PRINCIPAL' isoform. Principal isoforms are tagged with the numbers 1 to 5, with 1 being the most reliable. PRINCIPAL:1 - Transcript(s) expected to code for the main functional isoform based solely on the core modules in the APPRIS. PRINCIPAL:2 - Where the APPRIS core modules are unable to choose a clear principal variant (approximately 25% of human protein coding genes), the database chooses two or more of the CDS variants as "candidates" to be the principal variant. PRINCIPAL:3 - Where the APPRIS core modules are unable to choose a clear principal variant and more than one of the variants have distinct CCDS identifiers, APPRIS selects the variant with lowest CCDS identifier as the principal variant. The lower the CCDS identifier, the earlier it was annotated. PRINCIPAL:4 - Where the APPRIS core modules are unable to choose a clear principal CDS and there is more than one variant with distinct (but consecutive) CCDS identifiers, APPRIS selects the longest CCDS isoform as the principal variant. PRINCIPAL:5 - Where the APPRIS core modules are unable to choose a clear principal variant and none of the candidate variants are annotated by CCDS, APPRIS selects the longest of the candidate isoforms as the principal variant. For genes in which the APPRIS core modules are unable to choose a clear principal variant (approximately 25% of human protein coding genes), the "candidate" variants not chosen as principal are labeled in the following way: ALTERNATIVE:1 - Candidate transcript(s) models that are conserved in at least three tested species. ALTERNATIVE:2 - Candidate transcript(s) models that appear to be conserved in fewer than three tested species. Non-candidate transcripts are not tagged and are considered as "Minor" transcripts. Further information and additional web services can be found at the APPRIS website. Downloads GENCODE GFF3 and GTF files are available from the GENCODE release 30 site. Verification Selected transcript models are verified experimentally by RT-PCR amplification followed by sequencing. Those experiments can be found at GEO: GSE30619:[E-MTAB-612] - Batch I is based on annotation from July 2008 (without pseudogenes). GSE25711:[E-MTAB-407] - Batch II is based on annotation from April 2009. GSE30612:[E-MTAB-533] - Batch III is verifying RGASP models for c.elegans and human. GSE34797:[E-MTAB-684] - Batch IV is based on chromosome 3, 4 and 5 annotations from GENCODE 4 (January 2010). GSE34820:[E-MTAB-737] - Batch V is based on annotations from GENCODE 6 (November 2010). GSE34821:[E-MTAB-831] - Batch VI is based on annotations from GENCODE 6 (November 2010) as well as transcript models predicted by the Ensembl Genebuild group based on the Illumina Human BodyMap 2.0 data. See Harrow et al. (2006) for information on verification techniques. Release Notes GENCODE version 30 corresponds to Ensembl 96. See also: The GENCODE Project Credits The GENCODE project is an international collaboration funded by NIH/NHGRI grant U41HG007234. More information is available at www.gencodegenes.org, Participating GENCODE institutions and personnel can be found here. References Frankish A, Diekhans M, Jungreis I, Lagarde J, Loveland JE, Mudge JM, Sisu C, Wright JC, Armstrong J, Barnes I et al. GENCODE 2021. Nucleic Acids Res. 2021 Jan 8;49(D1):D916-D923. PMID: 33270111; PMC: PMC7778937; DOI: 10.1093/nar/gkaa1087 A full list of GENCODE publications are available at The GENCODE Project web site. Data Release Policy GENCODE data are available for use without restrictions. 
wgEncodeGencodeV30ViewPolya PolyA All GENCODE annotations from V30 (Ensembl 96) Genes and Gene Predictions 
wgEncodeGencodePolyaV30 PolyA PolyA Transcript Annotation Set from GENCODE Version 30 (Ensembl 96) Genes and Gene Predictions 
wgEncodeGencodeV30ViewGenes Genes All GENCODE annotations from V30 (Ensembl 96) Genes and Gene Predictions 
wgEncodeGencodePseudoGeneV30 Pseudogenes Pseudogene Annotation Set from GENCODE Version 30 (Ensembl 96) Genes and Gene Predictions 
wgEncodeGencodeCompV30 Comprehensive Comprehensive Gene Annotation Set from GENCODE Version 30 (Ensembl 96) Genes and Gene Predictions 
wgEncodeGencodeBasicV30 Basic Basic Gene Annotation Set from GENCODE Version 30 (Ensembl 96) Genes and Gene Predictions 
wgEncodeGencodeV30View2Way 2-Way All GENCODE annotations from V30 (Ensembl 96) Genes and Gene Predictions 
wgEncodeGencode2wayConsPseudoV30 2-way Pseudogenes 2-way Pseudogene Annotation Set from GENCODE Version 30 (Ensembl 96) Genes and Gene Predictions 
wgEncodeGencodeV29 All GENCODE V29 All GENCODE annotations from V29 (Ensembl 94) Genes and Gene Predictions Description The GENCODE Genes track (version 29, Oct 2018) shows high-quality manual annotations merged with evidence-based automated annotations across the entire human genome generated by the GENCODE project. The GENCODE gene set presents a full merge between HAVANA manual annotation process and Ensembl automatic annotation pipeline. Priority is given to the manually curated HAVANA annotation using predicted Ensembl annotations when there are no corresponding manual annotations. The 29 annotation was carried out on genome assembly GRCh38 (hg38). The Ensembl human and mouse data sets are the same gene annotations as GENCODE for the corresponding release. Display Conventions and Configuration This track is a multi-view composite track that contains differing data sets (views). Instructions for configuring multi-view tracks are here. To show only selected subtracks, uncheck the boxes next to the tracks that you wish to hide. Views available on this track are: Genes The gene annotations in this view are divided into three subtracks: GENCODE Basic set is a subset of the Comprehensive set. The selection criteria are described in the methods section. GENCODE Comprehensive set contains all GENCODE coding and non-coding transcript annotations, including polymorphic pseudogenes. This includes both manual and automatic annotations. This is a super-set of the Basic set. GENCODE Pseudogenes include all annotations except polymorphic pseudogenes. PolyA GENCODE PolyA contains polyA signals and sites manually annotated on the genome based on transcribed evidence (ESTs and cDNAs) of 3' end of transcripts containing at least 3 A's not matching the genome. Maximum number of transcripts to display is available for the items in the GENCODE Basic, Comprehensive and Pseudogene tracks. Starting with the GENCODE human V42 and mouse VM31 releases, transcripts are assigned rank within the gene. The ranks may be used to filter the number of transcripts displayed in a principled manner. Transcript ranking is not available in the lift37 releases. See Methods for details of rank assignment. Filtering is available for the items in the GENCODE Basic, Comprehensive and Pseudogene tracks using the following criteria: Transcript class: filter by the basic biological function of a transcript annotation All - don't filter by transcript class coding - display protein coding transcripts, including polymorphic pseudogenes nonCoding - display non-protein coding transcripts pseudo - display pseudogene transcript annotations problem - display problem transcripts (Biotypes of retained_intron, TEC, or disrupted_domain) Transcript Annotation Method: filter by the method used to create the annotation All - don't filter by transcript class manual - display manually created annotations, including those that are also created automatically automatic - display automatically created annotations, including those that are also created manually manual_only - display manually created annotations that were not annotated by the automatic method automatic_only - display automatically created annotations that were not annotated by the manual method Transcript Biotype: filter transcripts by Biotype Support Level: filter transcripts by transcription support level Coloring for the gene annotations is based on the annotation type: coding non-coding pseudogene problem all polyA annotations Methods The GENCODE project aims to annotate all evidence-based gene features on the human and mouse reference sequence with high accuracy by integrating computational approaches (including comparative methods), manual annotation and targeted experimental verification. This goal includes identifying all protein-coding loci with associated alternative variants, non-coding loci which have transcript evidence, and pseudogenes. For a detailed description of the methods and references used, see Harrow et al. (2006). GENCODE Basic Set selection: The GENCODE Basic Set is intended to provide a simplified subset of the GENCODE transcript annotations that will be useful to the majority of users. The goal was to have a high-quality basic set that also covered all loci. Selection of GENCODE annotations for inclusion in the basic set was determined independently for the coding and non-coding transcripts at each gene locus. Criteria for selection of coding transcripts (including polymorphic pseudogenes) at a given locus: All full-length coding transcripts (except problem transcripts or transcripts that are nonsense-mediated decay) were included in the basic set. If there were no transcripts meeting the above criteria, then the partial coding transcript with the largest CDS was included in the basic set (excluding problem transcripts). Criteria for selection of non-coding transcripts at a given locus: All full-length non-coding transcripts (except problem transcripts) with a well characterized Biotype (see below) were included in the basic set. If there were no transcripts meeting the above criteria, then the largest non-coding transcript was included in the basic set (excluding problem transcripts). If no transcripts were included by either of the above criteria, the longest problem transcript is included. Non-coding transcript categorization: Non-coding transcripts are categorized using their biotype and the following criteria: well characterized: antisense, Mt_rRNA, Mt_tRNA, miRNA, rRNA, snRNA, snoRNA poorly characterized: 3prime_overlapping_ncrna, lincRNA, misc_RNA, non_coding, processed_transcript, sense_intronic, sense_overlapping Transcript ranking: Within each gene, transcripts have been ranked according to the following criteria. The ranking approach is preliminary and will change is future releases. Protein_coding genes MANE or Ensembl canonical -1st: MANE Select / Ensembl canonical -2nd: MANE Plus Clinical Coding biotypes -1st: protein_coding and protein_coding_LoF -2nd: NMDs and NSDs -3rd: retained intron and protein_coding_CDS_not_defined Completeness -1st: full length -2nd: CDS start/end not found CARS score (only for coding transcripts) Transcript genomic span and length (only for non-coding transcripts) Non-coding genes Transcript biotype -1st: transcript biotype identical to gene biotype Ensembl canonical GENCODE basic Transcript genomic span Transcript length Transcription Support Level (TSL): It is important that users understand how to assess transcript annotations that they see in GENCODE. While some transcript models have a high level of support through the full length of their exon structure, there are also transcripts that are poorly supported and that should be considered speculative. The Transcription Support Level (TSL) is a method to highlight the well-supported and poorly-supported transcript models for users. The method relies on the primary data that can support full-length transcript structure: mRNA and EST alignments supplied by UCSC and Ensembl. The mRNA and EST alignments are compared to the GENCODE transcripts and the transcripts are scored according to how well the alignment matches over its full length. The GENCODE TSL provides a consistent method of evaluating the level of support that a GENCODE transcript annotation is actually expressed in mouse. Mouse transcript sequences from the International Nucleotide Sequence Database Collaboration (GenBank, ENA, and DDBJ) are used as the evidence for this analysis. Exonerate RNA alignments from Ensembl, BLAT RNA and EST alignments from the UCSC Genome Browser Database are used in the analysis. Erroneous transcripts and libraries identified in lists maintained by the Ensembl, UCSC, HAVANA and RefSeq groups are flagged as suspect. GENCODE annotations for protein-coding and non-protein-coding transcripts are compared with the evidence alignments. Annotations in the MHC region and other immunological genes are not evaluated, as automatic alignments tend to be very problematic. Methods for evaluating single-exon genes are still being developed and they are not included in the current analysis. Multi-exon GENCODE annotations are evaluated using the criteria that all introns are supported by an evidence alignment and the evidence alignment does not indicate that there are unannotated exons. Small insertions and deletions in evidence alignments are assumed to be due to polymorphisms and not considered as differing from the annotations. All intron boundaries must match exactly. The transcript start and end locations are allowed to differ. The following categories are assigned to each of the evaluated annotations: tsl1 - all splice junctions of the transcript are supported by at least one non-suspect mRNA tsl2 - the best supporting mRNA is flagged as suspect or the support is from multiple ESTs tsl3 - the only support is from a single EST tsl4 - the best supporting EST is flagged as suspect tsl5 - no single transcript supports the model structure tslNA - the transcript was not analyzed for one of the following reasons: pseudogene annotation, including transcribed pseudogenes immunoglobin gene transcript T-cell receptor transcript single-exon transcript (will be included in a future version) APPRIS is a system to annotate alternatively spliced transcripts based on a range of computational methods. It provides value to the annotations of the human, mouse, zebrafish, rat, and pig genomes. APPRIS has selected a single CDS variant for each gene as the 'PRINCIPAL' isoform. Principal isoforms are tagged with the numbers 1 to 5, with 1 being the most reliable. PRINCIPAL:1 - Transcript(s) expected to code for the main functional isoform based solely on the core modules in the APPRIS. PRINCIPAL:2 - Where the APPRIS core modules are unable to choose a clear principal variant (approximately 25% of human protein coding genes), the database chooses two or more of the CDS variants as "candidates" to be the principal variant. PRINCIPAL:3 - Where the APPRIS core modules are unable to choose a clear principal variant and more than one of the variants have distinct CCDS identifiers, APPRIS selects the variant with lowest CCDS identifier as the principal variant. The lower the CCDS identifier, the earlier it was annotated. PRINCIPAL:4 - Where the APPRIS core modules are unable to choose a clear principal CDS and there is more than one variant with distinct (but consecutive) CCDS identifiers, APPRIS selects the longest CCDS isoform as the principal variant. PRINCIPAL:5 - Where the APPRIS core modules are unable to choose a clear principal variant and none of the candidate variants are annotated by CCDS, APPRIS selects the longest of the candidate isoforms as the principal variant. For genes in which the APPRIS core modules are unable to choose a clear principal variant (approximately 25% of human protein coding genes), the "candidate" variants not chosen as principal are labeled in the following way: ALTERNATIVE:1 - Candidate transcript(s) models that are conserved in at least three tested species. ALTERNATIVE:2 - Candidate transcript(s) models that appear to be conserved in fewer than three tested species. Non-candidate transcripts are not tagged and are considered as "Minor" transcripts. Further information and additional web services can be found at the APPRIS website. Downloads GENCODE GFF3 and GTF files are available from the GENCODE release 29 site. Verification Selected transcript models are verified experimentally by RT-PCR amplification followed by sequencing. Those experiments can be found at GEO: GSE30619:[E-MTAB-612] - Batch I is based on annotation from July 2008 (without pseudogenes). GSE25711:[E-MTAB-407] - Batch II is based on annotation from April 2009. GSE30612:[E-MTAB-533] - Batch III is verifying RGASP models for c.elegans and human. GSE34797:[E-MTAB-684] - Batch IV is based on chromosome 3, 4 and 5 annotations from GENCODE 4 (January 2010). GSE34820:[E-MTAB-737] - Batch V is based on annotations from GENCODE 6 (November 2010). GSE34821:[E-MTAB-831] - Batch VI is based on annotations from GENCODE 6 (November 2010) as well as transcript models predicted by the Ensembl Genebuild group based on the Illumina Human BodyMap 2.0 data. See Harrow et al. (2006) for information on verification techniques. Release Notes GENCODE version 29 corresponds to Ensembl 94. See also: The GENCODE Project Credits The GENCODE project is an international collaboration funded by NIH/NHGRI grant U41HG007234. More information is available at www.gencodegenes.org, Participating GENCODE institutions and personnel can be found here. References Frankish A, Diekhans M, Jungreis I, Lagarde J, Loveland JE, Mudge JM, Sisu C, Wright JC, Armstrong J, Barnes I et al. GENCODE 2021. Nucleic Acids Res. 2021 Jan 8;49(D1):D916-D923. PMID: 33270111; PMC: PMC7778937; DOI: 10.1093/nar/gkaa1087 A full list of GENCODE publications are available at The GENCODE Project web site. Data Release Policy GENCODE data are available for use without restrictions. 
wgEncodeGencodeV29ViewPolya PolyA All GENCODE annotations from V29 (Ensembl 94) Genes and Gene Predictions 
wgEncodeGencodePolyaV29 PolyA PolyA Transcript Annotation Set from GENCODE Version 29 (Ensembl 94) Genes and Gene Predictions 
wgEncodeGencodeV29ViewGenes Genes All GENCODE annotations from V29 (Ensembl 94) Genes and Gene Predictions 
wgEncodeGencodePseudoGeneV29 Pseudogenes Pseudogene Annotation Set from GENCODE Version 29 (Ensembl 94) Genes and Gene Predictions 
wgEncodeGencodeCompV29 Comprehensive Comprehensive Gene Annotation Set from GENCODE Version 29 (Ensembl 94) Genes and Gene Predictions 
wgEncodeGencodeBasicV29 Basic Basic Gene Annotation Set from GENCODE Version 29 (Ensembl 94) Genes and Gene Predictions 
wgEncodeGencodeV29View2Way 2-Way All GENCODE annotations from V29 (Ensembl 94) Genes and Gene Predictions 
wgEncodeGencode2wayConsPseudoV29 2-way Pseudogenes 2-way Pseudogene Annotation Set from GENCODE Version 29 (Ensembl 94) Genes and Gene Predictions 
wgEncodeGencodeV28 All GENCODE V28 All GENCODE annotations from V28 (Ensembl 92) Genes and Gene Predictions Description The GENCODE Genes track (version 28, Apr 2018) shows high-quality manual annotations merged with evidence-based automated annotations across the entire human genome generated by the GENCODE project. The GENCODE gene set presents a full merge between HAVANA manual annotation process and Ensembl automatic annotation pipeline. Priority is given to the manually curated HAVANA annotation using predicted Ensembl annotations when there are no corresponding manual annotations. The 28 annotation was carried out on genome assembly GRCh38 (hg38). The Ensembl human and mouse data sets are the same gene annotations as GENCODE for the corresponding release. Display Conventions and Configuration This track is a multi-view composite track that contains differing data sets (views). Instructions for configuring multi-view tracks are here. To show only selected subtracks, uncheck the boxes next to the tracks that you wish to hide. Views available on this track are: Genes The gene annotations in this view are divided into three subtracks: GENCODE Basic set is a subset of the Comprehensive set. The selection criteria are described in the methods section. GENCODE Comprehensive set contains all GENCODE coding and non-coding transcript annotations, including polymorphic pseudogenes. This includes both manual and automatic annotations. This is a super-set of the Basic set. GENCODE Pseudogenes include all annotations except polymorphic pseudogenes. PolyA GENCODE PolyA contains polyA signals and sites manually annotated on the genome based on transcribed evidence (ESTs and cDNAs) of 3' end of transcripts containing at least 3 A's not matching the genome. Maximum number of transcripts to display is available for the items in the GENCODE Basic, Comprehensive and Pseudogene tracks. Starting with the GENCODE human V42 and mouse VM31 releases, transcripts are assigned rank within the gene. The ranks may be used to filter the number of transcripts displayed in a principled manner. Transcript ranking is not available in the lift37 releases. See Methods for details of rank assignment. Filtering is available for the items in the GENCODE Basic, Comprehensive and Pseudogene tracks using the following criteria: Transcript class: filter by the basic biological function of a transcript annotation All - don't filter by transcript class coding - display protein coding transcripts, including polymorphic pseudogenes nonCoding - display non-protein coding transcripts pseudo - display pseudogene transcript annotations problem - display problem transcripts (Biotypes of retained_intron, TEC, or disrupted_domain) Transcript Annotation Method: filter by the method used to create the annotation All - don't filter by transcript class manual - display manually created annotations, including those that are also created automatically automatic - display automatically created annotations, including those that are also created manually manual_only - display manually created annotations that were not annotated by the automatic method automatic_only - display automatically created annotations that were not annotated by the manual method Transcript Biotype: filter transcripts by Biotype Support Level: filter transcripts by transcription support level Coloring for the gene annotations is based on the annotation type: coding non-coding pseudogene problem all polyA annotations Methods The GENCODE project aims to annotate all evidence-based gene features on the human and mouse reference sequence with high accuracy by integrating computational approaches (including comparative methods), manual annotation and targeted experimental verification. This goal includes identifying all protein-coding loci with associated alternative variants, non-coding loci which have transcript evidence, and pseudogenes. For a detailed description of the methods and references used, see Harrow et al. (2006). GENCODE Basic Set selection: The GENCODE Basic Set is intended to provide a simplified subset of the GENCODE transcript annotations that will be useful to the majority of users. The goal was to have a high-quality basic set that also covered all loci. Selection of GENCODE annotations for inclusion in the basic set was determined independently for the coding and non-coding transcripts at each gene locus. Criteria for selection of coding transcripts (including polymorphic pseudogenes) at a given locus: All full-length coding transcripts (except problem transcripts or transcripts that are nonsense-mediated decay) were included in the basic set. If there were no transcripts meeting the above criteria, then the partial coding transcript with the largest CDS was included in the basic set (excluding problem transcripts). Criteria for selection of non-coding transcripts at a given locus: All full-length non-coding transcripts (except problem transcripts) with a well characterized Biotype (see below) were included in the basic set. If there were no transcripts meeting the above criteria, then the largest non-coding transcript was included in the basic set (excluding problem transcripts). If no transcripts were included by either of the above criteria, the longest problem transcript is included. Non-coding transcript categorization: Non-coding transcripts are categorized using their biotype and the following criteria: well characterized: antisense, Mt_rRNA, Mt_tRNA, miRNA, rRNA, snRNA, snoRNA poorly characterized: 3prime_overlapping_ncrna, lincRNA, misc_RNA, non_coding, processed_transcript, sense_intronic, sense_overlapping Transcript ranking: Within each gene, transcripts have been ranked according to the following criteria. The ranking approach is preliminary and will change is future releases. Protein_coding genes MANE or Ensembl canonical -1st: MANE Select / Ensembl canonical -2nd: MANE Plus Clinical Coding biotypes -1st: protein_coding and protein_coding_LoF -2nd: NMDs and NSDs -3rd: retained intron and protein_coding_CDS_not_defined Completeness -1st: full length -2nd: CDS start/end not found CARS score (only for coding transcripts) Transcript genomic span and length (only for non-coding transcripts) Non-coding genes Transcript biotype -1st: transcript biotype identical to gene biotype Ensembl canonical GENCODE basic Transcript genomic span Transcript length Transcription Support Level (TSL): It is important that users understand how to assess transcript annotations that they see in GENCODE. While some transcript models have a high level of support through the full length of their exon structure, there are also transcripts that are poorly supported and that should be considered speculative. The Transcription Support Level (TSL) is a method to highlight the well-supported and poorly-supported transcript models for users. The method relies on the primary data that can support full-length transcript structure: mRNA and EST alignments supplied by UCSC and Ensembl. The mRNA and EST alignments are compared to the GENCODE transcripts and the transcripts are scored according to how well the alignment matches over its full length. The GENCODE TSL provides a consistent method of evaluating the level of support that a GENCODE transcript annotation is actually expressed in mouse. Mouse transcript sequences from the International Nucleotide Sequence Database Collaboration (GenBank, ENA, and DDBJ) are used as the evidence for this analysis. Exonerate RNA alignments from Ensembl, BLAT RNA and EST alignments from the UCSC Genome Browser Database are used in the analysis. Erroneous transcripts and libraries identified in lists maintained by the Ensembl, UCSC, HAVANA and RefSeq groups are flagged as suspect. GENCODE annotations for protein-coding and non-protein-coding transcripts are compared with the evidence alignments. Annotations in the MHC region and other immunological genes are not evaluated, as automatic alignments tend to be very problematic. Methods for evaluating single-exon genes are still being developed and they are not included in the current analysis. Multi-exon GENCODE annotations are evaluated using the criteria that all introns are supported by an evidence alignment and the evidence alignment does not indicate that there are unannotated exons. Small insertions and deletions in evidence alignments are assumed to be due to polymorphisms and not considered as differing from the annotations. All intron boundaries must match exactly. The transcript start and end locations are allowed to differ. The following categories are assigned to each of the evaluated annotations: tsl1 - all splice junctions of the transcript are supported by at least one non-suspect mRNA tsl2 - the best supporting mRNA is flagged as suspect or the support is from multiple ESTs tsl3 - the only support is from a single EST tsl4 - the best supporting EST is flagged as suspect tsl5 - no single transcript supports the model structure tslNA - the transcript was not analyzed for one of the following reasons: pseudogene annotation, including transcribed pseudogenes immunoglobin gene transcript T-cell receptor transcript single-exon transcript (will be included in a future version) APPRIS is a system to annotate alternatively spliced transcripts based on a range of computational methods. It provides value to the annotations of the human, mouse, zebrafish, rat, and pig genomes. APPRIS has selected a single CDS variant for each gene as the 'PRINCIPAL' isoform. Principal isoforms are tagged with the numbers 1 to 5, with 1 being the most reliable. PRINCIPAL:1 - Transcript(s) expected to code for the main functional isoform based solely on the core modules in the APPRIS. PRINCIPAL:2 - Where the APPRIS core modules are unable to choose a clear principal variant (approximately 25% of human protein coding genes), the database chooses two or more of the CDS variants as "candidates" to be the principal variant. PRINCIPAL:3 - Where the APPRIS core modules are unable to choose a clear principal variant and more than one of the variants have distinct CCDS identifiers, APPRIS selects the variant with lowest CCDS identifier as the principal variant. The lower the CCDS identifier, the earlier it was annotated. PRINCIPAL:4 - Where the APPRIS core modules are unable to choose a clear principal CDS and there is more than one variant with distinct (but consecutive) CCDS identifiers, APPRIS selects the longest CCDS isoform as the principal variant. PRINCIPAL:5 - Where the APPRIS core modules are unable to choose a clear principal variant and none of the candidate variants are annotated by CCDS, APPRIS selects the longest of the candidate isoforms as the principal variant. For genes in which the APPRIS core modules are unable to choose a clear principal variant (approximately 25% of human protein coding genes), the "candidate" variants not chosen as principal are labeled in the following way: ALTERNATIVE:1 - Candidate transcript(s) models that are conserved in at least three tested species. ALTERNATIVE:2 - Candidate transcript(s) models that appear to be conserved in fewer than three tested species. Non-candidate transcripts are not tagged and are considered as "Minor" transcripts. Further information and additional web services can be found at the APPRIS website. Downloads GENCODE GFF3 and GTF files are available from the GENCODE release 28 site. Verification Selected transcript models are verified experimentally by RT-PCR amplification followed by sequencing. Those experiments can be found at GEO: GSE30619:[E-MTAB-612] - Batch I is based on annotation from July 2008 (without pseudogenes). GSE25711:[E-MTAB-407] - Batch II is based on annotation from April 2009. GSE30612:[E-MTAB-533] - Batch III is verifying RGASP models for c.elegans and human. GSE34797:[E-MTAB-684] - Batch IV is based on chromosome 3, 4 and 5 annotations from GENCODE 4 (January 2010). GSE34820:[E-MTAB-737] - Batch V is based on annotations from GENCODE 6 (November 2010). GSE34821:[E-MTAB-831] - Batch VI is based on annotations from GENCODE 6 (November 2010) as well as transcript models predicted by the Ensembl Genebuild group based on the Illumina Human BodyMap 2.0 data. See Harrow et al. (2006) for information on verification techniques. Release Notes GENCODE version 28 corresponds to Ensembl 92. See also: The GENCODE Project Credits The GENCODE project is an international collaboration funded by NIH/NHGRI grant U41HG007234. More information is available at www.gencodegenes.org, Participating GENCODE institutions and personnel can be found here. References Frankish A, Diekhans M, Jungreis I, Lagarde J, Loveland JE, Mudge JM, Sisu C, Wright JC, Armstrong J, Barnes I et al. GENCODE 2021. Nucleic Acids Res. 2021 Jan 8;49(D1):D916-D923. PMID: 33270111; PMC: PMC7778937; DOI: 10.1093/nar/gkaa1087 A full list of GENCODE publications are available at The GENCODE Project web site. Data Release Policy GENCODE data are available for use without restrictions. 
wgEncodeGencodeV28ViewPolya PolyA All GENCODE annotations from V28 (Ensembl 92) Genes and Gene Predictions 
wgEncodeGencodePolyaV28 PolyA PolyA Transcript Annotation Set from GENCODE Version 28 (Ensembl 92) Genes and Gene Predictions 
wgEncodeGencodeV28ViewGenes Genes All GENCODE annotations from V28 (Ensembl 92) Genes and Gene Predictions 
wgEncodeGencodePseudoGeneV28 Pseudogenes Pseudogene Annotation Set from GENCODE Version 28 (Ensembl 92) Genes and Gene Predictions 
wgEncodeGencodeCompV28 Comprehensive Comprehensive Gene Annotation Set from GENCODE Version 28 (Ensembl 92) Genes and Gene Predictions 
wgEncodeGencodeBasicV28 Basic Basic Gene Annotation Set from GENCODE Version 28 (Ensembl 92) Genes and Gene Predictions 
wgEncodeGencodeV28View2Way 2-Way All GENCODE annotations from V28 (Ensembl 92) Genes and Gene Predictions 
wgEncodeGencode2wayConsPseudoV28 2-way Pseudogenes 2-way Pseudogene Annotation Set from GENCODE Version 28 (Ensembl 92) Genes and Gene Predictions 
wgEncodeGencodeV27 All GENCODE V27 All GENCODE annotations from V27 (Ensembl 90) Genes and Gene Predictions Description The GENCODE Genes track (version 27, Aug 2017) shows high-quality manual annotations merged with evidence-based automated annotations across the entire human genome generated by the GENCODE project. The GENCODE gene set presents a full merge between HAVANA manual annotation process and Ensembl automatic annotation pipeline. Priority is given to the manually curated HAVANA annotation using predicted Ensembl annotations when there are no corresponding manual annotations. The 27 annotation was carried out on genome assembly GRCh38 (hg38). The Ensembl human and mouse data sets are the same gene annotations as GENCODE for the corresponding release. Display Conventions and Configuration This track is a multi-view composite track that contains differing data sets (views). Instructions for configuring multi-view tracks are here. To show only selected subtracks, uncheck the boxes next to the tracks that you wish to hide. Views available on this track are: Genes The gene annotations in this view are divided into three subtracks: GENCODE Basic set is a subset of the Comprehensive set. The selection criteria are described in the methods section. GENCODE Comprehensive set contains all GENCODE coding and non-coding transcript annotations, including polymorphic pseudogenes. This includes both manual and automatic annotations. This is a super-set of the Basic set. GENCODE Pseudogenes include all annotations except polymorphic pseudogenes. PolyA GENCODE PolyA contains polyA signals and sites manually annotated on the genome based on transcribed evidence (ESTs and cDNAs) of 3' end of transcripts containing at least 3 A's not matching the genome. Maximum number of transcripts to display is available for the items in the GENCODE Basic, Comprehensive and Pseudogene tracks. Starting with the GENCODE human V42 and mouse VM31 releases, transcripts are assigned rank within the gene. The ranks may be used to filter the number of transcripts displayed in a principled manner. Transcript ranking is not available in the lift37 releases. See Methods for details of rank assignment. Filtering is available for the items in the GENCODE Basic, Comprehensive and Pseudogene tracks using the following criteria: Transcript class: filter by the basic biological function of a transcript annotation All - don't filter by transcript class coding - display protein coding transcripts, including polymorphic pseudogenes nonCoding - display non-protein coding transcripts pseudo - display pseudogene transcript annotations problem - display problem transcripts (Biotypes of retained_intron, TEC, or disrupted_domain) Transcript Annotation Method: filter by the method used to create the annotation All - don't filter by transcript class manual - display manually created annotations, including those that are also created automatically automatic - display automatically created annotations, including those that are also created manually manual_only - display manually created annotations that were not annotated by the automatic method automatic_only - display automatically created annotations that were not annotated by the manual method Transcript Biotype: filter transcripts by Biotype Support Level: filter transcripts by transcription support level Coloring for the gene annotations is based on the annotation type: coding non-coding pseudogene problem all polyA annotations Methods The GENCODE project aims to annotate all evidence-based gene features on the human and mouse reference sequence with high accuracy by integrating computational approaches (including comparative methods), manual annotation and targeted experimental verification. This goal includes identifying all protein-coding loci with associated alternative variants, non-coding loci which have transcript evidence, and pseudogenes. For a detailed description of the methods and references used, see Harrow et al. (2006). GENCODE Basic Set selection: The GENCODE Basic Set is intended to provide a simplified subset of the GENCODE transcript annotations that will be useful to the majority of users. The goal was to have a high-quality basic set that also covered all loci. Selection of GENCODE annotations for inclusion in the basic set was determined independently for the coding and non-coding transcripts at each gene locus. Criteria for selection of coding transcripts (including polymorphic pseudogenes) at a given locus: All full-length coding transcripts (except problem transcripts or transcripts that are nonsense-mediated decay) were included in the basic set. If there were no transcripts meeting the above criteria, then the partial coding transcript with the largest CDS was included in the basic set (excluding problem transcripts). Criteria for selection of non-coding transcripts at a given locus: All full-length non-coding transcripts (except problem transcripts) with a well characterized Biotype (see below) were included in the basic set. If there were no transcripts meeting the above criteria, then the largest non-coding transcript was included in the basic set (excluding problem transcripts). If no transcripts were included by either of the above criteria, the longest problem transcript is included. Non-coding transcript categorization: Non-coding transcripts are categorized using their biotype and the following criteria: well characterized: antisense, Mt_rRNA, Mt_tRNA, miRNA, rRNA, snRNA, snoRNA poorly characterized: 3prime_overlapping_ncrna, lincRNA, misc_RNA, non_coding, processed_transcript, sense_intronic, sense_overlapping Transcript ranking: Within each gene, transcripts have been ranked according to the following criteria. The ranking approach is preliminary and will change is future releases. Protein_coding genes MANE or Ensembl canonical -1st: MANE Select / Ensembl canonical -2nd: MANE Plus Clinical Coding biotypes -1st: protein_coding and protein_coding_LoF -2nd: NMDs and NSDs -3rd: retained intron and protein_coding_CDS_not_defined Completeness -1st: full length -2nd: CDS start/end not found CARS score (only for coding transcripts) Transcript genomic span and length (only for non-coding transcripts) Non-coding genes Transcript biotype -1st: transcript biotype identical to gene biotype Ensembl canonical GENCODE basic Transcript genomic span Transcript length Transcription Support Level (TSL): It is important that users understand how to assess transcript annotations that they see in GENCODE. While some transcript models have a high level of support through the full length of their exon structure, there are also transcripts that are poorly supported and that should be considered speculative. The Transcription Support Level (TSL) is a method to highlight the well-supported and poorly-supported transcript models for users. The method relies on the primary data that can support full-length transcript structure: mRNA and EST alignments supplied by UCSC and Ensembl. The mRNA and EST alignments are compared to the GENCODE transcripts and the transcripts are scored according to how well the alignment matches over its full length. The GENCODE TSL provides a consistent method of evaluating the level of support that a GENCODE transcript annotation is actually expressed in mouse. Mouse transcript sequences from the International Nucleotide Sequence Database Collaboration (GenBank, ENA, and DDBJ) are used as the evidence for this analysis. Exonerate RNA alignments from Ensembl, BLAT RNA and EST alignments from the UCSC Genome Browser Database are used in the analysis. Erroneous transcripts and libraries identified in lists maintained by the Ensembl, UCSC, HAVANA and RefSeq groups are flagged as suspect. GENCODE annotations for protein-coding and non-protein-coding transcripts are compared with the evidence alignments. Annotations in the MHC region and other immunological genes are not evaluated, as automatic alignments tend to be very problematic. Methods for evaluating single-exon genes are still being developed and they are not included in the current analysis. Multi-exon GENCODE annotations are evaluated using the criteria that all introns are supported by an evidence alignment and the evidence alignment does not indicate that there are unannotated exons. Small insertions and deletions in evidence alignments are assumed to be due to polymorphisms and not considered as differing from the annotations. All intron boundaries must match exactly. The transcript start and end locations are allowed to differ. The following categories are assigned to each of the evaluated annotations: tsl1 - all splice junctions of the transcript are supported by at least one non-suspect mRNA tsl2 - the best supporting mRNA is flagged as suspect or the support is from multiple ESTs tsl3 - the only support is from a single EST tsl4 - the best supporting EST is flagged as suspect tsl5 - no single transcript supports the model structure tslNA - the transcript was not analyzed for one of the following reasons: pseudogene annotation, including transcribed pseudogenes immunoglobin gene transcript T-cell receptor transcript single-exon transcript (will be included in a future version) APPRIS is a system to annotate alternatively spliced transcripts based on a range of computational methods. It provides value to the annotations of the human, mouse, zebrafish, rat, and pig genomes. APPRIS has selected a single CDS variant for each gene as the 'PRINCIPAL' isoform. Principal isoforms are tagged with the numbers 1 to 5, with 1 being the most reliable. PRINCIPAL:1 - Transcript(s) expected to code for the main functional isoform based solely on the core modules in the APPRIS. PRINCIPAL:2 - Where the APPRIS core modules are unable to choose a clear principal variant (approximately 25% of human protein coding genes), the database chooses two or more of the CDS variants as "candidates" to be the principal variant. PRINCIPAL:3 - Where the APPRIS core modules are unable to choose a clear principal variant and more than one of the variants have distinct CCDS identifiers, APPRIS selects the variant with lowest CCDS identifier as the principal variant. The lower the CCDS identifier, the earlier it was annotated. PRINCIPAL:4 - Where the APPRIS core modules are unable to choose a clear principal CDS and there is more than one variant with distinct (but consecutive) CCDS identifiers, APPRIS selects the longest CCDS isoform as the principal variant. PRINCIPAL:5 - Where the APPRIS core modules are unable to choose a clear principal variant and none of the candidate variants are annotated by CCDS, APPRIS selects the longest of the candidate isoforms as the principal variant. For genes in which the APPRIS core modules are unable to choose a clear principal variant (approximately 25% of human protein coding genes), the "candidate" variants not chosen as principal are labeled in the following way: ALTERNATIVE:1 - Candidate transcript(s) models that are conserved in at least three tested species. ALTERNATIVE:2 - Candidate transcript(s) models that appear to be conserved in fewer than three tested species. Non-candidate transcripts are not tagged and are considered as "Minor" transcripts. Further information and additional web services can be found at the APPRIS website. Downloads GENCODE GFF3 and GTF files are available from the GENCODE release 27 site. Verification Selected transcript models are verified experimentally by RT-PCR amplification followed by sequencing. Those experiments can be found at GEO: GSE30619:[E-MTAB-612] - Batch I is based on annotation from July 2008 (without pseudogenes). GSE25711:[E-MTAB-407] - Batch II is based on annotation from April 2009. GSE30612:[E-MTAB-533] - Batch III is verifying RGASP models for c.elegans and human. GSE34797:[E-MTAB-684] - Batch IV is based on chromosome 3, 4 and 5 annotations from GENCODE 4 (January 2010). GSE34820:[E-MTAB-737] - Batch V is based on annotations from GENCODE 6 (November 2010). GSE34821:[E-MTAB-831] - Batch VI is based on annotations from GENCODE 6 (November 2010) as well as transcript models predicted by the Ensembl Genebuild group based on the Illumina Human BodyMap 2.0 data. See Harrow et al. (2006) for information on verification techniques. Release Notes GENCODE version 27 corresponds to Ensembl 90. See also: The GENCODE Project Credits The GENCODE project is an international collaboration funded by NIH/NHGRI grant U41HG007234. More information is available at www.gencodegenes.org, Participating GENCODE institutions and personnel can be found here. References Frankish A, Diekhans M, Jungreis I, Lagarde J, Loveland JE, Mudge JM, Sisu C, Wright JC, Armstrong J, Barnes I et al. GENCODE 2021. Nucleic Acids Res. 2021 Jan 8;49(D1):D916-D923. PMID: 33270111; PMC: PMC7778937; DOI: 10.1093/nar/gkaa1087 A full list of GENCODE publications are available at The GENCODE Project web site. Data Release Policy GENCODE data are available for use without restrictions. 
wgEncodeGencodeV27ViewPolya PolyA All GENCODE annotations from V27 (Ensembl 90) Genes and Gene Predictions 
wgEncodeGencodePolyaV27 PolyA PolyA Transcript Annotation Set from GENCODE Version 27 (Ensembl 90) Genes and Gene Predictions 
wgEncodeGencodeV27ViewGenes Genes All GENCODE annotations from V27 (Ensembl 90) Genes and Gene Predictions 
wgEncodeGencodePseudoGeneV27 Pseudogenes Pseudogene Annotation Set from GENCODE Version 27 (Ensembl 90) Genes and Gene Predictions 
wgEncodeGencodeCompV27 Comprehensive Comprehensive Gene Annotation Set from GENCODE Version 27 (Ensembl 90) Genes and Gene Predictions 
wgEncodeGencodeBasicV27 Basic Basic Gene Annotation Set from GENCODE Version 27 (Ensembl 90) Genes and Gene Predictions 
wgEncodeGencodeV27View2Way 2-Way All GENCODE annotations from V27 (Ensembl 90) Genes and Gene Predictions 
wgEncodeGencode2wayConsPseudoV27 2-way Pseudogenes 2-way Pseudogene Annotation Set from GENCODE Version 27 (Ensembl 90) Genes and Gene Predictions 
wgEncodeGencodeV26 All GENCODE V26 All GENCODE annotations from V26 (Ensembl 88) Genes and Gene Predictions Description The GENCODE Genes track (version 26, March 2017) shows high-quality manual annotations merged with evidence-based automated annotations across the entire human genome generated by the GENCODE project. The GENCODE gene set presents a full merge between HAVANA manual annotation process and Ensembl automatic annotation pipeline. Priority is given to the manually curated HAVANA annotation using predicted Ensembl annotations when there are no corresponding manual annotations. The 26 annotation was carried out on genome assembly GRCh38 (hg38). The Ensembl human and mouse data sets are the same gene annotations as GENCODE for the corresponding release. Display Conventions and Configuration This track is a multi-view composite track that contains differing data sets (views). Instructions for configuring multi-view tracks are here. To show only selected subtracks, uncheck the boxes next to the tracks that you wish to hide. Views available on this track are: Genes The gene annotations in this view are divided into three subtracks: GENCODE Basic set is a subset of the Comprehensive set. The selection criteria are described in the methods section. GENCODE Comprehensive set contains all GENCODE coding and non-coding transcript annotations, including polymorphic pseudogenes. This includes both manual and automatic annotations. This is a super-set of the Basic set. GENCODE Pseudogenes include all annotations except polymorphic pseudogenes. PolyA GENCODE PolyA contains polyA signals and sites manually annotated on the genome based on transcribed evidence (ESTs and cDNAs) of 3' end of transcripts containing at least 3 A's not matching the genome. Maximum number of transcripts to display is available for the items in the GENCODE Basic, Comprehensive and Pseudogene tracks. Starting with the GENCODE human V42 and mouse VM31 releases, transcripts are assigned rank within the gene. The ranks may be used to filter the number of transcripts displayed in a principled manner. Transcript ranking is not available in the lift37 releases. See Methods for details of rank assignment. Filtering is available for the items in the GENCODE Basic, Comprehensive and Pseudogene tracks using the following criteria: Transcript class: filter by the basic biological function of a transcript annotation All - don't filter by transcript class coding - display protein coding transcripts, including polymorphic pseudogenes nonCoding - display non-protein coding transcripts pseudo - display pseudogene transcript annotations problem - display problem transcripts (Biotypes of retained_intron, TEC, or disrupted_domain) Transcript Annotation Method: filter by the method used to create the annotation All - don't filter by transcript class manual - display manually created annotations, including those that are also created automatically automatic - display automatically created annotations, including those that are also created manually manual_only - display manually created annotations that were not annotated by the automatic method automatic_only - display automatically created annotations that were not annotated by the manual method Transcript Biotype: filter transcripts by Biotype Support Level: filter transcripts by transcription support level Coloring for the gene annotations is based on the annotation type: coding non-coding pseudogene problem all polyA annotations Methods The GENCODE project aims to annotate all evidence-based gene features on the human and mouse reference sequence with high accuracy by integrating computational approaches (including comparative methods), manual annotation and targeted experimental verification. This goal includes identifying all protein-coding loci with associated alternative variants, non-coding loci which have transcript evidence, and pseudogenes. For a detailed description of the methods and references used, see Harrow et al. (2006). GENCODE Basic Set selection: The GENCODE Basic Set is intended to provide a simplified subset of the GENCODE transcript annotations that will be useful to the majority of users. The goal was to have a high-quality basic set that also covered all loci. Selection of GENCODE annotations for inclusion in the basic set was determined independently for the coding and non-coding transcripts at each gene locus. Criteria for selection of coding transcripts (including polymorphic pseudogenes) at a given locus: All full-length coding transcripts (except problem transcripts or transcripts that are nonsense-mediated decay) were included in the basic set. If there were no transcripts meeting the above criteria, then the partial coding transcript with the largest CDS was included in the basic set (excluding problem transcripts). Criteria for selection of non-coding transcripts at a given locus: All full-length non-coding transcripts (except problem transcripts) with a well characterized Biotype (see below) were included in the basic set. If there were no transcripts meeting the above criteria, then the largest non-coding transcript was included in the basic set (excluding problem transcripts). If no transcripts were included by either of the above criteria, the longest problem transcript is included. Non-coding transcript categorization: Non-coding transcripts are categorized using their biotype and the following criteria: well characterized: antisense, Mt_rRNA, Mt_tRNA, miRNA, rRNA, snRNA, snoRNA poorly characterized: 3prime_overlapping_ncrna, lincRNA, misc_RNA, non_coding, processed_transcript, sense_intronic, sense_overlapping Transcript ranking: Within each gene, transcripts have been ranked according to the following criteria. The ranking approach is preliminary and will change is future releases. Protein_coding genes MANE or Ensembl canonical -1st: MANE Select / Ensembl canonical -2nd: MANE Plus Clinical Coding biotypes -1st: protein_coding and protein_coding_LoF -2nd: NMDs and NSDs -3rd: retained intron and protein_coding_CDS_not_defined Completeness -1st: full length -2nd: CDS start/end not found CARS score (only for coding transcripts) Transcript genomic span and length (only for non-coding transcripts) Non-coding genes Transcript biotype -1st: transcript biotype identical to gene biotype Ensembl canonical GENCODE basic Transcript genomic span Transcript length Transcription Support Level (TSL): It is important that users understand how to assess transcript annotations that they see in GENCODE. While some transcript models have a high level of support through the full length of their exon structure, there are also transcripts that are poorly supported and that should be considered speculative. The Transcription Support Level (TSL) is a method to highlight the well-supported and poorly-supported transcript models for users. The method relies on the primary data that can support full-length transcript structure: mRNA and EST alignments supplied by UCSC and Ensembl. The mRNA and EST alignments are compared to the GENCODE transcripts and the transcripts are scored according to how well the alignment matches over its full length. The GENCODE TSL provides a consistent method of evaluating the level of support that a GENCODE transcript annotation is actually expressed in mouse. Mouse transcript sequences from the International Nucleotide Sequence Database Collaboration (GenBank, ENA, and DDBJ) are used as the evidence for this analysis. Exonerate RNA alignments from Ensembl, BLAT RNA and EST alignments from the UCSC Genome Browser Database are used in the analysis. Erroneous transcripts and libraries identified in lists maintained by the Ensembl, UCSC, HAVANA and RefSeq groups are flagged as suspect. GENCODE annotations for protein-coding and non-protein-coding transcripts are compared with the evidence alignments. Annotations in the MHC region and other immunological genes are not evaluated, as automatic alignments tend to be very problematic. Methods for evaluating single-exon genes are still being developed and they are not included in the current analysis. Multi-exon GENCODE annotations are evaluated using the criteria that all introns are supported by an evidence alignment and the evidence alignment does not indicate that there are unannotated exons. Small insertions and deletions in evidence alignments are assumed to be due to polymorphisms and not considered as differing from the annotations. All intron boundaries must match exactly. The transcript start and end locations are allowed to differ. The following categories are assigned to each of the evaluated annotations: tsl1 - all splice junctions of the transcript are supported by at least one non-suspect mRNA tsl2 - the best supporting mRNA is flagged as suspect or the support is from multiple ESTs tsl3 - the only support is from a single EST tsl4 - the best supporting EST is flagged as suspect tsl5 - no single transcript supports the model structure tslNA - the transcript was not analyzed for one of the following reasons: pseudogene annotation, including transcribed pseudogenes immunoglobin gene transcript T-cell receptor transcript single-exon transcript (will be included in a future version) APPRIS is a system to annotate alternatively spliced transcripts based on a range of computational methods. It provides value to the annotations of the human, mouse, zebrafish, rat, and pig genomes. APPRIS has selected a single CDS variant for each gene as the 'PRINCIPAL' isoform. Principal isoforms are tagged with the numbers 1 to 5, with 1 being the most reliable. PRINCIPAL:1 - Transcript(s) expected to code for the main functional isoform based solely on the core modules in the APPRIS. PRINCIPAL:2 - Where the APPRIS core modules are unable to choose a clear principal variant (approximately 25% of human protein coding genes), the database chooses two or more of the CDS variants as "candidates" to be the principal variant. PRINCIPAL:3 - Where the APPRIS core modules are unable to choose a clear principal variant and more than one of the variants have distinct CCDS identifiers, APPRIS selects the variant with lowest CCDS identifier as the principal variant. The lower the CCDS identifier, the earlier it was annotated. PRINCIPAL:4 - Where the APPRIS core modules are unable to choose a clear principal CDS and there is more than one variant with distinct (but consecutive) CCDS identifiers, APPRIS selects the longest CCDS isoform as the principal variant. PRINCIPAL:5 - Where the APPRIS core modules are unable to choose a clear principal variant and none of the candidate variants are annotated by CCDS, APPRIS selects the longest of the candidate isoforms as the principal variant. For genes in which the APPRIS core modules are unable to choose a clear principal variant (approximately 25% of human protein coding genes), the "candidate" variants not chosen as principal are labeled in the following way: ALTERNATIVE:1 - Candidate transcript(s) models that are conserved in at least three tested species. ALTERNATIVE:2 - Candidate transcript(s) models that appear to be conserved in fewer than three tested species. Non-candidate transcripts are not tagged and are considered as "Minor" transcripts. Further information and additional web services can be found at the APPRIS website. Downloads GENCODE GFF3 and GTF files are available from the GENCODE release 26 site. Verification Selected transcript models are verified experimentally by RT-PCR amplification followed by sequencing. Those experiments can be found at GEO: GSE30619:[E-MTAB-612] - Batch I is based on annotation from July 2008 (without pseudogenes). GSE25711:[E-MTAB-407] - Batch II is based on annotation from April 2009. GSE30612:[E-MTAB-533] - Batch III is verifying RGASP models for c.elegans and human. GSE34797:[E-MTAB-684] - Batch IV is based on chromosome 3, 4 and 5 annotations from GENCODE 4 (January 2010). GSE34820:[E-MTAB-737] - Batch V is based on annotations from GENCODE 6 (November 2010). GSE34821:[E-MTAB-831] - Batch VI is based on annotations from GENCODE 6 (November 2010) as well as transcript models predicted by the Ensembl Genebuild group based on the Illumina Human BodyMap 2.0 data. See Harrow et al. (2006) for information on verification techniques. Release Notes GENCODE version 26 corresponds to Ensembl 88. See also: The GENCODE Project Credits The GENCODE project is an international collaboration funded by NIH/NHGRI grant U41HG007234. More information is available at www.gencodegenes.org, Participating GENCODE institutions and personnel can be found here. References Frankish A, Diekhans M, Jungreis I, Lagarde J, Loveland JE, Mudge JM, Sisu C, Wright JC, Armstrong J, Barnes I et al. GENCODE 2021. Nucleic Acids Res. 2021 Jan 8;49(D1):D916-D923. PMID: 33270111; PMC: PMC7778937; DOI: 10.1093/nar/gkaa1087 A full list of GENCODE publications are available at The GENCODE Project web site. Data Release Policy GENCODE data are available for use without restrictions. 
wgEncodeGencodeV26ViewPolya PolyA All GENCODE annotations from V26 (Ensembl 88) Genes and Gene Predictions 
wgEncodeGencodePolyaV26 PolyA PolyA Transcript Annotation Set from GENCODE Version 26 (Ensembl 88) Genes and Gene Predictions 
wgEncodeGencodeV26ViewGenes Genes All GENCODE annotations from V26 (Ensembl 88) Genes and Gene Predictions 
wgEncodeGencodePseudoGeneV26 Pseudogenes Pseudogene Annotation Set from GENCODE Version 26 (Ensembl 88) Genes and Gene Predictions 
wgEncodeGencodeCompV26 Comprehensive Comprehensive Gene Annotation Set from GENCODE Version 26 (Ensembl 88) Genes and Gene Predictions 
wgEncodeGencodeBasicV26 Basic Basic Gene Annotation Set from GENCODE Version 26 (Ensembl 88) Genes and Gene Predictions 
wgEncodeGencodeV26View2Way 2-Way All GENCODE annotations from V26 (Ensembl 88) Genes and Gene Predictions 
wgEncodeGencode2wayConsPseudoV26 2-way Pseudogenes 2-way Pseudogene Annotation Set from GENCODE Version 26 (Ensembl 88) Genes and Gene Predictions 
wgEncodeGencodeV25 All GENCODE V25 All GENCODE transcripts including comprehensive set V25 Genes and Gene Predictions Description The GENCODE Genes track (version 25, July 2016) shows high-quality manual annotations merged with evidence-based automated annotations across the entire human genome generated by the GENCODE project. The GENCODE gene set presents a full merge between HAVANA manual annotation process and Ensembl automatic annotation pipeline. Priority is given to the manually curated HAVANA annotation using predicted Ensembl annotations when there are no corresponding manual annotations. The annotation was carried out on genome assembly GRCh38 (hg38). As of GENCODE Version 11, Ensembl and GENCODE have converged. The gene annotations in the GENCODE comprehensive set are the same as the corresponding Ensembl release. Display Conventions and Configuration This track is a multi-view composite track that contains differing data sets (views). Instructions for configuring multi-view tracks are here. To show only selected subtracks, uncheck the boxes next to the tracks that you wish to hide. Views available on this track are: Genes The gene annotations in this view are divided into three subtracks: GENCODE Basic set is a subset of the Comprehensive set. The selection criteria are described in the methods section. GENCODE Comprehensive set contains all GENCODE coding and non-coding transcript annotations, including polymorphic pseudogenes. This includes both manual and automatic annotations. This is a super-set of the Basic set. GENCODE Pseudogenes include all annotations except polymorphic pseudogenes. PolyA GENCODE PolyA contains polyA signals and sites manually annotated on the genome based on transcribed evidence (ESTs and cDNAs) of 3' end of transcripts containing at least 3 A's not matching the genome. Maximum number of transcripts to display is available for the items in the GENCODE Basic, Comprehensive and Pseudogene tracks. Starting with the GENCODE human V42 and mouse VM31 releases, transcripts are assigned rank within the gene. The ranks may be used to filter the number of transcripts displayed in a principled manner. Transcript ranking is not available in the lift37 releases. See Methods for details of rank assignment. Filtering is available for the items in the GENCODE Basic, Comprehensive and Pseudogene tracks using the following criteria: Transcript class: filter by the basic biological function of a transcript annotation All - don't filter by transcript class coding - display protein coding transcripts, including polymorphic pseudogenes nonCoding - display non-protein coding transcripts pseudo - display pseudogene transcript annotations problem - display problem transcripts (Biotypes of retained_intron, TEC, or disrupted_domain) Transcript Annotation Method: filter by the method used to create the annotation All - don't filter by transcript class manual - display manually created annotations, including those that are also created automatically automatic - display automatically created annotations, including those that are also created manually manual_only - display manually created annotations that were not annotated by the automatic method automatic_only - display automatically created annotations that were not annotated by the manual method Transcript Biotype: filter transcripts by Biotype Support Level: filter transcripts by transcription support level Coloring for the gene annotations is based on the annotation type: coding non-coding pseudogene problem all polyA annotations Methods The GENCODE project aims to annotate all evidence-based gene features on the human and mouse reference sequence with high accuracy by integrating computational approaches (including comparative methods), manual annotation and targeted experimental verification. This goal includes identifying all protein-coding loci with associated alternative variants, non-coding loci which have transcript evidence, and pseudogenes. For a detailed description of the methods and references used, see Harrow et al. (2006). GENCODE Basic Set selection: The GENCODE Basic Set is intended to provide a simplified subset of the GENCODE transcript annotations that will be useful to the majority of users. The goal was to have a high-quality basic set that also covered all loci. Selection of GENCODE annotations for inclusion in the basic set was determined independently for the coding and non-coding transcripts at each gene locus. Criteria for selection of coding transcripts (including polymorphic pseudogenes) at a given locus: All full-length coding transcripts (except problem transcripts or transcripts that are nonsense-mediated decay) were included in the basic set. If there were no transcripts meeting the above criteria, then the partial coding transcript with the largest CDS was included in the basic set (excluding problem transcripts). Criteria for selection of non-coding transcripts at a given locus: All full-length non-coding transcripts (except problem transcripts) with a well characterized Biotype (see below) were included in the basic set. If there were no transcripts meeting the above criteria, then the largest non-coding transcript was included in the basic set (excluding problem transcripts). If no transcripts were included by either of the above criteria, the longest problem transcript is included. Non-coding transcript categorization: Non-coding transcripts are categorized using their biotype and the following criteria: well characterized: antisense, Mt_rRNA, Mt_tRNA, miRNA, rRNA, snRNA, snoRNA poorly characterized: 3prime_overlapping_ncrna, lincRNA, misc_RNA, non_coding, processed_transcript, sense_intronic, sense_overlapping Transcript ranking: Within each gene, transcripts have been ranked according to the following criteria. The ranking approach is preliminary and will change is future releases. Protein_coding genes MANE or Ensembl canonical -1st: MANE Select / Ensembl canonical -2nd: MANE Plus Clinical Coding biotypes -1st: protein_coding and protein_coding_LoF -2nd: NMDs and NSDs -3rd: retained intron and protein_coding_CDS_not_defined Completeness -1st: full length -2nd: CDS start/end not found CARS score (only for coding transcripts) Transcript genomic span and length (only for non-coding transcripts) Non-coding genes Transcript biotype -1st: transcript biotype identical to gene biotype Ensembl canonical GENCODE basic Transcript genomic span Transcript length Transcription Support Level (TSL): It is important that users understand how to assess transcript annotations that they see in GENCODE. While some transcript models have a high level of support through the full length of their exon structure, there are also transcripts that are poorly supported and that should be considered speculative. The Transcription Support Level (TSL) is a method to highlight the well-supported and poorly-supported transcript models for users. The method relies on the primary data that can support full-length transcript structure: mRNA and EST alignments supplied by UCSC and Ensembl. The mRNA and EST alignments are compared to the GENCODE transcripts and the transcripts are scored according to how well the alignment matches over its full length. The GENCODE TSL provides a consistent method of evaluating the level of support that a GENCODE transcript annotation is actually expressed in mouse. Mouse transcript sequences from the International Nucleotide Sequence Database Collaboration (GenBank, ENA, and DDBJ) are used as the evidence for this analysis. Exonerate RNA alignments from Ensembl, BLAT RNA and EST alignments from the UCSC Genome Browser Database are used in the analysis. Erroneous transcripts and libraries identified in lists maintained by the Ensembl, UCSC, HAVANA and RefSeq groups are flagged as suspect. GENCODE annotations for protein-coding and non-protein-coding transcripts are compared with the evidence alignments. Annotations in the MHC region and other immunological genes are not evaluated, as automatic alignments tend to be very problematic. Methods for evaluating single-exon genes are still being developed and they are not included in the current analysis. Multi-exon GENCODE annotations are evaluated using the criteria that all introns are supported by an evidence alignment and the evidence alignment does not indicate that there are unannotated exons. Small insertions and deletions in evidence alignments are assumed to be due to polymorphisms and not considered as differing from the annotations. All intron boundaries must match exactly. The transcript start and end locations are allowed to differ. The following categories are assigned to each of the evaluated annotations: tsl1 - all splice junctions of the transcript are supported by at least one non-suspect mRNA tsl2 - the best supporting mRNA is flagged as suspect or the support is from multiple ESTs tsl3 - the only support is from a single EST tsl4 - the best supporting EST is flagged as suspect tsl5 - no single transcript supports the model structure tslNA - the transcript was not analyzed for one of the following reasons: pseudogene annotation, including transcribed pseudogenes immunoglobin gene transcript T-cell receptor transcript single-exon transcript (will be included in a future version) APPRIS is a system to annotate alternatively spliced transcripts based on a range of computational methods. It provides value to the annotations of the human, mouse, zebrafish, rat, and pig genomes. APPRIS has selected a single CDS variant for each gene as the 'PRINCIPAL' isoform. Principal isoforms are tagged with the numbers 1 to 5, with 1 being the most reliable. PRINCIPAL:1 - Transcript(s) expected to code for the main functional isoform based solely on the core modules in the APPRIS. PRINCIPAL:2 - Where the APPRIS core modules are unable to choose a clear principal variant (approximately 25% of human protein coding genes), the database chooses two or more of the CDS variants as "candidates" to be the principal variant. PRINCIPAL:3 - Where the APPRIS core modules are unable to choose a clear principal variant and more than one of the variants have distinct CCDS identifiers, APPRIS selects the variant with lowest CCDS identifier as the principal variant. The lower the CCDS identifier, the earlier it was annotated. PRINCIPAL:4 - Where the APPRIS core modules are unable to choose a clear principal CDS and there is more than one variant with distinct (but consecutive) CCDS identifiers, APPRIS selects the longest CCDS isoform as the principal variant. PRINCIPAL:5 - Where the APPRIS core modules are unable to choose a clear principal variant and none of the candidate variants are annotated by CCDS, APPRIS selects the longest of the candidate isoforms as the principal variant. For genes in which the APPRIS core modules are unable to choose a clear principal variant (approximately 25% of human protein coding genes), the "candidate" variants not chosen as principal are labeled in the following way: ALTERNATIVE:1 - Candidate transcript(s) models that are conserved in at least three tested species. ALTERNATIVE:2 - Candidate transcript(s) models that appear to be conserved in fewer than three tested species. Non-candidate transcripts are not tagged and are considered as "Minor" transcripts. Further information and additional web services can be found at the APPRIS website. Downloads GENCODE GFF3 and GTF files are available from the GENCODE release 25 site. Verification Selected transcript models are verified experimentally by RT-PCR amplification followed by sequencing. Those experiments can be found at GEO: GSE30619:[E-MTAB-612] - Batch I is based on annotation from July 2008 (without pseudogenes). GSE25711:[E-MTAB-407] - Batch II is based on annotation from April 2009. GSE30612:[E-MTAB-533] - Batch III is verifying RGASP models for c.elegans and human. --> GSE34797:[E-MTAB-684] - Batch IV is based on chromosome 3, 4 and 5 annotations from GENCODE 4 (January 2010). GSE34820:[E-MTAB-737] - Batch V is based on annotations from GENCODE 6 (November 2010). GSE34821:[E-MTAB-831] - Batch VI is based on annotations from GENCODE 6 (November 2010) as well as transcript models predicted by the Ensembl Genebuild group based on the Illumina Human BodyMap 2.0 data. See Harrow et al. (2006) for information on verification techniques. Release Notes GENCODE version 25 corresponds to Ensembl 85. See also: The GENCODE Project Credits The GENCODE project is an international collaboration funded by NIH/NHGRI grant U41HG007234. More information is available at www.gencodegenes.org, Participating GENCODE institutions and personnel can be found here. References Frankish A, Diekhans M, Jungreis I, Lagarde J, Loveland JE, Mudge JM, Sisu C, Wright JC, Armstrong J, Barnes I et al. GENCODE 2021. Nucleic Acids Res. 2021 Jan 8;49(D1):D916-D923. PMID: 33270111; PMC: PMC7778937; DOI: 10.1093/nar/gkaa1087 A full list of GENCODE publications are available at The GENCODE Project web site. Data Release Policy GENCODE data are available for use without restrictions. 
wgEncodeGencodeV25ViewPolya PolyA All GENCODE transcripts including comprehensive set V25 Genes and Gene Predictions 
wgEncodeGencodePolyaV25 PolyA PolyA Transcript Annotation Set from GENCODE Version 25 (Ensembl 85) Genes and Gene Predictions 
wgEncodeGencodeV25ViewGenes Genes All GENCODE transcripts including comprehensive set V25 Genes and Gene Predictions 
wgEncodeGencodePseudoGeneV25 Pseudogenes Pseudogene Annotation Set from GENCODE Version 25 (Ensembl 85) Genes and Gene Predictions 
wgEncodeGencodeCompV25 Comprehensive Comprehensive Gene Annotation Set from GENCODE Version 25 (Ensembl 85) Genes and Gene Predictions 
wgEncodeGencodeBasicV25 Basic Basic Gene Annotation Set from GENCODE Version 25 (Ensembl 85) Genes and Gene Predictions 
wgEncodeGencodeV25View2Way 2-Way All GENCODE transcripts including comprehensive set V25 Genes and Gene Predictions 
wgEncodeGencode2wayConsPseudoV25 2-way Pseudogenes 2-way Pseudogene Annotation Set from GENCODE Version 25 (Ensembl 85) Genes and Gene Predictions 
wgEncodeGencodeV24 All GENCODE V24 All GENCODE transcripts including comprehensive set V24 Genes and Gene Predictions Description The GENCODE Genes track (version 24, December 2015) shows high-quality manual annotations merged with evidence-based automated annotations across the entire human genome generated by the GENCODE project. The GENCODE gene set presents a full merge between HAVANA manual annotation process and Ensembl automatic annotation pipeline. Priority is given to the manually curated HAVANA annotation using predicted Ensembl annotations when there are no corresponding manual annotations. The annotation was carried out on genome assembly GRCh38 (hg38). As of GENCODE Version 11, Ensembl and GENCODE have converged. The gene annotations in the GENCODE comprehensive set are the same as the corresponding Ensembl release. Display Conventions and Configuration This track is a multi-view composite track that contains differing data sets (views). Instructions for configuring multi-view tracks are here. To show only selected subtracks, uncheck the boxes next to the tracks that you wish to hide. Views available on this track are: Genes The gene annotations in this view are divided into three subtracks: GENCODE Basic set is a subset of the Comprehensive set. The selection criteria are described in the methods section. GENCODE Comprehensive set contains all GENCODE coding and non-coding transcript annotations, including polymorphic pseudogenes. This includes both manual and automatic annotations. This is a super-set of the Basic set. GENCODE Pseudogenes include all annotations except polymorphic pseudogenes. PolyA GENCODE PolyA contains polyA signals and sites manually annotated on the genome based on transcribed evidence (ESTs and cDNAs) of 3' end of transcripts containing at least 3 A's not matching the genome. Maximum number of transcripts to display is available for the items in the GENCODE Basic, Comprehensive and Pseudogene tracks. Starting with the GENCODE human V42 and mouse VM31 releases, transcripts are assigned rank within the gene. The ranks may be used to filter the number of transcripts displayed in a principled manner. Transcript ranking is not available in the lift37 releases. See Methods for details of rank assignment. Filtering is available for the items in the GENCODE Basic, Comprehensive and Pseudogene tracks using the following criteria: Transcript class: filter by the basic biological function of a transcript annotation All - don't filter by transcript class coding - display protein coding transcripts, including polymorphic pseudogenes nonCoding - display non-protein coding transcripts pseudo - display pseudogene transcript annotations problem - display problem transcripts (Biotypes of retained_intron, TEC, or disrupted_domain) Transcript Annotation Method: filter by the method used to create the annotation All - don't filter by transcript class manual - display manually created annotations, including those that are also created automatically automatic - display automatically created annotations, including those that are also created manually manual_only - display manually created annotations that were not annotated by the automatic method automatic_only - display automatically created annotations that were not annotated by the manual method Transcript Biotype: filter transcripts by Biotype Support Level: filter transcripts by transcription support level Coloring for the gene annotations is based on the annotation type: coding non-coding pseudogene problem all polyA annotations Methods The GENCODE project aims to annotate all evidence-based gene features on the human and mouse reference sequence with high accuracy by integrating computational approaches (including comparative methods), manual annotation and targeted experimental verification. This goal includes identifying all protein-coding loci with associated alternative variants, non-coding loci which have transcript evidence, and pseudogenes. For a detailed description of the methods and references used, see Harrow et al. (2006). GENCODE Basic Set selection: The GENCODE Basic Set is intended to provide a simplified subset of the GENCODE transcript annotations that will be useful to the majority of users. The goal was to have a high-quality basic set that also covered all loci. Selection of GENCODE annotations for inclusion in the basic set was determined independently for the coding and non-coding transcripts at each gene locus. Criteria for selection of coding transcripts (including polymorphic pseudogenes) at a given locus: All full-length coding transcripts (except problem transcripts or transcripts that are nonsense-mediated decay) were included in the basic set. If there were no transcripts meeting the above criteria, then the partial coding transcript with the largest CDS was included in the basic set (excluding problem transcripts). Criteria for selection of non-coding transcripts at a given locus: All full-length non-coding transcripts (except problem transcripts) with a well characterized Biotype (see below) were included in the basic set. If there were no transcripts meeting the above criteria, then the largest non-coding transcript was included in the basic set (excluding problem transcripts). If no transcripts were included by either of the above criteria, the longest problem transcript is included. Non-coding transcript categorization: Non-coding transcripts are categorized using their biotype and the following criteria: well characterized: antisense, Mt_rRNA, Mt_tRNA, miRNA, rRNA, snRNA, snoRNA poorly characterized: 3prime_overlapping_ncrna, lincRNA, misc_RNA, non_coding, processed_transcript, sense_intronic, sense_overlapping Transcript ranking: Within each gene, transcripts have been ranked according to the following criteria. The ranking approach is preliminary and will change is future releases. Protein_coding genes MANE or Ensembl canonical -1st: MANE Select / Ensembl canonical -2nd: MANE Plus Clinical Coding biotypes -1st: protein_coding and protein_coding_LoF -2nd: NMDs and NSDs -3rd: retained intron and protein_coding_CDS_not_defined Completeness -1st: full length -2nd: CDS start/end not found CARS score (only for coding transcripts) Transcript genomic span and length (only for non-coding transcripts) Non-coding genes Transcript biotype -1st: transcript biotype identical to gene biotype Ensembl canonical GENCODE basic Transcript genomic span Transcript length Transcription Support Level (TSL): It is important that users understand how to assess transcript annotations that they see in GENCODE. While some transcript models have a high level of support through the full length of their exon structure, there are also transcripts that are poorly supported and that should be considered speculative. The Transcription Support Level (TSL) is a method to highlight the well-supported and poorly-supported transcript models for users. The method relies on the primary data that can support full-length transcript structure: mRNA and EST alignments supplied by UCSC and Ensembl. The mRNA and EST alignments are compared to the GENCODE transcripts and the transcripts are scored according to how well the alignment matches over its full length. The GENCODE TSL provides a consistent method of evaluating the level of support that a GENCODE transcript annotation is actually expressed in mouse. Mouse transcript sequences from the International Nucleotide Sequence Database Collaboration (GenBank, ENA, and DDBJ) are used as the evidence for this analysis. Exonerate RNA alignments from Ensembl, BLAT RNA and EST alignments from the UCSC Genome Browser Database are used in the analysis. Erroneous transcripts and libraries identified in lists maintained by the Ensembl, UCSC, HAVANA and RefSeq groups are flagged as suspect. GENCODE annotations for protein-coding and non-protein-coding transcripts are compared with the evidence alignments. Annotations in the MHC region and other immunological genes are not evaluated, as automatic alignments tend to be very problematic. Methods for evaluating single-exon genes are still being developed and they are not included in the current analysis. Multi-exon GENCODE annotations are evaluated using the criteria that all introns are supported by an evidence alignment and the evidence alignment does not indicate that there are unannotated exons. Small insertions and deletions in evidence alignments are assumed to be due to polymorphisms and not considered as differing from the annotations. All intron boundaries must match exactly. The transcript start and end locations are allowed to differ. The following categories are assigned to each of the evaluated annotations: tsl1 - all splice junctions of the transcript are supported by at least one non-suspect mRNA tsl2 - the best supporting mRNA is flagged as suspect or the support is from multiple ESTs tsl3 - the only support is from a single EST tsl4 - the best supporting EST is flagged as suspect tsl5 - no single transcript supports the model structure tslNA - the transcript was not analyzed for one of the following reasons: pseudogene annotation, including transcribed pseudogenes immunoglobin gene transcript T-cell receptor transcript single-exon transcript (will be included in a future version) APPRIS is a system to annotate alternatively spliced transcripts based on a range of computational methods. It provides value to the annotations of the human, mouse, zebrafish, rat, and pig genomes. APPRIS has selected a single CDS variant for each gene as the 'PRINCIPAL' isoform. Principal isoforms are tagged with the numbers 1 to 5, with 1 being the most reliable. PRINCIPAL:1 - Transcript(s) expected to code for the main functional isoform based solely on the core modules in the APPRIS. PRINCIPAL:2 - Where the APPRIS core modules are unable to choose a clear principal variant (approximately 25% of human protein coding genes), the database chooses two or more of the CDS variants as "candidates" to be the principal variant. PRINCIPAL:3 - Where the APPRIS core modules are unable to choose a clear principal variant and more than one of the variants have distinct CCDS identifiers, APPRIS selects the variant with lowest CCDS identifier as the principal variant. The lower the CCDS identifier, the earlier it was annotated. PRINCIPAL:4 - Where the APPRIS core modules are unable to choose a clear principal CDS and there is more than one variant with distinct (but consecutive) CCDS identifiers, APPRIS selects the longest CCDS isoform as the principal variant. PRINCIPAL:5 - Where the APPRIS core modules are unable to choose a clear principal variant and none of the candidate variants are annotated by CCDS, APPRIS selects the longest of the candidate isoforms as the principal variant. For genes in which the APPRIS core modules are unable to choose a clear principal variant (approximately 25% of human protein coding genes), the "candidate" variants not chosen as principal are labeled in the following way: ALTERNATIVE:1 - Candidate transcript(s) models that are conserved in at least three tested species. ALTERNATIVE:2 - Candidate transcript(s) models that appear to be conserved in fewer than three tested species. Non-candidate transcripts are not tagged and are considered as "Minor" transcripts. Further information and additional web services can be found at the APPRIS website. Downloads GENCODE GFF3 and GTF files are available from the GENCODE release 24 site. Verification Selected transcript models are verified experimentally by RT-PCR amplification followed by sequencing. Those experiments can be found at GEO: GSE30619:[E-MTAB-612] - Batch I is based on annotation from July 2008 (without pseudogenes). GSE25711:[E-MTAB-407] - Batch II is based on annotation from April 2009. GSE30612:[E-MTAB-533] - Batch III is verifying RGASP models for c.elegans and human. --> GSE34797:[E-MTAB-684] - Batch IV is based on chromosome 3, 4 and 5 annotations from GENCODE 4 (January 2010). GSE34820:[E-MTAB-737] - Batch V is based on annotations from GENCODE 6 (November 2010). GSE34821:[E-MTAB-831] - Batch VI is based on annotations from GENCODE 6 (November 2010) as well as transcript models predicted by the Ensembl Genebuild group based on the Illumina Human BodyMap 2.0 data. See Harrow et al. (2006) for information on verification techniques. Release Notes GENCODE version 24 corresponds to Ensembl 84. See also: The GENCODE Project Credits The GENCODE project is an international collaboration funded by NIH/NHGRI grant U41HG007234. More information is available at www.gencodegenes.org, Participating GENCODE institutions and personnel can be found here. References Frankish A, Diekhans M, Jungreis I, Lagarde J, Loveland JE, Mudge JM, Sisu C, Wright JC, Armstrong J, Barnes I et al. GENCODE 2021. Nucleic Acids Res. 2021 Jan 8;49(D1):D916-D923. PMID: 33270111; PMC: PMC7778937; DOI: 10.1093/nar/gkaa1087 A full list of GENCODE publications are available at The GENCODE Project web site. Data Release Policy GENCODE data are available for use without restrictions. 
wgEncodeGencodeV24ViewPolya PolyA All GENCODE transcripts including comprehensive set V24 Genes and Gene Predictions 
wgEncodeGencodePolyaV24 PolyA PolyA Transcript Annotation Set from GENCODE Version 24 (Ensembl 83) Genes and Gene Predictions 
wgEncodeGencodeV24ViewGenes Genes All GENCODE transcripts including comprehensive set V24 Genes and Gene Predictions 
wgEncodeGencodePseudoGeneV24 Pseudogenes Pseudogene Annotation Set from GENCODE Version 24 (Ensembl 83) Genes and Gene Predictions 
wgEncodeGencodeCompV24 Comprehensive Comprehensive Gene Annotation Set from GENCODE Version 24 (Ensembl 83) Genes and Gene Predictions 
wgEncodeGencodeBasicV24 Basic Basic Gene Annotation Set from GENCODE Version 24 (Ensembl 83) Genes and Gene Predictions 
wgEncodeGencodeV24View2Way 2-Way All GENCODE transcripts including comprehensive set V24 Genes and Gene Predictions 
wgEncodeGencode2wayConsPseudoV24 2-way Pseudogenes 2-way Pseudogene Annotation Set from GENCODE Version 24 (Ensembl 83) Genes and Gene Predictions 
wgEncodeGencodeV23 All GENCODE V23 All GENCODE transcripts including comprehensive set V23 Genes and Gene Predictions Description The GENCODE Genes track (version 23, March 2015) shows high-quality manual annotations merged with evidence-based automated annotations across the entire human genome generated by the GENCODE project. The GENCODE gene set presents a full merge between HAVANA manual annotation process and Ensembl automatic annotation pipeline. Priority is given to the manually curated HAVANA annotation using predicted Ensembl annotations when there are no corresponding manual annotations. The annotation was carried out on genome assembly GRCh38 (hg38). As of GENCODE Version 11, Ensembl and GENCODE have converged. The gene annotations in the GENCODE comprehensive set are the same as the corresponding Ensembl release. Display Conventions and Configuration This track is a multi-view composite track that contains differing data sets (views). Instructions for configuring multi-view tracks are here. To show only selected subtracks, uncheck the boxes next to the tracks that you wish to hide. Views available on this track are: Genes The gene annotations in this view are divided into three subtracks: GENCODE Basic set is a subset of the Comprehensive set. The selection criteria are described in the methods section. GENCODE Comprehensive set contains all GENCODE coding and non-coding transcript annotations, including polymorphic pseudogenes. This includes both manual and automatic annotations. This is a super-set of the Basic set. GENCODE Pseudogenes include all annotations except polymorphic pseudogenes. PolyA GENCODE PolyA contains polyA signals and sites manually annotated on the genome based on transcribed evidence (ESTs and cDNAs) of 3' end of transcripts containing at least 3 A's not matching the genome. Maximum number of transcripts to display is available for the items in the GENCODE Basic, Comprehensive and Pseudogene tracks. Starting with the GENCODE human V42 and mouse VM31 releases, transcripts are assigned rank within the gene. The ranks may be used to filter the number of transcripts displayed in a principled manner. Transcript ranking is not available in the lift37 releases. See Methods for details of rank assignment. Filtering is available for the items in the GENCODE Basic, Comprehensive and Pseudogene tracks using the following criteria: Transcript class: filter by the basic biological function of a transcript annotation All - don't filter by transcript class coding - display protein coding transcripts, including polymorphic pseudogenes nonCoding - display non-protein coding transcripts pseudo - display pseudogene transcript annotations problem - display problem transcripts (Biotypes of retained_intron, TEC, or disrupted_domain) Transcript Annotation Method: filter by the method used to create the annotation All - don't filter by transcript class manual - display manually created annotations, including those that are also created automatically automatic - display automatically created annotations, including those that are also created manually manual_only - display manually created annotations that were not annotated by the automatic method automatic_only - display automatically created annotations that were not annotated by the manual method Transcript Biotype: filter transcripts by Biotype Support Level: filter transcripts by transcription support level Coloring for the gene annotations is based on the annotation type: coding non-coding pseudogene problem all polyA annotations Methods The GENCODE project aims to annotate all evidence-based gene features on the human and mouse reference sequence with high accuracy by integrating computational approaches (including comparative methods), manual annotation and targeted experimental verification. This goal includes identifying all protein-coding loci with associated alternative variants, non-coding loci which have transcript evidence, and pseudogenes. For a detailed description of the methods and references used, see Harrow et al. (2006). GENCODE Basic Set selection: The GENCODE Basic Set is intended to provide a simplified subset of the GENCODE transcript annotations that will be useful to the majority of users. The goal was to have a high-quality basic set that also covered all loci. Selection of GENCODE annotations for inclusion in the basic set was determined independently for the coding and non-coding transcripts at each gene locus. Criteria for selection of coding transcripts (including polymorphic pseudogenes) at a given locus: All full-length coding transcripts (except problem transcripts or transcripts that are nonsense-mediated decay) were included in the basic set. If there were no transcripts meeting the above criteria, then the partial coding transcript with the largest CDS was included in the basic set (excluding problem transcripts). Criteria for selection of non-coding transcripts at a given locus: All full-length non-coding transcripts (except problem transcripts) with a well characterized Biotype (see below) were included in the basic set. If there were no transcripts meeting the above criteria, then the largest non-coding transcript was included in the basic set (excluding problem transcripts). If no transcripts were included by either of the above criteria, the longest problem transcript is included. Non-coding transcript categorization: Non-coding transcripts are categorized using their biotype and the following criteria: well characterized: antisense, Mt_rRNA, Mt_tRNA, miRNA, rRNA, snRNA, snoRNA poorly characterized: 3prime_overlapping_ncrna, lincRNA, misc_RNA, non_coding, processed_transcript, sense_intronic, sense_overlapping Transcript ranking: Within each gene, transcripts have been ranked according to the following criteria. The ranking approach is preliminary and will change is future releases. Protein_coding genes MANE or Ensembl canonical -1st: MANE Select / Ensembl canonical -2nd: MANE Plus Clinical Coding biotypes -1st: protein_coding and protein_coding_LoF -2nd: NMDs and NSDs -3rd: retained intron and protein_coding_CDS_not_defined Completeness -1st: full length -2nd: CDS start/end not found CARS score (only for coding transcripts) Transcript genomic span and length (only for non-coding transcripts) Non-coding genes Transcript biotype -1st: transcript biotype identical to gene biotype Ensembl canonical GENCODE basic Transcript genomic span Transcript length Transcription Support Level (TSL): It is important that users understand how to assess transcript annotations that they see in GENCODE. While some transcript models have a high level of support through the full length of their exon structure, there are also transcripts that are poorly supported and that should be considered speculative. The Transcription Support Level (TSL) is a method to highlight the well-supported and poorly-supported transcript models for users. The method relies on the primary data that can support full-length transcript structure: mRNA and EST alignments supplied by UCSC and Ensembl. The mRNA and EST alignments are compared to the GENCODE transcripts and the transcripts are scored according to how well the alignment matches over its full length. The GENCODE TSL provides a consistent method of evaluating the level of support that a GENCODE transcript annotation is actually expressed in mouse. Mouse transcript sequences from the International Nucleotide Sequence Database Collaboration (GenBank, ENA, and DDBJ) are used as the evidence for this analysis. Exonerate RNA alignments from Ensembl, BLAT RNA and EST alignments from the UCSC Genome Browser Database are used in the analysis. Erroneous transcripts and libraries identified in lists maintained by the Ensembl, UCSC, HAVANA and RefSeq groups are flagged as suspect. GENCODE annotations for protein-coding and non-protein-coding transcripts are compared with the evidence alignments. Annotations in the MHC region and other immunological genes are not evaluated, as automatic alignments tend to be very problematic. Methods for evaluating single-exon genes are still being developed and they are not included in the current analysis. Multi-exon GENCODE annotations are evaluated using the criteria that all introns are supported by an evidence alignment and the evidence alignment does not indicate that there are unannotated exons. Small insertions and deletions in evidence alignments are assumed to be due to polymorphisms and not considered as differing from the annotations. All intron boundaries must match exactly. The transcript start and end locations are allowed to differ. The following categories are assigned to each of the evaluated annotations: tsl1 - all splice junctions of the transcript are supported by at least one non-suspect mRNA tsl2 - the best supporting mRNA is flagged as suspect or the support is from multiple ESTs tsl3 - the only support is from a single EST tsl4 - the best supporting EST is flagged as suspect tsl5 - no single transcript supports the model structure tslNA - the transcript was not analyzed for one of the following reasons: pseudogene annotation, including transcribed pseudogenes immunoglobin gene transcript T-cell receptor transcript single-exon transcript (will be included in a future version) APPRIS is a system to annotate alternatively spliced transcripts based on a range of computational methods. It provides value to the annotations of the human, mouse, zebrafish, rat, and pig genomes. APPRIS has selected a single CDS variant for each gene as the 'PRINCIPAL' isoform. Principal isoforms are tagged with the numbers 1 to 5, with 1 being the most reliable. PRINCIPAL:1 - Transcript(s) expected to code for the main functional isoform based solely on the core modules in the APPRIS. PRINCIPAL:2 - Where the APPRIS core modules are unable to choose a clear principal variant (approximately 25% of human protein coding genes), the database chooses two or more of the CDS variants as "candidates" to be the principal variant. PRINCIPAL:3 - Where the APPRIS core modules are unable to choose a clear principal variant and more than one of the variants have distinct CCDS identifiers, APPRIS selects the variant with lowest CCDS identifier as the principal variant. The lower the CCDS identifier, the earlier it was annotated. PRINCIPAL:4 - Where the APPRIS core modules are unable to choose a clear principal CDS and there is more than one variant with distinct (but consecutive) CCDS identifiers, APPRIS selects the longest CCDS isoform as the principal variant. PRINCIPAL:5 - Where the APPRIS core modules are unable to choose a clear principal variant and none of the candidate variants are annotated by CCDS, APPRIS selects the longest of the candidate isoforms as the principal variant. For genes in which the APPRIS core modules are unable to choose a clear principal variant (approximately 25% of human protein coding genes), the "candidate" variants not chosen as principal are labeled in the following way: ALTERNATIVE:1 - Candidate transcript(s) models that are conserved in at least three tested species. ALTERNATIVE:2 - Candidate transcript(s) models that appear to be conserved in fewer than three tested species. Non-candidate transcripts are not tagged and are considered as "Minor" transcripts. Further information and additional web services can be found at the APPRIS website. Downloads GENCODE GFF3 and GTF files are available from the GENCODE release 23 site. Verification Selected transcript models are verified experimentally by RT-PCR amplification followed by sequencing. Those experiments can be found at GEO: GSE30619:[E-MTAB-612] - Batch I is based on annotation from July 2008 (without pseudogenes). GSE25711:[E-MTAB-407] - Batch II is based on annotation from April 2009. GSE30612:[E-MTAB-533] - Batch III is verifying RGASP models for c.elegans and human. GSE34797:[E-MTAB-684] - Batch IV is based on chromosome 3, 4 and 5 annotations from GENCODE 4 (January 2010). GSE34820:[E-MTAB-737] - Batch V is based on annotations from GENCODE 6 (November 2010). GSE34821:[E-MTAB-831] - Batch VI is based on annotations from GENCODE 6 (November 2010) as well as transcript models predicted by the Ensembl Genebuild group based on the Illumina Human BodyMap 2.0 data. See Harrow et al. (2006) for information on verification techniques. Release Notes GENCODE version 23 corresponds to Ensembl 81 and 82. See also: The GENCODE Project Credits The GENCODE project is an international collaboration funded by NIH/NHGRI grant U41HG007234. More information is available at www.gencodegenes.org, Participating GENCODE institutions and personnel can be found here. References Frankish A, Diekhans M, Jungreis I, Lagarde J, Loveland JE, Mudge JM, Sisu C, Wright JC, Armstrong J, Barnes I et al. GENCODE 2021. Nucleic Acids Res. 2021 Jan 8;49(D1):D916-D923. PMID: 33270111; PMC: PMC7778937; DOI: 10.1093/nar/gkaa1087 A full list of GENCODE publications are available at The GENCODE Project web site. Data Release Policy GENCODE data are available for use without restrictions. 
wgEncodeGencodeV23ViewPolya PolyA All GENCODE transcripts including comprehensive set V23 Genes and Gene Predictions 
wgEncodeGencodePolyaV23 PolyA PolyA Transcript Annotation Set from GENCODE Version 23 (Ensembl 81) Genes and Gene Predictions 
wgEncodeGencodeV23ViewGenes Genes All GENCODE transcripts including comprehensive set V23 Genes and Gene Predictions 
wgEncodeGencodePseudoGeneV23 Pseudogenes Pseudogene Annotation Set from GENCODE Version 23 (Ensembl 81) Genes and Gene Predictions 
wgEncodeGencodeCompV23 Comprehensive Comprehensive Gene Annotation Set from GENCODE Version 23 (Ensembl 81) Genes and Gene Predictions 
wgEncodeGencodeBasicV23 Basic Basic Gene Annotation Set from GENCODE Version 23 (Ensembl 81) Genes and Gene Predictions 
wgEncodeGencodeV23View2Way 2-Way All GENCODE transcripts including comprehensive set V23 Genes and Gene Predictions 
wgEncodeGencode2wayConsPseudoV23 2-way Pseudogenes 2-way Pseudogene Annotation Set from GENCODE Version 23 (Ensembl 81) Genes and Gene Predictions 
wgEncodeGencodeV22 All GENCODE V22 All GENCODE transcripts including comprehensive set V22 Genes and Gene Predictions Description The GENCODE Genes track (version 22, March 2015) shows high-quality manual annotations merged with evidence-based automated annotations across the entire human genome generated by the GENCODE project. The GENCODE gene set presents a full merge between HAVANA manual annotation process and Ensembl automatic annotation pipeline. Priority is given to the manually curated HAVANA annotation using predicted Ensembl annotations when there are no corresponding manual annotations. The annotation was carried out on genome assembly GRCh38 (hg38). As of GENCODE Version 11, Ensembl and GENCODE have converged. The gene annotations in the GENCODE comprehensive set are the same as the corresponding Ensembl release. Display Conventions and Configuration This track is a multi-view composite track that contains differing data sets (views). Instructions for configuring multi-view tracks are here. To show only selected subtracks, uncheck the boxes next to the tracks that you wish to hide. Views available on this track are: Genes The gene annotations in this view are divided into three subtracks: GENCODE Basic set is a subset of the Comprehensive set. The selection criteria are described in the methods section. GENCODE Comprehensive set contains all GENCODE coding and non-coding transcript annotations, including polymorphic pseudogenes. This includes both manual and automatic annotations. This is a super-set of the Basic set. GENCODE Pseudogenes include all annotations except polymorphic pseudogenes. PolyA GENCODE PolyA contains polyA signals and sites manually annotated on the genome based on transcribed evidence (ESTs and cDNAs) of 3' end of transcripts containing at least 3 A's not matching the genome. Maximum number of transcripts to display is available for the items in the GENCODE Basic, Comprehensive and Pseudogene tracks. Starting with the GENCODE human V42 and mouse VM31 releases, transcripts are assigned rank within the gene. The ranks may be used to filter the number of transcripts displayed in a principled manner. Transcript ranking is not available in the lift37 releases. See Methods for details of rank assignment. Filtering is available for the items in the GENCODE Basic, Comprehensive and Pseudogene tracks using the following criteria: Transcript class: filter by the basic biological function of a transcript annotation All - don't filter by transcript class coding - display protein coding transcripts, including polymorphic pseudogenes nonCoding - display non-protein coding transcripts pseudo - display pseudogene transcript annotations problem - display problem transcripts (Biotypes of retained_intron, TEC, or disrupted_domain) Transcript Annotation Method: filter by the method used to create the annotation All - don't filter by transcript class manual - display manually created annotations, including those that are also created automatically automatic - display automatically created annotations, including those that are also created manually manual_only - display manually created annotations that were not annotated by the automatic method automatic_only - display automatically created annotations that were not annotated by the manual method Transcript Biotype: filter transcripts by Biotype Support Level: filter transcripts by transcription support level Coloring for the gene annotations is based on the annotation type: coding non-coding pseudogene problem all polyA annotations Methods The GENCODE project aims to annotate all evidence-based gene features on the human and mouse reference sequence with high accuracy by integrating computational approaches (including comparative methods), manual annotation and targeted experimental verification. This goal includes identifying all protein-coding loci with associated alternative variants, non-coding loci which have transcript evidence, and pseudogenes. For a detailed description of the methods and references used, see Harrow et al. (2006). GENCODE Basic Set selection: The GENCODE Basic Set is intended to provide a simplified subset of the GENCODE transcript annotations that will be useful to the majority of users. The goal was to have a high-quality basic set that also covered all loci. Selection of GENCODE annotations for inclusion in the basic set was determined independently for the coding and non-coding transcripts at each gene locus. Criteria for selection of coding transcripts (including polymorphic pseudogenes) at a given locus: All full-length coding transcripts (except problem transcripts or transcripts that are nonsense-mediated decay) were included in the basic set. If there were no transcripts meeting the above criteria, then the partial coding transcript with the largest CDS was included in the basic set (excluding problem transcripts). Criteria for selection of non-coding transcripts at a given locus: All full-length non-coding transcripts (except problem transcripts) with a well characterized Biotype (see below) were included in the basic set. If there were no transcripts meeting the above criteria, then the largest non-coding transcript was included in the basic set (excluding problem transcripts). If no transcripts were included by either of the above criteria, the longest problem transcript is included. Non-coding transcript categorization: Non-coding transcripts are categorized using their biotype and the following criteria: well characterized: antisense, Mt_rRNA, Mt_tRNA, miRNA, rRNA, snRNA, snoRNA poorly characterized: 3prime_overlapping_ncrna, lincRNA, misc_RNA, non_coding, processed_transcript, sense_intronic, sense_overlapping Transcript ranking: Within each gene, transcripts have been ranked according to the following criteria. The ranking approach is preliminary and will change is future releases. Protein_coding genes MANE or Ensembl canonical -1st: MANE Select / Ensembl canonical -2nd: MANE Plus Clinical Coding biotypes -1st: protein_coding and protein_coding_LoF -2nd: NMDs and NSDs -3rd: retained intron and protein_coding_CDS_not_defined Completeness -1st: full length -2nd: CDS start/end not found CARS score (only for coding transcripts) Transcript genomic span and length (only for non-coding transcripts) Non-coding genes Transcript biotype -1st: transcript biotype identical to gene biotype Ensembl canonical GENCODE basic Transcript genomic span Transcript length Transcription Support Level (TSL): It is important that users understand how to assess transcript annotations that they see in GENCODE. While some transcript models have a high level of support through the full length of their exon structure, there are also transcripts that are poorly supported and that should be considered speculative. The Transcription Support Level (TSL) is a method to highlight the well-supported and poorly-supported transcript models for users. The method relies on the primary data that can support full-length transcript structure: mRNA and EST alignments supplied by UCSC and Ensembl. The mRNA and EST alignments are compared to the GENCODE transcripts and the transcripts are scored according to how well the alignment matches over its full length. The GENCODE TSL provides a consistent method of evaluating the level of support that a GENCODE transcript annotation is actually expressed in mouse. Mouse transcript sequences from the International Nucleotide Sequence Database Collaboration (GenBank, ENA, and DDBJ) are used as the evidence for this analysis. Exonerate RNA alignments from Ensembl, BLAT RNA and EST alignments from the UCSC Genome Browser Database are used in the analysis. Erroneous transcripts and libraries identified in lists maintained by the Ensembl, UCSC, HAVANA and RefSeq groups are flagged as suspect. GENCODE annotations for protein-coding and non-protein-coding transcripts are compared with the evidence alignments. Annotations in the MHC region and other immunological genes are not evaluated, as automatic alignments tend to be very problematic. Methods for evaluating single-exon genes are still being developed and they are not included in the current analysis. Multi-exon GENCODE annotations are evaluated using the criteria that all introns are supported by an evidence alignment and the evidence alignment does not indicate that there are unannotated exons. Small insertions and deletions in evidence alignments are assumed to be due to polymorphisms and not considered as differing from the annotations. All intron boundaries must match exactly. The transcript start and end locations are allowed to differ. The following categories are assigned to each of the evaluated annotations: tsl1 - all splice junctions of the transcript are supported by at least one non-suspect mRNA tsl2 - the best supporting mRNA is flagged as suspect or the support is from multiple ESTs tsl3 - the only support is from a single EST tsl4 - the best supporting EST is flagged as suspect tsl5 - no single transcript supports the model structure tslNA - the transcript was not analyzed for one of the following reasons: pseudogene annotation, including transcribed pseudogenes immunoglobin gene transcript T-cell receptor transcript single-exon transcript (will be included in a future version) APPRIS is a system to annotate alternatively spliced transcripts based on a range of computational methods. It provides value to the annotations of the human, mouse, zebrafish, rat, and pig genomes. APPRIS has selected a single CDS variant for each gene as the 'PRINCIPAL' isoform. Principal isoforms are tagged with the numbers 1 to 5, with 1 being the most reliable. PRINCIPAL:1 - Transcript(s) expected to code for the main functional isoform based solely on the core modules in the APPRIS. PRINCIPAL:2 - Where the APPRIS core modules are unable to choose a clear principal variant (approximately 25% of human protein coding genes), the database chooses two or more of the CDS variants as "candidates" to be the principal variant. PRINCIPAL:3 - Where the APPRIS core modules are unable to choose a clear principal variant and more than one of the variants have distinct CCDS identifiers, APPRIS selects the variant with lowest CCDS identifier as the principal variant. The lower the CCDS identifier, the earlier it was annotated. PRINCIPAL:4 - Where the APPRIS core modules are unable to choose a clear principal CDS and there is more than one variant with distinct (but consecutive) CCDS identifiers, APPRIS selects the longest CCDS isoform as the principal variant. PRINCIPAL:5 - Where the APPRIS core modules are unable to choose a clear principal variant and none of the candidate variants are annotated by CCDS, APPRIS selects the longest of the candidate isoforms as the principal variant. For genes in which the APPRIS core modules are unable to choose a clear principal variant (approximately 25% of human protein coding genes), the "candidate" variants not chosen as principal are labeled in the following way: ALTERNATIVE:1 - Candidate transcript(s) models that are conserved in at least three tested species. ALTERNATIVE:2 - Candidate transcript(s) models that appear to be conserved in fewer than three tested species. Non-candidate transcripts are not tagged and are considered as "Minor" transcripts. Further information and additional web services can be found at the APPRIS website. Verification Selected transcript models are verified experimentally by RT-PCR amplification followed by sequencing. Those experiments can be found at GEO: GSE30619:[E-MTAB-612] - Batch I is based on annotation from July 2008 (without pseudogenes). GSE25711:[E-MTAB-407] - Batch II is based on annotation from April 2009. GSE30612:[E-MTAB-533] - Batch III is verifying RGASP models for c.elegans and human. --> GSE34797:[E-MTAB-684] - Batch IV is based on chromosome 3, 4 and 5 annotations from GENCODE 4 (January 2010). GSE34820:[E-MTAB-737] - Batch V is based on annotations from GENCODE 6 (November 2010). GSE34821:[E-MTAB-831] - Batch VI is based on annotations from GENCODE 6 (November 2010) as well as transcript models predicted by the Ensembl Genebuild group based on the Illumina Human BodyMap 2.0 data. See Harrow et al. (2006) for information on verification techniques. Release Notes GENCODE version 22 corresponds to Ensembl 79. See also: The GENCODE Project Credits The GENCODE project is an international collaboration funded by NIH/NHGRI grant U41HG007234. More information is available at www.gencodegenes.org, Participating GENCODE institutions and personnel can be found here. References Frankish A, Diekhans M, Jungreis I, Lagarde J, Loveland JE, Mudge JM, Sisu C, Wright JC, Armstrong J, Barnes I et al. GENCODE 2021. Nucleic Acids Res. 2021 Jan 8;49(D1):D916-D923. PMID: 33270111; PMC: PMC7778937; DOI: 10.1093/nar/gkaa1087 A full list of GENCODE publications are available at The GENCODE Project web site. Data Release Policy GENCODE data are available for use without restrictions. 
wgEncodeGencodeV22ViewPolya PolyA All GENCODE transcripts including comprehensive set V22 Genes and Gene Predictions 
wgEncodeGencodePolyaV22 PolyA PolyA Transcript Annotation Set from GENCODE Version 22 (Ensembl 79) Genes and Gene Predictions 
wgEncodeGencodeV22ViewGenes Genes All GENCODE transcripts including comprehensive set V22 Genes and Gene Predictions 
wgEncodeGencodePseudoGeneV22 Pseudogenes Pseudogene Annotation Set from GENCODE Version 22 (Ensembl 79) Genes and Gene Predictions 
wgEncodeGencodeCompV22 Comprehensive Comprehensive Gene Annotation Set from GENCODE Version 22 (Ensembl 79) Genes and Gene Predictions 
wgEncodeGencodeBasicV22 Basic Basic Gene Annotation Set from GENCODE Version 22 (Ensembl 79) Genes and Gene Predictions 
wgEncodeGencodeV22View2Way 2-Way All GENCODE transcripts including comprehensive set V22 Genes and Gene Predictions 
wgEncodeGencode2wayConsPseudoV22 2-way Pseudogenes 2-way Pseudogene Annotation Set from GENCODE Version 22 (Ensembl 79) Genes and Gene Predictions 
wgEncodeGencodeV20 GENCODE V20 (Ensembl 76) Gene Annotations from GENCODE Version 20 (Ensembl 76) Genes and Gene Predictions Description The GENCODE Genes track (version 20, August 2014) shows high-quality manual annotations merged with evidence-based automated annotations across the entire human genome generated by the GENCODE project. The GENCODE gene set presents a full merge between HAVANA manual annotation process and Ensembl automatic annotation pipeline. Priority is given to the manually curated HAVANA annotation using predicted Ensembl annotations when there are no corresponding manual annotations. The annotation was carried out on genome assembly GRCh38 (hg38). As of GENCODE Version 11, Ensembl and GENCODE have converged. The gene annotations in the GENCODE comprehensive set are the same as the corresponding Ensembl release. UCSC will continue to provide a separate Ensembl track on Human in the same format as the Ensembl tracks on other organisms. Display Conventions and Configuration This track is a multi-view composite track that contains differing data sets (views). Instructions for configuring multi-view tracks are here. To show only selected subtracks, uncheck the boxes next to the tracks that you wish to hide. Views available on this track are: Genes The gene annotations in this view are divided into three subtracks: GENCODE Basic set is a subset of the Comprehensive set. The selection criteria are described in the methods section. GENCODE Comprehensive set contains all GENCODE coding and non-coding transcript annotations, including polymorphic pseudogenes. This includes both manual and automatic annotations. This is a super-set of the Basic set. GENCODE Pseudogenes include all annotations except polymorphic pseudogenes. PolyA GENCODE PolyA contains polyA signals and sites manually annotated on the genome based on transcribed evidence (ESTs and cDNAs) of 3' end of transcripts containing at least 3 A's not matching the genome. Maximum number of transcripts to display is available for the items in the GENCODE Basic, Comprehensive and Pseudogene tracks. Starting with the GENCODE human V42 and mouse VM31 releases, transcripts are assigned rank within the gene. The ranks may be used to filter the number of transcripts displayed in a principled manner. Transcript ranking is not available in the lift37 releases. See Methods for details of rank assignment. Filtering is available for the items in the GENCODE Basic, Comprehensive and Pseudogene tracks using the following criteria: Transcript class: filter by the basic biological function of a transcript annotation All - don't filter by transcript class coding - display protein coding transcripts, including polymorphic pseudogenes nonCoding - display non-protein coding transcripts pseudo - display pseudogene transcript annotations problem - display problem transcripts (Biotypes of retained_intron, TEC, or disrupted_domain) Transcript Annotation Method: filter by the method used to create the annotation All - don't filter by transcript class manual - display manually created annotations, including those that are also created automatically automatic - display automatically created annotations, including those that are also created manually manual_only - display manually created annotations that were not annotated by the automatic method automatic_only - display automatically created annotations that were not annotated by the manual method Transcript Biotype: filter transcripts by Biotype Support Level: filter transcripts by transcription support level Coloring for the gene annotations is based on the annotation type: coding non-coding pseudogene problem all polyA annotations Methods The GENCODE project aims to annotate all evidence-based gene features on the human and mouse reference sequence with high accuracy by integrating computational approaches (including comparative methods), manual annotation and targeted experimental verification. This goal includes identifying all protein-coding loci with associated alternative variants, non-coding loci which have transcript evidence, and pseudogenes. For a detailed description of the methods and references used, see Harrow et al. (2006). GENCODE Basic Set selection: The GENCODE Basic Set is intended to provide a simplified subset of the GENCODE transcript annotations that will be useful to the majority of users. The goal was to have a high-quality basic set that also covered all loci. Selection of GENCODE annotations for inclusion in the basic set was determined independently for the coding and non-coding transcripts at each gene locus. Criteria for selection of coding transcripts (including polymorphic pseudogenes) at a given locus: All full-length coding transcripts (except problem transcripts or transcripts that are nonsense-mediated decay) were included in the basic set. If there were no transcripts meeting the above criteria, then the partial coding transcript with the largest CDS was included in the basic set (excluding problem transcripts). Criteria for selection of non-coding transcripts at a given locus: All full-length non-coding transcripts (except problem transcripts) with a well characterized Biotype (see below) were included in the basic set. If there were no transcripts meeting the above criteria, then the largest non-coding transcript was included in the basic set (excluding problem transcripts). If no transcripts were included by either of the above criteria, the longest problem transcript is included. Non-coding transcript categorization: Non-coding transcripts are categorized using their biotype and the following criteria: well characterized: antisense, Mt_rRNA, Mt_tRNA, miRNA, rRNA, snRNA, snoRNA poorly characterized: 3prime_overlapping_ncrna, lincRNA, misc_RNA, non_coding, processed_transcript, sense_intronic, sense_overlapping Transcript ranking: Within each gene, transcripts have been ranked according to the following criteria. The ranking approach is preliminary and will change is future releases. Protein_coding genes MANE or Ensembl canonical -1st: MANE Select / Ensembl canonical -2nd: MANE Plus Clinical Coding biotypes -1st: protein_coding and protein_coding_LoF -2nd: NMDs and NSDs -3rd: retained intron and protein_coding_CDS_not_defined Completeness -1st: full length -2nd: CDS start/end not found CARS score (only for coding transcripts) Transcript genomic span and length (only for non-coding transcripts) Non-coding genes Transcript biotype -1st: transcript biotype identical to gene biotype Ensembl canonical GENCODE basic Transcript genomic span Transcript length Transcription Support Level (TSL): It is important that users understand how to assess transcript annotations that they see in GENCODE. While some transcript models have a high level of support through the full length of their exon structure, there are also transcripts that are poorly supported and that should be considered speculative. The Transcription Support Level (TSL) is a method to highlight the well-supported and poorly-supported transcript models for users. The method relies on the primary data that can support full-length transcript structure: mRNA and EST alignments supplied by UCSC and Ensembl. The mRNA and EST alignments are compared to the GENCODE transcripts and the transcripts are scored according to how well the alignment matches over its full length. The GENCODE TSL provides a consistent method of evaluating the level of support that a GENCODE transcript annotation is actually expressed in mouse. Mouse transcript sequences from the International Nucleotide Sequence Database Collaboration (GenBank, ENA, and DDBJ) are used as the evidence for this analysis. Exonerate RNA alignments from Ensembl, BLAT RNA and EST alignments from the UCSC Genome Browser Database are used in the analysis. Erroneous transcripts and libraries identified in lists maintained by the Ensembl, UCSC, HAVANA and RefSeq groups are flagged as suspect. GENCODE annotations for protein-coding and non-protein-coding transcripts are compared with the evidence alignments. Annotations in the MHC region and other immunological genes are not evaluated, as automatic alignments tend to be very problematic. Methods for evaluating single-exon genes are still being developed and they are not included in the current analysis. Multi-exon GENCODE annotations are evaluated using the criteria that all introns are supported by an evidence alignment and the evidence alignment does not indicate that there are unannotated exons. Small insertions and deletions in evidence alignments are assumed to be due to polymorphisms and not considered as differing from the annotations. All intron boundaries must match exactly. The transcript start and end locations are allowed to differ. The following categories are assigned to each of the evaluated annotations: tsl1 - all splice junctions of the transcript are supported by at least one non-suspect mRNA tsl2 - the best supporting mRNA is flagged as suspect or the support is from multiple ESTs tsl3 - the only support is from a single EST tsl4 - the best supporting EST is flagged as suspect tsl5 - no single transcript supports the model structure tslNA - the transcript was not analyzed for one of the following reasons: pseudogene annotation, including transcribed pseudogenes immunoglobin gene transcript T-cell receptor transcript single-exon transcript (will be included in a future version) APPRIS is a system to annotate alternatively spliced transcripts based on a range of computational methods. It provides value to the annotations of the human, mouse, zebrafish, rat, and pig genomes. APPRIS has selected a single CDS variant for each gene as the 'PRINCIPAL' isoform. Principal isoforms are tagged with the numbers 1 to 5, with 1 being the most reliable. PRINCIPAL:1 - Transcript(s) expected to code for the main functional isoform based solely on the core modules in the APPRIS. PRINCIPAL:2 - Where the APPRIS core modules are unable to choose a clear principal variant (approximately 25% of human protein coding genes), the database chooses two or more of the CDS variants as "candidates" to be the principal variant. PRINCIPAL:3 - Where the APPRIS core modules are unable to choose a clear principal variant and more than one of the variants have distinct CCDS identifiers, APPRIS selects the variant with lowest CCDS identifier as the principal variant. The lower the CCDS identifier, the earlier it was annotated. PRINCIPAL:4 - Where the APPRIS core modules are unable to choose a clear principal CDS and there is more than one variant with distinct (but consecutive) CCDS identifiers, APPRIS selects the longest CCDS isoform as the principal variant. PRINCIPAL:5 - Where the APPRIS core modules are unable to choose a clear principal variant and none of the candidate variants are annotated by CCDS, APPRIS selects the longest of the candidate isoforms as the principal variant. For genes in which the APPRIS core modules are unable to choose a clear principal variant (approximately 25% of human protein coding genes), the "candidate" variants not chosen as principal are labeled in the following way: ALTERNATIVE:1 - Candidate transcript(s) models that are conserved in at least three tested species. ALTERNATIVE:2 - Candidate transcript(s) models that appear to be conserved in fewer than three tested species. Non-candidate transcripts are not tagged and are considered as "Minor" transcripts. Further information and additional web services can be found at the APPRIS website. Verification Selected transcript models are verified experimentally by RT-PCR amplification followed by sequencing. Those experiments can be found at GEO: GSE30619:[E-MTAB-612] - Batch I is based on annotation from July 2008 (without pseudogenes). GSE25711:[E-MTAB-407] - Batch II is based on annotation from April 2009. GSE30612:[E-MTAB-533] - Batch III is verifying RGASP models for c.elegans and human. GSE34797:[E-MTAB-684] - Batch IV is based on chromosome 3, 4 and 5 annotations from GENCODE 4 (January 2010). GSE34820:[E-MTAB-737] - Batch V is based on annotations from GENCODE 6 (November 2010). GSE34821:[E-MTAB-831] - Batch VI is based on annotations from GENCODE 6 (November 2010) as well as transcript models predicted by the Ensembl Genebuild group based on the Illumina Human BodyMap 2.0 data. See Harrow et al. (2006) for information on verification techniques. Release Notes GENCODE version 20 corresponds to Ensembl 76 and Vega 56. See also: The GENCODE Project Credits The GENCODE project is an international collaboration funded by NIH/NHGRI grant U41HG007234. More information is available at www.gencodegenes.org, Participating GENCODE institutions and personnel can be found here. References Frankish A, Diekhans M, Jungreis I, Lagarde J, Loveland JE, Mudge JM, Sisu C, Wright JC, Armstrong J, Barnes I et al. GENCODE 2021. Nucleic Acids Res. 2021 Jan 8;49(D1):D916-D923. PMID: 33270111; PMC: PMC7778937; DOI: 10.1093/nar/gkaa1087 A full list of GENCODE publications are available at The GENCODE Project web site. Data Release Policy GENCODE data are available for use without restrictions. 
wgEncodeGencodeV20ViewPolya PolyA Gene Annotations from GENCODE Version 20 (Ensembl 76) Genes and Gene Predictions 
wgEncodeGencodePolyaV20 PolyA PolyA Transcript Annotation Set from GENCODE Version 20 (Ensembl 76) Genes and Gene Predictions 
wgEncodeGencodeV20ViewGenes Genes Gene Annotations from GENCODE Version 20 (Ensembl 76) Genes and Gene Predictions 
wgEncodeGencodePseudoGeneV20 Pseudogenes Pseudogene Annotation Set from GENCODE Version 20 (Ensembl 76) Genes and Gene Predictions 
wgEncodeGencodeCompV20 Comprehensive Comprehensive Gene Annotation Set from GENCODE Version 20 (Ensembl 76) Genes and Gene Predictions 
wgEncodeGencodeBasicV20 Basic Basic Gene Annotation Set from GENCODE Version 20 (Ensembl 76) Genes and Gene Predictions 
wgEncodeGencodeV20View2Way 2-Way Gene Annotations from GENCODE Version 20 (Ensembl 76) Genes and Gene Predictions 
wgEncodeGencode2wayConsPseudoV20 2-way Pseudogenes 2-way Pseudogene Annotation Set from GENCODE Version 20 (Ensembl 76) Genes and Gene Predictions 
tgpTrios 1000 Genomes Trios Thousand Genomes Project Family VCF Trios Variation Description This track shows approximately 4.5 million single nucleotide variants (SNVs) and 0.6 million short insertions/deletions (indels) from 7 different parent/child trios as produced by the International Genome Sample Resource (IGSR), from sequence data generated by the 1000 Genomes Project in its Phase 3 sequencing of 2,504 genomes from 16 populations worldwide. Variants were called on the autosomes (chromosomes 1 through 22) and on the Pseudo-Autosomal Regions (PARs) of chromosome X. Therefore this track has no annotations on alternate haplotype sequences, fix patches, chromosome Y, or the non-PAR portion (the majority) of chromosome X. The variant genotypes have been phased (i.e., the two alleles of each diploid genotype have been assigned to two haplotypes, one inherited from each parent). This information allows us to illustrate which haplotypes in the child have been inherited from which parent. Trios from six different populations are available, including: YRI - Yoruban from Idaban, Nigeria KHV - Kinh in Ho Chi Minh City, Vietnam PUR - Puerto Ricans from Puerto Rico CEU - CEPH Utah CHS - Southern Han Chinese MXL - Mexican Ancestry from Los Angeles Display Conventions and Configuration This track illustrates the vcfPhasedTrio track type, where two lines, one for each chromosome in the diploid genome, is drawn per sample in the underlying VCF. Variants in the window are then drawn on the haplotype line corresponding to which haplotype they belong to, such that variants on the same line were likely inherited together. The sorting routine is the same as what is used to draw the haplotype sorted display in the non-trio 1000 Genomes track, and is described here. The child haplotypes are drawn in the center of each group, flanked above and below by parent haplotypes, and variants are sorted to show the transmitted alleles: parent 1 untransmitted haploytpe parent 1 transmitted haplotype child haplotype inherited from parent 1 child haplotype inherited from parent 2 parent 2 transmitted haplotype parent 2 untransmitted haploytpe Track configuration options include: Showing the child haplotypes below the parent(s) Toggling the haplotype labels with mother/father/child or VCF sample IDs Hiding the parent samples Allele coloring options include: No shading - the default option Shading by functional effect of the variant relative to NCBI RefSeq Curated Transcripts: reference alleles invisible alternate alleles in red for non-synonymous alternate alleles in green for synonymous alternate alleles in blue for UTR/noncoding alternate alleles in black otherwise Child de novo alleles in red - all alternate alleles black except for cases where the child has an allele not present in either parent Child alleles that are &quot;inconsistent&quot; with phasing in red - all alternate alleles black except for cases where the &quot;inherited&quot; child allele does not match the &quot;transmitted&quot; parent allele. Note that as the genomic location changes, and thus the alleles present to use for sorting change, whether an allele is marked as inconsistent can change as well. Because all the variants present in the window are considered a haplotype, what haplotypes are considered &quot;inherited&quot; and &quot;transmitted&quot; varies as the viewing location changes From the subtrack configure menu, there is the option to manually rearrange the family order for each trio by dragging haplotypes. Clicking on a variant takes one to a details page with the standard VCF details, including INFO column annotations, the REF and ALT alleles, and the genotypes from all three samples. Methods The genomes of 2,504 individuals were sequenced using both whole-genome sequencing (mean depth = 7.4x) and targeted exome sequencing (mean depth = 65.7x). Sequence reads were aligned to the reference genome using alt-aware BWA-MEM (Zheng-Bradley et al.). Variant discovery and quality control were performed as described in Lowy-Gallego et al. See also: 1000 Genomes Project - Analysis overview IGSR/1000 Genomes Frequently Asked Questions (FAQ) UCSC Methods Trio samples were extracted out of both the main 1000 Genomes set, and the related samples using the pedigree information from 1000 Genomes. Variants that were homozygous reference across all three samples were removed. Data Access Trio VCFs are available for download from our download server. Credits Thanks to the International Genome Sample Resource (IGSR) for making these variant calls freely available. References Zheng-Bradley X, Streeter I, Fairley S, Richardson D, Clarke L, Flicek P, 1000 Genomes Project Consortium. Alignment of 1000 Genomes Project reads to reference assembly GRCh38. Gigascience. 2017 Jul 1;6(7):1-8. PMID: 28531267; PMC: PMC5522380 Fairley S, Lowy-Gallego E, Perry E, Flicek P. The International Genome Sample Resource (IGSR) collection of open human genomic variation resources. Nucleic Acids Res. 2019 Oct 4. PMID: 31584097 Lowy-Gallego E, Fairley S, Zheng-Bradley X, Ruffier M, Clarke L, Flicek P, 1000 Genomes Project Consortium. Variant calling on the GRCh38 assembly with the data from phase three of the 1000 Genomes Project [version 1; peer review: 2 not approved]. Wellcome Open Research. 2019 Mar. 11. 1000 Genomes Project Consortium, Auton A, Brooks LD, Durbin RM, Garrison EP, Kang HM, Korbel JO, Marchini JL, McCarthy S, McVean GA et al. A global reference for human genetic variation. Nature. 2015 Oct 1;526(7571):68-74. PMID: 26432245 
tgpArchive 1000 Genomes 1000 Genomes Phase 3 Variation Description This supertrack is a collection of tracks from the 1000 Genomes Project showing paired-end accessible regions and integrated variant calls. More information about display conventions, methods, credits, and references can be found on each subtrack's description page. For more details, see: 1000 Genomes Frequently Asked Questions (FAQ) 1000 Genomes Project - Analysis overview Credits Thanks to the International Genome Sample Resource (IGSR) for making these variant calls freely available. 
tgpNA19240_Y117_YRI Y117 YRI Trio 1000 Genomes Yoruban in Ibadan, Nigeria Trio Variation 
tgpHG02024_VN049_KHV VN049 KHV Trio 1000 Genomes Kinh in Ho Chi Minh City, Vietnam Trio Variation 
tgpHG00702_SH089_CHS SH089 CHS Trio 1000 Genomes Southern Han Chinese Trio Variation 
tgpHG00733_PR05_PUR PR05 PUR Trio 1000 Genomes Puerto Ricans from Puerto Rico Trio Variation 
tgpNA19685_m011_MXL m011 MXL Trio 1000 Genomes m011 Mexican Ancestry from Los Angeles Trio Variation 
tgpNA19675_m004_MXL m004 MXL Trio 1000 Genomes m004 Mexican Ancestry from Los Angeles Trio Variation 
tgpNA12878_1463_CEU 1463 CEU Trio 1000 Genomes Utah CEPH Trio Variation 
tgpPhase3 1000G Ph3 Vars 1000 Genomes Phase 3 Integrated Variant Calls from IGSR: SNVs and Indels Variation Description This track shows approximately 73 million single nucleotide variants (SNVs) and 5 million short insertions/deletions (indels) produced by the International Genome Sample Resource (IGSR) from sequence data generated by the 1000 Genomes Project in its Phase 3 sequencing of 2,504 genomes from 16 populations worldwide. Variants were called on the autosomes (chromosomes 1 through 22) and on the Pseudo-Autosomal Regions (PARs) of chromosome X. Therefore this track has no annotations on alternate haplotype sequences, fix patches, chromosome Y, or the non-PAR portion (the majority) of chromosome X. The variant genotypes have been phased (i.e., the two alleles of each diploid genotype have been assigned to two haplotypes, one inherited from each parent). This extra information enables a clustering of independent haplotypes by local similarity for display. Display Conventions In &quot;dense&quot; mode, a vertical line is drawn at the position of each variant. In &quot;pack&quot; mode, since these variants have been phased, the display shows a clustering of haplotypes in the viewed range, sorted by similarity of alleles weighted by proximity to a central variant. The clustering view can highlight local patterns of linkage. In the clustering display, each sample's phased diploid genotype is split into two independent haplotypes. Each haplotype is placed in a horizontal row of pixels; when the number of haplotypes exceeds the number of vertical pixels for the track, multiple haplotypes fall in the same pixel row and pixels are averaged across haplotypes. Each variant is a vertical bar with white (invisible) representing the reference allele and black representing the non-reference allele(s). Tick marks are drawn at the top and bottom of each variant's vertical bar to make the bar more visible when most alleles are reference alleles. The vertical bar for the central variant used in clustering is outlined in purple. In order to avoid long compute times, the range of alleles used in clustering may be limited; alleles used in clustering have purple tick marks at the top and bottom. The clustering tree is displayed to the left of the main image. It does not represent relatedness of individuals; it simply shows the arrangement of local haplotypes by similarity. When a rightmost branch is purple, it means that all haplotypes in that branch are identical, at least within the range of variants used in clustering. Methods The genomes of 2,504 individuals were sequenced using both whole-genome sequencing (mean depth = 7.4x) and targeted exome sequencing (mean depth = 65.7x). Sequence reads were aligned to the reference genome using alt-aware BWA-MEM (Zheng-Bradley et al.). Variant discovery and quality control were performed as described in (Lowy-Gallego et al.). See also: 1000 Genomes Project - Analysis overview IGSR/1000 Genomes Frequently Asked Questions (FAQ) Data Access VCF files were downloaded from EBI and are also available for download from UCSC. Credits Thanks to the International Genome Sample Resource (IGSR) for making these variant calls freely available. References Zheng-Bradley X, Streeter I, Fairley S, Richardson D, Clarke L, Flicek P, 1000 Genomes Project Consortium. Alignment of 1000 Genomes Project reads to reference assembly GRCh38. Gigascience. 2017 Jul 1;6(7):1-8. PMID: 28531267; PMC: PMC5522380 Fairley S, Lowy-Gallego E, Perry E, Flicek P. The International Genome Sample Resource (IGSR) collection of open human genomic variation resources. Nucleic Acids Res. 2019 Oct 4. PMID: 31584097 Lowy-Gallego E, Fairley S, Zheng-Bradley X, Ruffier M, Clarke L, Flicek P, 1000 Genomes Project Consortium. Variant calling on the GRCh38 assembly with the data from phase three of the 1000 Genomes Project [version 1; peer review: 2 not approved]. Wellcome Open Research. 2019 Mar. 11. 1000 Genomes Project Consortium, Auton A, Brooks LD, Durbin RM, Garrison EP, Kang HM, Korbel JO, Marchini JL, McCarthy S, McVean GA et al. A global reference for human genetic variation. Nature. 2015 Oct 1;526(7571):68-74. PMID: 26432245 
viennaVntr 1KG Vienna ONT VNTR 1000 Genomes Vienna ONT VNTR Allele Statistics (VAMOS, 1,019 samples, long-read) Variation Description This track shows allele statistics for 361,362 variable number tandem repeat (VNTR) loci genotyped from Oxford Nanopore long-read whole-genome sequencing of 1,019 samples from the 1000 Genomes ONT Vienna project. VNTR genotyping was performed with VAMOS, a tool that determines the motif composition of VNTR alleles from long reads. This is version 1.1 of the dataset. Unlike the other STR tracks in this collection which are based on short-read sequencing and limited to short tandem repeats (motifs of 1-6 bp), this track is derived from long-read sequencing data, which can span much longer repeat regions. The VNTR loci in this track have average motif lengths ranging from a few base pairs to over 100 bp, and allele lengths up to several kilobases. For each locus, the track shows the average repeat unit length, the number of unique alleles observed, the range and median of repeat unit counts, and the range and median of allele lengths in base pairs. The 1000 Genomes Vienna ONT project also produced structural variant calls available in the Long-Read Structural Variants track. Display Conventions Items are colored by expected heterozygosity, computed as het = 1 &minus; &sum;pi2 from allele frequencies across the 1,019 samples: Light gray &ndash; monomorphic (het = 0, single allele observed) Dark blue &ndash; nearly monomorphic (0 &lt; het &lt; 0.1) Medium blue &ndash; low diversity (het 0.1&ndash;0.3) Light purple &ndash; moderate diversity (het 0.3&ndash;0.5) Salmon &ndash; high diversity (het 0.5&ndash;0.7) Dark red &ndash; very high diversity (het &ge; 0.7) Medium gray &ndash; no allele frequency data available Methods The 1000 Genomes Vienna ONT project sequenced 1,019 samples from the 1000 Genomes collection using Oxford Nanopore Technologies long-read sequencing. VNTR genotyping was performed using VAMOS, which determines the motif composition of VNTR alleles by aligning long reads to a catalog of known VNTR sites. The analysis pipeline is available at GitHub. At UCSC, the summary statistics file (vamos-summary.tsv) was converted to bigBed format using a custom Python script. Loci with coordinates exceeding chromosome boundaries were excluded. Data Access The raw data can be explored interactively with the Table Browser or the Data Integrator. The data can be accessed from scripts through our API, the track name is viennaVntr. For automated download and analysis, the genome annotation is stored in a bigBed file that can be downloaded from our download server. The file for this track is called viennaVntr.bb. Individual regions or the whole genome annotation can be obtained using our tool bigBedToBed, which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tool can also be used to obtain features within a given range, e.g. bigBedToBed http://hgdownload.soe.ucsc.edu/gbdb/hg38/strVar/viennaVntr.bb -chrom=chr21 -start=0 -end=100000000 stdout The original data (multisample VCF and summary statistics) can be downloaded from the 1000 Genomes FTP server. The VNTR site list used for genotyping is available from Zenodo. Credits Thanks to the 1000 Genomes ONT Vienna consortium and the Marschall Lab at Heinrich Heine University D&uuml;sseldorf for making this data publicly available. References De Coster W, Condon DE, De Baets G, Tsui A, Saeed F, Harerimana J, Amiraghdam F, Yaari R, De Vos L, Mahfouz A et al. Sequencing and variant calling of 1019 samples from the 1000 Genomes Project using Oxford Nanopore Technology. bioRxiv. 2024 Dec 23;. 
strVar Tandem Repeat Variation Tandem Repeat Variation Variation Description Tandem repeats are among the most polymorphic loci in the genome due to high rates of repeat unit insertions and deletions caused primarily by polymerase slippage during DNA replication. The Tandem Repeat Variation track contains a collection of tracks displaying population-level genetic variation at tandem repeat loci across the human genome. Short tandem repeats (STRs), also known as microsatellites, are consecutive repetitions of 1-6 nucleotide motifs. Variable Number Tandem Repeats (VNTRs) are tandem repeats of typically 7-100 bp. This super track provides genome-wide tandem repeat annotations, allele frequency data from large-scale population cohorts, and curated disease-associated STR loci. Note that the gnomAD track container also includes an STR variation track, which is not part of the container here. Tracks in this collection WebSTR &mdash; 1.7 million STR loci from the EnsembleTR panel with allele frequency data from the 1000 Genomes Project (3,550 individuals across five continental populations). See the WebSTR track documentation for full details. TRExplorer &mdash; 5.6 million tandem repeat loci (STRs and VNTRs) from the TRExplorer catalog at the Broad Institute, with population allele frequency data from TenK10K, HPRC256, and AoU1027 cohorts. See the TRExplorer track documentation for full details. STRchive &mdash; 75 disease-associated tandem repeat loci curated from published literature, with pathogenic repeat thresholds, inheritance modes, and disease annotations. See the STRchive track documentation for full details. ToMMo 61K STR &mdash; 174,300 STR loci with allele count distributions from 61,000 Japanese individuals (Tohoku Medical Megabank Organization), genotyped with Expansion Hunter. See the ToMMo STR track documentation for full details. 1KG Vienna ONT VNTR &mdash; 361,362 VNTR loci with allele statistics from 1,019 samples of the 1000 Genomes Oxford Nanopore long-read sequencing project (Vienna), genotyped with VAMOS. Unlike the other STR tracks which use short-read data, this track is based on long-read sequencing which can span longer tandem repeat regions. See the Vienna VNTR track documentation for full details. Credits Thanks to the data providers of the individual tracks listed above. See each track's documentation page for specific credits. 
abSplice AbSplice Scores Aberrant Splicing Prediction Scores Phenotypes, Variants, and Literature Description AbSplice is a method that predicts aberrant splicing across human tissues, as described in Wagner, &Ccedil;elik et al., 2023. This track displays precomputed AbSplice scores for all possible single-nucleotide variants genome-wide. The scores represent the probability that a given variant causes aberrant splicing in a given tissue. AbSplice scores can be computed from VCF files and are based on quantitative tissue-specific splice site annotations (SpliceMaps). While SpliceMaps can be generated for any tissue of interest from a cohort of RNA-seq samples, this track includes 49 tissues available from the Genotype-Tissue Expression (GTEx) dataset. Display Conventions The AbSplice score is a probability estimate of how likely aberrant splicing of some sort takes place in a given tissue. The authors suggest three cutoffs which are represented by color in the track. High (red) - An AbSplice score over 0.2 indicates a high likelihood of aberrant splicing in at least one tissue. Medium (orange) - A score between 0.05 and 0.2 indicates a medium likelihood. Low (blue) - A score between 0.01 and 0.05 indicates a low likelihood. Scores below 0.01 are not displayed. Mouseover on items shows the gene name, maximum score, and tissues that had this score. Clicking on any item brings up a table with scores for all 49 GTEX tissues. Data Access The raw data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Precomputed AbSplice-DNA scores in all 49 GTEx tissues are available at Zenodo. Methods Data was converted from the files (AbSplice_DNA_ hg38 _snvs_high_scores.zip) provided by the authors at zenodo.org. Files in the score_cutoff=0.01 directory were concatenated. To convert the data to bigBed format, scores and their tissues were selected from the AbSplice_DNA fields and maximum scores, and then calculated using a custom Python script, which can be found in the makeDoc from our GitHub repository. Credits Thanks to Nils Wagner for helpful comments and suggestions. References Wagner N, &#199;elik MH, H&#246;lzlwimmer FR, Mertes C, Prokisch H, Y&#233;pez VA, Gagneur J. Aberrant splicing prediction across human tissues. Nat Genet. 2023 May;55(5):861-870. PMID: 37142848 
affyGnf1h Affy GNF1H Alignments of Affymetrix Consensus/Exemplars from GNF1H Expression Description This track shows the location of the sequences used for the selection of probes on the Affymetrix GNF1H chips. This contains 11406 predicted genes that do not overlap with the Affy U133A chip. Methods The sequences were mapped to the genome using blat followed by pslReps with the parameters: -minCover=0.3 -minAli=0.95 -nearTop=0.005 Credits Thanks to the Genomics Institute of the Novartis Research Foundation (GNF) for the data underlying this track. References Su AI, Wiltshire T, Batalov S, Lapp H, Ching KA, Block D, Zhang J, Soden R, Hayakawa M, Kreiman G et al. A gene atlas of the mouse and human protein-encoding transcriptomes. Proc Natl Acad Sci U S A. 2004 Apr 20;101(16):6062-7. PMID: 15075390; PMC: PMC395923 
affyArchive Affy Archive Affymetrix Archive Expression Description This supertrack is a collection of Affymetrix tracks showing the location of the consensus and exemplar sequences used for the selection of probes on the Affymetrix chips. Credits Thanks to Affymetrix for the data underlying these tracks. 
affyU133 Affy U133 Alignments of Affymetrix Consensus/Exemplars from HG-U133 Expression Description This track shows the location of the consensus and exemplar sequences used for the selection of probes on the Affymetrix HG-U133A and HG-U133B chips. Methods Consensus and exemplar sequences were downloaded from the Affymetrix Product Support and mapped to the genome using blat followed by pslReps with the parameters: -minCover=0.5 -minAli=0.97 -nearTop=0.005 Credits Thanks to Affymetrix for the data underlying this track. 
affyU95 Affy U95 Alignments of Affymetrix Consensus/Exemplars from HG-U95 Expression Description This track shows the location of the consensus and exemplar sequences used for the selection of probes on the Affymetrix HG-U95Av2 chip. For this chip, probes are predominantly designed from consensus sequences. Methods Consensus and exemplar sequences were downloaded from the Affymetrix Product Support and mapped to the genome using blat followed by pslReps with the parameters: -minCover=0.3 -minAli=0.95 -nearTop=0.005 Credits Thanks to Affymetrix for the data underlying this track. 
alphaMissense AlphaMissense AlphaMissense Score for all possible single-basepair mutations (zoom in for scores) Phenotypes, Variants, and Literature Description This track shows AlphaMissense predictions for all possible single amino acid substitutions in the human proteome. AlphaMissense is a deep learning method for predicting the pathogenicity of missense variants in human proteins. It classifies 32% of all missense variants as likely pathogenic and 57% as likely benign using a cutoff yielding 90% precision on the ClinVar dataset. Display Conventions and Configuration There are four lettered subtracks, one for every nucleotide, showing scores for mutation from the reference to that nucleotide. All subtracks show the AlphaMissense score on mouseover. Across the exome, there are three values per position, one for every possible nucleotide mutation. The fourth value, &quot;no mutation&quot;, representing the reference allele, e.g. A to A, is always set to zero, "0.0". AlphaMissense only takes into account amino acid changes, so a nucleotide change that results in no amino acid change (synonymous) is not scored. These are shown in the tracks with score "0.0". When using this track, zoom in until you can see every basepair at the top of the display. Otherwise, there are several nucleotides per pixel under your mouse cursor and no score will be shown on the mouseover tooltip. Track colors This track is colored according to the am_class column in the AlphaMissense_hg38.tsv file. Range Classification &ge; .564 Likely Pathogenic .565 - .340 Likely Neutral &le; .340 Likely Benign Data access AlphaMissense scores are available at the AlphaMissense cloud storage site. The site provides precomputed AlphaMissense scores for all possible human missense variants to facilitate the identification of pathogenic variants among the large number of rare variants discovered in sequencing studies. The AlphaMissense data on the UCSC Genome Browser can be explored interactively with the Table Browser or the Data Integrator. For automated download and analysis, the genome annotation is stored at UCSC in bigWig format that can be downloaded from our download server. The files for this track are called a.bw, c.bw, g.bw, t.bw. Individual regions or the whole genome annotation can be obtained using our tool bigWigToWig which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. For example, to extract only annotations in a given region, you could use the following command: bigWigToBedGraph -chrom=chr1 -start=100000 -end=100500 http://hgdownload.soe.ucsc.edu/gbdb/hg38/alphaMissense/a.bw stdout Methods Data were converted from the files provided on the AlphaMissense Downloads website. As with all other tracks, a full log of all commands used for the conversion is available in our source repository, for hg19 and hg38. The release used for each assembly is shown on the track description page. Credits Thanks to References Cheng J, Novati G, Pan J, Bycroft C, &#381;emgulyt&#279; A, Applebaum T, Pritzel A, Wong LH, Zielinski M, Sargeant T et al. Accurate proteome-wide missense variant effect prediction with AlphaMissense. Science. 2023 Sep 22;381(6664):eadg7492. PMID: 37733863 
alphaMissense_T Mutation: T AlphaMissense Score: Mutation is T Phenotypes, Variants, and Literature 
alphaMissense_G Mutation: G AlphaMissense Score: Mutation is G Phenotypes, Variants, and Literature 
alphaMissense_C Mutation: C AlphaMissense Score: Mutation is C Phenotypes, Variants, and Literature 
alphaMissense_A Mutation: A AlphaMissense Score: Mutation is A Phenotypes, Variants, and Literature 
denisovan Arcseqhub Denisovan Ancient Hominids: Arcseqhub Denisovan VCF Variants Variation Description This container track contains genome variants from ancient hominids, from DNA samples extracted from Denisovan and Neanderthal, provided by the database Arcseqhub (Lian et al, Gen Biol 2025). Display Conventions Variants that differ from human are highlighted. Click onto a variant to see more details. Data Access The data can be explored interactively with the Table Browser or the Data Integrator. The data can be accessed from scripts through our API, the track name is "denisovan" and "neanderthal". For automated download and analysis, the genome annotation is stored in a tabix-indexed VCF file that can be downloaded from our download server. The files for this track are called denisovan.hg38.filt.vcf.gz and neanderthal.hg38.filt.vcf.gz. Various command line tools exist for working with VCF files. Users without command line experience can use the Galaxy website, by exporting the data directly from our table browser to Galaxy. Methods Liang et al (see below) realigned the original sequencing reads to the hg38 and T2T CHM13 assemblies. UCSC removed positions from the VCF without an alternate allele to show only variants that are present in the ancient genomes and loaded the VCFs. Credits We thank the Arcseqhub authors for making the data available. References Liang SA, Ren T, Zhang J, He J, Wang X, Jiang X, He Y, McCoy RC, Fu Q, Akey JM et al. A refined analysis of Neanderthal-introgressed sequences in modern humans with a complete reference genome. Genome Biol. 2025 Feb 17;26(1):32. PMID: 39962554; PMC: PMC11834205 
ancient Ancient Hominids Ancient Hominid DNA Variants Variation Description This container track contains genome variants from ancient hominids, from DNA samples extracted from Denisovan and Neanderthal, provided by the database Arcseqhub (Lian et al, Gen Biol 2025). Display Conventions Variants that differ from human are highlighted. Click onto a variant to see more details. Data Access The data can be explored interactively with the Table Browser or the Data Integrator. The data can be accessed from scripts through our API, the track name is "denisovan" and "neanderthal". For automated download and analysis, the genome annotation is stored in a tabix-indexed VCF file that can be downloaded from our download server. The files for this track are called denisovan.hg38.filt.vcf.gz and neanderthal.hg38.filt.vcf.gz. Various command line tools exist for working with VCF files. Users without command line experience can use the Galaxy website, by exporting the data directly from our table browser to Galaxy. Methods Liang et al (see below) realigned the original sequencing reads to the hg38 and T2T CHM13 assemblies. UCSC removed positions from the VCF without an alternate allele to show only variants that are present in the ancient genomes and loaded the VCFs. Credits We thank the Arcseqhub authors for making the data available. References Liang SA, Ren T, Zhang J, He J, Wang X, Jiang X, He Y, McCoy RC, Fu Q, Akey JM et al. A refined analysis of Neanderthal-introgressed sequences in modern humans with a complete reference genome. Genome Biol. 2025 Feb 17;26(1):32. PMID: 39962554; PMC: PMC11834205 
neanderthal Arcseqhub Neanderthal Ancient Hominids: Arcseqhub Neanderthal VCF Variants Variation Description This container track contains genome variants from ancient hominids, from DNA samples extracted from Denisovan and Neanderthal, provided by the database Arcseqhub (Lian et al, Gen Biol 2025). Display Conventions Variants that differ from human are highlighted. Click onto a variant to see more details. Data Access The data can be explored interactively with the Table Browser or the Data Integrator. The data can be accessed from scripts through our API, the track name is "denisovan" and "neanderthal". For automated download and analysis, the genome annotation is stored in a tabix-indexed VCF file that can be downloaded from our download server. The files for this track are called denisovan.hg38.filt.vcf.gz and neanderthal.hg38.filt.vcf.gz. Various command line tools exist for working with VCF files. Users without command line experience can use the Galaxy website, by exporting the data directly from our table browser to Galaxy. Methods Liang et al (see below) realigned the original sequencing reads to the hg38 and T2T CHM13 assemblies. UCSC removed positions from the VCF without an alternate allele to show only variants that are present in the ancient genomes and loaded the VCFs. Credits We thank the Arcseqhub authors for making the data available. References Liang SA, Ren T, Zhang J, He J, Wang X, Jiang X, He Y, McCoy RC, Fu Q, Akey JM et al. A refined analysis of Neanderthal-introgressed sequences in modern humans with a complete reference genome. Genome Biol. 2025 Feb 17;26(1):32. PMID: 39962554; PMC: PMC11834205 
genotypeArrays Array Probesets Microarray Probesets and OGM sites Variation Description Agilent Arrays The arrays listed in this track are probes from the Agilent Catalog Oligonucleotide Microarrays. Please note that more microarray tracks are available on the hg19 genome assembly. To view those tracks, please click this link for hg19 microarrays. Microarrays that are not listed can be added as Custom Tracks with data from the companies. Agilent GenetiSure Cyto Agilent's oligonucleotide CGH (Comparative Genomic Hybridization) platform enables the study of genome-wide DNA copy number changes at a high resolution. The CGH probes on Agilent CGH microarrays are 60-mer oligonucleotides synthesized in situ using Agilent's inkjet SurePrint technology. The probes represented on the Agilent CGH microarrays have been selected using algorithms developed specifically for the CGH application, assuring optimal performance of these probes in detecting DNA copy number changes. Illumina 450k and 850k Methylation Arrays With the Infinium MethylationEPIC BeadChip Kit, researchers can interrogate over 850,000 methylation sites quantitatively across the genome at single-nucleotide resolution. Multiple samples, including FFPE, can be analyzed in parallel to deliver high-throughput power while minimizing the cost per sample. These tracks show positions being measured on the Illumina 450k and 850k (EPIC) microarray tracks, not the probe locations themselves. Contact us or Illumina if you need the probe locations directly. More information about the arrays can be found on the Infinium MethylationEPIC Kit website. Note: The 450k track on hg38 contains 128,989 regions representing the target regions, not the probes themselves. Illumina CytoSNP 850K Probe Array The Infinium CytoSNP-850K v1.2 BeadChip provides comprehensive coverage of cytogenetically relevant genes on a proven platform, helping researchers find valuable information that may be missed by other technologies. It contains approximately 850,000 empirically selected single nucleotide polymorphisms (SNPs) spanning the entire genome with enriched coverage for 3,262 genes of known cytogenetics relevance in both constitutional and cancer applications. Affymetrix Cytoscan HD GeneChip Array The CytoScan HD Array, which is included in the CytoScan HD Suite, provides the broadest coverage and highest performance for detecting chromosomal aberrations. CytoScan HD Suite has greater than 99% sensitivity and can reliably detect 25-50kb copy number changes across the genome at high specificity with single-nucleotide polymorphism (SNP) allelic corroboration. With more than 2.6 million copy number markers, CytoScan HD Suite covers all OMIM and RefSeq genes. Bionano DLE-1 CTTAAG sites Bionano Laboratories provides access to Optical Genome Mapping (OGM) data for projects across a variety of applications for researchers, clinicians, and pharmaceutical companies. This track shows the CTTAAG sites used by the Bionano Optical Genome Mapping system, an assay to detect structural variants. Display Conventions and Configuration Items in this track are colored according to their strand orientation. Blue indicates alignment to the negative strand, and red indicates alignment to the positive strand. Methods The Agilent arrays were downloaded from their Agilent SureDesign website tool on March 2022. The Illumina 450k and 850k (EPIC) tracks were created using a few columns from the Infinium MethylationEPIC v1.0 B5 Manifest File (CSV Format) and was then converted into a bigBed. The Illumina CytoSNP-850K track was created by downloading the CytoSNP-850K v1.2 Manifest File (CSV Format) (GRCh38) file and then converted into a bigBed file. The Affymetrix Cytoscan HD GeneChip Array track was created by converting the CytoScanHD_Accel_Array.na36.bed.zip into a bigBed file. The Bionano track was created by receiving the BED files from &#97;p&#97;&#110;&#103;&#64;&#98;&#105;&#111;n&#97;&#110;o. &#99;&#111;&#109; and converted to bigBed files using the bedToBigBed tool. Data Access The raw data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API or downloaded from our Downloads site. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credits Thanks to the Agilent and Illumina support teams for sharing the data and the UCSC Genome Browser engineers for configuring the data. Thanks to Andy Pang from Bionano Genomics for providing the BED data file. 
bionano Bionano DLE-1 Bionano DLE-1 CTTAAG sites Variation 
affyCytoScanHD Affy CytoScan HD Affymetrix Cytoscan HD GeneChip Array Variation Description Agilent Arrays The arrays listed in this track are probes from the Agilent Catalog Oligonucleotide Microarrays. Please note that more microarray tracks are available on the hg19 genome assembly. To view those tracks, please click this link for hg19 microarrays. Microarrays that are not listed can be added as Custom Tracks with data from the companies. Agilent GenetiSure Cyto Agilent's oligonucleotide CGH (Comparative Genomic Hybridization) platform enables the study of genome-wide DNA copy number changes at a high resolution. The CGH probes on Agilent CGH microarrays are 60-mer oligonucleotides synthesized in situ using Agilent's inkjet SurePrint technology. The probes represented on the Agilent CGH microarrays have been selected using algorithms developed specifically for the CGH application, assuring optimal performance of these probes in detecting DNA copy number changes. Illumina 450k and 850k Methylation Arrays With the Infinium MethylationEPIC BeadChip Kit, researchers can interrogate over 850,000 methylation sites quantitatively across the genome at single-nucleotide resolution. Multiple samples, including FFPE, can be analyzed in parallel to deliver high-throughput power while minimizing the cost per sample. These tracks show positions being measured on the Illumina 450k and 850k (EPIC) microarray tracks, not the probe locations themselves. Contact us or Illumina if you need the probe locations directly. More information about the arrays can be found on the Infinium MethylationEPIC Kit website. Note: The 450k track on hg38 contains 128,989 regions representing the target regions, not the probes themselves. Illumina CytoSNP 850K Probe Array The Infinium CytoSNP-850K v1.2 BeadChip provides comprehensive coverage of cytogenetically relevant genes on a proven platform, helping researchers find valuable information that may be missed by other technologies. It contains approximately 850,000 empirically selected single nucleotide polymorphisms (SNPs) spanning the entire genome with enriched coverage for 3,262 genes of known cytogenetics relevance in both constitutional and cancer applications. Affymetrix Cytoscan HD GeneChip Array The CytoScan HD Array, which is included in the CytoScan HD Suite, provides the broadest coverage and highest performance for detecting chromosomal aberrations. CytoScan HD Suite has greater than 99% sensitivity and can reliably detect 25-50kb copy number changes across the genome at high specificity with single-nucleotide polymorphism (SNP) allelic corroboration. With more than 2.6 million copy number markers, CytoScan HD Suite covers all OMIM and RefSeq genes. Bionano DLE-1 CTTAAG sites Bionano Laboratories provides access to Optical Genome Mapping (OGM) data for projects across a variety of applications for researchers, clinicians, and pharmaceutical companies. This track shows the CTTAAG sites used by the Bionano Optical Genome Mapping system, an assay to detect structural variants. Display Conventions and Configuration Items in this track are colored according to their strand orientation. Blue indicates alignment to the negative strand, and red indicates alignment to the positive strand. Methods The Agilent arrays were downloaded from their Agilent SureDesign website tool on March 2022. The Illumina 450k and 850k (EPIC) tracks were created using a few columns from the Infinium MethylationEPIC v1.0 B5 Manifest File (CSV Format) and was then converted into a bigBed. The Illumina CytoSNP-850K track was created by downloading the CytoSNP-850K v1.2 Manifest File (CSV Format) (GRCh38) file and then converted into a bigBed file. The Affymetrix Cytoscan HD GeneChip Array track was created by converting the CytoScanHD_Accel_Array.na36.bed.zip into a bigBed file. The Bionano track was created by receiving the BED files from &#97;p&#97;&#110;&#103;&#64;&#98;&#105;&#111;n&#97;&#110;o. &#99;&#111;&#109; and converted to bigBed files using the bedToBigBed tool. Data Access The raw data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API or downloaded from our Downloads site. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credits Thanks to the Agilent and Illumina support teams for sharing the data and the UCSC Genome Browser engineers for configuring the data. Thanks to Andy Pang from Bionano Genomics for providing the BED data file. 
snpArrayCytoSnp850k CytoSNP 850k Illumina 850k CytoSNP Array Variation Description Agilent Arrays The arrays listed in this track are probes from the Agilent Catalog Oligonucleotide Microarrays. Please note that more microarray tracks are available on the hg19 genome assembly. To view those tracks, please click this link for hg19 microarrays. Microarrays that are not listed can be added as Custom Tracks with data from the companies. Agilent GenetiSure Cyto Agilent's oligonucleotide CGH (Comparative Genomic Hybridization) platform enables the study of genome-wide DNA copy number changes at a high resolution. The CGH probes on Agilent CGH microarrays are 60-mer oligonucleotides synthesized in situ using Agilent's inkjet SurePrint technology. The probes represented on the Agilent CGH microarrays have been selected using algorithms developed specifically for the CGH application, assuring optimal performance of these probes in detecting DNA copy number changes. Illumina 450k and 850k Methylation Arrays With the Infinium MethylationEPIC BeadChip Kit, researchers can interrogate over 850,000 methylation sites quantitatively across the genome at single-nucleotide resolution. Multiple samples, including FFPE, can be analyzed in parallel to deliver high-throughput power while minimizing the cost per sample. These tracks show positions being measured on the Illumina 450k and 850k (EPIC) microarray tracks, not the probe locations themselves. Contact us or Illumina if you need the probe locations directly. More information about the arrays can be found on the Infinium MethylationEPIC Kit website. Note: The 450k track on hg38 contains 128,989 regions representing the target regions, not the probes themselves. Illumina CytoSNP 850K Probe Array The Infinium CytoSNP-850K v1.2 BeadChip provides comprehensive coverage of cytogenetically relevant genes on a proven platform, helping researchers find valuable information that may be missed by other technologies. It contains approximately 850,000 empirically selected single nucleotide polymorphisms (SNPs) spanning the entire genome with enriched coverage for 3,262 genes of known cytogenetics relevance in both constitutional and cancer applications. Affymetrix Cytoscan HD GeneChip Array The CytoScan HD Array, which is included in the CytoScan HD Suite, provides the broadest coverage and highest performance for detecting chromosomal aberrations. CytoScan HD Suite has greater than 99% sensitivity and can reliably detect 25-50kb copy number changes across the genome at high specificity with single-nucleotide polymorphism (SNP) allelic corroboration. With more than 2.6 million copy number markers, CytoScan HD Suite covers all OMIM and RefSeq genes. Bionano DLE-1 CTTAAG sites Bionano Laboratories provides access to Optical Genome Mapping (OGM) data for projects across a variety of applications for researchers, clinicians, and pharmaceutical companies. This track shows the CTTAAG sites used by the Bionano Optical Genome Mapping system, an assay to detect structural variants. Display Conventions and Configuration Items in this track are colored according to their strand orientation. Blue indicates alignment to the negative strand, and red indicates alignment to the positive strand. Methods The Agilent arrays were downloaded from their Agilent SureDesign website tool on March 2022. The Illumina 450k and 850k (EPIC) tracks were created using a few columns from the Infinium MethylationEPIC v1.0 B5 Manifest File (CSV Format) and was then converted into a bigBed. The Illumina CytoSNP-850K track was created by downloading the CytoSNP-850K v1.2 Manifest File (CSV Format) (GRCh38) file and then converted into a bigBed file. The Affymetrix Cytoscan HD GeneChip Array track was created by converting the CytoScanHD_Accel_Array.na36.bed.zip into a bigBed file. The Bionano track was created by receiving the BED files from &#97;p&#97;&#110;&#103;&#64;&#98;&#105;&#111;n&#97;&#110;o. &#99;&#111;&#109; and converted to bigBed files using the bedToBigBed tool. Data Access The raw data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API or downloaded from our Downloads site. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credits Thanks to the Agilent and Illumina support teams for sharing the data and the UCSC Genome Browser engineers for configuring the data. Thanks to Andy Pang from Bionano Genomics for providing the BED data file. 
snpArrayIllumina850k Illumina 850k Illumina 850k EPIC Methylation Array Variation Description Agilent Arrays The arrays listed in this track are probes from the Agilent Catalog Oligonucleotide Microarrays. Please note that more microarray tracks are available on the hg19 genome assembly. To view those tracks, please click this link for hg19 microarrays. Microarrays that are not listed can be added as Custom Tracks with data from the companies. Agilent GenetiSure Cyto Agilent's oligonucleotide CGH (Comparative Genomic Hybridization) platform enables the study of genome-wide DNA copy number changes at a high resolution. The CGH probes on Agilent CGH microarrays are 60-mer oligonucleotides synthesized in situ using Agilent's inkjet SurePrint technology. The probes represented on the Agilent CGH microarrays have been selected using algorithms developed specifically for the CGH application, assuring optimal performance of these probes in detecting DNA copy number changes. Illumina 450k and 850k Methylation Arrays With the Infinium MethylationEPIC BeadChip Kit, researchers can interrogate over 850,000 methylation sites quantitatively across the genome at single-nucleotide resolution. Multiple samples, including FFPE, can be analyzed in parallel to deliver high-throughput power while minimizing the cost per sample. These tracks show positions being measured on the Illumina 450k and 850k (EPIC) microarray tracks, not the probe locations themselves. Contact us or Illumina if you need the probe locations directly. More information about the arrays can be found on the Infinium MethylationEPIC Kit website. Note: The 450k track on hg38 contains 128,989 regions representing the target regions, not the probes themselves. Illumina CytoSNP 850K Probe Array The Infinium CytoSNP-850K v1.2 BeadChip provides comprehensive coverage of cytogenetically relevant genes on a proven platform, helping researchers find valuable information that may be missed by other technologies. It contains approximately 850,000 empirically selected single nucleotide polymorphisms (SNPs) spanning the entire genome with enriched coverage for 3,262 genes of known cytogenetics relevance in both constitutional and cancer applications. Affymetrix Cytoscan HD GeneChip Array The CytoScan HD Array, which is included in the CytoScan HD Suite, provides the broadest coverage and highest performance for detecting chromosomal aberrations. CytoScan HD Suite has greater than 99% sensitivity and can reliably detect 25-50kb copy number changes across the genome at high specificity with single-nucleotide polymorphism (SNP) allelic corroboration. With more than 2.6 million copy number markers, CytoScan HD Suite covers all OMIM and RefSeq genes. Bionano DLE-1 CTTAAG sites Bionano Laboratories provides access to Optical Genome Mapping (OGM) data for projects across a variety of applications for researchers, clinicians, and pharmaceutical companies. This track shows the CTTAAG sites used by the Bionano Optical Genome Mapping system, an assay to detect structural variants. Display Conventions and Configuration Items in this track are colored according to their strand orientation. Blue indicates alignment to the negative strand, and red indicates alignment to the positive strand. Methods The Agilent arrays were downloaded from their Agilent SureDesign website tool on March 2022. The Illumina 450k and 850k (EPIC) tracks were created using a few columns from the Infinium MethylationEPIC v1.0 B5 Manifest File (CSV Format) and was then converted into a bigBed. The Illumina CytoSNP-850K track was created by downloading the CytoSNP-850K v1.2 Manifest File (CSV Format) (GRCh38) file and then converted into a bigBed file. The Affymetrix Cytoscan HD GeneChip Array track was created by converting the CytoScanHD_Accel_Array.na36.bed.zip into a bigBed file. The Bionano track was created by receiving the BED files from &#97;p&#97;&#110;&#103;&#64;&#98;&#105;&#111;n&#97;&#110;o. &#99;&#111;&#109; and converted to bigBed files using the bedToBigBed tool. Data Access The raw data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API or downloaded from our Downloads site. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credits Thanks to the Agilent and Illumina support teams for sharing the data and the UCSC Genome Browser engineers for configuring the data. Thanks to Andy Pang from Bionano Genomics for providing the BED data file. 
snpArrayIllumina450k Illumina 450k Illumina 450k Methylation Array Variation Description Agilent Arrays The arrays listed in this track are probes from the Agilent Catalog Oligonucleotide Microarrays. Please note that more microarray tracks are available on the hg19 genome assembly. To view those tracks, please click this link for hg19 microarrays. Microarrays that are not listed can be added as Custom Tracks with data from the companies. Agilent GenetiSure Cyto Agilent's oligonucleotide CGH (Comparative Genomic Hybridization) platform enables the study of genome-wide DNA copy number changes at a high resolution. The CGH probes on Agilent CGH microarrays are 60-mer oligonucleotides synthesized in situ using Agilent's inkjet SurePrint technology. The probes represented on the Agilent CGH microarrays have been selected using algorithms developed specifically for the CGH application, assuring optimal performance of these probes in detecting DNA copy number changes. Illumina 450k and 850k Methylation Arrays With the Infinium MethylationEPIC BeadChip Kit, researchers can interrogate over 850,000 methylation sites quantitatively across the genome at single-nucleotide resolution. Multiple samples, including FFPE, can be analyzed in parallel to deliver high-throughput power while minimizing the cost per sample. These tracks show positions being measured on the Illumina 450k and 850k (EPIC) microarray tracks, not the probe locations themselves. Contact us or Illumina if you need the probe locations directly. More information about the arrays can be found on the Infinium MethylationEPIC Kit website. Note: The 450k track on hg38 contains 128,989 regions representing the target regions, not the probes themselves. Illumina CytoSNP 850K Probe Array The Infinium CytoSNP-850K v1.2 BeadChip provides comprehensive coverage of cytogenetically relevant genes on a proven platform, helping researchers find valuable information that may be missed by other technologies. It contains approximately 850,000 empirically selected single nucleotide polymorphisms (SNPs) spanning the entire genome with enriched coverage for 3,262 genes of known cytogenetics relevance in both constitutional and cancer applications. Affymetrix Cytoscan HD GeneChip Array The CytoScan HD Array, which is included in the CytoScan HD Suite, provides the broadest coverage and highest performance for detecting chromosomal aberrations. CytoScan HD Suite has greater than 99% sensitivity and can reliably detect 25-50kb copy number changes across the genome at high specificity with single-nucleotide polymorphism (SNP) allelic corroboration. With more than 2.6 million copy number markers, CytoScan HD Suite covers all OMIM and RefSeq genes. Bionano DLE-1 CTTAAG sites Bionano Laboratories provides access to Optical Genome Mapping (OGM) data for projects across a variety of applications for researchers, clinicians, and pharmaceutical companies. This track shows the CTTAAG sites used by the Bionano Optical Genome Mapping system, an assay to detect structural variants. Display Conventions and Configuration Items in this track are colored according to their strand orientation. Blue indicates alignment to the negative strand, and red indicates alignment to the positive strand. Methods The Agilent arrays were downloaded from their Agilent SureDesign website tool on March 2022. The Illumina 450k and 850k (EPIC) tracks were created using a few columns from the Infinium MethylationEPIC v1.0 B5 Manifest File (CSV Format) and was then converted into a bigBed. The Illumina CytoSNP-850K track was created by downloading the CytoSNP-850K v1.2 Manifest File (CSV Format) (GRCh38) file and then converted into a bigBed file. The Affymetrix Cytoscan HD GeneChip Array track was created by converting the CytoScanHD_Accel_Array.na36.bed.zip into a bigBed file. The Bionano track was created by receiving the BED files from &#97;p&#97;&#110;&#103;&#64;&#98;&#105;&#111;n&#97;&#110;o. &#99;&#111;&#109; and converted to bigBed files using the bedToBigBed tool. Data Access The raw data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API or downloaded from our Downloads site. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credits Thanks to the Agilent and Illumina support teams for sharing the data and the UCSC Genome Browser engineers for configuring the data. Thanks to Andy Pang from Bionano Genomics for providing the BED data file. 
epicV2illuminaMethylation Illumina EPIC v2 Illumina EPIC v2 Methylation Array Variation Description Agilent Arrays The arrays listed in this track are probes from the Agilent Catalog Oligonucleotide Microarrays. Please note that more microarray tracks are available on the hg19 genome assembly. To view those tracks, please click this link for hg19 microarrays. Microarrays that are not listed can be added as Custom Tracks with data from the companies. Agilent GenetiSure Cyto Agilent's oligonucleotide CGH (Comparative Genomic Hybridization) platform enables the study of genome-wide DNA copy number changes at a high resolution. The CGH probes on Agilent CGH microarrays are 60-mer oligonucleotides synthesized in situ using Agilent's inkjet SurePrint technology. The probes represented on the Agilent CGH microarrays have been selected using algorithms developed specifically for the CGH application, assuring optimal performance of these probes in detecting DNA copy number changes. Illumina 450k and 850k Methylation Arrays With the Infinium MethylationEPIC BeadChip Kit, researchers can interrogate over 850,000 methylation sites quantitatively across the genome at single-nucleotide resolution. Multiple samples, including FFPE, can be analyzed in parallel to deliver high-throughput power while minimizing the cost per sample. These tracks show positions being measured on the Illumina 450k and 850k (EPIC) microarray tracks, not the probe locations themselves. Contact us or Illumina if you need the probe locations directly. More information about the arrays can be found on the Infinium MethylationEPIC Kit website. Note: The 450k track on hg38 contains 128,989 regions representing the target regions, not the probes themselves. Illumina CytoSNP 850K Probe Array The Infinium CytoSNP-850K v1.2 BeadChip provides comprehensive coverage of cytogenetically relevant genes on a proven platform, helping researchers find valuable information that may be missed by other technologies. It contains approximately 850,000 empirically selected single nucleotide polymorphisms (SNPs) spanning the entire genome with enriched coverage for 3,262 genes of known cytogenetics relevance in both constitutional and cancer applications. Affymetrix Cytoscan HD GeneChip Array The CytoScan HD Array, which is included in the CytoScan HD Suite, provides the broadest coverage and highest performance for detecting chromosomal aberrations. CytoScan HD Suite has greater than 99% sensitivity and can reliably detect 25-50kb copy number changes across the genome at high specificity with single-nucleotide polymorphism (SNP) allelic corroboration. With more than 2.6 million copy number markers, CytoScan HD Suite covers all OMIM and RefSeq genes. Bionano DLE-1 CTTAAG sites Bionano Laboratories provides access to Optical Genome Mapping (OGM) data for projects across a variety of applications for researchers, clinicians, and pharmaceutical companies. This track shows the CTTAAG sites used by the Bionano Optical Genome Mapping system, an assay to detect structural variants. Display Conventions and Configuration Items in this track are colored according to their strand orientation. Blue indicates alignment to the negative strand, and red indicates alignment to the positive strand. Methods The Agilent arrays were downloaded from their Agilent SureDesign website tool on March 2022. The Illumina 450k and 850k (EPIC) tracks were created using a few columns from the Infinium MethylationEPIC v1.0 B5 Manifest File (CSV Format) and was then converted into a bigBed. The Illumina CytoSNP-850K track was created by downloading the CytoSNP-850K v1.2 Manifest File (CSV Format) (GRCh38) file and then converted into a bigBed file. The Affymetrix Cytoscan HD GeneChip Array track was created by converting the CytoScanHD_Accel_Array.na36.bed.zip into a bigBed file. The Bionano track was created by receiving the BED files from &#97;p&#97;&#110;&#103;&#64;&#98;&#105;&#111;n&#97;&#110;o. &#99;&#111;&#109; and converted to bigBed files using the bedToBigBed tool. Data Access The raw data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API or downloaded from our Downloads site. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credits Thanks to the Agilent and Illumina support teams for sharing the data and the UCSC Genome Browser engineers for configuring the data. Thanks to Andy Pang from Bionano Genomics for providing the BED data file. 
genetiSureCytoCghSnp8x60 Agilent GenetiSure Cyto CGH 8x60 Agilent GenetiSure Cyto CGH 8x60K 085590 20200302 Variation 
genetiSureCytoCgh4x180 Agilent GenetiSure Cyto CGH 4x180K Agilent GenetiSure Cyto CGH 4x180K 085589 20200302 Variation 
genetiSureCytoCghSnp Agilent GenetiSure Cyto CGH+SNP Agilent GenetiSure Cyto CGH+SNP 4x180K 085591 20200302 Variation 
gold Assembly Assembly from Fragments Mapping and Sequencing Description This track shows the contigs used to construct the GRCh38 (hg38) genome assembly, as defined in the AGP file delivered with the sequence. For information on the AGP file format, see the NCBI AGP Specification. The NCBI website also provides an overview of genome assembly procedures, as well as specific information about the hg38 assembly. In dense mode, this track depicts the contigs that make up the currently viewed scaffold. Contig boundaries are distinguished by the use of alternating gold and brown coloration. Where gaps exist between contigs, spaces are shown between the gold and brown blocks. The relative order and orientation of the contigs within a scaffold is always known; therefore, a line is drawn in the graphical display to bridge the blocks. Component types found in this track (with counts of that type in parenthesis): F - finished sequence (35,798) O - other sequence (8,536) W - whole genome shotgun (764) P - pre draft (16) D - draft sequence (8) A - active finishing (8) In addition to the standard nucleotide codes, the raw sequence files from NCBI also include IUPAC ambiguity codes for bases that could not be positively identified as A, C, G or T (see Wikipedia's IUPAC notation article for more information). As part of the UCSC assembly creation process, all IUPAC ambiguity characters are converted to Ns. The FASTA files available for download from UCSC reflect this. The raw data files containing the original IUPAC characters can be downloaded from the NCBI FTP site. The following table lists the counts by chromosome of the various IUPAC ambiguity characters in the original NCBI data files: chromosome 1 2 3 6 7 9 10 12 13 16 17 21 22 X Y Total code B 1 1 2 K 1 4 1 2 8 M 1 1 3 1 2 8 R 1 1 1 1 1 13 1 3 1 2 1 1 27 S 1 1 1 1 1 5 W 2 2 6 1 1 1 1 14 Y 4 3 1 2 2 8 2 2 5 2 2 2 35 Total 2 9 7 1 4 3 36 3 3 1 12 3 5 5 5 99 
augustusGene AUGUSTUS AUGUSTUS ab initio gene predictions v3.1 Genes and Gene Predictions Description This track shows ab initio predictions from the program AUGUSTUS (version 3.1). The predictions are based on the genome sequence alone. For more information on the different gene tracks, see our Genes FAQ. Methods Statistical signal models were built for splice sites, branch-point patterns, translation start sites, and the poly-A signal. Furthermore, models were built for the sequence content of protein-coding and non-coding regions as well as for the length distributions of different exon and intron types. Detailed descriptions of most of these different models can be found in Mario Stanke's dissertation. This track shows the most likely gene structure according to a Semi-Markov Conditional Random Field model. Alternative splicing transcripts were obtained with a sampling algorithm (--alternatives-from-sampling=true --sample=100 --minexonintronprob=0.2 --minmeanexonintronprob=0.5 --maxtracks=3 --temperature=2). The different models used by Augustus were trained on a number of different species-specific gene sets, which included 1000-2000 training gene structures. The --species option allows one to choose the species used for training the models. Different training species were used for the --species option when generating these predictions for different groups of assemblies. Assembly Group Training Species Fish zebrafish Birds chicken Human and all other vertebrates human Nematodes caenorhabditis Drosophila fly A. mellifera honeybee1 A. gambiae culex S. cerevisiae saccharomyces This table describes which training species was used for a particular group of assemblies. When available, the closest related training species was used. Credits Thanks to the Stanke lab for providing the AUGUSTUS program. The training for the chicken version was done by Stefanie K&ouml;nig and the training for the human and zebrafish versions was done by Mario Stanke. References Stanke M, Diekhans M, Baertsch R, Haussler D. Using native and syntenically mapped cDNA alignments to improve de novo gene finding. Bioinformatics. 2008 Mar 1;24(5):637-44. PMID: 18218656 Stanke M, Waack S. Gene prediction with a hidden Markov model and a new intron submodel. Bioinformatics. 2003 Oct;19 Suppl 2:ii215-25. PMID: 14534192 
genePredArchive Prediction Archive Gene Prediction Archive Genes and Gene Predictions Description This supertrack is a collection of gene prediction tracks and is composed of the following tracks: AUGUSTUS shows ab initio predictions from the program AUGUSTUS (version 3.1). The predictions are based on the genome sequence alone. Geneid Genes shows gene predictions from the geneid program. Geneid is a program to predict genes in anonymous genomic sequences designed with a hierarchical structure. Genscan Genes shows predictions from the Genscan program. The predictions are based on transcriptional, translational and donor/acceptor splicing signals as well as the length and compositional distributions of exons, introns and intergenic regions. SGP Genes shows gene predictions from the SGP2 homology-based gene prediction program. To predict genes in a genomic query, SGP2 combines geneid predictions with tblastx comparisons of the genome of the target species against genomic sequences of other species (reference genomes) deemed to be at an appropriate evolutionary distance from the target. SIB Genes a transcript-based set of gene predictions based on data from RefSeq and EMBL/GenBank. The track includes both protein-coding and non-coding transcripts. The coding regions are predicted using ESTScan. More information about display conventions, methods, credits, and references can be found on each subtrack's description page. 
avada Avada Variants Avada Variants extracted from full text publications Phenotypes, Variants, and Literature Description The tracks that are listed here contain genetic variants and links to scientific publications that mention them. The Mastermind track was created by Genomenon, a company that analyzes fulltext of publications with their own proprietary software with an unknown false positive rate. The VarChat track was created by enGenome and links to its proprietary software, VarChat, with an unknown false positive rate. The AVADA track was created in the Bejerano lab at Stanford by J. Birgmeier also on fulltext papers, using sophisticated machine learning methods and was evaluated to have a false positive rate of around 50% in their study. The PubTator rsIDs track was created using PubTator 3 data. The Varaico tracks were created using literature mining in a fashion similar to AVADA. Coloring is a gradient between blue and red, and represent the number of publications per variant. See the Varaico website for more details. For additional information please click on the hyperlink of the respective track above. Display conventions By default, each variant is labeled with the nucleotide change. Hover over the feature to see more information, explained on the track details page of the particular track or when clicking onto the feature. Credits For data provenance, access and descriptions, please click the documentation via the link above. 
varsInPubs Variants in Papers Genetic Variants mentioned in scientific publications Phenotypes, Variants, and Literature Description The tracks that are listed here contain genetic variants and links to scientific publications that mention them. The Mastermind track was created by Genomenon, a company that analyzes fulltext of publications with their own proprietary software with an unknown false positive rate. The VarChat track was created by enGenome and links to its proprietary software, VarChat, with an unknown false positive rate. The AVADA track was created in the Bejerano lab at Stanford by J. Birgmeier also on fulltext papers, using sophisticated machine learning methods and was evaluated to have a false positive rate of around 50% in their study. The PubTator rsIDs track was created using PubTator 3 data. The Varaico tracks were created using literature mining in a fashion similar to AVADA. Coloring is a gradient between blue and red, and represent the number of publications per variant. See the Varaico website for more details. For additional information please click on the hyperlink of the respective track above. Display conventions By default, each variant is labeled with the nucleotide change. Hover over the feature to see more information, explained on the track details page of the particular track or when clicking onto the feature. Credits For data provenance, access and descriptions, please click the documentation via the link above. 
bismap Bismap Single-read and multi-read mappability after bisulfite conversion Mapping and Sequencing Description These tracks indicate regions with uniquely mappable reads of particular lengths before and after bisulfite conversion. Both Umap and Bismap tracks contain single-read mappability and multi-read mappability tracks for four different read lengths: 24 bp, 36 bp, 50 bp, and 100 bp. You can use these tracks for many purposes, including filtering unreliable signal from sequencing assays. The Bismap track can help filter unreliable signal from sequencing assays involving bisulfite conversion, such as whole-genome bisulfite sequencing or reduced representation bisulfite sequencing. Bismap single-read and multi-read mappability Bismap single-read mappability These tracks mark any region of the bisulfite-converted genome that is uniquely mappable by at least one k-mer on the specified strand. Mappability of the forward strand was generated by converting all instances of cytosine to thymine. Similarly, mappability of the reverse strand was generated by converting all instances of guanine to adenine. To calculate the single-read mappability, you must find the overlap of a given region with the region that is uniquely mappable on both strands. Regions not uniquely mappable on both strands or have a low multi-read mappability might bias the downstream analysis. Bismap multi-read mappability These tracks represent the probability that a randomly selected k-mer which overlaps with a given position is uniquely mappable. Multi-read mappability track is calculated for k-mers that are uniquely mappable on both strands, and thus there is no strand specification. Umap single-read and multi-read mappability Umap single-read mappability These tracks mark any region of the genome that is uniquely mappable by at least one k-mer. To calculate the single-read mappability, you must find the overlap of a given region with this track. Umap multi-read mappability These tracks represent the probability that a randomly selected k-mer which overlaps with a given position is uniquely mappable. For greater detail and explanatory diagrams, see the preprint, the Umap and Bismap project website, or the Umap and Bismap software documentation. Data Access The raw data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, genome annotation is stored in a bigBed or bigWig file that can be downloaded from the download server. Individual regions or the whole genome annotation can be obtained using our tool bigBedToBed or bigWigToWig, which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tool can also be used to obtain only features within a given range, for example: bigBedToBed -chrom=chr6 -start=0 -end=1000000 http://hgdownload.soe.ucsc.edu/gbdb/hg38/hoffmanMappability/k24.Unique.Mappability.bb stdout bigWigToWig -chrom=chr6 -start=0 -end=1000000 http://hgdownload.soe.ucsc.edu/gbdb/hg38/hoffmanMappability/k24.Umap.MultiTrackMappability.bw stdout Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credits Anshul Kundaje (Stanford University) created the original Umap software in MATLAB. The original Umap repository is available here. Mehran Karimzadeh (Michael Hoffman lab, Princess Margaret Cancer Centre) implemented the Python version of Umap and added features, including Bismap. References Karimzadeh M, Ernst C, Kundaje A, Hoffman MM., Umap and Bismap: quantifying genome and methylome mappability bioRxiv bioRxiv, p. 095463, 2016.; doi: https://doi.org/10.1101/095463. 
mappability Mappability Hoffman Lab Umap and Bismap Mappability Mapping and Sequencing Description These tracks indicate regions with uniquely mappable reads of particular lengths before and after bisulfite conversion. Both Umap and Bismap tracks contain single-read mappability and multi-read mappability tracks for four different read lengths: 24 bp, 36 bp, 50 bp, and 100 bp. You can use these tracks for many purposes, including filtering unreliable signal from sequencing assays. The Bismap track can help filter unreliable signal from sequencing assays involving bisulfite conversion, such as whole-genome bisulfite sequencing or reduced representation bisulfite sequencing. Bismap single-read and multi-read mappability Bismap single-read mappability These tracks mark any region of the bisulfite-converted genome that is uniquely mappable by at least one k-mer on the specified strand. Mappability of the forward strand was generated by converting all instances of cytosine to thymine. Similarly, mappability of the reverse strand was generated by converting all instances of guanine to adenine. To calculate the single-read mappability, you must find the overlap of a given region with the region that is uniquely mappable on both strands. Regions not uniquely mappable on both strands or have a low multi-read mappability might bias the downstream analysis. Bismap multi-read mappability These tracks represent the probability that a randomly selected k-mer which overlaps with a given position is uniquely mappable. Multi-read mappability track is calculated for k-mers that are uniquely mappable on both strands, and thus there is no strand specification. Umap single-read and multi-read mappability Umap single-read mappability These tracks mark any region of the genome that is uniquely mappable by at least one k-mer. To calculate the single-read mappability, you must find the overlap of a given region with this track. Umap multi-read mappability These tracks represent the probability that a randomly selected k-mer which overlaps with a given position is uniquely mappable. For greater detail and explanatory diagrams, see the preprint, the Umap and Bismap project website, or the Umap and Bismap software documentation. Data Access The raw data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, genome annotation is stored in a bigBed or bigWig file that can be downloaded from the download server. Individual regions or the whole genome annotation can be obtained using our tool bigBedToBed or bigWigToWig, which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tool can also be used to obtain only features within a given range, for example: bigBedToBed -chrom=chr6 -start=0 -end=1000000 http://hgdownload.soe.ucsc.edu/gbdb/hg38/hoffmanMappability/k24.Unique.Mappability.bb stdout bigWigToWig -chrom=chr6 -start=0 -end=1000000 http://hgdownload.soe.ucsc.edu/gbdb/hg38/hoffmanMappability/k24.Umap.MultiTrackMappability.bw stdout Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credits Anshul Kundaje (Stanford University) created the original Umap software in MATLAB. The original Umap repository is available here. Mehran Karimzadeh (Michael Hoffman lab, Princess Margaret Cancer Centre) implemented the Python version of Umap and added features, including Bismap. References Karimzadeh M, Ernst C, Kundaje A, Hoffman MM., Umap and Bismap: quantifying genome and methylome mappability bioRxiv bioRxiv, p. 095463, 2016.; doi: https://doi.org/10.1101/095463. 
bismapBigBed Single-read mappability Single-read and multi-read mappability after bisulfite conversion Mapping and Sequencing 
bismap50Neg Bismap S50 - Single-read mappability with 50-mers after bisulfite conversion (reverse strand) Mapping and Sequencing 
bismap100Neg Bismap S100 - Single-read mappability with 100-mers after bisulfite conversion (reverse strand) Mapping and Sequencing 
bismap36Neg Bismap S36 - Single-read mappability with 36-mers after bisulfite conversion (reverse strand) Mapping and Sequencing 
bismap24Neg Bismap S24 - Single-read mappability with 24-mers after bisulfite conversion (reverse strand) Mapping and Sequencing 
bismap100Pos Bismap S100 + Single-read mappability with 100-mers after bisulfite conversion (forward strand) Mapping and Sequencing 
bismap50Pos Bismap S50 + Single-read mappability with 50-mers after bisulfite conversion (forward strand) Mapping and Sequencing 
bismap36Pos Bismap S36 + Single-read mappability with 36-mers after bisulfite conversion (forward strand) Mapping and Sequencing 
bismap24Pos Bismap S24 + Single-read mappability with 24-mers after bisulfite conversion (forward strand) Mapping and Sequencing 
bismapBigWig Multi-read mappability Single-read and multi-read mappability after bisulfite conversion Mapping and Sequencing 
bismap100Quantitative Bismap M100 Multi-read mappability with 100-mers after bisulfite conversion Mapping and Sequencing 
bismap50Quantitative Bismap M50 Multi-read mappability with 50-mers after bisulfite conversion Mapping and Sequencing 
bismap36Quantitative Bismap M36 Multi-read mappability with 36-mers after bisulfite conversion Mapping and Sequencing 
bismap24Quantitative Bismap M24 Multi-read mappability with 24-mers after bisulfite conversion Mapping and Sequencing 
bloodHaoCellType Blood PBMC Cells Blood (PBMCs) binned by cell type (level 1) from Hao et al 2020 Single Cell RNA-seq Description This track displays data from Integrated analysis of multimodal single-cell data. Human peripheral blood mononuclear cells (PBMCs) taken from pre-vaccinated and post-vaccinated individuals were profiled using both CITE-seq and ECCITE-seq. A total of 57 cell type clusters were identified and each cluster included cells from all 24 samples with rare exceptions. This dataset contains three annotations for cell clustering: Level 1 (8 cell types), Level 2 (30 cell types), Level 3 (57 cell types). This track collection contains six bar chart tracks of RNA expression in PBMCs where cells are grouped by cell type level 1 (Blood PBMC Cells), cell type level 2 (Blood PBMC Cells 2), cell type level 3 (Blood PBMC Cells 3), donor (Blood PBMC Donor), phase of cell cycle (Blood PBMC Phase), or time into experiment (Blood PBMC Time). The default track displayed is Blood PBMC Cells. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification immune Cells that fall into multiple classes will be colored by blending the colors associated with those classes. Method PBMC samples were taken from 8 volunteers ages 20-49 enrolled in an HIV vaccine trial (NCT01578889). A total of 24 blood samples were collected at 3 time points: day 0 (the day before), day 3, and day 7 after the administration of a VSV-vectored HIV vaccine. Samples were collected at these different time points to minimize batch effects. Cells were then divided into separate aliquots for modified versions of the 3' CITE-seq and 5' ECCITE-seq staining protocols. In the 3' CITE-seq staining protocol, the samples are simultaneously stained with the antibody and unique hashtag. Whereas, 5' ECCITE-seq samples are stained first with a unique hashtag. 3' libraries were loaded into 8 lanes of a 10x Genomics Chip B using the 10x Genomics 3' v3 kit. 5' libraries were loaded into 2 lanes of a 10x Genomics Chip A using the 10x Genomics V(D)J kit (v1). Both 3' and 5' libraries were pooled together and sequenced on an Illumina Novaseq S4 flowcell. In total, 210,911 cells were profiled after quality control and doublet filtration. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Yuhan Hao, Stephanie Hao, and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Jairo Navarro. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Hao Y, Hao S, Andersen-Nissen E, Mauck WM 3rd, Zheng S, Butler A, Lee MJ, Wilk AJ, Darby C, Zager M et al. Integrated analysis of multimodal single-cell data. Cell. 2021 Jun 24;184(13):3573-3587.e29. PMID: 34062119; PMC: PMC8238499 
bloodHao Blood (PBMC) Hao Peripheral blood mononuclear cells (PBMC) from Hao et al 2020 Single Cell RNA-seq Description This track displays data from Integrated analysis of multimodal single-cell data. Human peripheral blood mononuclear cells (PBMCs) taken from pre-vaccinated and post-vaccinated individuals were profiled using both CITE-seq and ECCITE-seq. A total of 57 cell type clusters were identified and each cluster included cells from all 24 samples with rare exceptions. This dataset contains three annotations for cell clustering: Level 1 (8 cell types), Level 2 (30 cell types), Level 3 (57 cell types). This track collection contains six bar chart tracks of RNA expression in PBMCs where cells are grouped by cell type level 1 (Blood PBMC Cells), cell type level 2 (Blood PBMC Cells 2), cell type level 3 (Blood PBMC Cells 3), donor (Blood PBMC Donor), phase of cell cycle (Blood PBMC Phase), or time into experiment (Blood PBMC Time). The default track displayed is Blood PBMC Cells. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification immune Cells that fall into multiple classes will be colored by blending the colors associated with those classes. Method PBMC samples were taken from 8 volunteers ages 20-49 enrolled in an HIV vaccine trial (NCT01578889). A total of 24 blood samples were collected at 3 time points: day 0 (the day before), day 3, and day 7 after the administration of a VSV-vectored HIV vaccine. Samples were collected at these different time points to minimize batch effects. Cells were then divided into separate aliquots for modified versions of the 3' CITE-seq and 5' ECCITE-seq staining protocols. In the 3' CITE-seq staining protocol, the samples are simultaneously stained with the antibody and unique hashtag. Whereas, 5' ECCITE-seq samples are stained first with a unique hashtag. 3' libraries were loaded into 8 lanes of a 10x Genomics Chip B using the 10x Genomics 3' v3 kit. 5' libraries were loaded into 2 lanes of a 10x Genomics Chip A using the 10x Genomics V(D)J kit (v1). Both 3' and 5' libraries were pooled together and sequenced on an Illumina Novaseq S4 flowcell. In total, 210,911 cells were profiled after quality control and doublet filtration. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Yuhan Hao, Stephanie Hao, and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Jairo Navarro. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Hao Y, Hao S, Andersen-Nissen E, Mauck WM 3rd, Zheng S, Butler A, Lee MJ, Wilk AJ, Darby C, Zager M et al. Integrated analysis of multimodal single-cell data. Cell. 2021 Jun 24;184(13):3573-3587.e29. PMID: 34062119; PMC: PMC8238499 
bloodHaoL2 Blood PBMC Cells 2 Blood PBMCs binned by cell type (level 2) from Hao et al 2020 Single Cell RNA-seq Description This track displays data from Integrated analysis of multimodal single-cell data. Human peripheral blood mononuclear cells (PBMCs) taken from pre-vaccinated and post-vaccinated individuals were profiled using both CITE-seq and ECCITE-seq. A total of 57 cell type clusters were identified and each cluster included cells from all 24 samples with rare exceptions. This dataset contains three annotations for cell clustering: Level 1 (8 cell types), Level 2 (30 cell types), Level 3 (57 cell types). This track collection contains six bar chart tracks of RNA expression in PBMCs where cells are grouped by cell type level 1 (Blood PBMC Cells), cell type level 2 (Blood PBMC Cells 2), cell type level 3 (Blood PBMC Cells 3), donor (Blood PBMC Donor), phase of cell cycle (Blood PBMC Phase), or time into experiment (Blood PBMC Time). The default track displayed is Blood PBMC Cells. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification immune Cells that fall into multiple classes will be colored by blending the colors associated with those classes. Method PBMC samples were taken from 8 volunteers ages 20-49 enrolled in an HIV vaccine trial (NCT01578889). A total of 24 blood samples were collected at 3 time points: day 0 (the day before), day 3, and day 7 after the administration of a VSV-vectored HIV vaccine. Samples were collected at these different time points to minimize batch effects. Cells were then divided into separate aliquots for modified versions of the 3' CITE-seq and 5' ECCITE-seq staining protocols. In the 3' CITE-seq staining protocol, the samples are simultaneously stained with the antibody and unique hashtag. Whereas, 5' ECCITE-seq samples are stained first with a unique hashtag. 3' libraries were loaded into 8 lanes of a 10x Genomics Chip B using the 10x Genomics 3' v3 kit. 5' libraries were loaded into 2 lanes of a 10x Genomics Chip A using the 10x Genomics V(D)J kit (v1). Both 3' and 5' libraries were pooled together and sequenced on an Illumina Novaseq S4 flowcell. In total, 210,911 cells were profiled after quality control and doublet filtration. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Yuhan Hao, Stephanie Hao, and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Jairo Navarro. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Hao Y, Hao S, Andersen-Nissen E, Mauck WM 3rd, Zheng S, Butler A, Lee MJ, Wilk AJ, Darby C, Zager M et al. Integrated analysis of multimodal single-cell data. Cell. 2021 Jun 24;184(13):3573-3587.e29. PMID: 34062119; PMC: PMC8238499 
bloodHaoL3 Blood PBMC Cells 3 Blood PBMCs binned by cell type (level 3) from Hao et al 2020 Single Cell RNA-seq Description This track displays data from Integrated analysis of multimodal single-cell data. Human peripheral blood mononuclear cells (PBMCs) taken from pre-vaccinated and post-vaccinated individuals were profiled using both CITE-seq and ECCITE-seq. A total of 57 cell type clusters were identified and each cluster included cells from all 24 samples with rare exceptions. This dataset contains three annotations for cell clustering: Level 1 (8 cell types), Level 2 (30 cell types), Level 3 (57 cell types). This track collection contains six bar chart tracks of RNA expression in PBMCs where cells are grouped by cell type level 1 (Blood PBMC Cells), cell type level 2 (Blood PBMC Cells 2), cell type level 3 (Blood PBMC Cells 3), donor (Blood PBMC Donor), phase of cell cycle (Blood PBMC Phase), or time into experiment (Blood PBMC Time). The default track displayed is Blood PBMC Cells. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification immune Cells that fall into multiple classes will be colored by blending the colors associated with those classes. Method PBMC samples were taken from 8 volunteers ages 20-49 enrolled in an HIV vaccine trial (NCT01578889). A total of 24 blood samples were collected at 3 time points: day 0 (the day before), day 3, and day 7 after the administration of a VSV-vectored HIV vaccine. Samples were collected at these different time points to minimize batch effects. Cells were then divided into separate aliquots for modified versions of the 3' CITE-seq and 5' ECCITE-seq staining protocols. In the 3' CITE-seq staining protocol, the samples are simultaneously stained with the antibody and unique hashtag. Whereas, 5' ECCITE-seq samples are stained first with a unique hashtag. 3' libraries were loaded into 8 lanes of a 10x Genomics Chip B using the 10x Genomics 3' v3 kit. 5' libraries were loaded into 2 lanes of a 10x Genomics Chip A using the 10x Genomics V(D)J kit (v1). Both 3' and 5' libraries were pooled together and sequenced on an Illumina Novaseq S4 flowcell. In total, 210,911 cells were profiled after quality control and doublet filtration. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Yuhan Hao, Stephanie Hao, and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Jairo Navarro. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Hao Y, Hao S, Andersen-Nissen E, Mauck WM 3rd, Zheng S, Butler A, Lee MJ, Wilk AJ, Darby C, Zager M et al. Integrated analysis of multimodal single-cell data. Cell. 2021 Jun 24;184(13):3573-3587.e29. PMID: 34062119; PMC: PMC8238499 
bloodHaoDonor Blood PBMC Donor Blood PBMCs binned by blood donor from Hao et al 2020 Single Cell RNA-seq Description This track displays data from Integrated analysis of multimodal single-cell data. Human peripheral blood mononuclear cells (PBMCs) taken from pre-vaccinated and post-vaccinated individuals were profiled using both CITE-seq and ECCITE-seq. A total of 57 cell type clusters were identified and each cluster included cells from all 24 samples with rare exceptions. This dataset contains three annotations for cell clustering: Level 1 (8 cell types), Level 2 (30 cell types), Level 3 (57 cell types). This track collection contains six bar chart tracks of RNA expression in PBMCs where cells are grouped by cell type level 1 (Blood PBMC Cells), cell type level 2 (Blood PBMC Cells 2), cell type level 3 (Blood PBMC Cells 3), donor (Blood PBMC Donor), phase of cell cycle (Blood PBMC Phase), or time into experiment (Blood PBMC Time). The default track displayed is Blood PBMC Cells. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification immune Cells that fall into multiple classes will be colored by blending the colors associated with those classes. Method PBMC samples were taken from 8 volunteers ages 20-49 enrolled in an HIV vaccine trial (NCT01578889). A total of 24 blood samples were collected at 3 time points: day 0 (the day before), day 3, and day 7 after the administration of a VSV-vectored HIV vaccine. Samples were collected at these different time points to minimize batch effects. Cells were then divided into separate aliquots for modified versions of the 3' CITE-seq and 5' ECCITE-seq staining protocols. In the 3' CITE-seq staining protocol, the samples are simultaneously stained with the antibody and unique hashtag. Whereas, 5' ECCITE-seq samples are stained first with a unique hashtag. 3' libraries were loaded into 8 lanes of a 10x Genomics Chip B using the 10x Genomics 3' v3 kit. 5' libraries were loaded into 2 lanes of a 10x Genomics Chip A using the 10x Genomics V(D)J kit (v1). Both 3' and 5' libraries were pooled together and sequenced on an Illumina Novaseq S4 flowcell. In total, 210,911 cells were profiled after quality control and doublet filtration. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Yuhan Hao, Stephanie Hao, and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Jairo Navarro. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Hao Y, Hao S, Andersen-Nissen E, Mauck WM 3rd, Zheng S, Butler A, Lee MJ, Wilk AJ, Darby C, Zager M et al. Integrated analysis of multimodal single-cell data. Cell. 2021 Jun 24;184(13):3573-3587.e29. PMID: 34062119; PMC: PMC8238499 
bloodHaoPhase Blood PBMC Phase Blood PBMCs binned by phase of cell cycle from Hao et al 2020 Single Cell RNA-seq Description This track displays data from Integrated analysis of multimodal single-cell data. Human peripheral blood mononuclear cells (PBMCs) taken from pre-vaccinated and post-vaccinated individuals were profiled using both CITE-seq and ECCITE-seq. A total of 57 cell type clusters were identified and each cluster included cells from all 24 samples with rare exceptions. This dataset contains three annotations for cell clustering: Level 1 (8 cell types), Level 2 (30 cell types), Level 3 (57 cell types). This track collection contains six bar chart tracks of RNA expression in PBMCs where cells are grouped by cell type level 1 (Blood PBMC Cells), cell type level 2 (Blood PBMC Cells 2), cell type level 3 (Blood PBMC Cells 3), donor (Blood PBMC Donor), phase of cell cycle (Blood PBMC Phase), or time into experiment (Blood PBMC Time). The default track displayed is Blood PBMC Cells. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification immune Cells that fall into multiple classes will be colored by blending the colors associated with those classes. Method PBMC samples were taken from 8 volunteers ages 20-49 enrolled in an HIV vaccine trial (NCT01578889). A total of 24 blood samples were collected at 3 time points: day 0 (the day before), day 3, and day 7 after the administration of a VSV-vectored HIV vaccine. Samples were collected at these different time points to minimize batch effects. Cells were then divided into separate aliquots for modified versions of the 3' CITE-seq and 5' ECCITE-seq staining protocols. In the 3' CITE-seq staining protocol, the samples are simultaneously stained with the antibody and unique hashtag. Whereas, 5' ECCITE-seq samples are stained first with a unique hashtag. 3' libraries were loaded into 8 lanes of a 10x Genomics Chip B using the 10x Genomics 3' v3 kit. 5' libraries were loaded into 2 lanes of a 10x Genomics Chip A using the 10x Genomics V(D)J kit (v1). Both 3' and 5' libraries were pooled together and sequenced on an Illumina Novaseq S4 flowcell. In total, 210,911 cells were profiled after quality control and doublet filtration. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Yuhan Hao, Stephanie Hao, and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Jairo Navarro. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Hao Y, Hao S, Andersen-Nissen E, Mauck WM 3rd, Zheng S, Butler A, Lee MJ, Wilk AJ, Darby C, Zager M et al. Integrated analysis of multimodal single-cell data. Cell. 2021 Jun 24;184(13):3573-3587.e29. PMID: 34062119; PMC: PMC8238499 
bloodHaoTime Blood PBMC Time Blood PBMCs binned by time into experiment from Hao et al 2020 Single Cell RNA-seq Description This track displays data from Integrated analysis of multimodal single-cell data. Human peripheral blood mononuclear cells (PBMCs) taken from pre-vaccinated and post-vaccinated individuals were profiled using both CITE-seq and ECCITE-seq. A total of 57 cell type clusters were identified and each cluster included cells from all 24 samples with rare exceptions. This dataset contains three annotations for cell clustering: Level 1 (8 cell types), Level 2 (30 cell types), Level 3 (57 cell types). This track collection contains six bar chart tracks of RNA expression in PBMCs where cells are grouped by cell type level 1 (Blood PBMC Cells), cell type level 2 (Blood PBMC Cells 2), cell type level 3 (Blood PBMC Cells 3), donor (Blood PBMC Donor), phase of cell cycle (Blood PBMC Phase), or time into experiment (Blood PBMC Time). The default track displayed is Blood PBMC Cells. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification immune Cells that fall into multiple classes will be colored by blending the colors associated with those classes. Method PBMC samples were taken from 8 volunteers ages 20-49 enrolled in an HIV vaccine trial (NCT01578889). A total of 24 blood samples were collected at 3 time points: day 0 (the day before), day 3, and day 7 after the administration of a VSV-vectored HIV vaccine. Samples were collected at these different time points to minimize batch effects. Cells were then divided into separate aliquots for modified versions of the 3' CITE-seq and 5' ECCITE-seq staining protocols. In the 3' CITE-seq staining protocol, the samples are simultaneously stained with the antibody and unique hashtag. Whereas, 5' ECCITE-seq samples are stained first with a unique hashtag. 3' libraries were loaded into 8 lanes of a 10x Genomics Chip B using the 10x Genomics 3' v3 kit. 5' libraries were loaded into 2 lanes of a 10x Genomics Chip A using the 10x Genomics V(D)J kit (v1). Both 3' and 5' libraries were pooled together and sequenced on an Illumina Novaseq S4 flowcell. In total, 210,911 cells were profiled after quality control and doublet filtration. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Yuhan Hao, Stephanie Hao, and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Jairo Navarro. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Hao Y, Hao S, Andersen-Nissen E, Mauck WM 3rd, Zheng S, Butler A, Lee MJ, Wilk AJ, Darby C, Zager M et al. Integrated analysis of multimodal single-cell data. Cell. 2021 Jun 24;184(13):3573-3587.e29. PMID: 34062119; PMC: PMC8238499 
cadd CADD 1.6 CADD 1.6 Score for all possible single-basepair mutations (zoom in for scores) Phenotypes, Variants, and Literature Description This track collection shows Combined Annotation Dependent Depletion scores. CADD is a tool for scoring the deleteriousness of single nucleotide variants as well as insertion/deletion variants in the human genome. Some mutation annotations tend to exploit a single information type (e.g., phastCons or phyloP for conservation) and/or are restricted in scope (e.g., to missense changes). Thus, a broadly applicable metric that objectively weights and integrates diverse information is needed. Combined Annotation Dependent Depletion (CADD) is a framework that integrates multiple annotations into one metric by contrasting variants that survived natural selection with simulated mutations. CADD scores strongly correlate with allelic diversity, pathogenicity of both coding and non-coding variants, experimentally measured regulatory effects, and also rank causal variants within individual genome sequences with a higher value than non-causal variants. Finally, CADD scores of complex trait-associated variants from genome-wide association studies (GWAS) are significantly higher than matched controls and correlate with study sample size, likely reflecting the increased accuracy of larger GWAS. A CADD score represents a ranking not a prediction, and no threshold is defined for a specific purpose. Higher scores are more likely to be deleterious: Scores are 10 * -log of the rank so that variants with scores above 20 are predicted to be among the 1.0% most deleterious possible substitutions in the human genome. We recommend thinking carefully about what threshold is appropriate for your application. Display Conventions and Configuration There are six subtracks of this track: four for single-nucleotide mutations, one for each base, showing all possible substitutions, one for insertions and one for deletions. All subtracks show the CADD Phred score on mouseover. Zooming in shows the exact score on mouseover, same basepair = score 0.0. PHRED-scaled scores are normalized to all potential &#126;9 billion SNVs, and thereby provide an externally comparable unit for analysis. For example, a scaled score of 10 or greater indicates a raw score in the top 10% of all possible reference genome SNVs, and a score of 20 or greater indicates a raw score in the top 1%, regardless of the details of the annotation set, model parameters, etc. The four single-nucleotide mutation tracks have a default viewing range of score 10 to 50. As explained in the paragraph above, that results in slightly less than 10% of the data displayed. The deletion and insertion tracks have a default filter of 10-100, because they display discrete items and not graphical data. Single nucleotide variants (SNV): For SNVs, at every genome position, there are three values per position, one for every possible nucleotide mutation. The fourth value, &quot;no mutation&quot;, representing the reference allele, e.g., A to A, is always set to zero. When using this track, zoom in until you can see every basepair at the top of the display. Otherwise, there are several nucleotides per pixel under your mouse cursor and instead of an actual score, the tooltip text will show the average score of all nucleotides under the cursor. This is indicated by the prefix &quot;~&quot; in the mouseover. Averages of scores are not useful for any application of CADD. Insertions and deletions: Scores are also shown on mouseover for a set of insertions and deletions. On hg38, the set has been obtained from gnomAD3. On hg19, the set of indels has been obtained from various sources (gnomAD2, ExAC, 1000 Genomes, ESP). If your insertion or deleletion of interest is not in the track, you will need to use CADD's online scoring tool to obtain them. Data access CADD scores are freely available for all non-commercial applications from the CADD website. For commercial applications, see the license instructions there. The CADD data on the UCSC Genome Browser can be explored interactively with the Table Browser or the Data Integrator. For automated download and analysis, the genome annotation is stored at UCSC in bigWig and bigBed files that can be downloaded from our download server. The files for this track are called a.bw, c.bw, g.bw, t.bw, ins.bb and del.bb. Individual regions or the whole genome annotation can be obtained using our tools bigWigToWig or bigBedToBed which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tools can also be used to obtain features confined to a given range, e.g., bigWigToBedGraph -chrom=chr1 -start=100000 -end=100500 http://hgdownload.soe.ucsc.edu/gbdb/hg38/cadd/a.bw stdout or bigBedToBed -chrom=chr1 -start=100000 -end=100500 http://hgdownload.soe.ucsc.edu/gbdb/hg38/cadd/ins.bb stdout Methods Data were converted from the files provided on the CADD Downloads website, provided by the Kircher lab, using custom Python scripts, documented in our makeDoc files. Credits Thanks to the CADD development team for providing precomputed data as simple tab-separated files. References Kircher M, Witten DM, Jain P, O'Roak BJ, Cooper GM, Shendure J. A general framework for estimating the relative pathogenicity of human genetic variants. Nat Genet. 2014 Mar;46(3):310-5. PMID: 24487276; PMC: PMC3992975 Rentzsch P, Witten D, Cooper GM, Shendure J, Kircher M. CADD: predicting the deleteriousness of variants throughout the human genome. Nucleic Acids Res. 2019 Jan 8;47(D1):D886-D894. PMID: 30371827; PMC: PMC6323892 
caddSuper CADD 1.6 CADD 1.6 Score for all single-basepair mutations and selected insertions/deletions Phenotypes, Variants, and Literature Description This track collection shows Combined Annotation Dependent Depletion scores. CADD is a tool for scoring the deleteriousness of single nucleotide variants as well as insertion/deletion variants in the human genome. Some mutation annotations tend to exploit a single information type (e.g., phastCons or phyloP for conservation) and/or are restricted in scope (e.g., to missense changes). Thus, a broadly applicable metric that objectively weights and integrates diverse information is needed. Combined Annotation Dependent Depletion (CADD) is a framework that integrates multiple annotations into one metric by contrasting variants that survived natural selection with simulated mutations. CADD scores strongly correlate with allelic diversity, pathogenicity of both coding and non-coding variants, experimentally measured regulatory effects, and also rank causal variants within individual genome sequences with a higher value than non-causal variants. Finally, CADD scores of complex trait-associated variants from genome-wide association studies (GWAS) are significantly higher than matched controls and correlate with study sample size, likely reflecting the increased accuracy of larger GWAS. A CADD score represents a ranking not a prediction, and no threshold is defined for a specific purpose. Higher scores are more likely to be deleterious: Scores are 10 * -log of the rank so that variants with scores above 20 are predicted to be among the 1.0% most deleterious possible substitutions in the human genome. We recommend thinking carefully about what threshold is appropriate for your application. Display Conventions and Configuration There are six subtracks of this track: four for single-nucleotide mutations, one for each base, showing all possible substitutions, one for insertions and one for deletions. All subtracks show the CADD Phred score on mouseover. Zooming in shows the exact score on mouseover, same basepair = score 0.0. PHRED-scaled scores are normalized to all potential &#126;9 billion SNVs, and thereby provide an externally comparable unit for analysis. For example, a scaled score of 10 or greater indicates a raw score in the top 10% of all possible reference genome SNVs, and a score of 20 or greater indicates a raw score in the top 1%, regardless of the details of the annotation set, model parameters, etc. The four single-nucleotide mutation tracks have a default viewing range of score 10 to 50. As explained in the paragraph above, that results in slightly less than 10% of the data displayed. The deletion and insertion tracks have a default filter of 10-100, because they display discrete items and not graphical data. Single nucleotide variants (SNV): For SNVs, at every genome position, there are three values per position, one for every possible nucleotide mutation. The fourth value, &quot;no mutation&quot;, representing the reference allele, e.g., A to A, is always set to zero. When using this track, zoom in until you can see every basepair at the top of the display. Otherwise, there are several nucleotides per pixel under your mouse cursor and instead of an actual score, the tooltip text will show the average score of all nucleotides under the cursor. This is indicated by the prefix &quot;~&quot; in the mouseover. Averages of scores are not useful for any application of CADD. Insertions and deletions: Scores are also shown on mouseover for a set of insertions and deletions. On hg38, the set has been obtained from gnomAD3. On hg19, the set of indels has been obtained from various sources (gnomAD2, ExAC, 1000 Genomes, ESP). If your insertion or deleletion of interest is not in the track, you will need to use CADD's online scoring tool to obtain them. Data access CADD scores are freely available for all non-commercial applications from the CADD website. For commercial applications, see the license instructions there. The CADD data on the UCSC Genome Browser can be explored interactively with the Table Browser or the Data Integrator. For automated download and analysis, the genome annotation is stored at UCSC in bigWig and bigBed files that can be downloaded from our download server. The files for this track are called a.bw, c.bw, g.bw, t.bw, ins.bb and del.bb. Individual regions or the whole genome annotation can be obtained using our tools bigWigToWig or bigBedToBed which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tools can also be used to obtain features confined to a given range, e.g., bigWigToBedGraph -chrom=chr1 -start=100000 -end=100500 http://hgdownload.soe.ucsc.edu/gbdb/hg38/cadd/a.bw stdout or bigBedToBed -chrom=chr1 -start=100000 -end=100500 http://hgdownload.soe.ucsc.edu/gbdb/hg38/cadd/ins.bb stdout Methods Data were converted from the files provided on the CADD Downloads website, provided by the Kircher lab, using custom Python scripts, documented in our makeDoc files. Credits Thanks to the CADD development team for providing precomputed data as simple tab-separated files. References Kircher M, Witten DM, Jain P, O'Roak BJ, Cooper GM, Shendure J. A general framework for estimating the relative pathogenicity of human genetic variants. Nat Genet. 2014 Mar;46(3):310-5. PMID: 24487276; PMC: PMC3992975 Rentzsch P, Witten D, Cooper GM, Shendure J, Kircher M. CADD: predicting the deleteriousness of variants throughout the human genome. Nucleic Acids Res. 2019 Jan 8;47(D1):D886-D894. PMID: 30371827; PMC: PMC6323892 
caddT Mutation: T CADD 1.6 Score: Mutation is T Phenotypes, Variants, and Literature 
caddG Mutation: G CADD 1.6 Score: Mutation is G Phenotypes, Variants, and Literature 
caddC Mutation: C CADD 1.6 Score: Mutation is C Phenotypes, Variants, and Literature 
caddA Mutation: A CADD 1.6 Score: Mutation is A Phenotypes, Variants, and Literature 
caddDel CADD 1.6 Del CADD 1.6 Score: Deletions - label is length of deletion Phenotypes, Variants, and Literature Description This track collection shows Combined Annotation Dependent Depletion scores. CADD is a tool for scoring the deleteriousness of single nucleotide variants as well as insertion/deletion variants in the human genome. Some mutation annotations tend to exploit a single information type (e.g., phastCons or phyloP for conservation) and/or are restricted in scope (e.g., to missense changes). Thus, a broadly applicable metric that objectively weights and integrates diverse information is needed. Combined Annotation Dependent Depletion (CADD) is a framework that integrates multiple annotations into one metric by contrasting variants that survived natural selection with simulated mutations. CADD scores strongly correlate with allelic diversity, pathogenicity of both coding and non-coding variants, experimentally measured regulatory effects, and also rank causal variants within individual genome sequences with a higher value than non-causal variants. Finally, CADD scores of complex trait-associated variants from genome-wide association studies (GWAS) are significantly higher than matched controls and correlate with study sample size, likely reflecting the increased accuracy of larger GWAS. A CADD score represents a ranking not a prediction, and no threshold is defined for a specific purpose. Higher scores are more likely to be deleterious: Scores are 10 * -log of the rank so that variants with scores above 20 are predicted to be among the 1.0% most deleterious possible substitutions in the human genome. We recommend thinking carefully about what threshold is appropriate for your application. Display Conventions and Configuration There are six subtracks of this track: four for single-nucleotide mutations, one for each base, showing all possible substitutions, one for insertions and one for deletions. All subtracks show the CADD Phred score on mouseover. Zooming in shows the exact score on mouseover, same basepair = score 0.0. PHRED-scaled scores are normalized to all potential &#126;9 billion SNVs, and thereby provide an externally comparable unit for analysis. For example, a scaled score of 10 or greater indicates a raw score in the top 10% of all possible reference genome SNVs, and a score of 20 or greater indicates a raw score in the top 1%, regardless of the details of the annotation set, model parameters, etc. The four single-nucleotide mutation tracks have a default viewing range of score 10 to 50. As explained in the paragraph above, that results in slightly less than 10% of the data displayed. The deletion and insertion tracks have a default filter of 10-100, because they display discrete items and not graphical data. Single nucleotide variants (SNV): For SNVs, at every genome position, there are three values per position, one for every possible nucleotide mutation. The fourth value, &quot;no mutation&quot;, representing the reference allele, e.g., A to A, is always set to zero. When using this track, zoom in until you can see every basepair at the top of the display. Otherwise, there are several nucleotides per pixel under your mouse cursor and instead of an actual score, the tooltip text will show the average score of all nucleotides under the cursor. This is indicated by the prefix &quot;~&quot; in the mouseover. Averages of scores are not useful for any application of CADD. Insertions and deletions: Scores are also shown on mouseover for a set of insertions and deletions. On hg38, the set has been obtained from gnomAD3. On hg19, the set of indels has been obtained from various sources (gnomAD2, ExAC, 1000 Genomes, ESP). If your insertion or deleletion of interest is not in the track, you will need to use CADD's online scoring tool to obtain them. Data access CADD scores are freely available for all non-commercial applications from the CADD website. For commercial applications, see the license instructions there. The CADD data on the UCSC Genome Browser can be explored interactively with the Table Browser or the Data Integrator. For automated download and analysis, the genome annotation is stored at UCSC in bigWig and bigBed files that can be downloaded from our download server. The files for this track are called a.bw, c.bw, g.bw, t.bw, ins.bb and del.bb. Individual regions or the whole genome annotation can be obtained using our tools bigWigToWig or bigBedToBed which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tools can also be used to obtain features confined to a given range, e.g., bigWigToBedGraph -chrom=chr1 -start=100000 -end=100500 http://hgdownload.soe.ucsc.edu/gbdb/hg38/cadd/a.bw stdout or bigBedToBed -chrom=chr1 -start=100000 -end=100500 http://hgdownload.soe.ucsc.edu/gbdb/hg38/cadd/ins.bb stdout Methods Data were converted from the files provided on the CADD Downloads website, provided by the Kircher lab, using custom Python scripts, documented in our makeDoc files. Credits Thanks to the CADD development team for providing precomputed data as simple tab-separated files. References Kircher M, Witten DM, Jain P, O'Roak BJ, Cooper GM, Shendure J. A general framework for estimating the relative pathogenicity of human genetic variants. Nat Genet. 2014 Mar;46(3):310-5. PMID: 24487276; PMC: PMC3992975 Rentzsch P, Witten D, Cooper GM, Shendure J, Kircher M. CADD: predicting the deleteriousness of variants throughout the human genome. Nucleic Acids Res. 2019 Jan 8;47(D1):D886-D894. PMID: 30371827; PMC: PMC6323892 
caddIns CADD 1.6 Ins CADD 1.6 Score: Insertions - label is length of insertion Phenotypes, Variants, and Literature Description This track collection shows Combined Annotation Dependent Depletion scores. CADD is a tool for scoring the deleteriousness of single nucleotide variants as well as insertion/deletion variants in the human genome. Some mutation annotations tend to exploit a single information type (e.g., phastCons or phyloP for conservation) and/or are restricted in scope (e.g., to missense changes). Thus, a broadly applicable metric that objectively weights and integrates diverse information is needed. Combined Annotation Dependent Depletion (CADD) is a framework that integrates multiple annotations into one metric by contrasting variants that survived natural selection with simulated mutations. CADD scores strongly correlate with allelic diversity, pathogenicity of both coding and non-coding variants, experimentally measured regulatory effects, and also rank causal variants within individual genome sequences with a higher value than non-causal variants. Finally, CADD scores of complex trait-associated variants from genome-wide association studies (GWAS) are significantly higher than matched controls and correlate with study sample size, likely reflecting the increased accuracy of larger GWAS. A CADD score represents a ranking not a prediction, and no threshold is defined for a specific purpose. Higher scores are more likely to be deleterious: Scores are 10 * -log of the rank so that variants with scores above 20 are predicted to be among the 1.0% most deleterious possible substitutions in the human genome. We recommend thinking carefully about what threshold is appropriate for your application. Display Conventions and Configuration There are six subtracks of this track: four for single-nucleotide mutations, one for each base, showing all possible substitutions, one for insertions and one for deletions. All subtracks show the CADD Phred score on mouseover. Zooming in shows the exact score on mouseover, same basepair = score 0.0. PHRED-scaled scores are normalized to all potential &#126;9 billion SNVs, and thereby provide an externally comparable unit for analysis. For example, a scaled score of 10 or greater indicates a raw score in the top 10% of all possible reference genome SNVs, and a score of 20 or greater indicates a raw score in the top 1%, regardless of the details of the annotation set, model parameters, etc. The four single-nucleotide mutation tracks have a default viewing range of score 10 to 50. As explained in the paragraph above, that results in slightly less than 10% of the data displayed. The deletion and insertion tracks have a default filter of 10-100, because they display discrete items and not graphical data. Single nucleotide variants (SNV): For SNVs, at every genome position, there are three values per position, one for every possible nucleotide mutation. The fourth value, &quot;no mutation&quot;, representing the reference allele, e.g., A to A, is always set to zero. When using this track, zoom in until you can see every basepair at the top of the display. Otherwise, there are several nucleotides per pixel under your mouse cursor and instead of an actual score, the tooltip text will show the average score of all nucleotides under the cursor. This is indicated by the prefix &quot;~&quot; in the mouseover. Averages of scores are not useful for any application of CADD. Insertions and deletions: Scores are also shown on mouseover for a set of insertions and deletions. On hg38, the set has been obtained from gnomAD3. On hg19, the set of indels has been obtained from various sources (gnomAD2, ExAC, 1000 Genomes, ESP). If your insertion or deleletion of interest is not in the track, you will need to use CADD's online scoring tool to obtain them. Data access CADD scores are freely available for all non-commercial applications from the CADD website. For commercial applications, see the license instructions there. The CADD data on the UCSC Genome Browser can be explored interactively with the Table Browser or the Data Integrator. For automated download and analysis, the genome annotation is stored at UCSC in bigWig and bigBed files that can be downloaded from our download server. The files for this track are called a.bw, c.bw, g.bw, t.bw, ins.bb and del.bb. Individual regions or the whole genome annotation can be obtained using our tools bigWigToWig or bigBedToBed which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tools can also be used to obtain features confined to a given range, e.g., bigWigToBedGraph -chrom=chr1 -start=100000 -end=100500 http://hgdownload.soe.ucsc.edu/gbdb/hg38/cadd/a.bw stdout or bigBedToBed -chrom=chr1 -start=100000 -end=100500 http://hgdownload.soe.ucsc.edu/gbdb/hg38/cadd/ins.bb stdout Methods Data were converted from the files provided on the CADD Downloads website, provided by the Kircher lab, using custom Python scripts, documented in our makeDoc files. Credits Thanks to the CADD development team for providing precomputed data as simple tab-separated files. References Kircher M, Witten DM, Jain P, O'Roak BJ, Cooper GM, Shendure J. A general framework for estimating the relative pathogenicity of human genetic variants. Nat Genet. 2014 Mar;46(3):310-5. PMID: 24487276; PMC: PMC3992975 Rentzsch P, Witten D, Cooper GM, Shendure J, Kircher M. CADD: predicting the deleteriousness of variants throughout the human genome. Nucleic Acids Res. 2019 Jan 8;47(D1):D886-D894. PMID: 30371827; PMC: PMC6323892 
cadd1_7 CADD 1.7 CADD 1.7 Score for all possible single-basepair mutations (zoom in for scores) Phenotypes, Variants, and Literature Description This track collection shows Combined Annotation Dependent Depletion scores. CADD is a tool for scoring the deleteriousness of single nucleotide variants as well as insertion/deletion variants in the human genome. Some mutation annotations tend to exploit a single information type (e.g., phastCons or phyloP for conservation) and/or are restricted in scope (e.g., to missense changes). Thus, a broadly applicable metric that objectively weights and integrates diverse information is needed. Combined Annotation Dependent Depletion (CADD) is a framework that integrates multiple annotations into one metric by contrasting variants that survived natural selection with simulated mutations. CADD scores strongly correlate with allelic diversity, pathogenicity of both coding and non-coding variants, experimentally measured regulatory effects, and also rank causal variants within individual genome sequences with a higher value than non-causal variants. Finally, CADD scores of complex trait-associated variants from genome-wide association studies (GWAS) are significantly higher than matched controls and correlate with study sample size, likely reflecting the increased accuracy of larger GWAS. A CADD score represents a ranking not a prediction, and no threshold is defined for a specific purpose. Higher scores are more likely to be deleterious: Scores are 10 * -log of the rank so that variants with scores above 20 are predicted to be among the 1.0% most deleterious possible substitutions in the human genome. We recommend thinking carefully about what threshold is appropriate for your application. Display Conventions and Configuration There are six subtracks of this track: four for single-nucleotide mutations, one for each base, showing all possible substitutions, one for insertions and one for deletions. All subtracks show the CADD Phred score on mouseover. Zooming in shows the exact score on mouseover, same basepair = score 0.0. PHRED-scaled scores are normalized to all potential &#126;9 billion SNVs, and thereby provide an externally comparable unit for analysis. For example, a scaled score of 10 or greater indicates a raw score in the top 10% of all possible reference genome SNVs, and a score of 20 or greater indicates a raw score in the top 1%, regardless of the details of the annotation set, model parameters, etc. The four single-nucleotide mutation tracks have a default viewing range of score 10 to 50. As explained in the paragraph above, that results in slightly less than 10% of the data displayed. The deletion and insertion tracks have a default filter of 10-100, because they display discrete items and not graphical data. Single nucleotide variants (SNV): For SNVs, at every genome position, there are three values per position, one for every possible nucleotide mutation. The fourth value, &quot;no mutation&quot;, representing the reference allele, e.g., A to A, is always set to zero. When using this track, zoom in until you can see every basepair at the top of the display. Otherwise, there are several nucleotides per pixel under your mouse cursor and instead of an actual score, the tooltip text will show the average score of all nucleotides under the cursor. This is indicated by the prefix &quot;~&quot; in the mouseover. Averages of scores are not useful for any application of CADD. Insertions and deletions: Scores are also shown on mouseover for a set of insertions and deletions. On hg38, the set has been obtained from gnomAD3. On hg19, the set of indels has been obtained from various sources (gnomAD2, ExAC, 1000 Genomes, ESP). If your insertion or deleletion of interest is not in the track, you will need to use CADD's online scoring tool to obtain them. Track colors This track is colored according to Table 2 in Vikas et al. The colors represent the recommended ACMG/AMP score cutoffs. Range Classification &ge; 25.3 Pathogenic 25.2 - 22.6 Neutral &le; 22.7 Benign Methods In CADD version 1.7, new features have been added to improve CADD scores for certain variant effects, boosting the overall performance of CADD and bringing new developments to the community. CADD v1.7 integrates annotations from recent efforts to assess variant effects, along with new conservation and mutation scores. CADD v1.7 supports only the major chromosomes of the hg38/GRCh38 reference genome (chromosomes 1-22, X, and Y) and may be the last version to support the hg19/GRCh37 human reference genome. This version includes scores derived from Evolutionary Scale Modeling (ESM) for assessing variants in protein-coding regions, along with scores from a convolutional neural network (CNN) trained on open chromatin sequences, used as a proxy for regulatory regions in the genome. The previously included conservation scores have been updated with data from the Zoonomia project. New annotations have also been added for 3' Untranslated Regions (3' UTRs), along with models of genome-wide mutational rates. The gene and transcript models have been updated by advancing from Ensembl version 95 to version 110, and the Ensembl Variant Effect Predictor (VEP) has been upgraded accordingly. The models in CADD v1.7 have been trained similarly to the version 1.6 release. The logistic regression uses an L2 penalty with C = 1, and training was completed after thirteen L-BFGS iterations using the sklearn library The new models exhibit a high degree of similarity to the previous release, with a Spearman correlation of 0.946 for CADD scores calculated for 100,000 randomly selected variants between CADD GRCh38-v1.6 and CADD GRCh38-v1.7. The v1.7 models perform comparably to earlier versions in distinguishing known pathogenic variants (ClinVar) from common variants (gnomAD) across the genome. Improvements in CADD v1.7 are particularly evident when focusing on specific variant categories, such as missense or 3' UTR variants, where the latest release includes updated annotations. More information can be found at the CADD site and the Schubach et al., Nucleic Acids Res, 2024 publication. Data were converted from the files provided on the CADD Downloads website, provided by the Kircher lab, using custom Python scripts, documented in our makeDoc files. Data access CADD scores are freely available for all non-commercial applications from the CADD website. For commercial applications, see the license instructions there. The CADD data on the UCSC Genome Browser can be explored interactively with the Table Browser or the Data Integrator. For automated download and analysis, the genome annotation is stored at UCSC in bigWig and bigBed files that can be downloaded from our download server. The files for this track are called a.bw, c.bw, g.bw, t.bw, ins.bb and del.bb. Individual regions or the whole genome annotation can be obtained using our tools bigWigToWig or bigBedToBed which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tools can also be used to obtain features confined to a given range, e.g., bigWigToBedGraph -chrom=chr1 -start=100000 -end=100500 http://hgdownload.soe.ucsc.edu/gbdb/hg38/cadd1.7/a.bw stdout or bigBedToBed -chrom=chr1 -start=100000 -end=100500 http://hgdownload.soe.ucsc.edu/gbdb/hg38/cadd1.7/ins.bb stdout Credits Thanks to the CADD development team for providing precomputed data as simple tab-separated files. References Kircher M, Witten DM, Jain P, O'Roak BJ, Cooper GM, Shendure J. A general framework for estimating the relative pathogenicity of human genetic variants. Nat Genet. 2014 Mar;46(3):310-5. PMID: 24487276; PMC: PMC3992975 Rentzsch P, Witten D, Cooper GM, Shendure J, Kircher M. CADD: predicting the deleteriousness of variants throughout the human genome. Nucleic Acids Res. 2019 Jan 8;47(D1):D886-D894. PMID: 30371827; PMC: PMC6323892 Schubach M, Maass T, Nazaretyan L, R&#246;ner S, Kircher M. CADD v1.7: using protein language models, regulatory CNNs and other nucleotide-level scores to improve genome-wide variant predictions. Nucleic Acids Res. 2024 Jan 5;52(D1):D1143-D1154. PMID: 38183205; PMC: PMC10767851 
caddSuper1_7 CADD 1.7 CADD 1.7 Score for all single-basepair mutations and selected insertions/deletions Phenotypes, Variants, and Literature Description This track collection shows Combined Annotation Dependent Depletion scores. CADD is a tool for scoring the deleteriousness of single nucleotide variants as well as insertion/deletion variants in the human genome. Some mutation annotations tend to exploit a single information type (e.g., phastCons or phyloP for conservation) and/or are restricted in scope (e.g., to missense changes). Thus, a broadly applicable metric that objectively weights and integrates diverse information is needed. Combined Annotation Dependent Depletion (CADD) is a framework that integrates multiple annotations into one metric by contrasting variants that survived natural selection with simulated mutations. CADD scores strongly correlate with allelic diversity, pathogenicity of both coding and non-coding variants, experimentally measured regulatory effects, and also rank causal variants within individual genome sequences with a higher value than non-causal variants. Finally, CADD scores of complex trait-associated variants from genome-wide association studies (GWAS) are significantly higher than matched controls and correlate with study sample size, likely reflecting the increased accuracy of larger GWAS. A CADD score represents a ranking not a prediction, and no threshold is defined for a specific purpose. Higher scores are more likely to be deleterious: Scores are 10 * -log of the rank so that variants with scores above 20 are predicted to be among the 1.0% most deleterious possible substitutions in the human genome. We recommend thinking carefully about what threshold is appropriate for your application. Display Conventions and Configuration There are six subtracks of this track: four for single-nucleotide mutations, one for each base, showing all possible substitutions, one for insertions and one for deletions. All subtracks show the CADD Phred score on mouseover. Zooming in shows the exact score on mouseover, same basepair = score 0.0. PHRED-scaled scores are normalized to all potential &#126;9 billion SNVs, and thereby provide an externally comparable unit for analysis. For example, a scaled score of 10 or greater indicates a raw score in the top 10% of all possible reference genome SNVs, and a score of 20 or greater indicates a raw score in the top 1%, regardless of the details of the annotation set, model parameters, etc. The four single-nucleotide mutation tracks have a default viewing range of score 10 to 50. As explained in the paragraph above, that results in slightly less than 10% of the data displayed. The deletion and insertion tracks have a default filter of 10-100, because they display discrete items and not graphical data. Single nucleotide variants (SNV): For SNVs, at every genome position, there are three values per position, one for every possible nucleotide mutation. The fourth value, &quot;no mutation&quot;, representing the reference allele, e.g., A to A, is always set to zero. When using this track, zoom in until you can see every basepair at the top of the display. Otherwise, there are several nucleotides per pixel under your mouse cursor and instead of an actual score, the tooltip text will show the average score of all nucleotides under the cursor. This is indicated by the prefix &quot;~&quot; in the mouseover. Averages of scores are not useful for any application of CADD. Insertions and deletions: Scores are also shown on mouseover for a set of insertions and deletions. On hg38, the set has been obtained from gnomAD3. On hg19, the set of indels has been obtained from various sources (gnomAD2, ExAC, 1000 Genomes, ESP). If your insertion or deleletion of interest is not in the track, you will need to use CADD's online scoring tool to obtain them. Track colors This track is colored according to Table 2 in Vikas et al. The colors represent the recommended ACMG/AMP score cutoffs. Range Classification &ge; 25.3 Pathogenic 25.2 - 22.6 Neutral &le; 22.7 Benign Methods In CADD version 1.7, new features have been added to improve CADD scores for certain variant effects, boosting the overall performance of CADD and bringing new developments to the community. CADD v1.7 integrates annotations from recent efforts to assess variant effects, along with new conservation and mutation scores. CADD v1.7 supports only the major chromosomes of the hg38/GRCh38 reference genome (chromosomes 1-22, X, and Y) and may be the last version to support the hg19/GRCh37 human reference genome. This version includes scores derived from Evolutionary Scale Modeling (ESM) for assessing variants in protein-coding regions, along with scores from a convolutional neural network (CNN) trained on open chromatin sequences, used as a proxy for regulatory regions in the genome. The previously included conservation scores have been updated with data from the Zoonomia project. New annotations have also been added for 3' Untranslated Regions (3' UTRs), along with models of genome-wide mutational rates. The gene and transcript models have been updated by advancing from Ensembl version 95 to version 110, and the Ensembl Variant Effect Predictor (VEP) has been upgraded accordingly. The models in CADD v1.7 have been trained similarly to the version 1.6 release. The logistic regression uses an L2 penalty with C = 1, and training was completed after thirteen L-BFGS iterations using the sklearn library The new models exhibit a high degree of similarity to the previous release, with a Spearman correlation of 0.946 for CADD scores calculated for 100,000 randomly selected variants between CADD GRCh38-v1.6 and CADD GRCh38-v1.7. The v1.7 models perform comparably to earlier versions in distinguishing known pathogenic variants (ClinVar) from common variants (gnomAD) across the genome. Improvements in CADD v1.7 are particularly evident when focusing on specific variant categories, such as missense or 3' UTR variants, where the latest release includes updated annotations. More information can be found at the CADD site and the Schubach et al., Nucleic Acids Res, 2024 publication. Data were converted from the files provided on the CADD Downloads website, provided by the Kircher lab, using custom Python scripts, documented in our makeDoc files. Data access CADD scores are freely available for all non-commercial applications from the CADD website. For commercial applications, see the license instructions there. The CADD data on the UCSC Genome Browser can be explored interactively with the Table Browser or the Data Integrator. For automated download and analysis, the genome annotation is stored at UCSC in bigWig and bigBed files that can be downloaded from our download server. The files for this track are called a.bw, c.bw, g.bw, t.bw, ins.bb and del.bb. Individual regions or the whole genome annotation can be obtained using our tools bigWigToWig or bigBedToBed which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tools can also be used to obtain features confined to a given range, e.g., bigWigToBedGraph -chrom=chr1 -start=100000 -end=100500 http://hgdownload.soe.ucsc.edu/gbdb/hg38/cadd1.7/a.bw stdout or bigBedToBed -chrom=chr1 -start=100000 -end=100500 http://hgdownload.soe.ucsc.edu/gbdb/hg38/cadd1.7/ins.bb stdout Credits Thanks to the CADD development team for providing precomputed data as simple tab-separated files. References Kircher M, Witten DM, Jain P, O'Roak BJ, Cooper GM, Shendure J. A general framework for estimating the relative pathogenicity of human genetic variants. Nat Genet. 2014 Mar;46(3):310-5. PMID: 24487276; PMC: PMC3992975 Rentzsch P, Witten D, Cooper GM, Shendure J, Kircher M. CADD: predicting the deleteriousness of variants throughout the human genome. Nucleic Acids Res. 2019 Jan 8;47(D1):D886-D894. PMID: 30371827; PMC: PMC6323892 Schubach M, Maass T, Nazaretyan L, R&#246;ner S, Kircher M. CADD v1.7: using protein language models, regulatory CNNs and other nucleotide-level scores to improve genome-wide variant predictions. Nucleic Acids Res. 2024 Jan 5;52(D1):D1143-D1154. PMID: 38183205; PMC: PMC10767851 
cadd1_7_T Mutation: T CADD 1.7 Score: Mutation is T Phenotypes, Variants, and Literature 
cadd1_7_G Mutation: G CADD 1.7 Score: Mutation is G Phenotypes, Variants, and Literature 
cadd1_7_C Mutation: C CADD 1.7 Score: Mutation is C Phenotypes, Variants, and Literature 
cadd1_7_A Mutation: A CADD 1.7 Score: Mutation is A Phenotypes, Variants, and Literature 
cadd1_7_Del CADD 1.7 Del CADD 1.7 Score: Deletions - label is length of deletion Phenotypes, Variants, and Literature Description This track collection shows Combined Annotation Dependent Depletion scores. CADD is a tool for scoring the deleteriousness of single nucleotide variants as well as insertion/deletion variants in the human genome. Some mutation annotations tend to exploit a single information type (e.g., phastCons or phyloP for conservation) and/or are restricted in scope (e.g., to missense changes). Thus, a broadly applicable metric that objectively weights and integrates diverse information is needed. Combined Annotation Dependent Depletion (CADD) is a framework that integrates multiple annotations into one metric by contrasting variants that survived natural selection with simulated mutations. CADD scores strongly correlate with allelic diversity, pathogenicity of both coding and non-coding variants, experimentally measured regulatory effects, and also rank causal variants within individual genome sequences with a higher value than non-causal variants. Finally, CADD scores of complex trait-associated variants from genome-wide association studies (GWAS) are significantly higher than matched controls and correlate with study sample size, likely reflecting the increased accuracy of larger GWAS. A CADD score represents a ranking not a prediction, and no threshold is defined for a specific purpose. Higher scores are more likely to be deleterious: Scores are 10 * -log of the rank so that variants with scores above 20 are predicted to be among the 1.0% most deleterious possible substitutions in the human genome. We recommend thinking carefully about what threshold is appropriate for your application. Display Conventions and Configuration There are six subtracks of this track: four for single-nucleotide mutations, one for each base, showing all possible substitutions, one for insertions and one for deletions. All subtracks show the CADD Phred score on mouseover. Zooming in shows the exact score on mouseover, same basepair = score 0.0. PHRED-scaled scores are normalized to all potential &#126;9 billion SNVs, and thereby provide an externally comparable unit for analysis. For example, a scaled score of 10 or greater indicates a raw score in the top 10% of all possible reference genome SNVs, and a score of 20 or greater indicates a raw score in the top 1%, regardless of the details of the annotation set, model parameters, etc. The four single-nucleotide mutation tracks have a default viewing range of score 10 to 50. As explained in the paragraph above, that results in slightly less than 10% of the data displayed. The deletion and insertion tracks have a default filter of 10-100, because they display discrete items and not graphical data. Single nucleotide variants (SNV): For SNVs, at every genome position, there are three values per position, one for every possible nucleotide mutation. The fourth value, &quot;no mutation&quot;, representing the reference allele, e.g., A to A, is always set to zero. When using this track, zoom in until you can see every basepair at the top of the display. Otherwise, there are several nucleotides per pixel under your mouse cursor and instead of an actual score, the tooltip text will show the average score of all nucleotides under the cursor. This is indicated by the prefix &quot;~&quot; in the mouseover. Averages of scores are not useful for any application of CADD. Insertions and deletions: Scores are also shown on mouseover for a set of insertions and deletions. On hg38, the set has been obtained from gnomAD3. On hg19, the set of indels has been obtained from various sources (gnomAD2, ExAC, 1000 Genomes, ESP). If your insertion or deleletion of interest is not in the track, you will need to use CADD's online scoring tool to obtain them. Track colors This track is colored according to Table 2 in Vikas et al. The colors represent the recommended ACMG/AMP score cutoffs. Range Classification &ge; 25.3 Pathogenic 25.2 - 22.6 Neutral &le; 22.7 Benign Methods In CADD version 1.7, new features have been added to improve CADD scores for certain variant effects, boosting the overall performance of CADD and bringing new developments to the community. CADD v1.7 integrates annotations from recent efforts to assess variant effects, along with new conservation and mutation scores. CADD v1.7 supports only the major chromosomes of the hg38/GRCh38 reference genome (chromosomes 1-22, X, and Y) and may be the last version to support the hg19/GRCh37 human reference genome. This version includes scores derived from Evolutionary Scale Modeling (ESM) for assessing variants in protein-coding regions, along with scores from a convolutional neural network (CNN) trained on open chromatin sequences, used as a proxy for regulatory regions in the genome. The previously included conservation scores have been updated with data from the Zoonomia project. New annotations have also been added for 3' Untranslated Regions (3' UTRs), along with models of genome-wide mutational rates. The gene and transcript models have been updated by advancing from Ensembl version 95 to version 110, and the Ensembl Variant Effect Predictor (VEP) has been upgraded accordingly. The models in CADD v1.7 have been trained similarly to the version 1.6 release. The logistic regression uses an L2 penalty with C = 1, and training was completed after thirteen L-BFGS iterations using the sklearn library The new models exhibit a high degree of similarity to the previous release, with a Spearman correlation of 0.946 for CADD scores calculated for 100,000 randomly selected variants between CADD GRCh38-v1.6 and CADD GRCh38-v1.7. The v1.7 models perform comparably to earlier versions in distinguishing known pathogenic variants (ClinVar) from common variants (gnomAD) across the genome. Improvements in CADD v1.7 are particularly evident when focusing on specific variant categories, such as missense or 3' UTR variants, where the latest release includes updated annotations. More information can be found at the CADD site and the Schubach et al., Nucleic Acids Res, 2024 publication. Data were converted from the files provided on the CADD Downloads website, provided by the Kircher lab, using custom Python scripts, documented in our makeDoc files. Data access CADD scores are freely available for all non-commercial applications from the CADD website. For commercial applications, see the license instructions there. The CADD data on the UCSC Genome Browser can be explored interactively with the Table Browser or the Data Integrator. For automated download and analysis, the genome annotation is stored at UCSC in bigWig and bigBed files that can be downloaded from our download server. The files for this track are called a.bw, c.bw, g.bw, t.bw, ins.bb and del.bb. Individual regions or the whole genome annotation can be obtained using our tools bigWigToWig or bigBedToBed which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tools can also be used to obtain features confined to a given range, e.g., bigWigToBedGraph -chrom=chr1 -start=100000 -end=100500 http://hgdownload.soe.ucsc.edu/gbdb/hg38/cadd1.7/a.bw stdout or bigBedToBed -chrom=chr1 -start=100000 -end=100500 http://hgdownload.soe.ucsc.edu/gbdb/hg38/cadd1.7/ins.bb stdout Credits Thanks to the CADD development team for providing precomputed data as simple tab-separated files. References Kircher M, Witten DM, Jain P, O'Roak BJ, Cooper GM, Shendure J. A general framework for estimating the relative pathogenicity of human genetic variants. Nat Genet. 2014 Mar;46(3):310-5. PMID: 24487276; PMC: PMC3992975 Rentzsch P, Witten D, Cooper GM, Shendure J, Kircher M. CADD: predicting the deleteriousness of variants throughout the human genome. Nucleic Acids Res. 2019 Jan 8;47(D1):D886-D894. PMID: 30371827; PMC: PMC6323892 Schubach M, Maass T, Nazaretyan L, R&#246;ner S, Kircher M. CADD v1.7: using protein language models, regulatory CNNs and other nucleotide-level scores to improve genome-wide variant predictions. Nucleic Acids Res. 2024 Jan 5;52(D1):D1143-D1154. PMID: 38183205; PMC: PMC10767851 
cadd1_7_Ins CADD 1.7 Ins CADD 1.7 Score: Insertions - label is length of insertion Phenotypes, Variants, and Literature Description This track collection shows Combined Annotation Dependent Depletion scores. CADD is a tool for scoring the deleteriousness of single nucleotide variants as well as insertion/deletion variants in the human genome. Some mutation annotations tend to exploit a single information type (e.g., phastCons or phyloP for conservation) and/or are restricted in scope (e.g., to missense changes). Thus, a broadly applicable metric that objectively weights and integrates diverse information is needed. Combined Annotation Dependent Depletion (CADD) is a framework that integrates multiple annotations into one metric by contrasting variants that survived natural selection with simulated mutations. CADD scores strongly correlate with allelic diversity, pathogenicity of both coding and non-coding variants, experimentally measured regulatory effects, and also rank causal variants within individual genome sequences with a higher value than non-causal variants. Finally, CADD scores of complex trait-associated variants from genome-wide association studies (GWAS) are significantly higher than matched controls and correlate with study sample size, likely reflecting the increased accuracy of larger GWAS. A CADD score represents a ranking not a prediction, and no threshold is defined for a specific purpose. Higher scores are more likely to be deleterious: Scores are 10 * -log of the rank so that variants with scores above 20 are predicted to be among the 1.0% most deleterious possible substitutions in the human genome. We recommend thinking carefully about what threshold is appropriate for your application. Display Conventions and Configuration There are six subtracks of this track: four for single-nucleotide mutations, one for each base, showing all possible substitutions, one for insertions and one for deletions. All subtracks show the CADD Phred score on mouseover. Zooming in shows the exact score on mouseover, same basepair = score 0.0. PHRED-scaled scores are normalized to all potential &#126;9 billion SNVs, and thereby provide an externally comparable unit for analysis. For example, a scaled score of 10 or greater indicates a raw score in the top 10% of all possible reference genome SNVs, and a score of 20 or greater indicates a raw score in the top 1%, regardless of the details of the annotation set, model parameters, etc. The four single-nucleotide mutation tracks have a default viewing range of score 10 to 50. As explained in the paragraph above, that results in slightly less than 10% of the data displayed. The deletion and insertion tracks have a default filter of 10-100, because they display discrete items and not graphical data. Single nucleotide variants (SNV): For SNVs, at every genome position, there are three values per position, one for every possible nucleotide mutation. The fourth value, &quot;no mutation&quot;, representing the reference allele, e.g., A to A, is always set to zero. When using this track, zoom in until you can see every basepair at the top of the display. Otherwise, there are several nucleotides per pixel under your mouse cursor and instead of an actual score, the tooltip text will show the average score of all nucleotides under the cursor. This is indicated by the prefix &quot;~&quot; in the mouseover. Averages of scores are not useful for any application of CADD. Insertions and deletions: Scores are also shown on mouseover for a set of insertions and deletions. On hg38, the set has been obtained from gnomAD3. On hg19, the set of indels has been obtained from various sources (gnomAD2, ExAC, 1000 Genomes, ESP). If your insertion or deleletion of interest is not in the track, you will need to use CADD's online scoring tool to obtain them. Track colors This track is colored according to Table 2 in Vikas et al. The colors represent the recommended ACMG/AMP score cutoffs. Range Classification &ge; 25.3 Pathogenic 25.2 - 22.6 Neutral &le; 22.7 Benign Methods In CADD version 1.7, new features have been added to improve CADD scores for certain variant effects, boosting the overall performance of CADD and bringing new developments to the community. CADD v1.7 integrates annotations from recent efforts to assess variant effects, along with new conservation and mutation scores. CADD v1.7 supports only the major chromosomes of the hg38/GRCh38 reference genome (chromosomes 1-22, X, and Y) and may be the last version to support the hg19/GRCh37 human reference genome. This version includes scores derived from Evolutionary Scale Modeling (ESM) for assessing variants in protein-coding regions, along with scores from a convolutional neural network (CNN) trained on open chromatin sequences, used as a proxy for regulatory regions in the genome. The previously included conservation scores have been updated with data from the Zoonomia project. New annotations have also been added for 3' Untranslated Regions (3' UTRs), along with models of genome-wide mutational rates. The gene and transcript models have been updated by advancing from Ensembl version 95 to version 110, and the Ensembl Variant Effect Predictor (VEP) has been upgraded accordingly. The models in CADD v1.7 have been trained similarly to the version 1.6 release. The logistic regression uses an L2 penalty with C = 1, and training was completed after thirteen L-BFGS iterations using the sklearn library The new models exhibit a high degree of similarity to the previous release, with a Spearman correlation of 0.946 for CADD scores calculated for 100,000 randomly selected variants between CADD GRCh38-v1.6 and CADD GRCh38-v1.7. The v1.7 models perform comparably to earlier versions in distinguishing known pathogenic variants (ClinVar) from common variants (gnomAD) across the genome. Improvements in CADD v1.7 are particularly evident when focusing on specific variant categories, such as missense or 3' UTR variants, where the latest release includes updated annotations. More information can be found at the CADD site and the Schubach et al., Nucleic Acids Res, 2024 publication. Data were converted from the files provided on the CADD Downloads website, provided by the Kircher lab, using custom Python scripts, documented in our makeDoc files. Data access CADD scores are freely available for all non-commercial applications from the CADD website. For commercial applications, see the license instructions there. The CADD data on the UCSC Genome Browser can be explored interactively with the Table Browser or the Data Integrator. For automated download and analysis, the genome annotation is stored at UCSC in bigWig and bigBed files that can be downloaded from our download server. The files for this track are called a.bw, c.bw, g.bw, t.bw, ins.bb and del.bb. Individual regions or the whole genome annotation can be obtained using our tools bigWigToWig or bigBedToBed which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tools can also be used to obtain features confined to a given range, e.g., bigWigToBedGraph -chrom=chr1 -start=100000 -end=100500 http://hgdownload.soe.ucsc.edu/gbdb/hg38/cadd1.7/a.bw stdout or bigBedToBed -chrom=chr1 -start=100000 -end=100500 http://hgdownload.soe.ucsc.edu/gbdb/hg38/cadd1.7/ins.bb stdout Credits Thanks to the CADD development team for providing precomputed data as simple tab-separated files. References Kircher M, Witten DM, Jain P, O'Roak BJ, Cooper GM, Shendure J. A general framework for estimating the relative pathogenicity of human genetic variants. Nat Genet. 2014 Mar;46(3):310-5. PMID: 24487276; PMC: PMC3992975 Rentzsch P, Witten D, Cooper GM, Shendure J, Kircher M. CADD: predicting the deleteriousness of variants throughout the human genome. Nucleic Acids Res. 2019 Jan 8;47(D1):D886-D894. PMID: 30371827; PMC: PMC6323892 Schubach M, Maass T, Nazaretyan L, R&#246;ner S, Kircher M. CADD v1.7: using protein language models, regulatory CNNs and other nucleotide-level scores to improve genome-wide variant predictions. Nucleic Acids Res. 2024 Jan 5;52(D1):D1143-D1154. PMID: 38183205; PMC: PMC10767851 
tcgaGeneExpr Cancer Gene Expr Gene Expression in 33 TCGA Cancer Tissues (GENCODE v23) Phenotypes, Variants, and Literature Description The Cancer Genome Atlas (TCGA), a collaboration between the National Cancer Institute (NCI) and National Human Genome Research Institute (NHGRI), has generated comprehensive, multi-dimensional maps of the key genomic changes in 33 types of cancer. The TCGA dataset, 2.5 petabytes of data describing tumor tissue and matched normal tissues from more than 11,000 patients, is publically available and has been used widely by the research community. The Cancer Genome Atlas is a NIH-funded project to catalog genetic mutations responsible for cancer. The data shown here is RNA-seq expression data produced by the consortium. For questions or feedback on the data, please contact TCGA. TCGA Gene Expression The gene track shows RNA expression level for each TCGA tissue in GENCODE canonical genes. The gene scores are a total of all transcripts in that gene. TCGA Transcript Expression The transcript track shows RNA expression levels for each TCGA tissue using GENCODE v23 transcripts. Display Conventions In Full and Pack display modes, expression for each genomic item (gene/transcript) is represented by a colored bar chart, where the height of each bar represents the median expression level across all samples for a tissue, and the bar color indicates the tissue. The bar chart display has the same width and tissue order for all genomic items. Mouse hover over a bar will show the tissue and median expression levels. The Squish display mode draws a rectangle for each gene, colored to indicate the tissue with highest expression level if it contributes more than 10% to the overall expression (and colored black if no tissue predominates). In Dense mode, the darkness of the grayscale rectangle displayed for the gene reflects the total median expression level across all tissues. This track was designed to be used in conjunction with the GTEx expression tracks that can act as a control. The color of each cancer was derived by mapping the tissue of origin to the closest GTEx tissue, then taking the GTEx tissue's color. Five cancers did not have a matching GTEx tissue and were assigned a rainbow color scheme; these cancers are Cholangiocarcinoma, Esophageal carcinoma, Head and Neck squamous cell carcinoma, Sarcoma and Uveal Melanoma. The ordering of the cancers is based on the alphabetical ordering of their GTEx tissues. The five cancers that did not match were ordered alphabetically. Methods TCGA chose cancers for study based on two broad criteria; poor prognosis/overall public health impact and availability of human tumor and matched normal tissue samples that meet TCGA standards. RNA sequencing was performed using a polyA library and the Illumina HiSeq 2000 platform. All RNA sequencing was performed by UNC. Sequence reads for this track were quantified to the hg38/GRCh38 human genome using kallisto assisted by the GENCODE v23 transcriptome definition. Read quantification was performed at UCSC by the Computational Genomics lab, using the Toil pipeline. The resulting kallisto files were combined to generate a transcript per million (tpm) expression matrix using the UCSC tool, kallistoToMatrix. By totaling the TPM values for all transcripts associated to the canonical transcript/gene, a condensed gene per million (gpm) matrix was made. For both matrices average expression values for each tissue were calculated and used to generate a bed6+5 file that is the base of each track. This was done using the UCSC tool, expMatrixToBarchartBed. The bed track was then converted to a bigBed file using the UCSC tool, bedToBigBed. Credits Data shown here are in whole based upon data generated by the TCGA Research Network. John Vivian, Melissa Cline, and Benedict Paten of the UCSC Computational Genomics lab were responsible for the sequence read quantification used to produce this track. Chris Eisenhart and Kate Rosenbloom of the UCSC Genome Browser group were responsible for data file post-processing, track configuration and display type. References J. Vivian et al., Rapid and efficient analysis of 20,000 RNA-seq samples with Toil bioRxiv bioRxiv, vol. 2, p. 62497, 2016. 
cancerExpr Cancer Gene Expr Gene Expression in 33 TCGA Cancer Tissues (GENCODE v23) Phenotypes, Variants, and Literature Description The Cancer Genome Atlas (TCGA), a collaboration between the National Cancer Institute (NCI) and National Human Genome Research Institute (NHGRI), has generated comprehensive, multi-dimensional maps of the key genomic changes in 33 types of cancer. The TCGA dataset, 2.5 petabytes of data describing tumor tissue and matched normal tissues from more than 11,000 patients, is publically available and has been used widely by the research community. The Cancer Genome Atlas is a NIH-funded project to catalog genetic mutations responsible for cancer. The data shown here is RNA-seq expression data produced by the consortium. For questions or feedback on the data, please contact TCGA. TCGA Gene Expression The gene track shows RNA expression level for each TCGA tissue in GENCODE canonical genes. The gene scores are a total of all transcripts in that gene. TCGA Transcript Expression The transcript track shows RNA expression levels for each TCGA tissue using GENCODE v23 transcripts. Display Conventions In Full and Pack display modes, expression for each genomic item (gene/transcript) is represented by a colored bar chart, where the height of each bar represents the median expression level across all samples for a tissue, and the bar color indicates the tissue. The bar chart display has the same width and tissue order for all genomic items. Mouse hover over a bar will show the tissue and median expression levels. The Squish display mode draws a rectangle for each gene, colored to indicate the tissue with highest expression level if it contributes more than 10% to the overall expression (and colored black if no tissue predominates). In Dense mode, the darkness of the grayscale rectangle displayed for the gene reflects the total median expression level across all tissues. This track was designed to be used in conjunction with the GTEx expression tracks that can act as a control. The color of each cancer was derived by mapping the tissue of origin to the closest GTEx tissue, then taking the GTEx tissue's color. Five cancers did not have a matching GTEx tissue and were assigned a rainbow color scheme; these cancers are Cholangiocarcinoma, Esophageal carcinoma, Head and Neck squamous cell carcinoma, Sarcoma and Uveal Melanoma. The ordering of the cancers is based on the alphabetical ordering of their GTEx tissues. The five cancers that did not match were ordered alphabetically. Methods TCGA chose cancers for study based on two broad criteria; poor prognosis/overall public health impact and availability of human tumor and matched normal tissue samples that meet TCGA standards. RNA sequencing was performed using a polyA library and the Illumina HiSeq 2000 platform. All RNA sequencing was performed by UNC. Sequence reads for this track were quantified to the hg38/GRCh38 human genome using kallisto assisted by the GENCODE v23 transcriptome definition. Read quantification was performed at UCSC by the Computational Genomics lab, using the Toil pipeline. The resulting kallisto files were combined to generate a transcript per million (tpm) expression matrix using the UCSC tool, kallistoToMatrix. By totaling the TPM values for all transcripts associated to the canonical transcript/gene, a condensed gene per million (gpm) matrix was made. For both matrices average expression values for each tissue were calculated and used to generate a bed6+5 file that is the base of each track. This was done using the UCSC tool, expMatrixToBarchartBed. The bed track was then converted to a bigBed file using the UCSC tool, bedToBigBed. Credits Data shown here are in whole based upon data generated by the TCGA Research Network. John Vivian, Melissa Cline, and Benedict Paten of the UCSC Computational Genomics lab were responsible for the sequence read quantification used to produce this track. Chris Eisenhart and Kate Rosenbloom of the UCSC Genome Browser group were responsible for data file post-processing, track configuration and display type. References J. Vivian et al., Rapid and efficient analysis of 20,000 RNA-seq samples with Toil bioRxiv bioRxiv, vol. 2, p. 62497, 2016. 
tcgaTranscExpr Cancer Transc Expr Transcript-level Expression in 33 TCGA Cancer Tissues (GENCODE v23) Phenotypes, Variants, and Literature Description The Cancer Genome Atlas (TCGA), a collaboration between the National Cancer Institute (NCI) and National Human Genome Research Institute (NHGRI), has generated comprehensive, multi-dimensional maps of the key genomic changes in 33 types of cancer. The TCGA dataset, 2.5 petabytes of data describing tumor tissue and matched normal tissues from more than 11,000 patients, is publically available and has been used widely by the research community. The Cancer Genome Atlas is a NIH-funded project to catalog genetic mutations responsible for cancer. The data shown here is RNA-seq expression data produced by the consortium. For questions or feedback on the data, please contact TCGA. TCGA Gene Expression The gene track shows RNA expression level for each TCGA tissue in GENCODE canonical genes. The gene scores are a total of all transcripts in that gene. TCGA Transcript Expression The transcript track shows RNA expression levels for each TCGA tissue using GENCODE v23 transcripts. Display Conventions In Full and Pack display modes, expression for each genomic item (gene/transcript) is represented by a colored bar chart, where the height of each bar represents the median expression level across all samples for a tissue, and the bar color indicates the tissue. The bar chart display has the same width and tissue order for all genomic items. Mouse hover over a bar will show the tissue and median expression levels. The Squish display mode draws a rectangle for each gene, colored to indicate the tissue with highest expression level if it contributes more than 10% to the overall expression (and colored black if no tissue predominates). In Dense mode, the darkness of the grayscale rectangle displayed for the gene reflects the total median expression level across all tissues. This track was designed to be used in conjunction with the GTEx expression tracks that can act as a control. The color of each cancer was derived by mapping the tissue of origin to the closest GTEx tissue, then taking the GTEx tissue's color. Five cancers did not have a matching GTEx tissue and were assigned a rainbow color scheme; these cancers are Cholangiocarcinoma, Esophageal carcinoma, Head and Neck squamous cell carcinoma, Sarcoma and Uveal Melanoma. The ordering of the cancers is based on the alphabetical ordering of their GTEx tissues. The five cancers that did not match were ordered alphabetically. Methods TCGA chose cancers for study based on two broad criteria; poor prognosis/overall public health impact and availability of human tumor and matched normal tissue samples that meet TCGA standards. RNA sequencing was performed using a polyA library and the Illumina HiSeq 2000 platform. All RNA sequencing was performed by UNC. Sequence reads for this track were quantified to the hg38/GRCh38 human genome using kallisto assisted by the GENCODE v23 transcriptome definition. Read quantification was performed at UCSC by the Computational Genomics lab, using the Toil pipeline. The resulting kallisto files were combined to generate a transcript per million (tpm) expression matrix using the UCSC tool, kallistoToMatrix. By totaling the TPM values for all transcripts associated to the canonical transcript/gene, a condensed gene per million (gpm) matrix was made. For both matrices average expression values for each tissue were calculated and used to generate a bed6+5 file that is the base of each track. This was done using the UCSC tool, expMatrixToBarchartBed. The bed track was then converted to a bigBed file using the UCSC tool, bedToBigBed. Credits Data shown here are in whole based upon data generated by the TCGA Research Network. John Vivian, Melissa Cline, and Benedict Paten of the UCSC Computational Genomics lab were responsible for the sequence read quantification used to produce this track. Chris Eisenhart and Kate Rosenbloom of the UCSC Genome Browser group were responsible for data file post-processing, track configuration and display type. References J. Vivian et al., Rapid and efficient analysis of 20,000 RNA-seq samples with Toil bioRxiv bioRxiv, vol. 2, p. 62497, 2016. 
ccdsGene CCDS Consensus CDS Genes and Gene Predictions Description This track shows human genome high-confidence gene annotations from the Consensus Coding Sequence (CCDS) project. This project is a collaborative effort to identify a core set of human protein-coding regions that are consistently annotated and of high quality. The long-term goal is to support convergence towards a standard set of gene annotations on the human genome. Collaborators include: European Bioinformatics Institute (EBI) National Center for Biotechnology Information (NCBI) University of California, Santa Cruz (UCSC) Wellcome Trust Sanger Institute (WTSI) For more information on the different gene tracks, see our Genes FAQ. Methods CDS annotations of the human genome were obtained from two sources: NCBI RefSeq and a union of the gene annotations from Ensembl and Vega, collectively known as Hinxton. Genes with identical CDS genomic coordinates in both sets become CCDS candidates. The genes undergo a quality evaluation, which must be approved by all collaborators. The following criteria are currently used to assess each gene: an initiating ATG (Exception: a non-ATG translation start codon is annotated if it has sufficient experimental support), a valid stop codon, and no in-frame stop codons (Exception: selenoproteins, which contain a TGA codon that is known to be translated to a selenocysteine instead of functioning as a stop codon) ability to be translated from the genome reference sequence without frameshifts recognizable splicing sites no intersection with putative pseudogene predictions supporting transcripts and protein homology conservation evidence with other species A unique CCDS ID is assigned to the CCDS, which links together all gene annotations with the same CDS. CCDS gene annotations are under continuous review, with periodic updates to this track. Credits This track was produced at UCSC from data downloaded from the CCDS project web site. References Hubbard T, Barker D, Birney E, Cameron G, Chen Y, Clark L, Cox T, Cuff J, Curwen V, Down T et al. The Ensembl genome database project. Nucleic Acids Res. 2002 Jan 1;30(1):38-41. PMID: 11752248; PMC: PMC99161 Pruitt KD, Harrow J, Harte RA, Wallin C, Diekhans M, Maglott DR, Searle S, Farrell CM, Loveland JE, Ruef BJ et al. The consensus coding sequence (CCDS) project: Identifying a common protein-coding gene set for the human and mouse genomes. Genome Res. 2009 Jul;19(7):1316-23. PMID: 19498102; PMC: PMC2704439 Pruitt KD, Tatusova T, Maglott DR. NCBI Reference Sequence (RefSeq): a curated non-redundant sequence database of genomes, transcripts and proteins. Nucleic Acids Res. 2005 Jan 1;33(Database issue):D501-4. PMID: 15608248; PMC: PMC539979 
centromeres Centromeres Centromere Locations Mapping and Sequencing Description Track indicating the location of the centromere sequences. Centromeres are specialized chromatin structures that are required for cell division. These genomic regions are normally defined by long tracts of tandem repeats, or satellite DNA, that contain a limited number of sequence differences to distinguish the linear order of repeat copies. The size and repetitive nature of these regions mean they are typically not represented in reference assemblies. Unlike all previous versions of the human reference assembly, where the centromere regions have been represented by a multi-megabase gap, GRCh38 incorporates centromere reference models that provide an initial genomic description derived from chromosome-assigned whole genome shotgun (WGS) read libraries of alpha satellite. Each reference model provides an approximation of the true array sequence organization. Although the long-range repeat ordering is not expected to represent the true organization, the submissions are expected to provide a biologically rich description of array variants and local-monomer organization as observed in the initial WGS read dataset. As a result, these sequences serve as a useful mapping target to extend sequence-based studies to sites previously omitted from the human reference genome. Methods The sequences are generated based on second-order Markov models of monomer variants, and graphical models of larger scale higher order repeats. The graphical models are based on an analysis of Sanger reads from the HuRef sequencing project (Assembly GCA_000002125.1; BioProject PRJNA19621), and their local-ordering is supported by observed same-read monomer adjacencies. The Markov models are generated by the program linearSat, which was written for this project and that also generates a linear representation of monomer order. The software linearSat generates a second-order Markov chain to the size of a given array provided by sequence coverage normalization estimates. The sequence definitions of transposable element insertions are limited to the sequences directly adjacent to alpha satellite within the read database, and incomplete representations are noted with an adjacent 100 bp gap. In total, these sequences provide a more complete reference of sequence composition and higher order repeat variation inherent to a given alpha satellite array, used to assemble centromeric regions of the human chromosomes. Credits The data for this track was supplied by Karen Miga. References Miga KH, Newton Y, Jain M, Altemose N, Willard HF, Kent WJ. Centromere reference models for human chromosomes X and Y satellite arrays. Genome Res. 2014 Apr;24(4):697-707. PMID: 24501022; PMC: PMC3975068 
chm13LiftOver CHM13 alignments CHM13 (GCA_009914755.4) v1_nfLO liftOver alignments Comparative Genomics Description These tracks show the one-to-one v1_nfLO alignments of the GRCh38/hg38 to the T2T-CHM13 v2.0 assembly. Display Conventions The track displays boxes joined together by either single or double lines, with the boxes represent aligning regions, single lines indicating gaps that are largely due to a deletion in the CHM13 v2.0 assembly or an insertion in the GRCh38/hg38, and double lines representing more complex gaps that involve substantial sequence in both assembly. Methods GRCh38/hg38 pre-processing To prevent ambiguous alignments, all false duplications, as determined by the Genome in a Bottle Consortium (GCA_000001405.15_GRCh38_GRC_exclusions_T2Tv2.bed), as well as the GRCh38 modeled centromeres, were masked from the GRCh38/hg38 primary assembly. In addition, unlocalized and unplaced (random) contigs were removed. Alignment and Chain Creation For the minimap2-based pipeline, the initial chain file was generated using nf-LO v1.5.1 with minimap2 v2.24 alignments. These chains were then split at all locations that contained unaligned segments greater than 1kbp or gaps greater than 10kbp. Split chain files were then converted to PAF format with extended CIGAR strings using chaintools (v0.1), and alignments between nonhomologous chromosomes were removed. The trim-paf operation of rustybam (v0.1.29) was next used to remove overlapping alignments in the query sequence, and then the target sequence, to create 1:1 alignments. PAF alignments were converted back to the chain format with paf2chain commit f68eeca, and finally, chaintools was used to generate the inverted chain file. Full commands with parameters used were: nextflow run main.nf --source GRCh38.fa --target chm13v2.0.fasta --outdir dir -profile local --aligner minimap2 python chaintools/src/split.py -c input.chain -o input-split.chain python chaintools/src/to_paf.py -c input-split.chain -t target.fa -q query.fa -o input-split.paf awk '$1==$6' input-split.paf | rb break-paf --max-size 10000 | rb trim-paf -r | rb invert | rb trim-paf -r | rb invert > out.paf paf2chain -i out.paf > out.chain python chaintools/src/invert.py -c out.chain -o out_inverted.chain The above process does not add chain ids or scores. The UCSC utilities chainMergeSort and chainScore are used to update the chains: chainMergeSort out.chain | chainScore stdin chm13v2.0.2bit hg38.2bit chm13v2.0-hg38.chain chainMergeSort out_inverted.chain | chainScore stdin hg38.2bit chm13v2.0.2bit hg38-chm13v2.0.chain Rustybam trim-paf uses dynamic programming and the CIGAR string to find an optimal splitting point between overlapping alignments in the query sequence. It starts its trimming with the largest overlap and then recursively trims smaller overlaps. Results were validated by using chaintools to confirm that there were no overlapping sequences with respect to both CHM13v2.0 and GRCh38 in the released chain file. In addition, trimmed alignments were visually inspected with SafFire to confirm their quality. Chains were swapped to make GRCh38/hg38 the target. Credits The v1_nflo chains were generated by Nae-Chyun Chen&lt;naechyun.chen@gmail.com&gt; and Mitchell Vollger&lt;mvollger@uw.edu&gt; References Nurk S, Koren S, Rhie A, Rautiainen M, et al. The complete sequence of a human genome. bioRxiv, 2021. 
cytoBand Chromosome Band Chromosome Bands Localized by FISH Mapping Clones Mapping and Sequencing Description The chromosome band track represents the approximate location of bands seen on Giemsa-stained chromosomes. Chromosomes are displayed in the browser with the short arm first. Cytologically identified bands on the chromosome are numbered outward from the centromere on the short (p) and long (q) arms. At low resolution, bands are classified using the nomenclature [chromosome][arm][band], where band is a single digit. Examples of bands on chromosome 3 include 3p2, 3p1, cen, 3q1, and 3q2. At a finer resolution, some of the bands are subdivided into sub-bands, adding a second digit to the band number, e.g. 3p26. This resolution produces about 500 bands. A final subdivision into a total of 862 sub-bands is made by adding a period and another digit to the band, resulting in 3p26.3, 3p26.2, etc. Methods Chromosome band information was downloaded from NCBI using the ideogram.gz file for the respective assembly. These data were then transformed into our visualization format. See our assembly creation documentation for the organism of interest to see the specific steps taken to transform these data. Band lengths are typically estimated based on FISH or other molecular markers interpreted via microscopy. For some of our older assemblies, greater than 10 years old, the tracks were created as detailed below and in Furey and Haussler, 2003. Barbara Trask, Vivian Cheung, Norma Nowak and others in the BAC Resource Consortium used fluorescent in-situ hybridization (FISH) to determine a cytogenetic location for large genomic clones on the chromosomes. The results from these experiments are the primary source of information used in estimating the chromosome band locations. For more information about the process, see the paper, Cheung, et al., 2001. and the accompanying web site, Human BAC Resource. BAC clone placements in the human sequence are determined at UCSC using a combination of full BAC clone sequence, BAC end sequence, and STS marker information. Credits We would like to thank all the labs that have contributed to this resource: Fred Hutchinson Cancer Research Center (FHCRC) National Cancer Institute (NCI) Roswell Park Cancer Institute (RPCI) The Wellcome Trust Sanger Institute (SC) Cedars-Sinai Medical Center (CSMC) Los Alamos National Laboratory (LANL) UC San Francisco Cancer Center (UCSF) References Cheung VG, Nowak N, Jang W, Kirsch IR, Zhao S, Chen XN, Furey TS, Kim UJ, Kuo WL, Olivier M et al. Integration of cytogenetic landmarks into the draft sequence of the human genome. Nature. 2001 Feb 15;409(6822):953-8. PMID: 11237021 Furey TS, Haussler D. Integration of the cytogenetic map with the draft human genome sequence. Hum Mol Genet. 2003 May 1;12(9):1037-44. PMID: 12700172 
cytoBandIdeo Chromosome Band (Ideogram) Chromosome Bands Localized by FISH Mapping Clones (for Ideogram) Mapping and Sequencing 
civic CIViC CIViC - Expert & crowd-sourced cancer variant interpretation Phenotypes, Variants, and Literature Description This track shows genomic locations for variants in the CIViC (Clinical Interpretation of Variants in Cancer) database. These clinically relevant variant interpretations are expert and crowd-sourced from peer-reviewed literature, clinical trials, and some conference abstracts. Each variant's interpretation is in the context of a broader molecular profile: one or more variants grouped together. For example, clinical evidence may be relevant to a KRAS G12 mutation on its own, but other clinical evidence may relevant for cases with either a mutation in KRAS G12 or G13. The primary points of data from the scientific literature are curated as Clinical Evidence, which connects to a molecular profile, which in turn connects to the variants shown in this track. Groups of evidence can become curator Assertions about the relevence of a molecular profile. The detail for a feature will list diseases and therapies that have been associated with a genomic variant. Visiting the CIViC page for a variant will allow browsing the Molecular Profiles associated with that variant, and in turn each Molecular Profile shows the Clinical Evidence and Assertions for various diseases and therapies. Display Conventions and Configuration There are three types of variant feature types in CIViC: gene, fusion, and factor, of which only the gene and fusion fetaures have a genomic location. Gene variants are shown as a single item, with a name indicating the variant's mode: sequence change, gene expression, gene deletion, etc. Fusion variants connect two genes via a structural DNA rearrangement, typically in the introns or promotors of genes. For CIViC fusions that have an annotated transcript and exon, the exon will be shown as a thick bar. If there is an intron associated with the fusion, it will be annotated as a thin bar on the feature. Data updates This track reflects the monthly data summaries published by CIViC. The latest information is always available directly on the CIViC website or by its API. Data access The raw data can be explored interactively with the Table Browser or the Data Integrator. The data can be accessed from scripts through our API, via the track name &quot;civic&quot;. Methods The monthly CIViC Variant Summaries were reformatted at UCSC to bigBed format. The data is updated every month, the week after CIViC data summary release. The diseases and therapies associated with a variant are collected from the corresponding TSV files from CIViC, using the molecular profile summaries as a mapping. Credits Thanks to the CIViC contributors and organizers for curating the database and making the data available for download. Reference Griffith M, Spies NC, Krysiak K, McMichael JF, Coffman AC, Danos AM, Ainscough BJ, Ramirez CA, Rieke DT, Kujan L et al. CIViC is a community knowledgebase for expert crowdsourcing the clinical interpretation of variants in cancer. Nat Genet. 2017Jan31;49(2):170-174. PMID: 28138153; PMC: PMC5367263 
clinGenComp ClinGen ClinGen curation activities (Dosage Sensitivity and Gene-Disease Validity) Phenotypes, Variants, and Literature Description NOTE: These data are for research purposes only. While the ClinGen data are open to the public, users seeking information about a personal medical or genetic condition are urged to consult with a qualified physician for diagnosis and for answers to personal medical questions. UCSC presents these data for use by qualified professionals, and even such professionals should use caution in interpreting the significance of information found here. No single data point should be taken at face value and such data should always be used in conjunction with as much corroborating data as possible. No treatment protocols should be developed or patient advice given on the basis of these data without careful consideration of all possible sources of information. No attempt to identify individual patients should be undertaken. No one is authorized to attempt to identify patients by any means. The Clinical Genome Resource (ClinGen) tracks display data generated from several key curation activities related to gene-disease validity, dosage sensitivity, and variant pathogenicity. ClinGen is a National Institute of Health (NIH)-funded initiative dedicated to identifying clinically relevant genes and variants for use in precision medicine and research. This is accomplished by harnessing the data from both research efforts and clinical genetic testing and using it to propel expert and machine-driven curation activities. ClinGen works closely with the National Center for Biotechnology Information (NCBI) of the National Library of Medicine (NLM) which distributes part of this information through its ClinVar database. The available data tracks are: ClinGen Dosage Sensitivity Map -Haploinsufficiency (ClinGen Haploinsufficiency) and -Triplosensitivity (ClinGen Triplosensitivity) - Shows evidence supporting or refuting haploinsufficiency (loss) and triplosensitivity (gain) as mechanisms for disease at gene-level and larger genomic regions. ClinGen Gene-Disease Validity Classification (ClinGen Validity) - Provides a semi-qualitative measurement for the strength of evidence of a gene-disease relationship. Clingen CSPEC variant interpretation VCEP specifications - Identifies loci that have ClinGen criteria Specification (CSpec) information. This is used and applied by ClinGen Variant Curation Expert Panels (VCEPs) and biocurators in the classification of variants. A rating system is used to classify the evidence supporting or refuting dosage sensitivity for individual genes and regions, which takes in consideration the following criteria: number of causative variants reported, patterns of inheritance, consistency of phenotype, evidence from large-scale case-control studies, mutational mechanisms, data from public genome variation databases, and expert consensus opinion. The system is intended to be of a &quot;dynamic nature&quot;, with regions being reevaluated periodically to incorporate emerging evidence. The evidence collected is displayed within a publicly available database. Evidence that haploinsufficiency or triplosensitivity of a gene is associated with a specific phenotype will aid in the interpretive assessment of CNVs including that gene or genomic region. Similarly, a qualitative classification system is used to correlate the evidence of a gene-disease relationship: &quot;Definitive&quot;, &quot;Strong&quot;, &quot;Moderate&quot;, &quot;Limited&quot;, &quot;Animal Model Only&quot;, &quot;No Known Disease Relationship&quot;, &quot;Disputed&quot;, or &quot;Refuted&quot;. Display Conventions Haploinsufficiency/Triplosensitivity tracks Items are shaded according to dosage sensitivity type, red for haploinsufficiency score 3, blue for triplosensitivity score 3, and grey for other evidence scores or not yet evaluated). Mouseover on items shows the supporting evidence of dosage sensitivity. Tracks can be filtered according to the supporting evidence of dosage sensitivity. Dosage Scores are used to classify the evidence of the supporting dosage sensitivity map: 0 - no evidence available 1 - little evidence for dosage pathogenicity 2 - some evidence for dosage pathogenicity 3 - sufficient evidence for dosage pathogenicity 30 - gene associated with autosomal recessive phenotype 40 - dosage sensitivity unlikely For more information on the use of the scores see the ClinGen FAQs. Gene-Disease Validity track The gene-disease validity classifications are labeled with the disease entity and hovering over the features shows the associated gene. Items are color coded based on the strength of their classification as provided below: Color Classifications Definitive: The role of this gene in this particular disease has been repeatedly demonstrated and has been upheld over time Strong: The role of this gene in disease has been independently demonstrated typically in at least two separate studies, including both strong variant-level evidence in unrelated probands and compelling gene-level evidence from experimental data Moderate: There is moderate evidence to support a causal role for this gene in this disease, typically including both several probands with variants and moderate experimental data supporting the gene-disease assertion Limited: There is limited evidence to support a causal role for this gene in this disease, such as few probands with variants and limited experimental data supporting the gene-disease assertion Animal Model Only: There are no published human probands with variants but there is animal model data supporting the gene-disease assertion No Known Disease Relationship: Evidence for a causal role in disease has not been reported Disputed: Conflicting evidence disputing a role for this gene in this disease has arisen since the initial report identifying an association between the gene and disease Refuted: Evidence refuting the role of the gene in the specified disease has been reported and significantly outweighs any evidence supporting the role The version of the ClinGen Standard Operating Procedures (SOPs) that each gene-disease classification was performed with is provided as well. An older or newer SOP version does not necessarily mean the classification is any more or less valid but is provided for clarity. Each details page also contains a direct link to an evidence summary detailing the rationale behind the specific classification and information such as a breakdown of the semi-qualitative framework, relevant PubMed IDs, the type of data (Genetic vs Experimental Evidence), and a detailed summary. These tracks are multi-view composite tracks that contain multiple data types (views). Each view within a track has separate display controls, as described here. ClinGen VCEP Specifications track Item names correspond to the VCEP loci, usually the gene symbol. Mouseovers display the disease with a link to the CSpec, the VCEP panel with a link to the ClinGen VCEP page, and the current expert panel status. Data Updates Our programs check every day if ClinGen has an updated data file, and if so, update the track with the latest file. Click the "Data Format" on this track documentation page to see when the track was last updated. Data Access The raw data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Data is also freely available on the ClinGen website (gene-disease curation methods) and FTP (dosage curations). Credits Thank you to ClinGen and NCBI, especially Erin Rooney Riggs, Christa Lese Martin, Tristan Nelson, May Flowers, Scott Goehringer, and Phillip Weller for technical coordination and consultation, and to Christopher Lee, Luis Nassar, and Anna Benet-Pages of the Genome Browser team. References Rehm HL, Berg JS, Brooks LD, Bustamante CD, Evans JP, Landrum MJ, Ledbetter DH, Maglott DR, Martin CL, Nussbaum RL et al. ClinGen--the Clinical Genome Resource. N Engl J Med. 2015 Jun 4;372(23):2235-42. PMID: 26014595; PMC: PMC4474187 Richards S, Aziz N, Bale S, Bick D, Das S, Gastier-Foster J, Grody WW, Hegde M, Lyon E, Spector E et al. Standards and guidelines for the interpretation of sequence variants: a joint consensus recommendation of the American College of Medical Genetics and Genomics and the Association for Molecular Pathology. Genet Med. 2015 May;17(5):405-24. PMID: 25741868; PMC: PMC4544753 Riggs ER, Church DM, Hanson K, Horner VL, Kaminsky EB, Kuhn RM, Wain KE, Williams ES, Aradhya S, Kearney HM et al. Towards an evidence-based process for the clinical interpretation of copy number variation. Clin Genet. 2012 May;81(5):403-12. PMID: 22097934; PMC: PMC5008023 Strande NT, Riggs ER, Buchanan AH, Ceyhan-Birsoy O, DiStefano M, Dwight SS, Goldstein J, Ghosh R, Seifert BA, Sneddon TP et al. Evaluating the Clinical Validity of Gene-Disease Associations: An Evidence-Based Framework Developed by the Clinical Genome Resource. Am J Hum Genet. 2017 Jun 1;100(6):895-906. PMID: 28552198; PMC: PMC5473734 
clinGenCspec ClinGen VCEP Specifications Clingen CSpec Variant Interpretation VCEP Specifications Phenotypes, Variants, and Literature 
clinGenGeneDisease ClinGen Validity ClinGen Gene-Disease Validity Classification Phenotypes, Variants, and Literature 
clinGenTriplo ClinGen Triplosensitivity ClinGen Dosage Sensitivity Map - Triplosensitivity Phenotypes, Variants, and Literature 
clinGenHaplo ClinGen Haploinsufficiency ClinGen Dosage Sensitivity Map - Haploinsufficiency Phenotypes, Variants, and Literature 
iscaComposite ClinGen CNVs Clinical Genome Resource (ClinGen) CNVs Phenotypes, Variants, and Literature The ClinGen CNVs track is no longer being updated. These data, along with updates, can be found in the ClinVar Copy Number Variants (ClinVar CNVs) track. See our news archive for more information. Description NOTE: These data are for research purposes only. While the ClinGen data are open to the public, users seeking information about a personal medical or genetic condition are urged to consult with a qualified physician for diagnosis and for answers to personal medical questions. UCSC presents these data for use by qualified professionals, and even such professionals should use caution in interpreting the significance of information found here. No single data point should be taken at face value and such data should always be used in conjunction with as much corroborating data as possible. No treatment protocols should be developed or patient advice given on the basis of these data without careful consideration of all possible sources of information. No attempt to identify individual patients should be undertaken. No one is authorized to attempt to identify patients by any means. The Clinical Genome Resource (ClinGen) is a National Institutes of Health (NIH)-funded program dedicated to building a genomic knowledge base to improve patient care. This will be accomplished by harnessing the data from both research efforts and clinical genetic testing, and using it to propel expert and machine-driven curation activities. By facilitating collaboration within the genomics community, we will all better understand the relationship between genomic variation and human health. ClinGen will work closely with the National Center for Biotechnology Information (NCBI) of the National Library of Medicine (NLM), which will distribute this information through its ClinVar database. The ClinGen dataset displays clinical microarray data submitted to dbGaP/dbVar at NCBI by ClinGen member laboratories (dbVar study nstd37), as well as clinical data reported in Kaminsky et al., 2011 (dbVar study ntsd101) (see reference below). This track shows copy number variants (CNVs) found in patients referred for genetic testing for indications such as intellectual disability, developmental delay, autism and congenital anomalies. Additionally, the ClinGen &quot;Curated Pathogenic&quot; and &quot;Curated Benign&quot; tracks represent genes/genomic regions reviewed for dosage sensitivity in an evidence-based manner by the ClinGen Structural Variation Working Group (dbVar study nstd45). The CNVs in this study have been reviewed for their clinical significance by the submitting ClinGen laboratory. Some of the deletions and duplications in the track have been reported as causative for a phenotype by the submitting clinical laboratory; this information was based on current knowledge at the time of submission. However, it should be noted that phenotype information is often vague and imprecise and should be used with caution. While all samples were submitted because of a phenotype in a patient, only 15% of patients had variants determined to be causal, and most patients will have additional variants that are not causal. CNVs are separated into subtracks and are labeled as: Pathogenic Uncertain: Likely Pathogenic Uncertain Uncertain: Likely Benign Benign The user should be aware that some of the data were submitted using a 3-class system, with the two &quot;Likely&quot; categories omitted. Two subtracks, &quot;Path Gain&quot; and &quot;Path Loss&quot;, are aggregate tracks showing graphically the accumulated level of gains and losses in the Pathogenic subtrack across the genome. Similarly, &quot;Benign Gain&quot; and &quot;Benign Loss&quot; show the accumulated level of gains and losses in the Benign subtrack. These tracks are collectively called &quot;Coverage&quot; tracks. Many samples have multiple variants, not all of which are causative of the phenotype. The CNVs in these samples have been decoupled, so it is not possible to connect multiple imbalances as coming from a single patient. It is therefore not possible to identify individuals via their genotype. Methods and Color Convention The samples were analyzed by arrays from patients referred for cytogenetic testing due to clinical phenotypes. Samples were analyzed with a probe spacing of 20-75 kb. The minimum CNV breakpoints are shown; if available, the maximum CNV breakpoints are provided in the details page, but are not shown graphically on the Browser image. Data were submitted to dbGaP at NCBI and thence decoupled as described into dbVar for unrestricted release. The entries are colored red for loss and blue for gain. The names of items use the ClinVar convention of appending "_inheritance" indicating the mechanism of inheritance, if known: "_pat, _mat, _dnovo, _unk" as paternal, maternal, de novo and unknown, respectively. Verification Most data were validated by the submitting laboratory using various methods, including FISH, G-banded karyotype, MLPA and qPCR. Credits Thank you to ClinGen and NCBI for technical coordination and consultation, and to the UCSC Genome Browser staff for engineering the track display. References Miller DT, Adam MP, Aradhya S, Biesecker LG, Brothman AR, Carter NP, Church DM, Crolla JA, Eichler EE, Epstein CJ et al. Consensus statement: chromosomal microarray is a first-tier clinical diagnostic test for individuals with developmental disabilities or congenital anomalies. Am J Hum Genet. 2010 May 14;86(5):749-64. PMID: 20466091; PMC: PMC2869000 Kaminsky EB, Kaul V, Paschall J, Church DM, Bunke B, Kunig D, Moreno-De-Luca D, Moreno-De-Luca A, Mulle JG, Warren ST et al. An evidence-based approach to establish the functional and clinical significance of copy number variants in intellectual and developmental disabilities. Genet Med. 2011 Sep;13(9):777-84. PMID: 21844811; PMC: PMC3661946 
iscaViewTotal Coverage (Graphical) Clinical Genome Resource (ClinGen) CNVs Phenotypes, Variants, and Literature 
iscaPathLossCum Path Loss ClinGen CNVs: Pathogenic Loss Coverage Phenotypes, Variants, and Literature 
iscaPathGainCum Path Gain ClinGen CNVs: Pathogenic Gain Coverage Phenotypes, Variants, and Literature 
iscaBenignLossCum Benign Loss ClinGen CNVs: Benign Loss Coverage Phenotypes, Variants, and Literature 
iscaBenignGainCum Benign Gain ClinGen CNVs: Benign Gain Coverage Phenotypes, Variants, and Literature 
iscaViewDetail CNVs Clinical Genome Resource (ClinGen) CNVs Phenotypes, Variants, and Literature 
iscaUncertain Uncertain ClinGen CNVs: Uncertain Phenotypes, Variants, and Literature 
iscaPathogenic Pathogenic ClinGen CNVs: Pathogenic Phenotypes, Variants, and Literature 
iscaCuratedPathogenic Curated Path ClinGen CNVs: Curated Pathogenic Phenotypes, Variants, and Literature 
iscaLikelyPathogenic Uncert Path ClinGen CNVs: Uncertain: Likely Pathogenic Phenotypes, Variants, and Literature 
iscaLikelyBenign Uncert Ben ClinGen CNVs: Uncertain: Likely Benign Phenotypes, Variants, and Literature 
iscaBenign Benign ClinGen CNVs: Benign Phenotypes, Variants, and Literature 
iscaCuratedBenign Curated Ben ClinGen CNVs: Curated Benign Phenotypes, Variants, and Literature 
clinvar ClinVar Variants ClinVar Variants Phenotypes, Variants, and Literature Description NOTE: ClinVar is intended for use primarily by physicians and other professionals concerned with genetic disorders, by genetics researchers, and by advanced students in science and medicine. Research data is not easy to interpret, and not everything shown is necessarily useful. While the ClinVar database is open to all academic users, users seeking information about a personal medical or genetic condition are urged to consult with a qualified physician for diagnosis and for answers to personal questions. These tracks show the genomic positions of variants in the ClinVar database. ClinVar is a free, public archive of reports of the relationships among human variations and phenotypes, with supporting evidence. The ClinVar SNVs track displays substitutions and indels shorter than 50 bp, and the ClinVar CNVs track displays copy number variants (CNVs) equal to or larger than 50 bp. The ClinVar Interpretations track displays the genomic positions of individual variant submissions and interpretations of the clinical significance and their relationship to disease in the ClinVar database. Note on the start position of variants: The data in the track are obtained directly from ClinVar's FTP site. We display the data obtained from ClinVar as-is to avoid discrepancies between UCSC and NCBI. However, be aware that the ClinVar conventions are different from the VCF standard. Variants may be right-aligned or may contain additional context, e.g. for inserts. The VCF position is also available in this track, as an additional field, at the end of the list of fields, when you click any variant. It can be extracted using our table browser, the API, or the bigBedToBed tool (see the Data access section below). And GnomAD has a converter. Display Conventions and Configuration Items can be filtered according to the size of the variant, variant type, clinical significance, allele origin, phenotype, and molecular consequence, using the track Configure options. Each subtrack has separate display controls, as described here. Entries in the ClinVar SNVs and ClinVar Interpretations tracks are colored by clinical significance: red for pathogenic dark blue for variant of uncertain significance green for benign dark grey for not provided light blue for conflicting Entries in the ClinVar CNVs track are colored by type of variant, among others: red for loss blue for gain purple for inversion orange for insertion A light-to-dark color gradient indicates the clinical significance of each variant, with the lightest shade being benign to the darkest shade being pathogenic. Detailed information on the CNV color code is described here. In the ClinVar SNV track, an option to show triangles for protein-truncating mutations is available under the Decoration settings, using the Glyph decoration placement option. Triangles can be placed using either the Overlay or Adjacent display. Variants with the following molecular consequences are considered protein-truncating: nonsense, frameshift variant, splice acceptor variant, and splice donor variant. Mouseover on the genomic locations of ClinVar variants shows variant details, clinical interpretation, and associated conditions. Further information on each variant is displayed on the details page by clicking onto any variant. ClinVar is an archive for assertions of clinical significance made by the submitters. The level of review supporting the assertion of clinical significance for the variation is reported as the review status. Stars (0 to 4) provide a graphical representation of the aggregate review status. The variants in the ClinVar Interpretations track are arranged from top to bottom by the variant classification of each submission: P: Pathogenic LP: Likely Pathogenic VUS: Variant of Unknown Significance LB: Likely Benign B: Benign OTH: Others The size of the bead represents the number of submissions at that genomic position. For better readability, the numbers are binned into three categories: Small-sized beads: 1-2 submissions Medium-sized beads: 3-7 submissions Large-sized beads: 8 or more submissions Hovering on the track items shows the genomic variations that start at that position and the number of individual submissions with that classification. The details page lists all rated submissions from ClinVar, with specific details to the interpretation of the clinical or functional significance of each variant in relation to a condition. Interpretation is at the variant-level, not at the case (or patient-specific) level. More information about using and understanding the ClinVar data can be found here. For the human genome version hg19, the hg19 genome released by UCSC in 2009 had a mitochondrial genome "chrM" that was not the same as the one later used for most databases like ClinVar. As a result, we added the official mitochondrial genome in 2020 as "chrMT", and all mitochondrial annotations of ClinVar and most other databases are shown on the mitochondrial genome called "chrMT". For a full description of the issue of the mitochondrial genome in hg19, please see the hg19 README file on our download site. Data updates ClinVar tries to publish a new release on the first Thursday of every month. In practice, the exact day can move by a few days. Our track is updated on the day after any ClinVar release, and copied to our public site one day later. The exact date of our last update is shown on the track configuration page. You can find the previous versions of the track organized by month on our downloads server in the archive directory. To display a previous version of the track, paste the URL to one of the older files into the custom track text input field under "My Data &gt; Custom Tracks". Data access The raw data can be explored interactively with the Table Browser or the Data Integrator. The data can be accessed from scripts through our API, the track names are "clinVarMain" and "clinVarCnv". For automated download and analysis, the genome annotation is stored in a bigBed file that can be downloaded from our download server. The files for this track are called clinvarMain.bb and clinvarCnv.bb. Individual regions or the whole genome annotation can be obtained using our tool bigBedToBed, which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tool can also be used to obtain only features within a given range, e.g. bigBedToBed http://hgdownload.soe.ucsc.edu/gbdb/hg19/bbi/clinvar/clinvarMain.bb -chrom=chr21 -start=0 -end=100000000 stdout Methods ClinVar files were reformatted at UCSC to the bigBed format. The data is updated every month, one week after the ClinVar release date. The program that performs the update is available on GitHub. Credits Thanks to NCBI for making the ClinVar data available on their FTP site as a tab-separated file. If you email them (clinvar@ncbi.nlm.nih.gov), feel free to CC us, it is always good to learn more about ClinVar. References Landrum MJ, Lee JM, Benson M, Brown G, Chao C, Chitipiralla S, Gu B, Hart J, Hoffman D, Hoover J et al. ClinVar: public archive of interpretations of clinically relevant variants. Nucleic Acids Res. 2016 Jan 4;44(D1):D862-8. PMID: 26582918; PMC: PMC4702865 Azzariti DR, Riggs ER, Niehaus A, Rodriguez LL, Ramos EM, Kattman B, Landrum MJ, Martin CL, Rehm HL. Points to consider for sharing variant-level information from clinical genetic testing with ClinVar. Cold Spring Harb Mol Case Stud. 2018 Feb;4(1). PMID: 29437798; PMC: PMC5793773 
clinvarSubLolly ClinVar interp ClinVar SNVs submitted interpretations and evidence Phenotypes, Variants, and Literature 
clinvarCnv ClinVar CNVs ClinVar Copy Number Variants >= 50bp Phenotypes, Variants, and Literature 
clinvarMain ClinVar SNVs ClinVar Short Nucleotide Variants < 50bp Phenotypes, Variants, and Literature 
cloneEndSuper Clone Ends Mapping of clone libraries end placements Mapping and Sequencing Description This track shows the NCBI clone end mappings from the NCBI Clone DB database. Libraries with more than 30,000 clones are included in this track display. While the NCBI Clone DB database interface has been retired and is no longer available, they were archived and are still accessible for download at NCBI and through the UCSC Genome Browser. Clone availability: most of the clone libraries shown here can no longer be ordered. Two librarires that we show are exceptions and are still available for ordering from BACPAC Genomics who still sells the libraries made by and formerly distributed by Children's Hospital Oakland Research Institute (CHORI): the BCGSC Human 32k BAC Re-Array (minimal tiling set, mostly RP11 and CTD clones) and the CHORI-17 (CH17) BAC library from a hydatidiform mole. Bacterial artificial chromosomes (BACs) are a key part of many large-scale sequencing projects. A BAC typically consists of 50 - 300 kb of DNA. During the early phase of a sequencing project, it is common to sequence a single read (approximately 500 bases) off each end of a large number of BACs. Later on in the project, these BAC end reads can be mapped to the genome sequence. These BAC end pairs can be useful for validating the assembly over relatively long ranges. In some cases, the BACs are useful biological reagents. This track can also be used for determining which BAC contains a given gene, useful information for certain wet lab experiments. The scoring scheme used for this annotation assigns 1000 to an alignment when the BAC end pair aligns to only one location in the genome (after filtering). When a BAC end pair or clone aligns to multiple locations, the score is calculated as 1500/(number of alignments). Display Conventions and Configuration Items in this track are colored according to their strand orientation. Blue indicates alignment to the forward strand, and green indicates alignment to the negative strand. Methods The mappings of these BAC end sequences are taken directly from the NCBI Clone DB FTP site ftp.ncbi.nih.gov/repository/clone/reports/Homo_sapiens/ *.GCF_000001405.26.106.*.gff files. UCSC filtered the NCBI Clone DB mapped ends to drop ends that mapped to a region that was three times longer than the median size of the clones in the library. Only libraries with more than 30,000 clones are included in this track display. Click through on displayed items to the Clone DB database information, including Clone DB distributor references. clone information from NCBI Clone DB and UCSC mapping statistics libraryname totalclones total&nbsp;endsequences NCBI&nbsp;mappedends UCSC&nbsp;filteredends UCSCdropped per-centdropped ABC82,007,0473,888,4761,205,4661,192,78412,682% 1.05 WI21,122,5642,298,885589,547582,8436,704% 1.14 ABC121,120,9392,169,280778,216771,8276,3890.82 ABC71,116,9662,152,975650,329644,0716,2580.96 ABC91,065,5032,084,892757,644750,6486,9960.92 ABC101,062,0822,121,489788,344781,3317,0130.89 ABC141,042,9292,089,193846,055839,1266,9290.82 ABC131,009,6432,057,345811,829803,5898,2401.01 ABC11998,8801,966,644730,565724,8645,7010.78 ABC23942,1331,535,766437,098433,8963,2020.73 ABC16907,9481,534,288452,316449,1013,2150.71 ABC24835,6001,383,475399,056395,7763,2800.82 ABC27768,3361,229,804334,232331,8222,4100.72 ABC18743,6401,204,811325,150322,9042,2460.69 COR2A723,5691,441,881583,327578,5784,7490.81 ABC22519,274780,151189,988188,7431,2450.66 ABC21436,930680,160182,214180,9731,2410.68 RP11292,975394,81386,87585,9039721.12 COR02272,396546,984208,377206,7821,5950.77 CTD226,848403,68896,59494,9411,6531.71 CH17176,209325,659105,805105,0607450.70 ABC2049,13280,35024,72024,4742461.00 UCSCdropped152,979n/an/an/an/an/a multiplemappings775,629n/an/an/an/an/a Credits Many of the libraries shown here were constructed by Pieter J. de Jong and colleagues, including the RPCI-11 (RP11) library at the Roswell Park Cancer Institute, and the CHORI-17 (CH17) and BCGSC 32k Re-Array libraries at BACPAC Genomics (formerly at the Children's Hospital Oakland Research Institute, CHORI). For background on de Jong's role in building these clone libraries, see this Undark profile. Additional information about the clone, including how it can be obtained, may be found at the NCBI Clone Registry. To view the registry entry for a specific clone, open the details page for the clone and click on its name at the top of the page. 
cloneEndWI2 WI2 WIBR-2 Fosmid library Mapping and Sequencing 
cloneEndRP11 RP11 RPCI BAC library 11 Mapping and Sequencing 
cloneEndmultipleMaps Multiple mappings Clone end placements that map to multiple locations in the genome Mapping and Sequencing 
cloneEndcoverageReverse Coverage reverse Clone end placements overlap coverage on the reverse strand Mapping and Sequencing 
cloneEndcoverageForward Coverage forward Clone end placements overlap coverage on the forward strand Mapping and Sequencing 
cloneEndbadEnds Bad end mappings Clone end placements dropped at UCSC, map distance 3X median library size Mapping and Sequencing 
cloneEndCOR2A COR2A NHGRI-CORIELLE CORIELL-02A-F-39-40KB Mapping and Sequencing 
cloneEndCOR02 COR02 NHGRI-CORIELLE CORIELL-02-F-39-40KB Mapping and Sequencing 
cloneEndCH17 CH17 CHORI BAC hydatidiform mole Mapping and Sequencing 
bacRearray32k BCGSC 32k rearray BCGSC Human BAC Rearray (32k minimal tiling set, mostly RP11 and CTD) Mapping and Sequencing Description This track shows the placements of the BCGSC Human BAC Re-Array, a curated &quot;32k set&quot; of bacterial artificial chromosome (BAC) clones that represents a minimal-overlap tiling path across the human genome. The clones are available for ordering from BACPAC Genomics at the Children's Hospital Oakland Research Institute (CHORI), where additional information on the collection, chromosome-specific sub-plates and quality control can also be found. The set was assembled by the BC Cancer Genome Sciences Centre (Marco Marra lab) together with the BACPAC Genomics group at CHORI to provide a compact, redundant-free clone collection for physical mapping, functional genomics and array-based assays such as comparative genomic hybridization (CGH) and FISH. The 32k set was selected from the human physical fingerprint map so that every region of the map is represented at least once. Additional clones were added to fill regions that initially lacked coverage, resulting in an average resolution of approximately 46 kb between overlapping BAC segments. The set provides coverage for more than 99% of both the fingerprint map and the reference genome assembly. Most clones in the set (about 30,388) are drawn from the RPCI-11 and RPCI-13 human BAC libraries; a smaller contribution (about 2,062 clones) comes from the CalTech CIT-D library (CTD). Unlike the other tracks in this container, the 32k set does not rely on BAC end sequences: clone identity and assembly placement have been verified repeatedly by HindIII fingerprinting at the Genome Sciences Centre. Display Conventions and Configuration Each item represents the genomic placement of a single BAC clone in the 32k re-array, labeled with its clone name (e.g. RP11-&hellip;, CTD-&hellip;). Clicking a clone opens a detail page with a link to the corresponding BACPAC Genomics clone record, where ordering and additional clone metadata are available. Methods The original placements were generated by CHORI/BACPAC by lifting an earlier clone set onto GRCh38/hg38 from older assemblies. The pre-lifted BED file provided by BACPAC was downloaded from bacpacresources.org, the custom-track header lines were removed, the data were sorted and the file was converted to bigBed (BED5) format with bedToBigBed. Note: earlier supporting data such as the original HindIII fingerprints and BAC end sequences for this minimal set are no longer available from BACPAC Genomics. Data Access The data can be explored interactively with the Table Browser or the Data Integrator, and exported from there to spreadsheet or tab-separated tables. From scripts, the data can be accessed through our REST API, using track=bacRearray32k. For automated download and analysis, the genome annotation is stored in a bigBed file that can be downloaded from our download server as bacRearray32k.bb. Individual regions or the whole annotation can be obtained using our tool bigBedToBed, which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tool can also be used to obtain features within a given range, e.g. bigBedToBed http://hgdownload.soe.ucsc.edu/gbdb/hg38/bbi/cloneEnd/bacRearray32k.bb -chrom=chr21 -start=0 -end=100000000 stdout. The original annotation source data can be downloaded from BACPAC Genomics. Additional information about the clone collection, including ordering, chromosome-specific sub-plates, and quality control, is available on the BACPAC Human BAC Minimal Tiling Set page. Credits The 32k Human BAC Re-Array was generated in collaboration between BACPAC Genomics at CHORI (Pieter J. de Jong and colleagues) and the BC Cancer Genome Sciences Centre (Marco Marra lab), Vancouver, BC, Canada. We thank Pieter J. de Jong for providing the pre-lifted hg38 placements. The RPCI-11 and RPCI-13 source libraries were constructed at the Roswell Park Cancer Institute. For background on de Jong's role in building these clone libraries, see this Undark profile. References Krzywinski M, Bosdet I, Smailus D, Chiu R, Mathewson C, Wye N, Barber S, Brown-John M, Chan S, Chand S et al. A set of BAC clones spanning the human genome. Nucleic Acids Res. 2004;32(12):3651-60. PMID: 15247347; PMC: PMC484185 Osoegawa K, Mammoser AG, Wu C, Frengen E, Zeng C, Catanese JJ, de Jong PJ. A bacterial artificial chromosome library for sequencing the complete human genome. Genome Res. 2001 Mar;11(3):483-96. PMID: 11230172; PMC: PMC311044 
cloneEndCTD CTD CalTech BAC library D Mapping and Sequencing 
cloneEndABC9 ABC9 Agencourt fosmid library 9 Mapping and Sequencing 
cloneEndABC8 ABC8 Agencourt fosmid library 8 Mapping and Sequencing 
cloneEndABC7 ABC7 Agencourt fosmid library 7 Mapping and Sequencing 
cloneEndABC27 ABC27 Agencourt fosmid library 27 Mapping and Sequencing 
cloneEndABC24 ABC24 Agencourt fosmid library 24 Mapping and Sequencing 
cloneEndABC23 ABC23 Agencourt fosmid library 23 Mapping and Sequencing 
cloneEndABC22 ABC22 Agencourt fosmid library 22 Mapping and Sequencing 
cloneEndABC21 ABC21 Agencourt fosmid library 21 Mapping and Sequencing 
cloneEndABC20 ABC20 Agencourt fosmid library 20 Mapping and Sequencing 
cloneEndABC18 ABC18 Agencourt fosmid library 18 Mapping and Sequencing 
cloneEndABC16 ABC16 Agencourt fosmid library 16 Mapping and Sequencing 
cloneEndABC14 ABC14 Agencourt fosmid library 14 Mapping and Sequencing 
cloneEndABC13 ABC13 Agencourt fosmid library 13 Mapping and Sequencing 
cloneEndABC12 ABC12 Agencourt fosmid library 12 Mapping and Sequencing 
cloneEndABC11 ABC11 Agencourt fosmid library 11 Mapping and Sequencing 
cloneEndABC10 ABC10 Agencourt fosmid library 10 Mapping and Sequencing 
clsLongReadRnaTrack CLS long-read RNAs Capture long-seq long-read lncRNAs RNA and Transcriptome Description These tracks represent the results of targeted long-read RNA sequencing aimed at identifying lowly expressed lncRNAs in adult and embryonic tissues. The track consists of capture target regions, mappings of pre- and post-capture reads, and transcript models built from the data. Portions of this dataset were used to develop the lncRNA annotations introduced in GENCODE v47. The data are a superset of the data incorporated into GENCODE. The transcript models for a given RNA do not necessarily match those in GENCODE and are provided as a guide to exploring the sequencing data. Detailed descriptions of the data are available at the GENCODE CLS Project site. Display Conventions and Configuration This is a multi-view composite track containing multiple data types (views). Each view includes subtracks that are displayed individually in the browser. Instructions for configuring multi-view tracks are here. Views: Targets: Capture target regions Models: Transcript models generated from reads and merging Sample models: Transcript models by sample in which they were observed Per-experiment reads: Read mappings per experiment Per-experiment Models: Transcript models generated from the experiments Model Color Coding Model annotations are color-coded based on their incorporation into GENCODE V47 and the assigned GENCODE V47 BioType: Coding Non-coding Pseudogene To be experimentally confirmed (TEC) Not incorporated into GENCODE V47 Methods This project, led by the GENCODE consortium, employed the Capture Long-read Sequencing (CLS) protocol to enrich transcripts from targeted genomic regions. It used a large capture array with orthologous probes in human and mouse genomes, targeting non-GENCODE lncRNA annotations and regions suspected of unannotated transcription. CapTrap-Seq, a cDNA library preparation protocol, was used to enrich for full-length RNA molecules (5′ to 3′). Matched adult and embryonic tissues from human and mouse were selected to maximize transcriptome complexity. Libraries were sequenced pre- and post-capture using PacBio and Oxford Nanopore Technologies (ONT) long-read platforms, as well as short-read technologies. Transcript isoform models were built from reads using the LyRic analysis software. These were merged using intron chains, with transcription start and end sites anchored using CAGE and poly(A) data. Data and metadata is discoverable via Array Express entry E-MTAB-14562 Credits This dataset was developed by the Guigó Lab, Centre for Genomic Regulation (CRG) and the GENCODE consortium. The track set was constructed by Sílvia Carbonell-Sala, Andrea Tanzer, and Mark Diekhans. References Kaur G, Perteghella T, Carbonell-Sala S, Gonzalez-Martinez J, Hunt T, Mądry T, Jungreis I, Arnan C, Lagarde J, Borsari B et al. GENCODE: massively expanding the lncRNA catalog through capture long-read RNA sequencing. bioRxiv. 2024 Oct 31;. PMID: 39554180; PMC: PMC11565817 Mudge JM, Carbonell-Sala S, Diekhans M, Martinez JG, Hunt T, Jungreis I, Loveland JE, Arnan C, Barnes I, Bennett R et al. GENCODE 2025: reference gene annotation for human and mouse. Nucleic Acids Res. 2025 Jan 6;53(D1):D966-D975. PMID: 39565199; PMC: PMC11701607 Pardo-Palacios FJ, Wang D, Reese F, Diekhans M, Carbonell-Sala S, Williams B, Loveland JE, De María M, Adams MS, Balderrama-Gutierrez G et al. Systematic assessment of long-read RNA-seq methods for transcript identification and quantification. Nat Methods. 2024 Jul;21(7):1349-1363. PMID: 38849569; PMC: PMC11543605 Carbonell-Sala S, Perteghella T, Lagarde J, Nishiyori H, Palumbo E, Arnan C, Takahashi H, Carninci P, Uszczynska-Ratajczak B, Guigó R. CapTrap-seq: a platform-agnostic and quantitative approach for high-fidelity full-length RNA sequencing. Nat Commun. 2024 Jun 27;15(1):5278. PMID: 38937428; PMC: PMC11211341 LyRic: Long RNA-seq analysis workflow https://github.com/guigolab/LyRic 
long_read_transcripts Long-read Transcripts Transcripts and other data generated using long-read sequencing technology (PacBio and Oxford Nanopore) RNA and Transcriptome Description This collection is for long-read RNA-seq transcript models and primary data generated from experiments using third-generation sequencing technology (PacBio and Oxford Nanopore). The initial set is long-read models from ENCODE4 PacBio Iso-Seq experiments. More data sets will be added to this collection in the future. 
targets_view Targets Capture long-seq long-read lncRNAs RNA and Transcriptome 
target_regions CLS targets CLS target regions RNA and Transcriptome 
sample_models_view Sample models Capture long-seq long-read lncRNAs RNA and Transcriptome 
adult_tpoola_models Tissue Pool models Tissue Pool transcript models RNA and Transcriptome 
adult_testis_models Testis models Adult Testis transcript models RNA and Transcriptome 
placenta_placenta_models Placenta models Placenta transcript models RNA and Transcriptome 
adult_liver_models Liver models Adult Liver transcript models RNA and Transcriptome 
adult_heart_models Heart models Adult Heart transcript models RNA and Transcriptome 
embryo_liver_models Emb Liver models Embryonic Liver transcript models RNA and Transcriptome 
embryo_ipsc_models Emb iPSC models Embryonic iPSC transcript models RNA and Transcriptome 
embryo_heart_models Emb Heart models Embryonic Heart transcript models RNA and Transcriptome 
embryo_brain_models Emb Brain models Embryonic Brain transcript models RNA and Transcriptome 
adult_cpoola_models Cell Line Pool models Cell Line Pool transcript models RNA and Transcriptome 
adult_brain_models Brain models Adult Brain transcript models RNA and Transcriptome 
adult_wblood_models Blood models Adult Blood transcript models RNA and Transcriptome 
per_expr_reads_view Reads Capture long-seq long-read lncRNAs RNA and Transcriptome 
adult_tpoola_pacbio_pre_reads Tissue Pool PB pre reads Tissue Pool PacBio pre-capture reads RNA and Transcriptome 
adult_tpoola_pacbio_post_reads Tissue Pool PB post reads Tissue Pool PacBio post-capture reads RNA and Transcriptome 
adult_tpoola_ont_pre_reads Tissue Pool ONT pre reads Tissue Pool ONT pre-capture reads RNA and Transcriptome 
adult_tpoola_ont_post_reads Tissue Pool ONT post reads Tissue Pool ONT post-capture reads RNA and Transcriptome 
adult_testis_pacbio_pre_reads Testis PB pre reads Adult Testis PacBio pre-capture reads RNA and Transcriptome 
adult_testis_pacbio_post_reads Testis PB post reads Adult Testis PacBio post-capture reads RNA and Transcriptome 
adult_testis_ont_pre_reads Testis ONT pre reads Adult Testis ONT pre-capture reads RNA and Transcriptome 
adult_testis_ont_post_reads Testis ONT post reads Adult Testis ONT post-capture reads RNA and Transcriptome 
placenta_placenta_pacbio_pre_reads Placenta PB pre reads Placenta PacBio pre-capture reads RNA and Transcriptome 
placenta_placenta_pacbio_post_reads Placenta PB post reads Placenta PacBio post-capture reads RNA and Transcriptome 
placenta_placenta_ont_pre_reads Placenta ONT pre reads Placenta ONT pre-capture reads RNA and Transcriptome 
placenta_placenta_ont_post_reads Placenta ONT post reads Placenta ONT post-capture reads RNA and Transcriptome 
adult_liver_pacbio_pre_reads Liver PB pre reads Adult Liver PacBio pre-capture reads RNA and Transcriptome 
adult_liver_pacbio_post_reads Liver PB post reads Adult Liver PacBio post-capture reads RNA and Transcriptome 
adult_liver_ont_pre_reads Liver ONT pre reads Adult Liver ONT pre-capture reads RNA and Transcriptome 
adult_liver_ont_post_reads Liver ONT post reads Adult Liver ONT post-capture reads RNA and Transcriptome 
adult_heart_pacbio_pre_reads Heart PB pre reads Adult Heart PacBio pre-capture reads RNA and Transcriptome 
adult_heart_pacbio_post_reads Heart PB post reads Adult Heart PacBio post-capture reads RNA and Transcriptome 
adult_heart_ont_pre_reads Heart ONT pre reads Adult Heart ONT pre-capture reads RNA and Transcriptome 
adult_heart_ont_post_reads Heart ONT post reads Adult Heart ONT post-capture reads RNA and Transcriptome 
embryo_liver_pacbio_pre_reads Emb Liver PB pre reads Embryonic Liver PacBio pre-capture reads RNA and Transcriptome 
embryo_liver_pacbio_post_reads Emb Liver PB post reads Embryonic Liver PacBio post-capture reads RNA and Transcriptome 
embryo_liver_ont_pre_reads Emb Liver ONT pre reads Embryonic Liver ONT pre-capture reads RNA and Transcriptome 
embryo_liver_ont_post_reads Emb Liver ONT post reads Embryonic Liver ONT post-capture reads RNA and Transcriptome 
embryo_ipsc_pacbio_pre_reads Emb iPSC PB pre reads Embryonic iPSC PacBio pre-capture reads RNA and Transcriptome 
embryo_ipsc_pacbio_post_reads Emb iPSC PB post reads Embryonic iPSC PacBio post-capture reads RNA and Transcriptome 
embryo_ipsc_ont_pre_reads Emb iPSC ONT pre reads Embryonic iPSC ONT pre-capture reads RNA and Transcriptome 
embryo_ipsc_ont_post_reads Emb iPSC ONT post reads Embryonic iPSC ONT post-capture reads RNA and Transcriptome 
embryo_heart_pacbio_pre_reads Emb Heart PB pre reads Embryonic Heart PacBio pre-capture reads RNA and Transcriptome 
embryo_heart_pacbio_post_reads Emb Heart PB post reads Embryonic Heart PacBio post-capture reads RNA and Transcriptome 
embryo_heart_ont_pre_reads Emb Heart ONT pre reads Embryonic Heart ONT pre-capture reads RNA and Transcriptome 
embryo_heart_ont_post_reads Emb Heart ONT post reads Embryonic Heart ONT post-capture reads RNA and Transcriptome 
embryo_brain_pacbio_pre_reads Emb Brain PB pre reads Embryonic Brain PacBio pre-capture reads RNA and Transcriptome 
embryo_brain_pacbio_post_reads Emb Brain PB post reads Embryonic Brain PacBio post-capture reads RNA and Transcriptome 
embryo_brain_ont_pre_reads Emb Brain ONT pre reads Embryonic Brain ONT pre-capture reads RNA and Transcriptome 
embryo_brain_ont_post_reads Emb Brain ONT post reads Embryonic Brain ONT post-capture reads RNA and Transcriptome 
adult_cpoola_pacbio_pre_reads Cell Line Pool PB pre reads Cell Line Pool PacBio pre-capture reads RNA and Transcriptome 
adult_cpoola_pacbio_post_reads Cell Line Pool PB post reads Cell Line Pool PacBio post-capture reads RNA and Transcriptome 
adult_cpoola_ont_pre_reads Cell Line Pool ONT pre reads Cell Line Pool ONT pre-capture reads RNA and Transcriptome 
adult_cpoola_ont_post_reads Cell Line Pool ONT post reads Cell Line Pool ONT post-capture reads RNA and Transcriptome 
adult_brain_pacbio_pre_reads Brain PB pre reads Adult Brain PacBio pre-capture reads RNA and Transcriptome 
adult_brain_pacbio_post_reads Brain PB post reads Adult Brain PacBio post-capture reads RNA and Transcriptome 
adult_brain_ont_pre_reads Brain ONT pre reads Adult Brain ONT pre-capture reads RNA and Transcriptome 
adult_brain_ont_post_reads Brain ONT post reads Adult Brain ONT post-capture reads RNA and Transcriptome 
adult_wblood_pacbio_pre_reads Blood PB pre reads Adult Blood PacBio pre-capture reads RNA and Transcriptome 
adult_wblood_pacbio_post_reads Blood PB post reads Adult Blood PacBio post-capture reads RNA and Transcriptome 
adult_wblood_ont_pre_reads Blood ONT pre reads Adult Blood ONT pre-capture reads RNA and Transcriptome 
adult_wblood_ont_post_reads Blood ONT post reads Adult Blood ONT post-capture reads RNA and Transcriptome 
models_view Models Capture long-seq long-read lncRNAs RNA and Transcriptome 
cls_gene_models CLS transcripts CLS transcript models RNA and Transcriptome 
per_expr_models_view Models Capture long-seq long-read lncRNAs RNA and Transcriptome 
adult_tpoola_pacbio_pre_models Tissue Pool PB pre models Tissue Pool PacBio pre-capture transcript models RNA and Transcriptome 
adult_tpoola_pacbio_post_models Tissue Pool PB post models Tissue Pool PacBio post-capture transcript models RNA and Transcriptome 
adult_tpoola_ont_pre_models Tissue Pool ONT pre models Tissue Pool ONT pre-capture transcript models RNA and Transcriptome 
adult_tpoola_ont_post_models Tissue Pool ONT post models Tissue Pool ONT post-capture transcript models RNA and Transcriptome 
adult_testis_pacbio_pre_models Testis PB pre models Adult Testis PacBio pre-capture transcript models RNA and Transcriptome 
adult_testis_pacbio_post_models Testis PB post models Adult Testis PacBio post-capture transcript models RNA and Transcriptome 
adult_testis_ont_pre_models Testis ONT pre models Adult Testis ONT pre-capture transcript models RNA and Transcriptome 
adult_testis_ont_post_models Testis ONT post models Adult Testis ONT post-capture transcript models RNA and Transcriptome 
placenta_placenta_pacbio_pre_models Placenta PB pre models Placenta PacBio pre-capture transcript models RNA and Transcriptome 
placenta_placenta_pacbio_post_models Placenta PB post models Placenta PacBio post-capture transcript models RNA and Transcriptome 
placenta_placenta_ont_pre_models Placenta ONT pre models Placenta ONT pre-capture transcript models RNA and Transcriptome 
placenta_placenta_ont_post_models Placenta ONT post models Placenta ONT post-capture transcript models RNA and Transcriptome 
adult_liver_pacbio_pre_models Liver PB pre models Adult Liver PacBio pre-capture transcript models RNA and Transcriptome 
adult_liver_pacbio_post_models Liver PB post models Adult Liver PacBio post-capture transcript models RNA and Transcriptome 
adult_liver_ont_pre_models Liver ONT pre models Adult Liver ONT pre-capture transcript models RNA and Transcriptome 
adult_liver_ont_post_models Liver ONT post models Adult Liver ONT post-capture transcript models RNA and Transcriptome 
adult_heart_pacbio_pre_models Heart PB pre models Adult Heart PacBio pre-capture transcript models RNA and Transcriptome 
adult_heart_pacbio_post_models Heart PB post models Adult Heart PacBio post-capture transcript models RNA and Transcriptome 
adult_heart_ont_pre_models Heart ONT pre models Adult Heart ONT pre-capture transcript models RNA and Transcriptome 
adult_heart_ont_post_models Heart ONT post models Adult Heart ONT post-capture transcript models RNA and Transcriptome 
embryo_liver_pacbio_pre_models Emb Liver PB pre models Embryonic Liver PacBio pre-capture transcript models RNA and Transcriptome 
embryo_liver_pacbio_post_models Emb Liver PB post models Embryonic Liver PacBio post-capture transcript models RNA and Transcriptome 
embryo_liver_ont_pre_models Emb Liver ONT pre models Embryonic Liver ONT pre-capture transcript models RNA and Transcriptome 
embryo_liver_ont_post_models Emb Liver ONT post models Embryonic Liver ONT post-capture transcript models RNA and Transcriptome 
embryo_ipsc_pacbio_pre_models Emb iPSC PB pre models Embryonic iPSC PacBio pre-capture transcript models RNA and Transcriptome 
embryo_ipsc_pacbio_post_models Emb iPSC PB post models Embryonic iPSC PacBio post-capture transcript models RNA and Transcriptome 
embryo_ipsc_ont_pre_models Emb iPSC ONT pre models Embryonic iPSC ONT pre-capture transcript models RNA and Transcriptome 
embryo_ipsc_ont_post_models Emb iPSC ONT post models Embryonic iPSC ONT post-capture transcript models RNA and Transcriptome 
embryo_heart_pacbio_pre_models Emb Heart PB pre models Embryonic Heart PacBio pre-capture transcript models RNA and Transcriptome 
embryo_heart_pacbio_post_models Emb Heart PB post models Embryonic Heart PacBio post-capture transcript models RNA and Transcriptome 
embryo_heart_ont_pre_models Emb Heart ONT pre models Embryonic Heart ONT pre-capture transcript models RNA and Transcriptome 
embryo_heart_ont_post_models Emb Heart ONT post models Embryonic Heart ONT post-capture transcript models RNA and Transcriptome 
embryo_brain_pacbio_pre_models Emb Brain PB pre models Embryonic Brain PacBio pre-capture transcript models RNA and Transcriptome 
embryo_brain_pacbio_post_models Emb Brain PB post models Embryonic Brain PacBio post-capture transcript models RNA and Transcriptome 
embryo_brain_ont_pre_models Emb Brain ONT pre models Embryonic Brain ONT pre-capture transcript models RNA and Transcriptome 
embryo_brain_ont_post_models Emb Brain ONT post models Embryonic Brain ONT post-capture transcript models RNA and Transcriptome 
adult_cpoola_pacbio_pre_models Cell Line Pool PB pre models Cell Line Pool PacBio pre-capture transcript models RNA and Transcriptome 
adult_cpoola_pacbio_post_models Cell Line Pool PB post models Cell Line Pool PacBio post-capture transcript models RNA and Transcriptome 
adult_cpoola_ont_pre_models Cell Line Pool ONT pre models Cell Line Pool ONT pre-capture transcript models RNA and Transcriptome 
adult_cpoola_ont_post_models Cell Line Pool ONT post models Cell Line Pool ONT post-capture transcript models RNA and Transcriptome 
adult_brain_pacbio_pre_models Brain PB pre models Adult Brain PacBio pre-capture transcript models RNA and Transcriptome 
adult_brain_pacbio_post_models Brain PB post models Adult Brain PacBio post-capture transcript models RNA and Transcriptome 
adult_brain_ont_pre_models Brain ONT pre models Adult Brain ONT pre-capture transcript models RNA and Transcriptome 
adult_brain_ont_post_models Brain ONT post models Adult Brain ONT post-capture transcript models RNA and Transcriptome 
adult_wblood_pacbio_pre_models Blood PB pre models Adult Blood PacBio pre-capture transcript models RNA and Transcriptome 
adult_wblood_pacbio_post_models Blood PB post models Adult Blood PacBio post-capture transcript models RNA and Transcriptome 
adult_wblood_ont_pre_models Blood ONT pre models Adult Blood ONT pre-capture transcript models RNA and Transcriptome 
adult_wblood_ont_post_models Blood ONT post models Adult Blood ONT post-capture transcript models RNA and Transcriptome 
colonWangCellType Colon Cells Colon cells binned by cell type from Wang et al 2020 Single Cell RNA-seq Description This track shows data from Single-cell transcriptome analysis reveals differential nutrient absorption functions in human intestine. Droplet-based single-cell RNA sequencing (scRNA-seq) was used to survey gene expression profiles of the epithelium in the human ileum, colon, and rectum. A total of 7 cell clusters were identified: enterocytes (EC), goblet cells (G), paneth-like cells (PLC), enteroendocrine cells (EEC), progenitor cells (PRO), transient-amplifying cells (TA) and stem cells (SC). This track collection contains two bar chart tracks of RNA expression in colon cells where cells are grouped by cell type (Colon Cells) or donor (Colon Donor). The default track displayed is Colon Cells. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification epithelial secretory stem cell Cells that fall into multiple classes will be colored by blending the colors associated with those classes. Note that the Colon Donor track is colored by donor for improved clarity. Method Using scRNA-seq, RNA profiles of intestinal epithelial cells were obtained for 4,472 cells from two human colon samples. Tissue samples belonged to a male donor age 54 (Colon-1) and a female donor age 67 (Colon-2) both diagnosed with Adenocarcinoma. The healthy intestinal mucous membranes used for each sample were cut away from the tumor border in surgically removed ascending colon tissue. Additionally, the intestinal tissues were washed in Hank's balanced salt solution (HBSS) to remove mucus, blood cells, and muscle tissue. The sample was enriched for epithelial cells through centrifugation before being dissociated with Tryple to obtain single-cell suspensions. RNA-seq libraries were prepared using 10x Genomics 3' v2 kit and sequenced on an Illumina Hiseq X Ten PE150. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Yalong Wang, Wanlu Song, and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Luis Nassar. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Wang Y, Song W, Wang J, Wang T, Xiong X, Qi Z, Fu W, Yang X, Chen YG. Single-cell transcriptome analysis reveals differential nutrient absorption functions in human intestine. J Exp Med. 2020 Feb 3;217(2). PMID: 31753849; PMC: PMC7041720 
colonWang Colon Wang Colon single cell sequencing from Wang et al 2020 Single Cell RNA-seq Description This track shows data from Single-cell transcriptome analysis reveals differential nutrient absorption functions in human intestine. Droplet-based single-cell RNA sequencing (scRNA-seq) was used to survey gene expression profiles of the epithelium in the human ileum, colon, and rectum. A total of 7 cell clusters were identified: enterocytes (EC), goblet cells (G), paneth-like cells (PLC), enteroendocrine cells (EEC), progenitor cells (PRO), transient-amplifying cells (TA) and stem cells (SC). This track collection contains two bar chart tracks of RNA expression in colon cells where cells are grouped by cell type (Colon Cells) or donor (Colon Donor). The default track displayed is Colon Cells. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification epithelial secretory stem cell Cells that fall into multiple classes will be colored by blending the colors associated with those classes. Note that the Colon Donor track is colored by donor for improved clarity. Method Using scRNA-seq, RNA profiles of intestinal epithelial cells were obtained for 4,472 cells from two human colon samples. Tissue samples belonged to a male donor age 54 (Colon-1) and a female donor age 67 (Colon-2) both diagnosed with Adenocarcinoma. The healthy intestinal mucous membranes used for each sample were cut away from the tumor border in surgically removed ascending colon tissue. Additionally, the intestinal tissues were washed in Hank's balanced salt solution (HBSS) to remove mucus, blood cells, and muscle tissue. The sample was enriched for epithelial cells through centrifugation before being dissociated with Tryple to obtain single-cell suspensions. RNA-seq libraries were prepared using 10x Genomics 3' v2 kit and sequenced on an Illumina Hiseq X Ten PE150. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Yalong Wang, Wanlu Song, and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Luis Nassar. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Wang Y, Song W, Wang J, Wang T, Xiong X, Qi Z, Fu W, Yang X, Chen YG. Single-cell transcriptome analysis reveals differential nutrient absorption functions in human intestine. J Exp Med. 2020 Feb 3;217(2). PMID: 31753849; PMC: PMC7041720 
colonWangDonor Colon Donor Colon cells binned by organ donor from Wang et al 2020 Single Cell RNA-seq Description This track shows data from Single-cell transcriptome analysis reveals differential nutrient absorption functions in human intestine. Droplet-based single-cell RNA sequencing (scRNA-seq) was used to survey gene expression profiles of the epithelium in the human ileum, colon, and rectum. A total of 7 cell clusters were identified: enterocytes (EC), goblet cells (G), paneth-like cells (PLC), enteroendocrine cells (EEC), progenitor cells (PRO), transient-amplifying cells (TA) and stem cells (SC). This track collection contains two bar chart tracks of RNA expression in colon cells where cells are grouped by cell type (Colon Cells) or donor (Colon Donor). The default track displayed is Colon Cells. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification epithelial secretory stem cell Cells that fall into multiple classes will be colored by blending the colors associated with those classes. Note that the Colon Donor track is colored by donor for improved clarity. Method Using scRNA-seq, RNA profiles of intestinal epithelial cells were obtained for 4,472 cells from two human colon samples. Tissue samples belonged to a male donor age 54 (Colon-1) and a female donor age 67 (Colon-2) both diagnosed with Adenocarcinoma. The healthy intestinal mucous membranes used for each sample were cut away from the tumor border in surgically removed ascending colon tissue. Additionally, the intestinal tissues were washed in Hank's balanced salt solution (HBSS) to remove mucus, blood cells, and muscle tissue. The sample was enriched for epithelial cells through centrifugation before being dissociated with Tryple to obtain single-cell suspensions. RNA-seq libraries were prepared using 10x Genomics 3' v2 kit and sequenced on an Illumina Hiseq X Ten PE150. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Yalong Wang, Wanlu Song, and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Luis Nassar. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Wang Y, Song W, Wang J, Wang T, Xiong X, Qi Z, Fu W, Yang X, Chen YG. Single-cell transcriptome analysis reveals differential nutrient absorption functions in human intestine. J Exp Med. 2020 Feb 3;217(2). PMID: 31753849; PMC: PMC7041720 
deepvariant CoLoRSdb small variants CoLoRSdb long-read small variants Variation 
longReadVariants Long-read Variants Long-read Variants Variation Description The tracks listed here contain variants using long-read sequencing technologies. CoLoRSdb small variants: small genetic variants (single nucleotide polymorphisms and short insertions and deletions) called with DeepVariant and merged with GLnexus/bcftools. CoLoRSdb structural variants: structural variants (insertions, deletions, and inversions) discovered with pbsv and merged across samples using Jasmine. Display conventions Hover over the feature to see more information, explained on the track details page of the particular track or when clicking onto the feature. Credits For data provenance, access and descriptions, please click the documentation via the link above. 
pbsv CoLoRSdb structural variants CoLoRSdb long-read structural variants Variation 
coriellDelDup Coriell CNVs Coriell Cell Line Copy Number Variants Phenotypes, Variants, and Literature Description The Coriell Cell Line Copy Number Variants track displays copy-number variants (CNVs) in chromosomal aberration and inherited disorder cell lines in the NIGMS Human Genetic Cell Repository. The Repository, sponsored by the National Institute of General Medical Sciences, provides scientists around the world with resources for cell and genetic research. The samples include highly characterized cell lines and high quality DNA. NIGMS Repository samples represent a variety of disease states, chromosomal abnormalities, apparently healthy individuals and many distinct human populations. Approximately 1000 samples from the Chromosomal Aberrations and Heritable Diseases collections of the NIGMS Repository were genotyped on the Affymetrix Genome-Wide Human SNP 6.0 Array and analyzed for CNVs at the Coriell Institute for Medical Research. Genotyping data for many of these samples is available through dbGaP. The genotyped samples represent a diverse set of copy-number variants. The selection was weighted to over-sample commonly manifested types of aberrations. Karyotyping was performed on all NIGMS Repository cell lines that were submitted with reported chromosome abnormalities. When available, the ISCN description of the sample, based on G-banding and FISH analysis, is included in the phenotypic data. Karyotypes for these cells can be viewed in the online Repository catalog. Field definitions for an item description: CN State: Copy Number of the imbalance. Note that all CNVs with a copy number of 2 are colored neutral (black) and occur on the sex chromosomes, where a CN State of 2 should not be interpreted as normal, as it would be on an autosome. Cell Type: Type of cell culture; one of the following: B Lymphocyte, Fibroblast, Amniotic fluid-derived cell line or Chorionic villus-derived cell line. Description (Diagnosis): May be a medical diagnosis, such as "albinism" or a chromosomal phenotype, such as "translocation" or other description. ISCN nomenclature: A description of the chromosomal karyotype in formal ISCN nomenclature. CN State item coloring: CN State 0 == score 0 CN State 1 == score 100 CN State 2 == score 200 CN State 3 == score 300 CN State 4 == score 400 Use the score filter limits on the configuration page to select desired CN States. Credits We thank Dorit Berlin and Zhenya Tang of the NIGMS Human Genetic Cell Repository at the Coriell Institute for Medical Research for these data. References NCBI dbGaP: Genotyping NIGMS Chromosomal Aberration and Inherited Disorder Samples. NIGMS Human Genetic Cell Repository online catalog at the Coriell Institute for Medical Research. 
cortexVelmeshevCellType Cortex Cells Cerebral cortex RNA binned by cell type from Velmeshev et al 2019 Single Cell RNA-seq Description This track displays data from Single-cell genomics identifies cell type-specific molecular changes in autism. Single-nucleus RNA sequencing (snRNA-seq) was performed on post-mortem cortical tissue samples from patients with autism spectrum disorder (ASD) as well as control donors. A total of 17 cell clusters were identified using known cell type markers found in Velmeshev et al., 2019. This track collection contains five bar chart tracks of RNA expression in the human cerebral cortex where cells are grouped by cell type (Cortex Cells), diagnosis (Cortex Diagnosis), donor (Cortex Donor), sample (Cortex Sample), and sex (Cortex Sex). The default track displayed is Cortex Cells. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification neural immune endothelial glia Cells that fall into multiple classes will be colored by blending the colors associated with those classes. The colors will be purest in the Cortex Cells subtrack, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Method Healthy cortical samples were taken from 16 controls (ages 4-22) without neurological disorders and 15 ASD patients (ages 7-21). A total of 41 post-mortem tissue samples were obtained from both the prefrontal cortex (PFC) and anterior cingulate cortex (ACC). When present, subcortical white matter was removed prior to collection from cortical samples containing all layers of cortical grey matter. ASD and control samples were matched for sex and age and processed together to minimize batch effects. Nuclei were isolated from brain tissue using a glass dounce homogenizer in lysis buffer and then filtered twice through a 30 &#181;m cell strainer. Next, samples were processed using 10x Genomics 3' library kit and the resulting single-nucleus libraries were pooled together and sequenced on an Illumina NovaSeq 6000. This process generated 104,559 single-nuclei gene expression profiles in total. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Dmitry Velmeshev and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by by Daniel Schmelter. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Velmeshev D, Schirmer L, Jung D, Haeussler M, Perez Y, Mayer S, Bhaduri A, Goyal N, Rowitch DH, Kriegstein AR. Single-cell genomics identifies cell type-specific molecular changes in autism. Science. 2019 May 17;364(6441):685-689. PMID: 31097668; PMC: PMC7678724 
cortexVelmeshev Cortex Velmeshev Cerebral cortex single cell data from  Velmeshev et al 2019 Single Cell RNA-seq Description This track displays data from Single-cell genomics identifies cell type-specific molecular changes in autism. Single-nucleus RNA sequencing (snRNA-seq) was performed on post-mortem cortical tissue samples from patients with autism spectrum disorder (ASD) as well as control donors. A total of 17 cell clusters were identified using known cell type markers found in Velmeshev et al., 2019. This track collection contains five bar chart tracks of RNA expression in the human cerebral cortex where cells are grouped by cell type (Cortex Cells), diagnosis (Cortex Diagnosis), donor (Cortex Donor), sample (Cortex Sample), and sex (Cortex Sex). The default track displayed is Cortex Cells. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification neural immune endothelial glia Cells that fall into multiple classes will be colored by blending the colors associated with those classes. The colors will be purest in the Cortex Cells subtrack, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Method Healthy cortical samples were taken from 16 controls (ages 4-22) without neurological disorders and 15 ASD patients (ages 7-21). A total of 41 post-mortem tissue samples were obtained from both the prefrontal cortex (PFC) and anterior cingulate cortex (ACC). When present, subcortical white matter was removed prior to collection from cortical samples containing all layers of cortical grey matter. ASD and control samples were matched for sex and age and processed together to minimize batch effects. Nuclei were isolated from brain tissue using a glass dounce homogenizer in lysis buffer and then filtered twice through a 30 &#181;m cell strainer. Next, samples were processed using 10x Genomics 3' library kit and the resulting single-nucleus libraries were pooled together and sequenced on an Illumina NovaSeq 6000. This process generated 104,559 single-nuclei gene expression profiles in total. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Dmitry Velmeshev and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by by Daniel Schmelter. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Velmeshev D, Schirmer L, Jung D, Haeussler M, Perez Y, Mayer S, Bhaduri A, Goyal N, Rowitch DH, Kriegstein AR. Single-cell genomics identifies cell type-specific molecular changes in autism. Science. 2019 May 17;364(6441):685-689. PMID: 31097668; PMC: PMC7678724 
cortexVelmeshevDiagnosis Cortex Diagnosis Cerebral cortex RNA binned by ASD/control diagnosis from Velmeshev et al 2019 Single Cell RNA-seq Description This track displays data from Single-cell genomics identifies cell type-specific molecular changes in autism. Single-nucleus RNA sequencing (snRNA-seq) was performed on post-mortem cortical tissue samples from patients with autism spectrum disorder (ASD) as well as control donors. A total of 17 cell clusters were identified using known cell type markers found in Velmeshev et al., 2019. This track collection contains five bar chart tracks of RNA expression in the human cerebral cortex where cells are grouped by cell type (Cortex Cells), diagnosis (Cortex Diagnosis), donor (Cortex Donor), sample (Cortex Sample), and sex (Cortex Sex). The default track displayed is Cortex Cells. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification neural immune endothelial glia Cells that fall into multiple classes will be colored by blending the colors associated with those classes. The colors will be purest in the Cortex Cells subtrack, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Method Healthy cortical samples were taken from 16 controls (ages 4-22) without neurological disorders and 15 ASD patients (ages 7-21). A total of 41 post-mortem tissue samples were obtained from both the prefrontal cortex (PFC) and anterior cingulate cortex (ACC). When present, subcortical white matter was removed prior to collection from cortical samples containing all layers of cortical grey matter. ASD and control samples were matched for sex and age and processed together to minimize batch effects. Nuclei were isolated from brain tissue using a glass dounce homogenizer in lysis buffer and then filtered twice through a 30 &#181;m cell strainer. Next, samples were processed using 10x Genomics 3' library kit and the resulting single-nucleus libraries were pooled together and sequenced on an Illumina NovaSeq 6000. This process generated 104,559 single-nuclei gene expression profiles in total. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Dmitry Velmeshev and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by by Daniel Schmelter. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Velmeshev D, Schirmer L, Jung D, Haeussler M, Perez Y, Mayer S, Bhaduri A, Goyal N, Rowitch DH, Kriegstein AR. Single-cell genomics identifies cell type-specific molecular changes in autism. Science. 2019 May 17;364(6441):685-689. PMID: 31097668; PMC: PMC7678724 
cortexVelmeshevDonor Cortex Donor Cerebral cortex RNA binned by organ donor from Velmeshev et al 2019 Single Cell RNA-seq Description This track displays data from Single-cell genomics identifies cell type-specific molecular changes in autism. Single-nucleus RNA sequencing (snRNA-seq) was performed on post-mortem cortical tissue samples from patients with autism spectrum disorder (ASD) as well as control donors. A total of 17 cell clusters were identified using known cell type markers found in Velmeshev et al., 2019. This track collection contains five bar chart tracks of RNA expression in the human cerebral cortex where cells are grouped by cell type (Cortex Cells), diagnosis (Cortex Diagnosis), donor (Cortex Donor), sample (Cortex Sample), and sex (Cortex Sex). The default track displayed is Cortex Cells. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification neural immune endothelial glia Cells that fall into multiple classes will be colored by blending the colors associated with those classes. The colors will be purest in the Cortex Cells subtrack, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Method Healthy cortical samples were taken from 16 controls (ages 4-22) without neurological disorders and 15 ASD patients (ages 7-21). A total of 41 post-mortem tissue samples were obtained from both the prefrontal cortex (PFC) and anterior cingulate cortex (ACC). When present, subcortical white matter was removed prior to collection from cortical samples containing all layers of cortical grey matter. ASD and control samples were matched for sex and age and processed together to minimize batch effects. Nuclei were isolated from brain tissue using a glass dounce homogenizer in lysis buffer and then filtered twice through a 30 &#181;m cell strainer. Next, samples were processed using 10x Genomics 3' library kit and the resulting single-nucleus libraries were pooled together and sequenced on an Illumina NovaSeq 6000. This process generated 104,559 single-nuclei gene expression profiles in total. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Dmitry Velmeshev and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by by Daniel Schmelter. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Velmeshev D, Schirmer L, Jung D, Haeussler M, Perez Y, Mayer S, Bhaduri A, Goyal N, Rowitch DH, Kriegstein AR. Single-cell genomics identifies cell type-specific molecular changes in autism. Science. 2019 May 17;364(6441):685-689. PMID: 31097668; PMC: PMC7678724 
cortexVelmeshevSample Cortex Sample Cerebral cortex RNA binned by biosample from Velmeshev et al 2019 Single Cell RNA-seq Description This track displays data from Single-cell genomics identifies cell type-specific molecular changes in autism. Single-nucleus RNA sequencing (snRNA-seq) was performed on post-mortem cortical tissue samples from patients with autism spectrum disorder (ASD) as well as control donors. A total of 17 cell clusters were identified using known cell type markers found in Velmeshev et al., 2019. This track collection contains five bar chart tracks of RNA expression in the human cerebral cortex where cells are grouped by cell type (Cortex Cells), diagnosis (Cortex Diagnosis), donor (Cortex Donor), sample (Cortex Sample), and sex (Cortex Sex). The default track displayed is Cortex Cells. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification neural immune endothelial glia Cells that fall into multiple classes will be colored by blending the colors associated with those classes. The colors will be purest in the Cortex Cells subtrack, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Method Healthy cortical samples were taken from 16 controls (ages 4-22) without neurological disorders and 15 ASD patients (ages 7-21). A total of 41 post-mortem tissue samples were obtained from both the prefrontal cortex (PFC) and anterior cingulate cortex (ACC). When present, subcortical white matter was removed prior to collection from cortical samples containing all layers of cortical grey matter. ASD and control samples were matched for sex and age and processed together to minimize batch effects. Nuclei were isolated from brain tissue using a glass dounce homogenizer in lysis buffer and then filtered twice through a 30 &#181;m cell strainer. Next, samples were processed using 10x Genomics 3' library kit and the resulting single-nucleus libraries were pooled together and sequenced on an Illumina NovaSeq 6000. This process generated 104,559 single-nuclei gene expression profiles in total. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Dmitry Velmeshev and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by by Daniel Schmelter. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Velmeshev D, Schirmer L, Jung D, Haeussler M, Perez Y, Mayer S, Bhaduri A, Goyal N, Rowitch DH, Kriegstein AR. Single-cell genomics identifies cell type-specific molecular changes in autism. Science. 2019 May 17;364(6441):685-689. PMID: 31097668; PMC: PMC7678724 
cortexVelmeshevSex Cortex Sex Cerebral cortex RNA binned by sex of donor from Velmeshev et al 2019 Single Cell RNA-seq Description This track displays data from Single-cell genomics identifies cell type-specific molecular changes in autism. Single-nucleus RNA sequencing (snRNA-seq) was performed on post-mortem cortical tissue samples from patients with autism spectrum disorder (ASD) as well as control donors. A total of 17 cell clusters were identified using known cell type markers found in Velmeshev et al., 2019. This track collection contains five bar chart tracks of RNA expression in the human cerebral cortex where cells are grouped by cell type (Cortex Cells), diagnosis (Cortex Diagnosis), donor (Cortex Donor), sample (Cortex Sample), and sex (Cortex Sex). The default track displayed is Cortex Cells. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification neural immune endothelial glia Cells that fall into multiple classes will be colored by blending the colors associated with those classes. The colors will be purest in the Cortex Cells subtrack, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Method Healthy cortical samples were taken from 16 controls (ages 4-22) without neurological disorders and 15 ASD patients (ages 7-21). A total of 41 post-mortem tissue samples were obtained from both the prefrontal cortex (PFC) and anterior cingulate cortex (ACC). When present, subcortical white matter was removed prior to collection from cortical samples containing all layers of cortical grey matter. ASD and control samples were matched for sex and age and processed together to minimize batch effects. Nuclei were isolated from brain tissue using a glass dounce homogenizer in lysis buffer and then filtered twice through a 30 &#181;m cell strainer. Next, samples were processed using 10x Genomics 3' library kit and the resulting single-nucleus libraries were pooled together and sequenced on an Illumina NovaSeq 6000. This process generated 104,559 single-nuclei gene expression profiles in total. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Dmitry Velmeshev and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by by Daniel Schmelter. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Velmeshev D, Schirmer L, Jung D, Haeussler M, Perez Y, Mayer S, Bhaduri A, Goyal N, Rowitch DH, Kriegstein AR. Single-cell genomics identifies cell type-specific molecular changes in autism. Science. 2019 May 17;364(6441):685-689. PMID: 31097668; PMC: PMC7678724 
cosmicMuts COSMIC Catalogue of Somatic Mutations in Cancer V101 Phenotypes, Variants, and Literature Description COSMIC, the "Catalogue Of Somatic Mutations In Cancer," is an online database of somatic mutations found in human cancer. Focused exclusively on non-inherited acquired mutations, COSMIC combines information from a range of sources, curating the described relationships between cancer phenotypes and gene (and genomic) mutations. These data are then made available in a number of ways including here in the UCSC genome browser, on the COSMIC website with custom analytical tools, or via the COSMIC sftp server. Publications using COSMIC as a data source may cite our reference below. Methods The data in COSMIC are curated from a number of high-quality sources and combined into a single resource. The sources include: Peer-reviewed journal articles CGP laboratories at the Sanger Institute, UK TCGA data portal The ICGC data portal IARC p53 database Information on known cancer genes, selected from the Cancer Gene Census is curated manually to maximize its descriptive content. UCSC was provided with the COSMIC annotations directly, and the file was converted to a bigBed for display using the bedToBigBed utility. Display Dense - Indicate the positions where COSMIC mutations have been annotated in a single horizontal track. Squish - Indicate each mutation, in vertical pileups where appropriate, while minimizing screen space used. Pack - Indicate each mutation with Genomic Mutation ID (COSVnnnnn). Full - Show each mutation in detail, one per line, with Genomic Mutation ID (COSVnnnnn). Clicking into any item also displays the reference allele, alternate allele, and the Cosmic legacy mutation identifier (COSNnnnnn). Outlinks can also be found directly to COSMIC for additional information. Data Access The limited data available to UCSC can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. The complete data can be explored and downloaded via the COSMIC website. Contacts For further information on COSMIC, or for help with the information provided, please contact &#99;&#111;sm&#105;&#99;&#64;&#115;a&#110;g&#101;&#114;. &#97;&#99;. &#117;&#107;. References Forbes SA, Beare D, Boutselakis H, Bamford S, Bindal N, Tate J, Cole CG, Ward S, Dawson E, Ponting L et al. COSMIC: somatic cancer genetics at high-resolution. Nucleic Acids Res. 2017 Jan 4;45(D1):D777-D783. PMID: 27899578; PMC: PMC5210583 
cosmicRegions COSMIC Regions Catalogue of Somatic Mutations in Cancer V82 Phenotypes, Variants, and Literature Description COSMIC, the "Catalogue Of Somatic Mutations In Cancer," is an online database of somatic mutations found in human cancer. Focused exclusively on non-inherited acquired mutations, COSMIC combines information from a range of sources, curating the described relationships between cancer phenotypes and gene (and genomic) mutations. These data are then made available in a number of ways including here in the UCSC genome browser, on the COSMIC website with custom analytical tools, or via the COSMIC sftp server. Publications using COSMIC as a data source may cite our reference below. Methods The data in COSMIC are curated from a number of high-quality sources and combined into a single resource. The sources include: Peer-reviewed journal articles CGP laboratories at the Sanger Institute, UK TCGA data portal The ICGC data portal IARC p53 database Information on known cancer genes, selected from the Cancer Gene Census is curated manually to maximize its descriptive content. The data was downloaded from the COSMIC sftp server. It was first converted to a bed file using the UCSC utility cosmicToBed, then converted into a bigBed file using the UCSC utility bedToBigBed. The bigBed file is used to generate the track. Display Dense - Indicate the positions where COSMIC mutations have been annotated in a single horizontal track. Squish - Indicate each mutation, in vertical pileups where appropriate, while minimizing screen space used. Pack - Indicate each mutation with COSMIC identifier (COSMnnnnn). Full - Show each mutation in detail, one per line, with COSM identifier (COSMnnnnn). Data Access Due to licensed material, we do not allow downloads or Table Browser access for the bigBed data. The raw data underlying this track can be explored and downloaded via the COSMIC website. The CosmicMutantExport.tsv.gz file was converted to a BED file using the cosmicToBed utility, and then converted into a bigBed file using the bedToBigBed utility. You can download these tools from the utilities directory. Contacts For further information on COSMIC, or for help with the information provided, please contact &#99;&#111;sm&#105;&#99;&#64;&#115;a&#110;g&#101;&#114;. &#97;&#99;. &#117;&#107;. References Forbes SA, Beare D, Boutselakis H, Bamford S, Bindal N, Tate J, Cole CG, Ward S, Dawson E, Ponting L et al. COSMIC: somatic cancer genetics at high-resolution. Nucleic Acids Res. 2017 Jan 4;45(D1):D777-D783. PMID: 27899578; PMC: PMC5210583 
crisprAllTargets CRISPR Targets CRISPR/Cas9 -NGG Targets, whole genome Genes and Gene Predictions Description This track shows the DNA sequences targetable by CRISPR RNA guides using the Cas9 enzyme from S. pyogenes (PAM: NGG) over the entire human (hg38) genome. CRISPR target sites were annotated with predicted specificity (off-target effects) and predicted efficiency (on-target cleavage) by various algorithms through the tool CRISPOR. Sp-Cas9 usually cuts double-stranded DNA three or four base pairs 5' of the PAM site. Display Conventions and Configuration The track &quot;CRISPR Targets&quot; shows all potential -NGG target sites across the genome. The target sequence of the guide is shown with a thick (exon) bar. The PAM motif match (NGG) is shown with a thinner bar. Guides are colored to reflect both predicted specificity and efficiency. Specificity reflects the &quot;uniqueness&quot; of a 20mer sequence in the genome; the less unique a sequence is, the more likely it is to cleave other locations of the genome (off-target effects). Efficiency is the frequency of cleavage at the target site (on-target efficiency). Shades of gray stand for sites that are hard to target specifically, as the 20mer is not very unique in the genome: impossible to target: target site has at least one identical copy in the genome and was not scored hard to target: many similar sequences in the genome that alignment stopped, repeat? hard to target: target site was aligned but results in a low specificity score &lt;= 50 (see below) Colors highlight targets that are specific in the genome (MIT specificity &gt; 50) but have different predicted efficiencies: unable to calculate Doench/Fusi 2016 efficiency score low predicted cleavage: Doench/Fusi 2016 Efficiency percentile &lt;= 30 medium predicted cleavage: Doench/Fusi 2016 Efficiency percentile &gt; 30 and &lt; 55 high predicted cleavage: Doench/Fusi 2016 Efficiency &gt; 55 Mouse-over a target site to show predicted specificity and efficiency scores: The MIT Specificity score summarizes all off-targets into a single number from 0-100. The higher the number, the fewer off-target effects are expected. We recommend guides with an MIT specificity &gt; 50. The efficiency score tries to predict if a guide leads to rather strong or weak cleavage. According to (Haeussler et al. 2016), the Doench 2016 Efficiency score should be used to select the guide with the highest cleavage efficiency when expressing guides from RNA PolIII Promoters such as U6. Scores are given as percentiles, e.g. &quot;70%&quot; means that 70% of mammalian guides have a score equal or lower than this guide. The raw score number is also shown in parentheses after the percentile. The Moreno-Mateos 2015 Efficiency score should be used instead of the Doench 2016 score when transcribing the guide in vitro with a T7 promoter, e.g. for injections in mouse, zebrafish or Xenopus embryos. The Moreno-Mateos score is given in percentiles and the raw value in parentheses, see the note above. Click onto features to show all scores and predicted off-targets with up to four mismatches. The Out-of-Frame score by Bae et al. 2014 is correlated with the probability that mutations induced by the guide RNA will disrupt the open reading frame. The authors recommend out-of-frame scores &gt; 66 to create knock-outs with a single guide efficiently. Off-target sites are sorted by the CFD (Cutting Frequency Determination) score (Doench et al. 2016). The higher the CFD score, the more likely there is off-target cleavage at that site. Off-targets with a CFD score &lt; 0.023 are not shown on this page, but are available when following the link to the external CRISPOR tool. When compared against experimentally validated off-targets by Haeussler et al. 2016, the large majority of predicted off-targets with CFD scores &lt; 0.023 were false-positives. For storage and performance reasons, on the level of individual off-targets, only CFD scores are available. Methods Relationship between predictions and experimental data Like most algorithms, the MIT specificity score is not always a perfect predictor of off-target effects. Despite low scores, many tested guides caused few and/or weak off-target cleavage when tested with whole-genome assays (Figure 2 from Haeussler et al. 2016), as shown below, and the published data contains few data points with high specificity scores. Overall though, the assays showed that the higher the specificity score, the lower the off-target effects. Similarly, efficiency scoring is not very accurate: guides with low scores can be efficient and vice versa. As a general rule, however, the higher the score, the less likely that a guide is very inefficient. The following histograms illustrate, for each type of score, how the share of inefficient guides drops with increasing efficiency scores: When reading this plot, keep in mind that both scores were evaluated on their own training data. Especially for the Moreno-Mateos score, the results are too optimistic, due to overfitting. When evaluated on independent datasets, the correlation of the prediction with other assays was around 25% lower, see Haeussler et al. 2016. At the time of writing, there is no independent dataset available yet to determine the Moreno-Mateos accuracy for each score percentile range. Track methods The entire human (hg38) genome was scanned for the -NGG motif. Flanking 20mer guide sequences were aligned to the genome with BWA and scored with MIT Specificity scores using the command-line version of crispor.org. Non-unique guide sequences were skipped. Flanking sequences were extracted from the genome and input for Crispor efficiency scoring, available from the Crispor downloads page, which includes the Doench 2016, Moreno-Mateos 2015 and Bae 2014 algorithms, among others. Note that the Doench 2016 scores were updated by the Broad institute in 2017 (&quot;Azimuth&quot; update). As a result, earlier versions of the track show the old Doench 2016 scores and this version of the track shows new Doench 2016 scores. Old and new scores are almost identical, they are correlated to 0.99 and for more than 80% of the guides the difference is below 0.02. However, for very few guides, the difference can be bigger. In case of doubt, we recommend the new scores. Crispor.org can display both scores and many more with the &quot;Show all scores&quot; link. Data Access Positional data can be explored interactively with the Table Browser or the Data Integrator. For small programmatic positional queries, the track can be accessed using our REST API. For genome-wide data or automated analysis, CRISPR genome annotations can be downloaded from our download server as a bigBedFile. The files for this track are called crispr.bb, which lists positions and scores, and crisprDetails.tab, which has information about off-target matches. Individual regions or whole genome annotations can be obtained using our tool bigBedToBed, which can be compiled from the source code or downloaded as a pre-compiled binary for your system. Instructions for downloading source code and binaries can be found here. The tool can also be used to obtain only features within a given range, e.g. bigBedToBed http://hgdownload.soe.ucsc.edu/gbdb/hg38/crisprAllTargets/crispr.bb -chrom=chr21 -start=0 -end=1000000 stdout Credits Track created by Maximilian Haeussler, with helpful input from Jean-Paul Concordet (MNHN Paris) and Alberto Stolfi (NYU). References Haeussler M, Sch&#246;nig K, Eckert H, Eschstruth A, Miann&#233; J, Renaud JB, Schneider-Maunoury S, Shkumatava A, Teboul L, Kent J et al. Evaluation of off-target and on-target scoring algorithms and integration into the guide RNA selection tool CRISPOR. Genome Biol. 2016 Jul 5;17(1):148. PMID: 27380939; PMC: PMC4934014 Bae S, Kweon J, Kim HS, Kim JS. Microhomology-based choice of Cas9 nuclease target sites. Nat Methods. 2014 Jul;11(7):705-6. PMID: 24972169 Doench JG, Fusi N, Sullender M, Hegde M, Vaimberg EW, Donovan KF, Smith I, Tothova Z, Wilen C, Orchard R et al. Optimized sgRNA design to maximize activity and minimize off-target effects of CRISPR-Cas9. Nat Biotechnol. 2016 Feb;34(2):184-91. PMID: 26780180; PMC: PMC4744125 Hsu PD, Scott DA, Weinstein JA, Ran FA, Konermann S, Agarwala V, Li Y, Fine EJ, Wu X, Shalem O et al. DNA targeting specificity of RNA-guided Cas9 nucleases. Nat Biotechnol. 2013 Sep;31(9):827-32. PMID: 23873081; PMC: PMC3969858 Moreno-Mateos MA, Vejnar CE, Beaudoin JD, Fernandez JP, Mis EK, Khokha MK, Giraldez AJ. CRISPRscan: designing highly efficient sgRNAs for CRISPR-Cas9 targeting in vivo. Nat Methods. 2015 Oct;12(10):982-8. PMID: 26322839; PMC: PMC4589495 
dbVar_common dbVar Common SV NCBI dbVar Curated Common Structural Variants Variation Description This track displays common structural variants (SVs) from nstd186 (NCBI Curated Common Structural Variants), divided into subtracks by source study and by population. nstd186 is a curated collection of structural variants in dbVar from studies with at least 100 samples, that include allele frequency data, and that have an allele frequency of &gt;=0.01 in at least one population. It includes copy number gains and losses, copy number variations, duplications, deletions, insertions, and mobile element variants (ALU, LINE1, SVA, HERV). The dataset aggregates variants from six source studies: gnomAD Structural Variants (nstd166): SVs from the sequencing of 10,847 unrelated individuals in the gnomAD v2.1 release. 1000 Genomes Consortium Phase 3 Integrated SV (estd219): SVs from the 1000 Genomes Project Phase 3. DECIPHER Consensus CNVs (nstd183): Consensus common population CNVs from high-resolution control sets. Lee et al. 2020 (nstd194). Abel et al. 2020 (nstd200). Byrska-Bishop et al. 2022 (nstd206): High-coverage whole-genome sequencing of the expanded 1000 Genomes sample set. For the latest nstd186 variant call counts and version history, see the nstd186 summary page at NCBI. Subtracks Per-source-study subtracks (variants from nstd186 attributed to one of the six component studies): dbVar Curated gnomAD SVs dbVar Curated 1000 Genomes SVs dbVar Curated DECIPHER SVs dbVar Curated Lee SVs dbVar Curated Abel SVs dbVar Curated Byrska-Bishop SVs Per-population subtracks (variants with AF &gt;= 0.01 aggregated across nstd186 source studies for each super-population): dbVar Curated All Populations (Global) dbVar Curated African SVs dbVar Curated American SVs dbVar Curated East Asian SVs dbVar Curated European SVs dbVar Curated South Asian SVs dbVar Curated Other Pop SVs &#8212; samples of mixed, admixed, or uncategorized ancestry that do not map cleanly onto the five super-populations above. The NCBI dbVar Track Hub additionally provides population-only variants (variants common in one population but not in any other): African only, American only, East Asian only, European only, and South Asian only. These are not loaded as native Genome Browser tracks; connect to the hub to view them. Display Conventions and Configuration Items in all subtracks follow the same conventions. Variants are colored by type, using the dbVar color scheme described in the dbVar Overview page: Color Variant Type(s) copy number loss, deletion (including mobile element deletions) copy number gain, duplication, insertion (including mobile element insertions) copy number variation Mouseover on items shows genes affected, size, variant type, allele count (AC), allele number (AN), allele frequency (AF), and population (in per-population subtracks). Subtracks can be filtered by: Variant Type Variant Size (Under 10KB, 10KB to 100KB, 100KB to 1MB, Over 1MB) Frequency Range (Under 0.02, 0.02 to 0.05, 0.05 to 0.1, 0.1 to 0.2, 0.2 to 0.5, Over 0.5) The Hide empty subtracks option on the track configuration page hides subtracks that have no data in the current viewing window. This is enabled by default and can be toggled off. Data Access The raw data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. The data can also be found directly at the dbVar nstd186 data access page, or in the dbVar Track Hub. For questions about dbVar track data, please contact &#100;&#98;&#118;&#97;r&#64;&#110;&#99;&#98;&#105;.n&#108;&#109;.&#110;&#105;&#104;.&#103;&#111;v. Credits Thanks to the dbVar team at NCBI, especially John Lopez and Timothy Hefferon for technical coordination and consultation, and to Christopher Lee, Anna Benet-Pages, and Daniel Schmelter, of the Genome Browser team for engineering the track display. References Lappalainen I, Lopez J, Skipper L, Hefferon T, Spalding JD, Garner J, Chen C, Maguire M, Corbett M, Zhou G et al. DbVar and DGVa: public archives for genomic structural variation. Nucleic Acids Res. 2013 Jan;41(Database issue):D936-41. PMID: 23193291; PMC: PMC3531204 
dbVarSv dbVar Struct Var NCBI dbVar Structural Variants Variation Description This super-track groups structural variant (SV) tracks from dbVar, NCBI's archive of human genomic structural variation. The data are mirrored from the NCBI dbVar track hub. There are four track collections in this super-track: NCBI dbVar Curated Common Structural Variants (dbVar Common SV): Copy-number and other variants from the nstd186 study (NCBI Curated Common Structural Variants), split into subtracks by source study and by population. NCBI dbVar Curated Conflict Variants (dbVar Conflict SV): Variants from nstd186 that overlap clinical variants in nstd102 (Clinical Structural Variants). NCBI dbVar Somatic Structural Variants (dbVar Somatic SV): SVs with somatic origin, aggregated across six dbVar studies including COSMIC. NCBI dbVar Other Structural Variants (dbVar Other SV): SVs in dbVar with no reported phenotype, or with phenotype but not clinical/somatic, excluding variants already present in the Common and Somatic tracks or in ClinVar. NCBI sometimes refers to this category as presumed normal SVs. Clinical structural variants from dbVar study nstd102 are not duplicated here; they are available in our dedicated ClinVar track (subtrack ClinVar CNVs), which pulls from the same underlying ClinVar XML release. Source Studies in nstd186 (Common SV) nstd186 is a curated collection of SVs from studies with at least 100 samples and allele frequency &gt;= 0.01 in at least one population. It aggregates data from six source studies: 1000 Genomes Consortium Phase 3 Integrated SV (estd219), added 2016 gnomAD Structural Variants (nstd166), added 2019 &#8212; SVs from the sequencing of 10,847 unrelated individuals (gnomAD v2.1) DECIPHER Consensus CNVs (nstd183), added 2020 Lee et al. 2020 (nstd194), added 2021 Abel et al. 2020 (nstd200), added 2021 Byrska-Bishop et al. 2022 (nstd206), added 2022 &#8212; high-coverage WGS of the expanded 1000 Genomes sample set Variants must be of a qualifying structural variant type (deletions, duplications, insertions, copy number variants, and mobile element variants). For the latest statistics and version history, see the nstd186 summary page at NCBI. Display Conventions These tracks are composite tracks that contain multiple subtracks. Each subtrack has its own display controls, as described here. Items are colored by variant type using the dbVar color scheme (dbVar Overview): Color Variant Type(s) deletion, copy number loss duplication, copy number gain, insertion copy number variation Some composites display additional colors for less common variant types. Refer to each composite track's description page for the full legend. Data Access The raw data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. The data can also be found directly at the dbVar nstd186 data access page, or in the dbVar Track Hub, where additional subtracks (e.g., population-exclusive variants, ClinVar SVs) are available. For questions about dbVar track data, please contact &#100;&#98;&#118;&#97;r&#64;&#110;&#99;&#98;&#105;.n&#108;&#109;.&#110;&#105;&#104;.&#103;&#111;v. Credits Thanks to the dbVar team at NCBI, especially John Lopez and Timothy Hefferon for technical coordination and consultation, and to Christopher Lee, Anna Benet-Pages, and Daniel Schmelter of the Genome Browser team for engineering the track display. References Lappalainen I, Lopez J, Skipper L, Hefferon T, Spalding JD, Garner J, Chen C, Maguire M, Corbett M, Zhou G et al. DbVar and DGVa: public archives for genomic structural variation. Nucleic Acids Res. 2013 Jan;41(Database issue):D936-41. PMID: 23193291; PMC: PMC3531204 
dbVar_common_other dbVar Curated Other Pop SVs NCBI dbVar Curated Common SVs: Other Variation 
dbVar_common_south_asian dbVar Curated South Asian SVs NCBI dbVar Curated Common SVs: South Asian Variation 
dbVar_common_european dbVar Curated European SVs NCBI dbVar Curated Common SVs: European Variation 
dbVar_common_east_asian dbVar Curated East Asian SVs NCBI dbVar Curated Common SVs: East Asian Variation 
dbVar_common_american dbVar Curated American SVs NCBI dbVar Curated Common SVs: American Variation 
dbVar_common_african dbVar Curated African SVs NCBI dbVar Curated Common SVs: African Variation 
dbVar_common_global dbVar Curated All Populations NCBI dbVar Curated Common SVs: all populations Variation 
dbVar_common_byrska_bishop dbVar Curated Byrska-Bishop SVs NCBI dbVar Curated Common SVs: all populations from Byrska-Bishop Variation 
dbVar_common_abel dbVar Curated Abel SVs NCBI dbVar Curated Common SVs: all populations from Abel Variation 
dbVar_common_lee dbVar Curated Lee SVs NCBI dbVar Curated Common SVs: all populations from Lee Variation 
dbVar_common_decipher dbVar Curated DECIPHER SVs NCBI dbVar Curated Common SVs: all populations from DECIPHER Variation 
dbVar_common_1000g dbVar Curated 1000 Genomes SVs NCBI dbVar Curated Common SVs: all populations from 1000 Genomes Variation 
dbVar_common_gnomad dbVar Curated gnomAD SVs NCBI dbVar Curated Common SVs: all populations from gnomAD Variation 
dbVar_conflict dbVar Conflict SV NCBI dbVar Curated Conflict Variants Variation Description The track NCBI dbVar Curated Common SVs: Conflicts with Pathogenic highlights loci where common copy number variants from nstd186 (NCBI Curated Common Structural Variants) overlap with structural variants with clinical assertions, submitted to ClinVar by external labs (Clinical Structural Variants - nstd102). Overlap in the track refers to reciprocal overlap between variants in the common (NCBI Curated Common Structural Variants) versus clinical (ClinVar CNVs) tracks. Reciprocal overlap values can be anywhere from 10% to 100%. For more information on the number of variant calls and latest statistics for nstd186 see Summary of nstd186 (NCBI Curated Common Structural Variants). Display Conventions and Configuration Items in this track follow the same conventions as the parent Common SV track: items are colored by variant type, based on the dbVar colors described in the dbVar Overview page. The variant types present in this track are copy number gain, copy number loss, copy number variation, deletion, and duplication. Color Variant Type(s) copy number loss, deletion copy number gain, duplication copy number variation Mouseover on items indicates genes affected, size, variant type, and allele frequencies (AF). All tracks can be filtered according to the variant length, variant type and variant overlap. The overlap filter defines five bins within that range (10-25, 25-50, 50-75, 75-90, 90-100 percent reciprocal overlap; intervals are inclusive of the upper bound). Data Access The raw data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. The data can also be found directly from the dbVar nstd186 data access, as well as in the dbVar Track Hub, where additional subtracks are included. For questions about dbVar track data, please contact &#100;&#98;&#118;&#97;r&#64;&#110;&#99;&#98;&#105;.n&#108;&#109;.&#110;&#105;&#104;.&#103;&#111;v. Credits Thanks to the dbVar team at NCBI, especially John Lopez and Timothy Hefferon for technical coordination and consultation, and to Christopher Lee, Anna Benet-Pages, and Daniel Schmelter of the Genome Browser team for engineering the track display. References Lappalainen I, Lopez J, Skipper L, Hefferon T, Spalding JD, Garner J, Chen C, Maguire M, Corbett M, Zhou G et al. DbVar and DGVa: public archives for genomic structural variation. Nucleic Acids Res. 2013 Jan;41(Database issue):D936-41. PMID: 23193291; PMC: PMC3531204 
dbVar_conflict_pathogenic dbVar Curated Conflict SVs NCBI dbVar Common SVs in Conflict with Pathogenic Variants Variation 
dbVar_other dbVar Other SV NCBI dbVar Other Structural Variants Variation Description This track displays structural variants (SVs) in dbVar that are not classified as common, somatic, or clinical. The track is defined by exclusion: it contains dbVar SVs minus common variants (covered by the dbVar Common SV track) variants with somatic origin (covered by the dbVar Somatic SV track) clinical variants from ClinVar (covered by the ClinVar track) variants of the types: short tandem repeat, interchromosomal translocation, intrachromosomal translocation variants from a set of legacy or obsoleted dbVar studies (nstd45, nstd75, nstd90, estd59, estd199, estd214) variants discovered using low-confidence methods (BAC aCGH, FISH, Karyotyping, MassSpec, Microsatellite genotyping, Multiple complete digestion, Not provided, ROMA, Southern, Western) NCBI sometimes refers to this category as presumed normal SVs in their hub documentation and source files. We use the term Other here to avoid implying that the variants are clinically normal &#8212; the track is purely a residual bucket of dbVar SVs that don't fit the other three composites. This track is updated with every monthly dbVar release. Subtracks The Other SVs are split into two subtracks: dbVar Healthy SVs: SVs in dbVar with no reported phenotype. dbVar Phenotype SVs: SVs in dbVar with a reported phenotype, excluding clinical and somatic variants. The Healthy subtrack is considerably larger than the Phenotype subtrack. Turning on Hide empty subtracks (default) limits the display to subtracks with data in the current viewing window. Display Conventions and Configuration Variants are colored by type, using the dbVar color scheme described in the dbVar Overview page: Color Variant Type(s) deletion, delins, copy number loss duplication, copy number gain, insertion copy number variation inversion complex substitution tandem duplication sequence alteration Mouseover on items shows gene(s) affected, size, variant type, dbVar study of origin, discovery method, phenotype (in the Phenotype subtrack), and population code (if available). Subtracks can be filtered by: Variant Type Variant Size (Under 10KB, 10KB to 100KB, 100KB to 1MB, Over 1MB) Discovery Method (Curated, Merging, Multiple, Oligo aCGH, Optical mapping, SNP array, Sequencing, other) Pathogenic Reciprocal Overlap (none, 10 to 25, 25 to 50, 50 to 75, 75 to 90, 90 to 100) &#8212; range of reciprocal overlap with pathogenic variants in nstd102 Population Code (AFR, AMR, EAS, EUR, OTH, SAS, mixed, multiple, none, unknown) Methods Per NCBI's dbVar processing pipeline, variant calls are extracted from the variant_calls.gvf files on the dbVar FTP site, reciprocally overlapped with the pathogenic clinical SV file using bedtools, filtered by the exclusion criteria described above, and converted to bigBed format. See the dbVar Overview for full methods. Data Access The raw data can be explored interactively with the Table Browser, or the Data Integrator. Due to the size of the Healthy subtrack (over 5 million items), Table Browser queries on large regions may be slow &#8212; narrow by chromosome or region where possible. The data can also be downloaded from the dbVar Track Hub. For questions about dbVar track data, please contact &#100;&#98;&#118;&#97;r&#64;&#110;&#99;&#98;&#105;.n&#108;&#109;.&#110;&#105;&#104;.&#103;&#111;v. Credits Thanks to the dbVar team at NCBI, especially John Lopez and Timothy Hefferon for technical coordination and consultation. References Lappalainen I, Lopez J, Skipper L, Hefferon T, Spalding JD, Garner J, Chen C, Maguire M, Corbett M, Zhou G et al. DbVar and DGVa: public archives for genomic structural variation. Nucleic Acids Res. 2013 Jan;41(Database issue):D936-41. PMID: 23193291; PMC: PMC3531204 
dbVar_other_phenotype dbVar Phenotype SVs NCBI dbVar SVs with Phenotype (excluding clinical and somatic) Variation 
dbVar_other_healthy dbVar Healthy SVs NCBI dbVar SVs with no reported phenotype Variation 
dbVar_somatic dbVar Somatic SV NCBI dbVar Somatic Structural Variants Variation Description This track displays structural variants (SVs) in dbVar with somatic origin, aggregated from six dbVar studies. Source studies: COSMIC (estd192) &#8212; the Catalogue Of Somatic Mutations In Cancer. Clinical Structural Variants (nstd102) &#8212; somatic subset of ClinVar SVs. Ghazali et al. 2021 (nstd202). Helman et al. 2014 (nstd94). Walter et al. 2009 (nstd11). Wills et al. 2016 (nstd125). This track is updated with every monthly dbVar release. Display Conventions and Configuration Variants are colored by type, using the dbVar color scheme described in the dbVar Overview page: Color Variant Type(s) deletion, copy number loss duplication, copy number gain, insertion, mobile element insertion inversion complex substitution tandem duplication Mouseover on items shows gene(s) affected, size, variant type, source dbVar study, and discovery method. The track can be filtered by: Variant Type Variant Size (Under 10KB, 10KB to 100KB, 100KB to 1MB, Over 1MB) Discovery Method (Curated, Multiple, SNP array, Sequencing) Pathogenic Reciprocal Overlap (none, 10 to 25, 25 to 50, 50 to 75, 75 to 90, 90 to 100) &#8212; range of reciprocal overlap with pathogenic variants in nstd102 Methods Per NCBI's dbVar processing pipeline, somatic variant calls are extracted from the variant_calls.somatic.gvf files on the dbVar FTP site, reciprocally overlapped with the pathogenic clinical SV file using bedtools, and converted to bigBed format. See the dbVar Overview for full methods. Data Access The raw data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. The data can also be downloaded from the dbVar Track Hub, or via the dbVar FTP in VCF, GVF, or tab-delimited formats. For questions about dbVar track data, please contact &#100;&#98;&#118;&#97;r&#64;&#110;&#99;&#98;&#105;.n&#108;&#109;.&#110;&#105;&#104;.&#103;&#111;v. Credits Thanks to the dbVar team at NCBI, especially John Lopez and Timothy Hefferon for technical coordination and consultation. References Lappalainen I, Lopez J, Skipper L, Hefferon T, Spalding JD, Garner J, Chen C, Maguire M, Corbett M, Zhou G et al. DbVar and DGVa: public archives for genomic structural variation. Nucleic Acids Res. 2013 Jan;41(Database issue):D936-41. PMID: 23193291; PMC: PMC3531204 Tate JG, Bamford S, Jubb HC, Sondka Z, Beare DM, Bindal N, Boutselakis H, Cole CG, Creatore C, Dawson E et al. COSMIC: the Catalogue Of Somatic Mutations In Cancer. Nucleic Acids Res. 2019 Jan 8;47(D1):D941-D947. PMID: 30371878; PMC: PMC6323903 
dbVar_somatic_sv dbVar Somatic SVs NCBI dbVar Somatic Structural Variants Variation 
cnvDevDelay Development Delay Copy Number Variation Morbidity Map of Developmental Delay Phenotypes, Variants, and Literature Description Enrichment of large copy number variants (CNVs) has been linked to severe pediatric disease including developmental delay, intellectual disability and autism spectrum disorder. The association of individual loci with specific disorders, however, has still been problematic. This track shows CNVs from cases of developmental delay along with healthy control sets from two separate studies. The study by Cooper et al. (2011) analyzed samples from 15,767 children with various developmental disabilities and compared them with samples from 8,329 adult controls to produce a detailed genome-wide morbidity map of developmental delay and congenital birth defects. The study by Coe et al. (2014) further expanded the morbidity map by analyzing 13,318 new case samples along with 11,255 new controls. Display Conventions and Configuration This is a composite track consisting of a Case subtrack and a Control subtrack. To turn a subtrack on or off, toggle the checkbox to the left of the subtrack name in the track controls at the top of the track description page. Items in this track are colored red for copy number loss and blue for copy number gain. Methods The samples were analyzed using nine different CGH platforms with initial CNV calls filtered as described in Coe et al. (2014). Final CNV calls were decoupled from identifying information and submitted to dbVar as nstd54 and nstd100 for unrestricted release. The 15,767 case individuals from the Cooper study comprise nstd54 sampleset 1, while the 8,329 control individuals from the Cooper study comprise nstd54 samplesets 2-12. The 13,318 case individuals from the Coe study were combined with the Cooper case individuals to comprise nstd100 sampleset 1. The 11,255 control individuals from the Coe study comprise nsdt100 samplesets 2 and 3. The Case subtrack was constructed using nstd100 sampleset 1. The Control subtrack was constructed by combining nstd100 samplesets 2 and 3 with nstd54 samplesets 2-12. Credits We would like to thank Gregory Cooper, Brad Coe and the Eichler Lab at the University of Washington for providing the data for this track. References Coe BP, Witherspoon K, Rosenfeld JA, van Bon BW, Vulto-van Silfhout AT, Bosco P, Friend KL, Baker C, Buono S, Vissers LE et al. Refining analyses of copy number variation identifies specific genes associated with developmental delay. Nat Genet. 2014 Oct;46(10):1063-71. PMID: 25217958; PMC: PMC4177294 Cooper GM, Coe BP, Girirajan S, Rosenfeld JA, Vu TH, Baker C, Williams C, Stalker H, Hamid R, Hannig V et al. A copy number variation morbidity map of developmental delay. Nat Genet. 2011 Aug 14;43(9):838-46. PMID: 21841781; PMC: PMC3171215 
cnvDevDelayControl Control Copy Number Variation Morbidity Map of Developmental Delay - Control Phenotypes, Variants, and Literature 
cnvDevDelayCase Case Copy Number Variation Morbidity Map of Developmental Delay - Case Phenotypes, Variants, and Literature 
dgvPlus DGV Struct Var Database of Genomic Variants: Structural Variation (CNV, Inversion, In/del) Variation Description This track displays copy number variants (CNVs), insertions/deletions (InDels), inversions and inversion breakpoints annotated by the Database of Genomic Variants (DGV), which contains genomic variations observed in healthy individuals. DGV focuses on structural variation, defined as genomic alterations that involve segments of DNA that are larger than 1000 bp. Insertions/deletions of 50 bp or larger are also included. Display Conventions This track contains three subtracks: Structural Variant Regions: annotations that have been generated from one or more reported structural variants at the same location. Supporting Structural Variants: the sample-level reported structural variants. Gold Standard Variants: curated variants from a selected number of studies in DGV. Color is used in both subtracks to indicate the type of variation: Inversions and inversion breakpoints are purple. CNVs and InDels are blue if there is a gain in size relative to the reference. CNVs and InDels are red if there is a loss in size relative to the reference. CNVs and InDels are brown if there are reports of both a loss and a gain in size relative to the reference. The DGV Gold Standard subtrack utilizes a boxplot-like display to represent the merging of records as explained in the Methods section below. In this track, the middle box (where applicable), represents the high confidence location of the CNV, while the thin lines and end boxes represent the possible range of the CNV. Clicking on a variant leads to a page with detailed information about the variant, such as the study reference and PubMed abstract link, the study's method and any genes overlapping the variant. Also listed, if available, are the sequencing or array platform used for the study, a sample cohort description, sample size, sample ID(s) in which the variant was observed, observed gains and observed losses. If the particular variant is a merged variant, links to genome browser views of the supporting variants are listed. If the particular variant is a supporting variant, a link to the genome browser view of its merged variant is displayed. A link to DGV's Variant Details page for each variant is also provided. For most variants, DGV uses accessions from peer archives of structural variation (dbVar at NCBI or DGVa at EBI). These accessions begin with either &quot;essv&quot;, &quot;esv&quot;, &quot;nssv&quot;, or &quot;nsv&quot;, followed by a number. Variant submissions processed by EBI begin with &quot;e&quot; and those processed by NCBI begin with &quot;n&quot;. Accessions with ssv are for variant calls on a particular sample, and if they are copy number variants, they generally indicate whether the change is a gain or loss. In a few studies the ssv represents the variant called by a single algorithm. If multiple algorithms were used, overlapping ssv's from the same individual would be combined to generate a sample level sv. If there are many samples analyzed in a study, and if there are many samples which have the same variant, there will be multiple ssv's with the same start and end coordinates. These sample level variants are then merged and combined to form a representative variant that highlights the common variant found in that study. The result is called a structural variant (sv) record. Accessions with sv are for regions asserted by submitters to contain structural variants, and often span ssv elements for both losses and gains. dbVar and DGVa do not record numbers of losses and gains encompassed within sv regions. DGV merges clusters of variants that share at least 70% reciprocal overlap in size/location, and assigns an accession beginning with &quot;dgv&quot;, followed by an internal variant serial number, followed by an abbreviated study id. For example, the first merged variant from the Shaikh et al. 2009 study (study accession=nstd21) would be dgv1n21. The second merged variant would be dgv2n21 and so forth. Since in this case there is an additional level of clustering, it is possible for an &quot;sv&quot; variant to be both a merged variant and a supporting variant. For most sv and dgv variants, DGV displays the total number of sample-level gains and/or losses at the bottom of their variant detail page. Since each ssv variant is for one sample, its total is 1. Methods Published structural variants are imported from peer archives dbVar and DGVa. DGV then applies quality filters and merges overlapping variants. For data sets where the variation calls are reported at a sample-by-sample level, DGV merges calls with similar boundaries across the sample set. Only variants of the same type (i.e. CNVs, Indels, inversions) are merged, and gains and losses are merged separately. Sample level calls that overlap by &ge; 70% are merged in this process. The initial criteria for the Gold Standard set require that a variant is found in at least two different studies and found in at least two different samples. After filtering out low-quality variants, the remaining variants are clustered according to 50% minimum overlap, and then merged into a single record. Gains and losses are merged separately. The highest ranking variant in the cluster defines the inner box, while the outer lines define the maximum possible start and stop coordinates of the CNV. In this way, the inner box forms a high-confidence CNV location and the thin connecting lines indicate confidence intervals for the location of CNV. Data Access The raw data can be explored interactively with the Table Browser, or the Data Integrator. For automated access, this track, like all others, is available via our API. However, for bulk processing, it is recommended to download the dataset. The genome annotation is stored in a bigBed file that can be downloaded from the download server. The exact filenames can be found in the track configuration file. Annotations can be converted to ASCII text by our tool bigBedToBed which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tool can also be used to obtain only features within a given range, for example: bigBedToBed https://hgdownload.soe.ucsc.edu/gbdb/hg38/dgv/dgvMerged.bb -chrom=chr6 -start=0 -end=1000000 stdout Credits Thanks to the Database of Genomic Variants for providing these data. In citing the Database of Genomic Variants please refer to MacDonald et al. References Iafrate AJ, Feuk L, Rivera MN, Listewnik ML, Donahoe PK, Qi Y, Scherer SW, Lee C. Detection of large-scale variation in the human genome. Nat Genet. 2004 Sep;36(9):949-51. PMID: 15286789 MacDonald JR, Ziman R, Yuen RK, Feuk L, Scherer SW. The Database of Genomic Variants: a curated collection of structural variation in the human genome. Nucleic Acids Res. 2014 Jan;42(Database issue):D986-92. PMID: 24174537; PMC: PMC3965079 Zhang J, Feuk L, Duggan GE, Khaja R, Scherer SW. Development of bioinformatics resources for display and analysis of copy number and other structural variants in the human genome. Cytogenet Genome Res. 2006;115(3-4):205-14. PMID: 17124402 
dgvGold DGV Gold Standard Database of Genomic Variants: Gold Standard Variants Variation 
dgvSupporting DGV Supp Var Database of Genomic Variants: Supporting Structural Var (CNV, Inversion, In/del) Variation 
dgvMerged DGV Struct Var Database of Genomic Variants: Structural Var Regions (CNV, Inversion, In/del) Variation 
dosageSensitivity Dosage Sensitivity pHaplo and pTriplo dosage sensitivity map from Collins et al 2022 Phenotypes, Variants, and Literature Description This container track represents dosage sensitivity map data from Collins et al 2022. There are two tracks, one corresponding to the probability of haploinsufficiency (pHaplo) and one to the probability of triplosensitivity (pTriplo). Rare copy-number variants (rCNVs) include deletions and duplications that occur infrequently in the global human population and can confer substantial risk for disease. Collins et al aimed to quantify the properties of haploinsufficiency (i.e., deletion intolerance) and triplosensitivity (i.e., duplication intolerance) throughout the human genome by analyzing rCNVs from nearly one million individuals to construct a genome-wide catalog of dosage sensitivity across 54 disorders, which defined 163 dosage sensitive segments associated with at least one disorder. These segments were typically gene-dense and often harbored dominant dosage sensitive driver genes. An ensemble machine learning model was built to predict dosage sensitivity probabilities (pHaplo &amp; pTriplo) for all autosomal genes, which identified 2,987 haploinsufficient and 1,559 triplosensitive genes, including 648 that were uniquely triplosensitive. Display Conventions and Configuration Each of the tracks is displayed with a distinct item (bed track) covering the entire gene locus wherever a score was available. Clicking on an item provides a link to DECIPHER which contains the sensitivity scores as well as additional information. Mousing over the items will display the gene symbol, the ESNG ID for that gene, and the respective sensitivity score for the track rounded to two decimal places. Filters are also available to specify specific score thresholds to display for each of the tracks. Coloring and Interpretation Each of the tracks is colored based on standardized cutoffs for pHaplo and pTriplo as described by the authors: pHaplo scores &ge;0.86 indicate that the average effect sizes of deletions are as strong as the loss-of-function of genes known to be constrained against protein truncating variants (average OR&ge;2.7) (Karczewski et al., 2020). pHaplo scores &ge;0.55 indicate an odds ratio &ge;2. pTriplo scores &ge;0.94 indicate that the average effect sizes of deletions are as strong as the loss-of-function of genes known to be constrained against protein truncating variants (average OR&ge;2.7) (Karczewski et al., 2020). pHaplo scores &ge;0.68 indicate an odds ratio &ge;2. Applying these cutoffs defined 2,987 haploinsufficient (pHaplo&ge;0.86) and 1,559 triplosensitive (pTriplo&ge;0.94) genes with rCNV effect sizes comparable to loss-of-function of gold-standard PTV-constrained genes. See below for a summary of the color scheme: Dark red items - pHaplo &ge; 0.86 Bright red items - pHaplo &lt; 0.86 Dark blue items - pTriplo &ge; 0.94 Bright blue items - pTriplo &lt; 0.94 Methods The data were downloaded from Zenodo which consisted of a 3-column file with gene symbols, pHaplo, and pTriplo scores. Since the data were created using GENCODEv19 models, the hg19 data was mapped using those coordinates by picking the earliest transcription start site of all of the respective gene transcripts and the furthest transcription end site. This leads to some gene boundaries that are not representative of a real transcript, but since the data are for gene loci annotations this maximum coverage was used. Finally, both scores were rounded to two decimal points for easier interpretation. For hg38, we attempted to use updated gene positions using a few different datasets since gene symbols have been updated many times since GENCODEv19. A summary of the workflow can be seen below, with each subsequent step being used only for genes where mapping failed: Gene symbols were mapped using MANE1.0. &lt; 2000 items failed mapping here. Mapping with GENCODEv45 was attempted. Mapping with GENCODEv20 was attempted. At this point, 448 items were not mapped. Finally, any missing items were lifted using the hg19 track. 19/448 items failed mapping due to their regions having been split from hg19 to hg38. In summary, the hg19 track was mapped using the original GENCODEv19 mappings, and a series of steps were taken to map the hg38 gene symbols with updated coordinates. 19/18641 items could not be mapped and are missing from the hg38 tracks. The complete makeDoc can be found online. This includes all of the track creation steps. Data Access The raw data can be explored interactively with the Table Browser, or the Data Integrator. For automated access, this track, like all others, is available via our API. However, for bulk processing, it is recommended to download the dataset. For automated download and analysis, the genome annotation is stored at UCSC in bigBed files that can be downloaded from our download server. Individual regions or the whole genome annotation can be obtained using our tool bigBedToBed which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tools can also be used to obtain features confined to a given range, e.g., bigBedToBed -chrom=chr1 -start=100000 -end=100500 http://hgdownload.soe.ucsc.edu/gbdb/hg38/bbi/dosageSensitivityCollins2022/pHaploDosageSensitivity.bb stdout Please refer to our Data Access FAQ for more information. Credits Thanks to DECIPHER for their support and assistance with the data. We would also like to thank Anna Benet-Pagès for suggesting and assisting in track development and interpretation. References Collins RL, Glessner JT, Porcu E, Lepamets M, Brandon R, Lauricella C, Han L, Morley T, Niestroj LM, Ulirsch J et al. A cross-disorder dosage sensitivity map of the human genome. Cell. 2022 Aug 4;185(16):3041-3055.e25. PMID: 35917817; PMC: PMC9742861 
pTriplo pTriplosensitivity Probability of triplosensitivity Phenotypes, Variants, and Literature 
pHaplo pHaploinsufficiency Probability of haploinsufficiency Phenotypes, Variants, and Literature 
encode4LongRnaTranscripts ENCODE4 Transcripts ENCODE4 Long Read Transcripts RNA and Transcriptome Description The ENCODE4 long-read RNA-seq collection annotates trancripts using numerical triplets representing the identity of the start site, exon junction chain, and transcript end site of each transcript. This method reveals how promoter selection, splice pattern, and 3’ processing are deployed across human tissues. Display Conventions Transcript names include a triplet annotation that represents transcript start site, exon junction chain, and transcript end site. For example, if transcript A has the label [1,2,3] and transcript B is labeled [1,1,3], then those transcripts share start and end sites but have a different combination of exons. Here is an exmaple drawn from hg38 at the INSIG1 locus: In this example, the first two transcripts marked by arrows have the same start site ("1") and the same set of exons ("8"), but they have different end sites ("2" vs "1"). Similarly, the second two marked transcripts have the same start site ("1"), but a different set of exons ("8" vs "9") and a different end site ("1" vs "2"). GENCODE V29 and V40 were used as reference data; any transcript not present in either of these is colored blue. Mouseover on transcripts shows their ENCODE gene ID and the tissue or cell line where it’s most highly expressed and its TPM in that sample. Data Access The raw data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. The data underlying this track is available in the file encode4LongRna.bb. Individual regions or the whole genome annotation can be obtained using our tool bigBedToBed, which is available on our download server. For example, to extract only annotations in a given region, you could use the following command: bigBedToBed -chrom=chr1 -start=100000 -end=100500 https://hgdownload.gi.ucsc.edu/gbdb/hg38/encode4LongRna.bb stdout Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Methods Data were retrieved from https://zenodo.org/records/15116042. The human_ucsc_transcripts.gtf was converted to BED format, and expression and CDS data added from the relevant files using a custom script. Credits Thanks to Fairlie Reese for providing data access and for helpful feedback. References Reese F, Williams B, Balderrama-Gutierrez G, Wyman D, &#199;elik MH, Rebboah E, Rezaie N, Trout D, Razavi-Mohseni M, Jiang Y et al. The ENCODE4 long-read RNA-seq collection reveals distinct classes of transcript structure diversity. bioRxiv. 2023 May 16;. PMID: 37292896; PMC: PMC10245583 
varChat enGenome VarChat enGenome VarChat: Literature match and variant's summary Phenotypes, Variants, and Literature Description NOTE:VarChat is an open platform powered by enGenome, and registration is free of charge. VarChat is intended for research use and may provide inaccurate answers. It is advisable to verify critical information independently. VarChat is an open platform that leverages the power of generative artificial intelligence to support the genomic variant interpretation process by searching the available scientific literature for each variant and condensing it into a brief yet informative text. Each query quickly scans the latest scientific literature to provide up-to-date variant information. VarChat is a generative AI-based system and each answer is generated live, so you may obtain slightly different answers at each iteration. A literature search will be performed and the total number of identified publications will be shown. Only a subset of them will be reported and used to generate your answer. If you would like to stay updated on the latest developments, you may register for updates on the VarChat website. For data questions, VarChat can be contacted at varchat@engenome.com. Display Conventions and Configuration Genomic locations of variants are labeled with the nucleotide change. Mousing over the items will show how many papers the variant was observed in, its gene, its HGVS nomenclature, and dbSNP rsID. Clicking on any item will provide a link directly to VarChat with additional information. The items are colored based on the amount of literature support as described on the table below: Color Level of literature support High: at least 25 papers mention the variant Medium: between 10 and 24 papers mention the variant Low: fewer than 10 papers mention the variant Methods VarChat software is powered by enGenome. enGenome, an accredited spin-off from the University of Pavia founded in 2016, combines bioinformatics, biotechnology, and software development expertise to enhance genetic disease diagnosis and treatment through advanced AI and bioinformatics tools, supported by a multidisciplinary team of engineers, biotechnologists, and developers. For every queried variant, VarChat produces concise and coherent summaries through an LLM model. Relevant references are identified through a modified BM25 ranking algorithm. More weight is given to papers that cite the variant in the abstract and were published in the last two years, while papers that report the variant only in the supplementary are penalized. Data access The raw data can be explored interactively with the Table Browser or the Data Integrator. The data can be accessed from scripts through our API, the track name is &quot;varChat&quot;. For automated download and analysis, the genome annotation is stored in a bigBed file that can be downloaded from our download server. The file for this track is called varChat.bb. Individual regions or the whole genome annotation can be obtained using our tool bigBedToBed which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tool can also be used to obtain only features within a given range, e.g. bigBedToBed http://hgdownload.soe.ucsc.edu/gbdb/hg38/bbi/varChat.bb -chrom=chr21 -start=0 -end=10000000 stdout References De Paoli F, Berardelli S, Limongelli I, Rizzo E, Zucca S. VarChat: the generative AI assistant for the interpretation of human genomic variations. Bioinformatics. 2024Mar29;40(4). PMID: 38579245; PMC: PMC11055464 
epdNew EPDnew Promoters Promoters from EPDnew Expression Description These tracks represent the experimentally validated promoters generated by the Eukaryotic Promoter Database. Display Conventions and Configuration Each item in the track is a representation of the promoter sequence identified by EPD. The &quot;thin&quot; part of the element represents the 49 bp upstream of the annotated transcription start site (TSS) whereas the &quot;thick&quot; part represents the TSS plus 10 bp downstream. The relative position of the thick and thin parts define the orientation of the promoter. Note that the EPD team has created a public track hub containing promoter and supporting annotations for human, mouse, and other vertebrate and model organism genomes. Methods Briefly, gene transcript coordinates were obtained from multiple sources (HGNC, GENCODE, Ensembl, RefSeq) and validated using data from CAGE and RAMPAGE experimental studies obtained from FANTOM 5, UCSC, and ENCODE. Peak calling, clustering and filtering based on relative expression were applied to identify the most expressed promoters and those present in the largest number of samples. For the methodology and principles used by EPD to predict TSSs, refer to Dreos et al. (2013) in the References section below. A more detailed description of how this data was generated can be found at the following links: Human promoter pipelines: coding, non-coding Mouse promoter pipelines: coding, non-coding Credits Data was generated by the EPD team at the Swiss Institute of Bioinformatics. For inquiries, contact the EPD team using this on-line form or email &#112;&#104;&#105;&#108;&#105;&#112;&#112;. &#98;u&#99;h&#101;r&#64;&#101;&#112;fl. &#99;&#104; . References Dreos R, Ambrosini G, Perier RC, Bucher P. EPD and EPDnew, high-quality promoter resources in the next-generation sequencing era. Nucleic Acids Res. 2013 Jan 1;41(D1):D157-64. PMID: 23193273. 
epdNewPromoterNonCoding EPDnew NC v1 ncRNA promoters from EPDnewNC human version 001 Expression 
epdNewPromoter EPDnew v6 Promoters from EPDnew human version 006 Expression Description These tracks represent the experimentally validated promoters generated by the Eukaryotic Promoter Database. Display Conventions and Configuration Each item in the track is a representation of the promoter sequence identified by EPD. The &quot;thin&quot; part of the element represents the 49 bp upstream of the annotated transcription start site (TSS) whereas the &quot;thick&quot; part represents the TSS plus 10 bp downstream. The relative position of the thick and thin parts define the orientation of the promoter. Note that the EPD team has created a public track hub containing promoter and supporting annotations for human, mouse, and other vertebrate and model organism genomes. Methods Briefly, gene transcript coordinates were obtained from multiple sources (HGNC, GENCODE, Ensembl, RefSeq) and validated using data from CAGE and RAMPAGE experimental studies obtained from FANTOM 5, UCSC, and ENCODE. Peak calling, clustering and filtering based on relative expression were applied to identify the most expressed promoters and those present in the largest number of samples. For the methodology and principles used by EPD to predict TSSs, refer to Dreos et al. (2013) in the References section below. A more detailed description of how this data was generated can be found at the following links: Human promoter pipelines: coding, non-coding Mouse promoter pipelines: coding, non-coding Credits Data was generated by the EPD team at the Swiss Institute of Bioinformatics. For inquiries, contact the EPD team using this on-line form or email &#112;&#104;&#105;&#108;&#105;&#112;&#112;. &#98;u&#99;h&#101;r&#64;&#101;&#112;fl. &#99;&#104; . References Dreos R, Ambrosini G, Perier RC, Bucher P. EPD and EPDnew, high-quality promoter resources in the next-generation sequencing era. Nucleic Acids Res. 2013 Jan 1;41(D1):D157-64. PMID: 23193273. 
exomeProbesets Exome Probesets Exome Capture Probesets and Targeted Region Mapping and Sequencing Description This set of tracks shows the genomic positions of probes and targets from a full suite of in-solution-capture target enrichment exome kits for Next Generation Sequencing (NGS) applications. Also known as exome sequencing or whole exome sequencing (WES), this technique allows high-throughput parallel sequencing of all exons (e.g., coding regions of genes which affect protein function), constituting about 1% of the human genome, or approximately 30 million base pairs. The tracks are intended to show the major differences in target genomic regions between the different exome capture kits from the major players in the NGS sequencing market: Illumina Inc., Roche NimbleGen Inc., Agilent Technologies Inc., MGI Tech, Twist Bioscience, and Integrated DNA Technologies Inc.. Display Conventions and Configuration Items are shaded according to manufacturing company: IDT (Integrated DNA Technologies) Twist Biosciences MGI Tech (Beijing Genomics Institute) Roche NimbleGen Agilent Technologies Illumina Tracks labeled as Probes (P) indicate the footprint of the oligonucleotide probes mapped to the human genome. This is the technically relevant targeted region by the assay. However, the sequenced region will be bigger than this since flanking sequences are sequenced as well. Tracks labeled as Target Regions (T) indicate the genomic regions targeted by the assay. This is the biologically relevant target region. Not all targeted regions will necessarily be sequenced perfectly; there might be some capture bias at certain locations. The Target Regions are those normally used for coverage analysis. Note that most exome probesets are available on hg19 only. If you are working with hg38 and cannot find a particular probeset there, try to go to hg19, configure the same track, and see if it exists there. If you cannot find an array, do not hesitate to send us an email with the name of the manufacturer website with the probe file. If an array is available on hg19 but not on hg38 and you need it for your work, we can lift the locations. Our mailing list can be reached at genome@soe.ucsc.edu. Methods The capture of the genomic regions of interest using in-solution capture, is achieved through the hybridization of a set of probes (oligonucleotides) with a sample of fragmented genomic DNA in a solution environment. The probes hybridize selectively to the genomic regions of interest which, after a process of exclusion of the non-selective DNA material, can be pulled down and sequenced, enabling selective DNA sequencing of the genomic regions of interest (e.g., exons). In-solution capture sequencing is a sensitive method to detect single nucleotide variants, insertions and deletions, and copy number variations. #kit, #kit table, #kit th, #kit td { border: 1px solid black; border-collapse: collapse; padding: 2px; } Kit Targeted Region Databases Used for Design Year of Release IDT - xGen Exome Research Panel V1.0 39 Mb Coding sequences from RefSeq (19,396 genes) 2015 IDT - xGen Exome Research Panel V2.0 34 Mb Coding sequences from RefSeq 109 (19,433 genes) 2020 Twist - RefSeq Exome Panel 3.6 Mb Curated subset of protein coding genes from CCDS N/A Twist - Core Exome Panel 33 Mb Protein coding genes from CCDS N/A Twist - Comprehensive Exome Panel 36.8 Mb Protein coding genes from RefSeq, CCDS, and GENCODE 2020 Twist - Exome Panel 2.0 36.4 Mb Protein coding genes from RefSeq, CCDS, and GENCODE 2021 MGI - Easy Exome Capture V4 59 Mb CCDS, GENCODE, RefSeq, and miRBase N/A MGI - Easy Exome Capture V5 69 Mb CCDS, GENCODE, RefSeq, miRBase, and MGI Clinical Database N/A Agilent - SureSelect Clinical Research Exome 54 Mb Disease-associated regions from OMIM, HGMD, and ClinVar 2014 Agilent - SureSelect Clinical Research Exome V2 63.7 Mb Disease-associated regions from OMIM, HGMD, ClinVar, and ACMG 2017 Agilent - SureSelect Focused Exome 12 Mb Disease-associated regions from HGMD, OMIM and ClinVar 2016 Agilent - SureSelect All Exon V4 51 Mb Coding regions from CCDS, RefSeq, and GENCODE v6, miRBase v17, TCGA v6, and UCSC known genes 2011 Agilent - SureSelect All Exon V4 + UTRs 71 Mb Coding regions and 5' and 3' UTR sequences from CCDS, RefSeq, and GENCODE v6, regions from miRBase v17, TCGA v6, and UCSC known genes 2011 Agilent - SureSelect All Exon V5 50 Mb Coding regions from Refseq, GENCODE, UCSC, TCGA, CCDS, and miRBase (21.522 genes) 2012 Agilent - SureSelect All Exon V5 + UTRs 74 Mb Coding regions and 5' and 3' UTR sequences from Refseq, GENCODE, UCSC, TCGA, CCDS, and miRBase (21.522 genes) 2012 Agilent - SureSelect All Exon V6 r2 60 Mb Coding regions from RefSeq, CCDS, GENCODE, HGMD, and OMIM 2016 Agilent - SureSelect All Exon V6 + COSMIC r2 66 Mb Coding regions from RefSeq, CCDS, GENCODE, HGMD, and OMIM, and targets from both TCGA and COSMIC 2016 Agilent - SureSelect All Exon V6 + UTR r2 75 Mb Coding regions and 5' and 3' UTR sequences from RefSeq, GENCODE, CCDS, and UCSC known genes,and miRNAs and lncRNA sequences 2016 Agilent - SureSelect All Exon V7 35.7 Mb Coding regions from RefSeq, CCDS, GENCODE, and UCSC known genes 2018 Roche - KAPA HyperExome 43Mb Coding regions from CCDS, RefSeq, Ensembl, GENCODE,and variants from ClinVar 2020 Roche - SeqCap EZ Exome V3 64 Mb Coding regions from RefSeq RefGene CDS, CCDS, and miRBase v14 databases, plus coverage of 97% Vega, 97% Gencode, and 99% Ensembl 2018 Roche - SeqCap EZ Exome V3 + UTR 92 Mb Coding sequences from RefSeq RefGene, CCDS, and miRBase v14, plus coverage of 97% Vega, 97% Gencode, and 99% Ensembl and UTRs from RefSeq RefGene table from UCSC GRCh37/hg19 March 2012 and Ensembl (GRCh37 v64) 2018 Roche - SeqCap EZ MedExome 47 Mb Coding sequences from CCDS 17, RefSeq, Ensembl 76, VEGA 56, GENCODE 20, miRBase 21, and disease-associated regions from GeneTests, ClinVar, and based on customer input 2014 Roche - SeqCap EZ MedExome + Mito 47 Mb Coding sequences and mitochondrial genes from CCDS 17, RefSeq, Ensembl 76, VEGA 56, GENCODE 20 and miRBase 21, disease-associated regions from GeneTests, ClinVar, and based on customer input 2014 Illumina - Nextera DNA Exome V1.2 45 Mb Coding regions from RefSeq, CCDS, Ensembl, and GENCODE v19 2015 Illumina - Nextera Rapid Capture Exome 37 Mb 212,158 targeted exonic regions with start and stop chromosome locations in GRCh37/hg19 2013 Illumina - Nextera Rapid Capture Exome V1.2 37 Mb Coding regions from RefSeq, CCDS, Ensembl, and GENCODE v12 2014 Illumina - Nextera Rapid Capture Expanded Exome 66 Mb Coding regions from RefSeq, CCDS, Ensembl, and GENCODE v12 2013 Illumina - TruSeq DNA Exome V1.2 45 Mb Coding regions from RefSeq, CCDS, and Ensembl 2017 Illumina - TruSeq Rapid Exome V1.2 45 Mb Coding regions from RefSeq, CCDS, Ensembl, and GENECODE v19 2015 Illumina - TruSight ONE V1.1 12 Mb Coding regions of 6700 genes from HGMD, OMIM, and GeneTest 2017 Illumina - TruSight Exome 7 Mb Disease-causing mutations as curated by HGMD 2017 Illumina - AmpliSeq Exome Panel N/A CCDS coding regions 2019 Data Access The raw data can be explored interactively with the Table Browser or cross-referenced with Data Integrator. The data can be accessed from scripts through our API, with track names found in the Table Schema page for each subtrack after "Primary Table:". For downloading the data, the annotations are stored in bigBed files that can be accessed at our download directory. Regional or the whole genome text annotations can be obtained using our utility bigBedToBed. Instructions for downloading utilities can be found here. Credits Thanks to Illumina (U.S.), Roche NimbleGen, Inc. (U.S.), Agilent Technologies (U.S.), MGI Tech (Beijing Genomics Institute, China), Twist Bioscience (U.S.), and Integrated DNA Technologies (IDT), Inc. (U.S.), and Bionano Genomics (U.S.) for making these data available and to Tiana Pereira, Pranav Muthuraman, Began Nguy and Anna Benet-Pages for enginering these tracks. 
Twist_Exome_RefSeq_Targets Twist RefSeq T Twist - RefSeq Exome Panel Target Regions Mapping and Sequencing 
Twist_Exome_Target2 Twist Exome 2.0 Twist - Exome 2.0 Panel Target Regions Mapping and Sequencing 
Twist_Exome_Target Twist Core T Twist - Bioscience - Core Exome Panel Target Regions Mapping and Sequencing 
Twist_Comp_Exome_Target Twist Compr. T Twist - Comprehensive Exome Panel Target Regions Mapping and Sequencing 
Agilent_Human_Exon_V7_Regions SureSel. V7 T Agilent - SureSelect All Exon V7 Target Regions Mapping and Sequencing 
Agilent_Human_Exon_V7_Covered SureSel. V7 P Agilent - SureSelect All Exon V7 Covered by Probes Mapping and Sequencing 
Agilent_Human_Exon_V6_UTRs_Covered SureSel. V6+UTR P Agilent - SureSelect All Exon V6 + UTR r2 Covered by Probes Mapping and Sequencing 
Agilent_Human_Exon_V6_COSMIC_Regions SureSel. V6+COSMIC T Agilent - SureSelect All Exon V6 + COSMIC r2 Target Regions Mapping and Sequencing 
Agilent_Human_Exon_V6_COSMIC_Covered SureSel. V6+COSMIC P Agilent - SureSelect All Exon V6 + COSMIC r2 Covered by Probes Mapping and Sequencing 
Agilent_Human_Exon_V6_Regions SureSel. V6 T Agilent - SureSelect All Exon V6 r2 Target Regions Mapping and Sequencing 
Agilent_Human_Exon_V6_Covered SureSel. V6 P Agilent - SureSelect All Exon V6 r2 Covered by Probes Mapping and Sequencing 
Agilent_Human_Exon_V6_UTRs_Regions SureSel. V6 +UTR T Agilent - SureSelect All Exon V6 + UTR r2 Target Regions Mapping and Sequencing 
Agilent_Human_Exon_V5_UTRs_Regions SureSel. V5+UTR T Agilent - SureSelect All Exon V5 + UTRs Target Regions Mapping and Sequencing 
Agilent_Human_Exon_V5_UTRs_Covered SureSel. V5+UTR P Agilent - SureSelect All Exon V5 + UTRs Covered by Probes Mapping and Sequencing 
Agilent_Human_Exon_V4_Regions SureSel. V4+UTR T Agilent - SureSelect All Exon V4 + UTRs Target Regions Mapping and Sequencing 
Agilent_Human_Exon_V4_Covered SureSel. V4+UTR P Agilent - SureSelect All Exon V4 + UTRs Covered by Probes Mapping and Sequencing 
Agilent_Human_Exon_Focused_Regions SureSel. Focused T Agilent - SureSelect Focused Exome Target Regions Mapping and Sequencing 
Agilent_Human_Exon_Focused_Covered SureSel. Focused P Agilent - SureSelect Focused Exome Covered by Probes Mapping and Sequencing 
Agilent_Human_Exon_Clinical_Research_V2_Regions SureSel. Clinical V2 T Agilent - SureSelect Clinical Research Exome V2 Target Regions Mapping and Sequencing 
Agilent_Human_Exon_Clinical_Research_V2_Covered SureSel. Clinical V2 P Agilent - SureSelect Clinical Research Exome V2 Covered by Probes Mapping and Sequencing 
SeqCap-EZ_MedExomePlusMito_hg19_empirical_targets SeqCap EZ Med+Mito T Roche - SeqCap EZ MedExome + Mito Empirical Target Regions Mapping and Sequencing 
SeqCap-EZ_MedExomePlusMito_hg19_capture_targets SeqCap EZ Med+Mito P Roche - SeqCap EZ MedExome + Mito Capture Probe Footprint Mapping and Sequencing 
SeqCap-EZ_MedExome_hg19_empirical_targets SeqCap EZ Med T Roche - SeqCap EZ MedExome Empirical Target Regions Mapping and Sequencing 
SeqCap-EZ_MedExome_hg38_capture_targets SeqCap EZ Med P Roche - SeqCap EZ MedExome Capture Probe Footprint Mapping and Sequencing 
KAPA_HyperExome_hg38_primary_targets KAPA Hyper T Roche - KAPA HyperExome Primary Target Regions Mapping and Sequencing 
KAPA_HyperExome_hg38_capture_targets KAPA Hyper P Roche - KAPA HyperExome Capture Probe Footprint Mapping and Sequencing 
xGen_Research_Targets_V2 IDT xGen V2 T IDT - xGen Exome Research Panel V2 Target Regions Mapping and Sequencing 
xGen_Research_Probes_V2 IDT xGen V2 P IDT - xGen Exome Research Panel V2 Probes Mapping and Sequencing 
xGen_Research_Targets_V1 IDT xGen V1 T IDT - xGen Exome Research Panel V1 Target Regions Mapping and Sequencing 
xGen_Research_Probes_V1 IDT xGen V1 P IDT - xGen Exome Research Panel V1 Probes Mapping and Sequencing 
fetalGeneAtlasAssay Fetal Assay Fetal Gene Atlas binned by assay (cell/nucleus) from Cao et al 2020 Single Cell RNA-seq Description This group of tracks shows data from A human cell atlas of fetal gene expression. This is a collection of single cell and single nucleus combinatorial indexing-based RNA-seq data covering 4 million cells from 15 organs obtained during mid-gestation. The cells were sequenced in a highly multiplexed fashion and then clustered with annotations as described in Cao et al., 2020. The read count is calculated by taking, for this cell type and gene location, the total number of transcript reads divided by the number of cells, and is therefore an average or mean value. The Fetal Cells subtrack contains the data organized by cell type, with RNA signals from all cells of a given type pooled and averaged into one bar for each cell type. The Fetal Lineage subtrack shows similar data, but with the cell types subdivided more finely and by organ. Additional bar chart subtracks pool the cell by other characteristics such as by sex (Fetal Sex), assay (FetalAssay), donor (Fetal Donor ID), experiment (Fetal Exp), organ (Fetal Organ), and reverse transcription group (Fetal RT Group). Please see descartes.brotmanbaty.org for further interactive displays and additional data. Display Conventions and Configuration The cell types are colored by which class they belong to according to the following table. The coloring algorithm allows cells that show some blended characteristics to show blended colors so there will be some color variation within a class. The colors will be purest in the Fetal Cells subtrack, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Color Cell classification neural adipose fibroblast immune muscle hepatocyte trophoblast secretory ciliated epithelial endothelial glia Methods Three-level single-cell combinatorial indexing (sci-RNAseq3) as described in Cao et al., 2020 was used on 121 samples from 28 fetuses estimated 72 to 129 days post-conception. This included samples from 15 organs. and resulted in RNA profiles for 4 million cells. The samples were flash-frozen for majority of the experiments and then nuclei extracted for sequencing. Samples from tissues from the kidney and digestive system were fixed after disassociation to deactivate endogenous RNases and proteases. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. The expScores field for this track contains a comma-separated list of values for each cell type, and the expCount field is the size of the expScores array, which is the total number of cell types. The value in the expScores field corresponds to the read count for that cell type, and the order of the cell types is defined by the barChartBars line in the trackDb file for this track. Credits Thanks to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Jairo Navarro. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Cao J, O'Day DR, Pliner HA, Kingsley PD, Deng M, Daza RM, Zager MA, Aldinger KA, Blecher-Gonen R, Zhang F et al. A human cell atlas of fetal gene expression. Science. 2020 Nov 13;370(6518). PMID: 33184181; PMC: PMC7780123 Cao J, Spielmann M, Qiu X, Huang X, Ibrahim DM, Hill AJ, Zhang F, Mundlos S, Christiansen L, Steemers FJ et al. The single-cell transcriptional landscape of mammalian organogenesis. Nature. 2019 Feb;566(7745):496-502. PMID: 30787437; PMC: PMC6434952 body.cgi { background: #F0F0F0; } table.hgInside { background: #FFFFFF; } 
fetalGeneAtlas Fetal Gene Atlas Fetal Gene Atlas from Cao et al 2020 Single Cell RNA-seq Description This group of tracks shows data from A human cell atlas of fetal gene expression. This is a collection of single cell and single nucleus combinatorial indexing-based RNA-seq data covering 4 million cells from 15 organs obtained during mid-gestation. The cells were sequenced in a highly multiplexed fashion and then clustered with annotations as described in Cao et al., 2020. The read count is calculated by taking, for this cell type and gene location, the total number of transcript reads divided by the number of cells, and is therefore an average or mean value. The Fetal Cells subtrack contains the data organized by cell type, with RNA signals from all cells of a given type pooled and averaged into one bar for each cell type. The Fetal Lineage subtrack shows similar data, but with the cell types subdivided more finely and by organ. Additional bar chart subtracks pool the cell by other characteristics such as by sex (Fetal Sex), assay (FetalAssay), donor (Fetal Donor ID), experiment (Fetal Exp), organ (Fetal Organ), and reverse transcription group (Fetal RT Group). Please see descartes.brotmanbaty.org for further interactive displays and additional data. Display Conventions and Configuration The cell types are colored by which class they belong to according to the following table. The coloring algorithm allows cells that show some blended characteristics to show blended colors so there will be some color variation within a class. The colors will be purest in the Fetal Cells subtrack, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Color Cell classification neural adipose fibroblast immune muscle hepatocyte trophoblast secretory ciliated epithelial endothelial glia Methods Three-level single-cell combinatorial indexing (sci-RNAseq3) as described in Cao et al., 2020 was used on 121 samples from 28 fetuses estimated 72 to 129 days post-conception. This included samples from 15 organs. and resulted in RNA profiles for 4 million cells. The samples were flash-frozen for majority of the experiments and then nuclei extracted for sequencing. Samples from tissues from the kidney and digestive system were fixed after disassociation to deactivate endogenous RNases and proteases. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. The expScores field for this track contains a comma-separated list of values for each cell type, and the expCount field is the size of the expScores array, which is the total number of cell types. The value in the expScores field corresponds to the read count for that cell type, and the order of the cell types is defined by the barChartBars line in the trackDb file for this track. Credits Thanks to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Jairo Navarro. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Cao J, O'Day DR, Pliner HA, Kingsley PD, Deng M, Daza RM, Zager MA, Aldinger KA, Blecher-Gonen R, Zhang F et al. A human cell atlas of fetal gene expression. Science. 2020 Nov 13;370(6518). PMID: 33184181; PMC: PMC7780123 Cao J, Spielmann M, Qiu X, Huang X, Ibrahim DM, Hill AJ, Zhang F, Mundlos S, Christiansen L, Steemers FJ et al. The single-cell transcriptional landscape of mammalian organogenesis. Nature. 2019 Feb;566(7745):496-502. PMID: 30787437; PMC: PMC6434952 body.cgi { background: #F0F0F0; } table.hgInside { background: #FFFFFF; } 
fetalGeneAtlasCellType Fetal Cells Fetal Gene Atlas binned by cell type from Cao et al 2020 Single Cell RNA-seq Description This group of tracks shows data from A human cell atlas of fetal gene expression. This is a collection of single cell and single nucleus combinatorial indexing-based RNA-seq data covering 4 million cells from 15 organs obtained during mid-gestation. The cells were sequenced in a highly multiplexed fashion and then clustered with annotations as described in Cao et al., 2020. The read count is calculated by taking, for this cell type and gene location, the total number of transcript reads divided by the number of cells, and is therefore an average or mean value. The Fetal Cells subtrack contains the data organized by cell type, with RNA signals from all cells of a given type pooled and averaged into one bar for each cell type. The Fetal Lineage subtrack shows similar data, but with the cell types subdivided more finely and by organ. Additional bar chart subtracks pool the cell by other characteristics such as by sex (Fetal Sex), assay (FetalAssay), donor (Fetal Donor ID), experiment (Fetal Exp), organ (Fetal Organ), and reverse transcription group (Fetal RT Group). Please see descartes.brotmanbaty.org for further interactive displays and additional data. Display Conventions and Configuration The cell types are colored by which class they belong to according to the following table. The coloring algorithm allows cells that show some blended characteristics to show blended colors so there will be some color variation within a class. The colors will be purest in the Fetal Cells subtrack, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Color Cell classification neural adipose fibroblast immune muscle hepatocyte trophoblast secretory ciliated epithelial endothelial glia Methods Three-level single-cell combinatorial indexing (sci-RNAseq3) as described in Cao et al., 2020 was used on 121 samples from 28 fetuses estimated 72 to 129 days post-conception. This included samples from 15 organs. and resulted in RNA profiles for 4 million cells. The samples were flash-frozen for majority of the experiments and then nuclei extracted for sequencing. Samples from tissues from the kidney and digestive system were fixed after disassociation to deactivate endogenous RNases and proteases. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. The expScores field for this track contains a comma-separated list of values for each cell type, and the expCount field is the size of the expScores array, which is the total number of cell types. The value in the expScores field corresponds to the read count for that cell type, and the order of the cell types is defined by the barChartBars line in the trackDb file for this track. Credits Thanks to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Jairo Navarro. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Cao J, O'Day DR, Pliner HA, Kingsley PD, Deng M, Daza RM, Zager MA, Aldinger KA, Blecher-Gonen R, Zhang F et al. A human cell atlas of fetal gene expression. Science. 2020 Nov 13;370(6518). PMID: 33184181; PMC: PMC7780123 Cao J, Spielmann M, Qiu X, Huang X, Ibrahim DM, Hill AJ, Zhang F, Mundlos S, Christiansen L, Steemers FJ et al. The single-cell transcriptional landscape of mammalian organogenesis. Nature. 2019 Feb;566(7745):496-502. PMID: 30787437; PMC: PMC6434952 body.cgi { background: #F0F0F0; } table.hgInside { background: #FFFFFF; } 
fetalGeneAtlasDonor Fetal Donor ID Fetal Gene Atlas binned by donor ID from Cao et al 2020 Single Cell RNA-seq Description This group of tracks shows data from A human cell atlas of fetal gene expression. This is a collection of single cell and single nucleus combinatorial indexing-based RNA-seq data covering 4 million cells from 15 organs obtained during mid-gestation. The cells were sequenced in a highly multiplexed fashion and then clustered with annotations as described in Cao et al., 2020. The read count is calculated by taking, for this cell type and gene location, the total number of transcript reads divided by the number of cells, and is therefore an average or mean value. The Fetal Cells subtrack contains the data organized by cell type, with RNA signals from all cells of a given type pooled and averaged into one bar for each cell type. The Fetal Lineage subtrack shows similar data, but with the cell types subdivided more finely and by organ. Additional bar chart subtracks pool the cell by other characteristics such as by sex (Fetal Sex), assay (FetalAssay), donor (Fetal Donor ID), experiment (Fetal Exp), organ (Fetal Organ), and reverse transcription group (Fetal RT Group). Please see descartes.brotmanbaty.org for further interactive displays and additional data. Display Conventions and Configuration The cell types are colored by which class they belong to according to the following table. The coloring algorithm allows cells that show some blended characteristics to show blended colors so there will be some color variation within a class. The colors will be purest in the Fetal Cells subtrack, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Color Cell classification neural adipose fibroblast immune muscle hepatocyte trophoblast secretory ciliated epithelial endothelial glia Methods Three-level single-cell combinatorial indexing (sci-RNAseq3) as described in Cao et al., 2020 was used on 121 samples from 28 fetuses estimated 72 to 129 days post-conception. This included samples from 15 organs. and resulted in RNA profiles for 4 million cells. The samples were flash-frozen for majority of the experiments and then nuclei extracted for sequencing. Samples from tissues from the kidney and digestive system were fixed after disassociation to deactivate endogenous RNases and proteases. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. The expScores field for this track contains a comma-separated list of values for each cell type, and the expCount field is the size of the expScores array, which is the total number of cell types. The value in the expScores field corresponds to the read count for that cell type, and the order of the cell types is defined by the barChartBars line in the trackDb file for this track. Credits Thanks to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Jairo Navarro. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Cao J, O'Day DR, Pliner HA, Kingsley PD, Deng M, Daza RM, Zager MA, Aldinger KA, Blecher-Gonen R, Zhang F et al. A human cell atlas of fetal gene expression. Science. 2020 Nov 13;370(6518). PMID: 33184181; PMC: PMC7780123 Cao J, Spielmann M, Qiu X, Huang X, Ibrahim DM, Hill AJ, Zhang F, Mundlos S, Christiansen L, Steemers FJ et al. The single-cell transcriptional landscape of mammalian organogenesis. Nature. 2019 Feb;566(7745):496-502. PMID: 30787437; PMC: PMC6434952 body.cgi { background: #F0F0F0; } table.hgInside { background: #FFFFFF; } 
fetalGeneAtlasExperiment Fetal Exp Fetal Gene Atlas binned by experiment id from Cao et al 2020 Single Cell RNA-seq Description This group of tracks shows data from A human cell atlas of fetal gene expression. This is a collection of single cell and single nucleus combinatorial indexing-based RNA-seq data covering 4 million cells from 15 organs obtained during mid-gestation. The cells were sequenced in a highly multiplexed fashion and then clustered with annotations as described in Cao et al., 2020. The read count is calculated by taking, for this cell type and gene location, the total number of transcript reads divided by the number of cells, and is therefore an average or mean value. The Fetal Cells subtrack contains the data organized by cell type, with RNA signals from all cells of a given type pooled and averaged into one bar for each cell type. The Fetal Lineage subtrack shows similar data, but with the cell types subdivided more finely and by organ. Additional bar chart subtracks pool the cell by other characteristics such as by sex (Fetal Sex), assay (FetalAssay), donor (Fetal Donor ID), experiment (Fetal Exp), organ (Fetal Organ), and reverse transcription group (Fetal RT Group). Please see descartes.brotmanbaty.org for further interactive displays and additional data. Display Conventions and Configuration The cell types are colored by which class they belong to according to the following table. The coloring algorithm allows cells that show some blended characteristics to show blended colors so there will be some color variation within a class. The colors will be purest in the Fetal Cells subtrack, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Color Cell classification neural adipose fibroblast immune muscle hepatocyte trophoblast secretory ciliated epithelial endothelial glia Methods Three-level single-cell combinatorial indexing (sci-RNAseq3) as described in Cao et al., 2020 was used on 121 samples from 28 fetuses estimated 72 to 129 days post-conception. This included samples from 15 organs. and resulted in RNA profiles for 4 million cells. The samples were flash-frozen for majority of the experiments and then nuclei extracted for sequencing. Samples from tissues from the kidney and digestive system were fixed after disassociation to deactivate endogenous RNases and proteases. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. The expScores field for this track contains a comma-separated list of values for each cell type, and the expCount field is the size of the expScores array, which is the total number of cell types. The value in the expScores field corresponds to the read count for that cell type, and the order of the cell types is defined by the barChartBars line in the trackDb file for this track. Credits Thanks to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Jairo Navarro. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Cao J, O'Day DR, Pliner HA, Kingsley PD, Deng M, Daza RM, Zager MA, Aldinger KA, Blecher-Gonen R, Zhang F et al. A human cell atlas of fetal gene expression. Science. 2020 Nov 13;370(6518). PMID: 33184181; PMC: PMC7780123 Cao J, Spielmann M, Qiu X, Huang X, Ibrahim DM, Hill AJ, Zhang F, Mundlos S, Christiansen L, Steemers FJ et al. The single-cell transcriptional landscape of mammalian organogenesis. Nature. 2019 Feb;566(7745):496-502. PMID: 30787437; PMC: PMC6434952 body.cgi { background: #F0F0F0; } table.hgInside { background: #FFFFFF; } 
fetalGeneAtlasOrganCellLineage Fetal Lineage Fetal Gene Atlas binned by cell lineage and organ from Cao et al 2020 Single Cell RNA-seq Description This group of tracks shows data from A human cell atlas of fetal gene expression. This is a collection of single cell and single nucleus combinatorial indexing-based RNA-seq data covering 4 million cells from 15 organs obtained during mid-gestation. The cells were sequenced in a highly multiplexed fashion and then clustered with annotations as described in Cao et al., 2020. The read count is calculated by taking, for this cell type and gene location, the total number of transcript reads divided by the number of cells, and is therefore an average or mean value. The Fetal Cells subtrack contains the data organized by cell type, with RNA signals from all cells of a given type pooled and averaged into one bar for each cell type. The Fetal Lineage subtrack shows similar data, but with the cell types subdivided more finely and by organ. Additional bar chart subtracks pool the cell by other characteristics such as by sex (Fetal Sex), assay (FetalAssay), donor (Fetal Donor ID), experiment (Fetal Exp), organ (Fetal Organ), and reverse transcription group (Fetal RT Group). Please see descartes.brotmanbaty.org for further interactive displays and additional data. Display Conventions and Configuration The cell types are colored by which class they belong to according to the following table. The coloring algorithm allows cells that show some blended characteristics to show blended colors so there will be some color variation within a class. The colors will be purest in the Fetal Cells subtrack, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Color Cell classification neural adipose fibroblast immune muscle hepatocyte trophoblast secretory ciliated epithelial endothelial glia Methods Three-level single-cell combinatorial indexing (sci-RNAseq3) as described in Cao et al., 2020 was used on 121 samples from 28 fetuses estimated 72 to 129 days post-conception. This included samples from 15 organs. and resulted in RNA profiles for 4 million cells. The samples were flash-frozen for majority of the experiments and then nuclei extracted for sequencing. Samples from tissues from the kidney and digestive system were fixed after disassociation to deactivate endogenous RNases and proteases. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. The expScores field for this track contains a comma-separated list of values for each cell type, and the expCount field is the size of the expScores array, which is the total number of cell types. The value in the expScores field corresponds to the read count for that cell type, and the order of the cell types is defined by the barChartBars line in the trackDb file for this track. Credits Thanks to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Jairo Navarro. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Cao J, O'Day DR, Pliner HA, Kingsley PD, Deng M, Daza RM, Zager MA, Aldinger KA, Blecher-Gonen R, Zhang F et al. A human cell atlas of fetal gene expression. Science. 2020 Nov 13;370(6518). PMID: 33184181; PMC: PMC7780123 Cao J, Spielmann M, Qiu X, Huang X, Ibrahim DM, Hill AJ, Zhang F, Mundlos S, Christiansen L, Steemers FJ et al. The single-cell transcriptional landscape of mammalian organogenesis. Nature. 2019 Feb;566(7745):496-502. PMID: 30787437; PMC: PMC6434952 body.cgi { background: #F0F0F0; } table.hgInside { background: #FFFFFF; } 
fetalGeneAtlasOrgan Fetal Organ Fetal Gene Atlas binned by organ from Cao et al 2020 Single Cell RNA-seq Description This group of tracks shows data from A human cell atlas of fetal gene expression. This is a collection of single cell and single nucleus combinatorial indexing-based RNA-seq data covering 4 million cells from 15 organs obtained during mid-gestation. The cells were sequenced in a highly multiplexed fashion and then clustered with annotations as described in Cao et al., 2020. The read count is calculated by taking, for this cell type and gene location, the total number of transcript reads divided by the number of cells, and is therefore an average or mean value. The Fetal Cells subtrack contains the data organized by cell type, with RNA signals from all cells of a given type pooled and averaged into one bar for each cell type. The Fetal Lineage subtrack shows similar data, but with the cell types subdivided more finely and by organ. Additional bar chart subtracks pool the cell by other characteristics such as by sex (Fetal Sex), assay (FetalAssay), donor (Fetal Donor ID), experiment (Fetal Exp), organ (Fetal Organ), and reverse transcription group (Fetal RT Group). Please see descartes.brotmanbaty.org for further interactive displays and additional data. Display Conventions and Configuration The cell types are colored by which class they belong to according to the following table. The coloring algorithm allows cells that show some blended characteristics to show blended colors so there will be some color variation within a class. The colors will be purest in the Fetal Cells subtrack, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Color Cell classification neural adipose fibroblast immune muscle hepatocyte trophoblast secretory ciliated epithelial endothelial glia Methods Three-level single-cell combinatorial indexing (sci-RNAseq3) as described in Cao et al., 2020 was used on 121 samples from 28 fetuses estimated 72 to 129 days post-conception. This included samples from 15 organs. and resulted in RNA profiles for 4 million cells. The samples were flash-frozen for majority of the experiments and then nuclei extracted for sequencing. Samples from tissues from the kidney and digestive system were fixed after disassociation to deactivate endogenous RNases and proteases. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. The expScores field for this track contains a comma-separated list of values for each cell type, and the expCount field is the size of the expScores array, which is the total number of cell types. The value in the expScores field corresponds to the read count for that cell type, and the order of the cell types is defined by the barChartBars line in the trackDb file for this track. Credits Thanks to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Jairo Navarro. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Cao J, O'Day DR, Pliner HA, Kingsley PD, Deng M, Daza RM, Zager MA, Aldinger KA, Blecher-Gonen R, Zhang F et al. A human cell atlas of fetal gene expression. Science. 2020 Nov 13;370(6518). PMID: 33184181; PMC: PMC7780123 Cao J, Spielmann M, Qiu X, Huang X, Ibrahim DM, Hill AJ, Zhang F, Mundlos S, Christiansen L, Steemers FJ et al. The single-cell transcriptional landscape of mammalian organogenesis. Nature. 2019 Feb;566(7745):496-502. PMID: 30787437; PMC: PMC6434952 body.cgi { background: #F0F0F0; } table.hgInside { background: #FFFFFF; } 
fetalGeneAtlasRtGroup Fetal RT Group Fetal Gene Atlas binned by RT group from Cao et al 2020 Single Cell RNA-seq Description This group of tracks shows data from A human cell atlas of fetal gene expression. This is a collection of single cell and single nucleus combinatorial indexing-based RNA-seq data covering 4 million cells from 15 organs obtained during mid-gestation. The cells were sequenced in a highly multiplexed fashion and then clustered with annotations as described in Cao et al., 2020. The read count is calculated by taking, for this cell type and gene location, the total number of transcript reads divided by the number of cells, and is therefore an average or mean value. The Fetal Cells subtrack contains the data organized by cell type, with RNA signals from all cells of a given type pooled and averaged into one bar for each cell type. The Fetal Lineage subtrack shows similar data, but with the cell types subdivided more finely and by organ. Additional bar chart subtracks pool the cell by other characteristics such as by sex (Fetal Sex), assay (FetalAssay), donor (Fetal Donor ID), experiment (Fetal Exp), organ (Fetal Organ), and reverse transcription group (Fetal RT Group). Please see descartes.brotmanbaty.org for further interactive displays and additional data. Display Conventions and Configuration The cell types are colored by which class they belong to according to the following table. The coloring algorithm allows cells that show some blended characteristics to show blended colors so there will be some color variation within a class. The colors will be purest in the Fetal Cells subtrack, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Color Cell classification neural adipose fibroblast immune muscle hepatocyte trophoblast secretory ciliated epithelial endothelial glia Methods Three-level single-cell combinatorial indexing (sci-RNAseq3) as described in Cao et al., 2020 was used on 121 samples from 28 fetuses estimated 72 to 129 days post-conception. This included samples from 15 organs. and resulted in RNA profiles for 4 million cells. The samples were flash-frozen for majority of the experiments and then nuclei extracted for sequencing. Samples from tissues from the kidney and digestive system were fixed after disassociation to deactivate endogenous RNases and proteases. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. The expScores field for this track contains a comma-separated list of values for each cell type, and the expCount field is the size of the expScores array, which is the total number of cell types. The value in the expScores field corresponds to the read count for that cell type, and the order of the cell types is defined by the barChartBars line in the trackDb file for this track. Credits Thanks to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Jairo Navarro. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Cao J, O'Day DR, Pliner HA, Kingsley PD, Deng M, Daza RM, Zager MA, Aldinger KA, Blecher-Gonen R, Zhang F et al. A human cell atlas of fetal gene expression. Science. 2020 Nov 13;370(6518). PMID: 33184181; PMC: PMC7780123 Cao J, Spielmann M, Qiu X, Huang X, Ibrahim DM, Hill AJ, Zhang F, Mundlos S, Christiansen L, Steemers FJ et al. The single-cell transcriptional landscape of mammalian organogenesis. Nature. 2019 Feb;566(7745):496-502. PMID: 30787437; PMC: PMC6434952 body.cgi { background: #F0F0F0; } table.hgInside { background: #FFFFFF; } 
fetalGeneAtlasSex Fetal Sex Fetal Gene Atlas binned by sex from Cao et al 2020 Single Cell RNA-seq Description This group of tracks shows data from A human cell atlas of fetal gene expression. This is a collection of single cell and single nucleus combinatorial indexing-based RNA-seq data covering 4 million cells from 15 organs obtained during mid-gestation. The cells were sequenced in a highly multiplexed fashion and then clustered with annotations as described in Cao et al., 2020. The read count is calculated by taking, for this cell type and gene location, the total number of transcript reads divided by the number of cells, and is therefore an average or mean value. The Fetal Cells subtrack contains the data organized by cell type, with RNA signals from all cells of a given type pooled and averaged into one bar for each cell type. The Fetal Lineage subtrack shows similar data, but with the cell types subdivided more finely and by organ. Additional bar chart subtracks pool the cell by other characteristics such as by sex (Fetal Sex), assay (FetalAssay), donor (Fetal Donor ID), experiment (Fetal Exp), organ (Fetal Organ), and reverse transcription group (Fetal RT Group). Please see descartes.brotmanbaty.org for further interactive displays and additional data. Display Conventions and Configuration The cell types are colored by which class they belong to according to the following table. The coloring algorithm allows cells that show some blended characteristics to show blended colors so there will be some color variation within a class. The colors will be purest in the Fetal Cells subtrack, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Color Cell classification neural adipose fibroblast immune muscle hepatocyte trophoblast secretory ciliated epithelial endothelial glia Methods Three-level single-cell combinatorial indexing (sci-RNAseq3) as described in Cao et al., 2020 was used on 121 samples from 28 fetuses estimated 72 to 129 days post-conception. This included samples from 15 organs. and resulted in RNA profiles for 4 million cells. The samples were flash-frozen for majority of the experiments and then nuclei extracted for sequencing. Samples from tissues from the kidney and digestive system were fixed after disassociation to deactivate endogenous RNases and proteases. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. The expScores field for this track contains a comma-separated list of values for each cell type, and the expCount field is the size of the expScores array, which is the total number of cell types. The value in the expScores field corresponds to the read count for that cell type, and the order of the cell types is defined by the barChartBars line in the trackDb file for this track. Credits Thanks to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Jairo Navarro. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Cao J, O'Day DR, Pliner HA, Kingsley PD, Deng M, Daza RM, Zager MA, Aldinger KA, Blecher-Gonen R, Zhang F et al. A human cell atlas of fetal gene expression. Science. 2020 Nov 13;370(6518). PMID: 33184181; PMC: PMC7780123 Cao J, Spielmann M, Qiu X, Huang X, Ibrahim DM, Hill AJ, Zhang F, Mundlos S, Christiansen L, Steemers FJ et al. The single-cell transcriptional landscape of mammalian organogenesis. Nature. 2019 Feb;566(7745):496-502. PMID: 30787437; PMC: PMC6434952 body.cgi { background: #F0F0F0; } table.hgInside { background: #FFFFFF; } 
fishClones FISH Clones Clones Placed on Cytogenetic Map Using FISH Mapping and Sequencing Description This track shows the location of fluorescent in situ hybridization (FISH)-mapped clones along the assembly sequence. The locations of these clones were obtained from the NCBI Human BAC Resource here. Earlier versions of this track obtained this information directly from the paper Cheung, et al. (2001). More information about the BAC clones, including how they may be obtained, can be found at the Human BAC Resource and the Clone Registry web sites hosted by NCBI. To view Clone Registry information for a clone, click on the clone name at the top of the details page for that item. Using the Filter This track has a filter that can be used to change the color or include/exclude the display of a dataset from an individual lab. This is helpful when many items are shown in the track display, especially when only some are relevant to the current task. The filter is located at the top of the track description page, which is accessed via the small button to the left of the track's graphical display or through the link on the track's control menu. To use the filter: In the pulldown menu, select the lab whose data you would like to highlight or exclude in the display. Choose the color or display characteristic that will be used to highlight or include/exclude the filtered items. If &quot;exclude&quot; is chosen, the browser will not display clones from the lab selected in the pulldown list. If &quot;include&quot; is selected, the browser will display clones only from the selected lab. When you have finished configuring the filter, click the Submit button. Credits We would like to thank all of the labs that have contributed to this resource: Fred Hutchinson Cancer Research Center (FHCRC) National Cancer Institute (NCI) Roswell Park Cancer Institute (RPCI) The Wellcome Trust Sanger Institute (SC) Cedars-Sinai Medical Center (CSMC) Los Alamos National Laboratory (LANL) UC San Francisco Cancer Center (UCSF) References Cheung VG, Nowak N, Jang W, Kirsch IR, Zhao S, Chen XN, Furey TS, Kim UJ, Kuo WL, Olivier M et al. Integration of cytogenetic landmarks into the draft sequence of the human genome. Nature. 2001 Feb 15;409(6822):953-8. PMID: 11237021 
assemblyContainer Assembly Tracks Assembly identifiers, clones, and markers Mapping and Sequencing Description This is a container track for data related to the genome assembly. It contains tracks about the assembly identifiers, certain clones, and STS markers. Click into any of the sub-tracks to see information details on the specific annotations. 
g2p G2P Project Gene2Phenotype Project Phenotypes, Variants, and Literature Description This track displays detailed, evidence-based gene-disease models, curated from the literature by experts. The track can be used to filter genomic sequencing data from individuals with genetic disorders to identify likely causative variants and accelerate diagnosis. More information about the G2P project can be found on the Gene2Phenotype website. Display Conventions and Configuration For each track, items are colored according to the likelihood that the gene-disease association is true: Dark-green - Definitive Green - Strong Light-green - Moderate Pink - Limited Red - Disputed Dark-red - Refuted Each mouseover tooltip provides the following information: G2P ID: Unique identifier assigned by the Gene2Phenotype (G2P) database. Variant Consequence: Predicted effect each allele of a variant has on a transcript. Disease Name: Name of the disease associated with the variant. PubMed IDs: Publications associated with the variant. Molecular Mechanism: Description of the molecular processes and interactions causing pathogenic effects. Allelic Requirements: Number of alleles required at a locus to produce a pathogenic phenotype (e.g., monoallelic, biallelic). Date of Last Review: Most recent date the entry was manually reviewed. Method Expert-curated gene disease models released by the Gene2Phenotype project were imported and processed to create a BED-based track annotating genomic regions reported to be associated with disease in the literature. Standard genome assembly coordinates and gene annotations were used to map entries to the browser. Contact For more information on the Gene2Phenotype project, please contact &#103;&#50;p&#45;&#104;&#101;&#108;p&#64;&#101;&#98;&#105;. a&#99;. &#117;&#107; Data Access Source data for these tracks are available directly from Gene2Phenotype. References Thormann A, Halachev M, McLaren W, Moore DJ, Svinti V, Campbell A, Kerr SM, Tischkowitz M, Hunt SE, Dunlop MG et al. Flexible and scalable diagnostic filtering of genomic variants using G2P with Ensembl VEP. Nat Commun. 2019 May 30;10(1):2373. DOI: 10.1038/s41467-019-10016-3; PMID: 31147538; PMC: PMC6542828 Yates TM, Ansari M, Thompson L, Hunt SE, Uhalte EC, Hobson RJ, Marsh JA, Wright CF, Firth HV. Curating genomic disease-gene relationships with Gene2Phenotype (G2P). Genome Med. 2024 Nov 6;16(1):127. DOI: 10.1186/s13073-024-01398-1; PMID: 39506859; PMC: PMC11539801 
gap Gap Gap Locations Mapping and Sequencing Description This track shows the gaps in the GRCh38 (hg38) genome assembly defined in the AGP file delivered with the sequence. These gaps are being closed during the finishing process on the human genome. For information on the AGP file format, see the NCBI AGP Specification. The NCBI website also provides an overview of genome assembly procedures, as well as specific information about the hg38 assembly. Gaps are represented as black boxes in this track. If the relative order and orientation of the contigs on either side of the gap is supported by read pair data, it is a bridged gap and a white line is drawn through the black box representing the gap. This assembly contains the following principal types of gaps: short_arm - short arm gaps (count: 5; size range: 5,000,000 - 16,990,000 bases) heterochromatin - heterochromatin gaps (count: 11; size range: 20,000 - 30,000,000 bases) telomere - telomere gaps (count: 48; all of size 10,000 bases) contig - gaps between contigs in scaffolds (count: 285; size range: 100 - 400,000 bases) scaffold - gaps between scaffolds in chromosome assemblies (count: 470; size range: 10 - 624,000 bases) 
gc5BaseBw GC Percent GC Percent in 5-Base Windows Mapping and Sequencing Description The GC percent track shows the percentage of G (guanine) and C (cytosine) bases in 5-base windows. High GC content is typically associated with gene-rich areas. This track may be configured in a variety of ways to highlight different apsects of the displayed information. Click the &quot;Graph configuration help&quot; link for an explanation of the configuration options. Credits The data and presentation of this graph were prepared by Hiram Clawson. 
genCC GenCC GenCC: The Gene Curation Coalition Annotations Phenotypes, Variants, and Literature Description This track shows annotations from The Gene Curation Coalition (GenCC). The GenCC provides information pertaining to the validity of gene-disease relationships, with a current focus on Mendelian diseases. Curated gene-disease relationships are submitted by GenCC member organizations that currently provide online resources (e.g. ClinGen, DECIPHER, Orphanet, etc.), as well as diagnostic laboratories that have committed to sharing their internal curated gene-level knowledge (e.g. Ambry Genetics, Illumina, Invitae, etc.). The GenCC aims to clarify overlap between gene curation efforts and develop consistent terminology for validity, allelic requirement and mechanism of disease. Each item on this track corresponds with a gene, and contains a large number of information such as associated disease, evidence classification, specific submission notes and identifiers from different databases. In cases where multiple annotations exist for the same gene, multiple items are displayed. Display Conventions and Configuration Each item displayed represents a submission to the GenCC database. The displayed name is a combination of the gene symbol and the disease's original submission ID. This submission ID is either the OMIM#, MONDO# or Orphanet#. Clicking on any item will display the complete meta data for that item, including linkouts to the GenCC, NCBI, Ensembl, HGNC, GeneCards, Pombase (MONDO), and Human Phenotype Ontology (HPO). Mousing over any item will display the associated disease title, the classification title, and the mode of inheritance title. Items are colored based on the GenCC classification, or validation, of the evidence in the color scheme seen in the table below. For more information on this process, see the GenCC validity terms FAQ. A filter for the track is also available to display a subset of the items based on their classification. Color Evidence classification Definitive Strong Moderate Supportive Limited Disputed Evidence Refuted Evidence No Known Disease Relationship Limitations: Most entries include both NM_ accessions as well as ENST and ENSG identifiers. From the original file, which contains no coordinates, two genes were not mapped to the hg38 genome, SLCO1B7 and ATXN8. This means that the hg38 track has 2 fewer items than what can be found in the GenCC download file. For hg19, one additional gene was not mapped, KCNJ18. In addition to this, the GenCC data in the Genome Browser does not include OMIM data due to licensing restrictions. For more information, see the Methods section below. Data Access The source data can be explored in GenCC database. The source files can also be found on the GenCC downloads page. The GenCC data on the UCSC Genome Browser can be explored interactively with the Table Browser or the Data Integrator. For automated download and analysis, the genome annotation is stored at UCSC in bigBed files that can be downloaded from our download server. The data may also be explored interactively using our REST API. The file for this track may also be locally explored using our tools bigBedToBed which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tools can also be used to obtain features confined to a given range, e.g., bigBedToBed -chrom=chr1 -start=100000 -end=100500 http://hgdownload.soe.ucsc.edu/gbdb/hg38/bbi/genCC.bb stdout Methods The data were downloaded from the GenCC downloads page in tsv format. Manual curation was performed on the file to remove newline characters and tab characters present in the submission notes, in total fewer than 20 manual edits were made. The track was first built on hg38 by associating the gene symbols with the NCBI MANE 1.0 release transcripts. These coordinates were added to the items as well as the NM_ accession, ENST ID and ENSG ID. For items where there was no gene symbol match in MANE (~130), the gene symbols were queried against GENCODEv40 comprehensive set release. In places where multiple transcript matches were found, the earliest transcription start and latest end site was used from among the transcripts to encompass the entire gene coordinates. Two genes were not able to be mapped for hg38, SLCO1B7 and ATXN8, resulting in two missing submissions in the Genome Browser when compared to the raw file. Lastly, the items were colored according to their evidence classification as seen on the GenCC database. For hg19, the hg38 NM_ accessions were used to convert the item coordinates according to the latest hg19 refseq release. For items that failed to convert, the gene symbols were queried using the GENCODEv40 hg19 lift comprehensive set. One additional gene symbol failed to map in hg19, KCNJ18, leading to 3 fewer items on this track when compared to the raw file. For both assemblies, GenCC OMIM data is excluded do to data restrictions. For complete documentation of the processing of these tracks, read the GenCC MakeDoc. Credits Thanks to the entire GenCC committee for creating these annotations and making them available. References DiStefano MT, Goehringer S, Babb L, Alkuraya FS, Amberger J, Amin M, Austin-Tse C, Balzotti M, Berg JS, Birney E et al. The Gene Curation Coalition: A global effort to harmonize gene-disease evidence resources. Genet Med. 2022 May 4;. PMID: 35507016 
gencNcOrfsComprehensive GENCODE Ph2 ncORFs Cmp ncORFs: GENCODE Phase II non-canonical ORFs - comprehensive Genes and Gene Predictions Description The three Gencode ncORF tracks in the non-canonical ORF track container show non-canonical translated open reading frames (ncORFs) identified from ribosome profiling (Ribo-seq) data and mapped to the GENCODE annotation by the GENCODE / TransCODE consortium. The data is available in two phases: Phase I The Phase I catalog contains 7,264 unique human ncORFs called from Ribo-seq data across seven publications and mapped to GENCODE v35. Only translations of 16 codons or above and initiating from ATG start codons were incorporated. Redundant sense-overlapping ORFs were merged. Of these, 3,085 ORFs were found by more than one publication, providing independent replication evidence. This catalog was developed as part of an effort to standardize the annotation of translated ORFs across reference databases including Ensembl/GENCODE, HGNC, UniProtKB, and PeptideAtlas. Phase II The Phase II catalog nearly quadruples the Phase I set, defining 28,359 ncORFs in the Comprehensive set, mapped to GENCODE v45. Compared to Phase I, additional published Ribo-seq datasets were incorporated and the restrictions on ORF size and initiation codon were lifted. Two subsets are provided for the Phase II data: Comprehensive (28,359 ncORFs) &ndash; all mapped translations from the expanded catalog Primary (10,127 ncORFs) &ndash; a high-confidence subset filtered for translations with especially robust translation signatures, as extrapolated from Ribo-seq data. These ncORFs demonstrate translation evidence comparable to canonical protein-coding genes. Display Conventions and Configuration All three GENCODE ncORF tracks are displayed in bigGenePred format. Items are labeled with their ORF identifier. Color reflects the categorical Kozak consensus strength: Strong &ndash; A/G at position &minus;3 and G at position +4 Moderate &ndash; only one of those two positions matches Weak &ndash; neither position matches non-ATG &ndash; near-cognate start codon; the Kozak rule does not apply no context &ndash; chromosome edge or context unavailable Mouseover content varies by phase. Phase I shows the ORF identifier in its host gene, gene type, start codon, Kozak strength and TE, replicated status, and source PMIDs. The two Phase II tracks show the same fields except replicated/PMIDs. Common filters on all three tracks: start codon, Kozak strength, Kozak TE. Phase I adds a Replicated filter (cross-publication evidence). Data Access The raw data can be explored interactively with the Table Browser or the Data Integrator. The data can be accessed from scripts through our API; the track names are &quot;gencNcOrfs&quot; (Phase I), &quot;gencNcOrfsPrimary&quot; (Phase II Primary), and &quot;gencNcOrfsComprehensive&quot; (Phase II Comprehensive). For automated download and analysis, the genome annotations are stored in bigBed files that can be downloaded from our download server. Individual regions or the whole genome annotation can be obtained using our tool bigBedToBed, which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. Methods Phase I: Ribo-seq ORFs were consolidated from seven publications and mapped to GENCODE v35. Translations shorter than 16 codons or initiating from near-cognate (non-ATG) start codons were excluded. Redundant sense-overlapping ORFs were merged, yielding 7,264 unique ncORFs. Phase II: The TransCODE consortium expanded the catalog by incorporating additional published Ribo-seq datasets and mapping to GENCODE v45. The size and start-codon restrictions from Phase I were lifted. A data-driven framework was used to identify a Primary subset of ncORFs with translation signatures comparable to canonical protein-coding genes. Credits Thanks to Jonathan Mudge, Jorge Ruiz-Orera, John Prensner, Sebastiaan van Heesch, and the GENCODE / TransCODE consortium for creating and maintaining these annotations. References Chothani S, Ruiz-Orera J, Tierney JAS, Clauwaert J, Deutsch EW, Alba MM, Aspden JL, Baranov PV, Bazzini AA, Bruford EA et al. An expanded reference catalog of translated open reading frames for biomedical research. bioRxiv. 2025 Jul 7;. PMID: 40672165; PMC: PMC12265627 Mudge JM, Ruiz-Orera J, Prensner JR, Brunet MA, Calvet F, Jungreis I, Gonzalez JM, Magrane M, Martinez TF, Schulz JF et al. Standardized annotation of translated open reading frames. Nat Biotechnol. 2022 Jul;40(7):994-999. PMID: 35831657; PMC: PMC9757701 
ncOrfs Non-canonical ORFs Non-canonical Open Reading Frames Genes and Gene Predictions Description The non-canonical ORFs supertrack contains tracks that display open reading frames (ORFs) found outside of annotated protein-coding sequences. While the human genome has approximately 20,000 annotated protein-coding genes, recent advances in ribosome profiling (Ribo-seq) and proteomics have revealed widespread translation of ORFs that do not correspond to known protein-coding genes. These non-canonical ORFs are found in regions previously considered non-coding, including 5' and 3' UTRs, long non-coding RNAs, pseudogenes, and alternative reading frames of known genes. Several subtypes of non-canonical ORFs are commonly distinguished. Upstream ORFs (uORFs) are located in 5' UTRs and can regulate translation of the downstream main coding sequence; ribosomes that translate a uORF may fail to reinitiate at the main start codon, reducing protein output. Small ORFs (sORFs), generally defined as encoding fewer than 100 amino acids, have been systematically overlooked by gene annotation pipelines due to their short length, but many produce functional micropeptides involved in signaling, metabolism, and development. Other types include downstream ORFs (dORFs) in 3' UTRs, out-of-frame ORFs that overlap known coding sequences in an alternative reading frame, and ORFs in transcripts annotated as non-coding RNAs or pseudogenes. This track collection imports various databases and annotates all ORFs with their Kozak strength, and colors the features by Kozak strength. Click any of the track names below to show their configuration/documentation page: Track Description Items GenomeCoverage ExonCoverage Start codon Kozak strength (ATG only) ATG non-ATG Strong Moderate Weak UTRannotator uORFs Upstream ORFs in 5' UTRs from UTRannotator 44,435 1.15% 1.15% 6,236 38,199 1,307 3,054 1,875 GENCODE ncORFs GENCODE non-canonical ORFs supported by Ribo-seq 7,264 1.02% 0.03% 7,263 1 1,571 3,705 1,987 GENCODE ncORFs primary GENCODE non-canonical ORFs &ndash; primary set 10,127 0.45% 0.02% 6,183 3,944 1,746 3,300 1,137 GENCODE ncORFs comprehensive GENCODE non-canonical ORFs &ndash; comprehensive set 28,359 2.24% 0.06% 13,776 14,583 3,133 7,168 3,475 nuORFdb Non-canonical ORFs from nuORFdb v1.2 229,251 22.14% 0.83% 51,080 178,171 10,905 25,539 14,636 MetamORF Meta-database of small ORFs (sORFs) 664,558 33.53% 1.19% 147,490 517,068 33,481 74,267 39,742 OpenProt Alternative and reference proteins from OpenProt v2.2 921,170 49.85% 3.36% 906,942 14,228 202,199 446,288 258,455 OpenProt (MS>=2) OpenProt proteins with mass spectrometry evidence (&ge;2 peptides) 377,916 40.29% 1.85% 367,257 10,659 106,148 181,817 79,292 GENCODE ncORFs (Phase I and Phase II) The three GENCODE ncORF tracks display non-canonical translated open reading frames identified from ribosome profiling (Ribo-seq) data and mapped to the GENCODE annotation by the GENCODE / TransCODE consortium. Phase I &ndash; a consolidated catalog of ATG-initiated ncORFs of at least 16 codons, called from Ribo-seq data across seven publications and mapped to GENCODE v35. Sense-overlapping ORFs were merged, leaving a unique set; over 3,000 are found in more than one publication and so are flagged as replicated. This was the basis of the original ncORF reference release for Ensembl/GENCODE, HGNC, UniProtKB, and PeptideAtlas. Phase II Comprehensive &ndash; the expanded catalog (GENCODE v45). Additional published Ribo-seq datasets were incorporated and the size and start-codon restrictions from Phase I were lifted, so this set includes shorter and non-AUG ORFs. Phase II Primary &ndash; a high-confidence subset of Phase II filtered for translations with especially robust Ribo-seq signatures, comparable to canonical protein-coding genes. See the GENCODE ncORFs Phase I subtrack page or the Phase II primary / comprehensive pages for download URLs, methods, and references. UTRannotator uORFs Created by the Whiffin lab, UTRannotator is a VEP plugin for annotating 5' UTR variants with respect to upstream open reading frames (uORFs). As part of the project, the authors compiled a curated reference set of uORFs in human 5' UTRs from sorfs.org, which contains ORFs supported by Ribo-Seq. See the UTRannotator uORFs subtrack page for more details. Data from sorfs.org is also part of the Metamorf track (see below). This track is useful if you have a prediction from the VEP plugin and want to see the context. The UTRannotator source data is distributed as single-span features with no exon/intron structure, so the uORFs would appear as continuous blocks even across introns of their host transcripts. To recover the splicing structure we look up, for each uORF, a same-strand MANE Select / MANE Plus Clinical transcript whose coordinates overlap the uORF range. The host transcript's exons are clipped to the uORF range so that any MANE intron inside the overlap is preserved as an intron of the displayed bed12 record. A uORF that extends past either end of MANE keeps the MANE introns inside the overlap and gets a single bridging block for the orphan portion. If a uORF endpoint falls inside a MANE intron (i.e. UTRannotator originally used a transcript whose UTR exon boundaries differ from MANE's), we fall back to the full GENCODE comprehensive set and apply the same projection. If no donor in either pool can host the uORF, it stays single-block. The chosen donor transcript ID is recorded in the intronsSource field (or none if no host was found). nuORFdb nuORFdb (novel unannotated ORF database) is a Broad Institute database of non-canonical open reading frames with evidence of translation from ribosome profiling (Ribo-seq). ORF types include uORFs, dORFs, out-of-frame ORFs, pseudogene ORFs, lincRNA ORFs, and others. See the nuORFdb subtrack page for more details. The nuORFdb database is a very consistent dataset, from a well-known paper. MetamORF MetamORF is a repository of small ORFs (sORFs) in the human genome, consolidated from several primary data sources and many individual ribosome profiling datasets. It integrates bioinformatic predictions, ribosome profiling experiments, and mass spectrometry studies into a unified format. See the MetamORF subtrack page for more details. Metamorf has many predictions, and not all may be relevant, but gives an example of a database with as many models as possible, and is the only complete archive of sorfs.org that we are aware of. OpenProt OpenProt is a comprehensive annotation of all possible protein-coding ORFs in eukaryotic genomes. It distinguishes RefProts (the known canonical proteins), Isoforms (alternative products of canonical genes), and AltProts (predicted from alternative reading frames in UTRs, frameshifted CDS overlaps, and non-coding RNAs). Each ORF is annotated with mass spectrometry and ribosome profiling evidence; a pre-filtered Mass-Spec-supported subset (&ge;2 unique peptides) is also available. See the OpenProt subtrack page for more details. OpenProt is widely known and has by far the most predictions, even more than Metamorf, which is why a subset exists with only the more reliable ORFs with Mass-Spec data. Kozak Strength Annotation Every ORF in every subtrack carries three additional annotation fields derived from the genomic sequence around its start codon: startCodon &ndash; first three bases of the ORF on the transcript strand (ATG / CTG / GTG / TTG / ACG / other). kozakStrength &ndash; categorical Kozak label (Strong if both position &minus;3 is A/G and position +4 is G; Moderate if only one of those holds; Weak if neither; non-ATG for non-AUG starts where the Kozak rule does not apply; None if the context could not be retrieved). kozakTE &ndash; numeric Kozak translational efficiency (TE), looked up from the 11-base TIS context in the Noderer 2014 FACS-seq TE table and divided by 100. -1 for non-ATG starts and rows with no lookup. Features in every subtrack are colored by the categorical kozakStrength field. The same legend applies to all subtracks: Strong &ndash; A/G at position &minus;3 and G at position +4 Moderate &ndash; only one of those two positions matches Weak &ndash; neither position matches non-ATG &ndash; near-cognate start codon; the Kozak rule does not apply no context &ndash; chromosome edge or other case where the 11-base context could not be read Per-subtrack counts of ATG vs. non-ATG starts and the Strong / Moderate / Weak breakdown are shown in the table at the top of this page. The high non-ATG fraction in UTRannotator, MetamORF, and nuORFdb is inherent to those catalogs &mdash; they explicitly include non-canonical CTG/GTG/TTG starts. GENCODE Phase I restricted itself to ATG-only starts. The 11-base Kozak context is fetched directly from the genome at the position of the start codon. For multi-exon ORFs with an intron immediately upstream of the start codon, the upstream bases of the context are genomic rather than the host transcript's true 5' UTR; in that uncommon case the computed Kozak value may be inaccurate. The Kozak strength annotation and color coding are added by the script colorByKozak.py in the kent source tree (src/hg/makeDb/scripts/ncOrfs/), along with the per-track autoSql files, the cached Noderer 2014 TE table, and a helper script (addIntrons.py) that recovers exon/intron structure for the UTRannotator uORFs. The Kozak strength logic is a Python port of the corresponding R routines in the VuTR pipeline (Whiffin lab / Computational Rare-Disease Genomics, WHG Oxford); credit and thanks to the VuTR authors for the original implementation. Full build steps are recorded in the makedoc. Data Access The raw data can be explored interactively with the Table Browser or the Data Integrator. The data can be accessed from scripts through our API. See the individual track pages for more details. For automated download and analysis, each subtrack is stored as a bigBed file that can be downloaded from our download server. Individual regions or the whole genome annotation can be obtained using our tool bigBedToBed, which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tool can also be used to obtain features within a given range, e.g. for the GENCODE Phase I ncORF subtrack: bigBedToBed http://hgdownload.soe.ucsc.edu/gbdb/hg38/ncOrfs/gencNcOrf/Ribo-seq_ORFs.kozak.bb -chrom=chr21 -start=0 -end=100000000 stdout File names for all eight subtracks (under /gbdb/hg38/ncOrfs/): utrAnnotUorfs.kozak.bb &ndash; UTRannotator uORFs gencNcOrf/Ribo-seq_ORFs.kozak.bb &ndash; GENCODE Phase I ncORFs gencNcOrf/Ribo-seq_ORFs.primary.kozak.bb &ndash; GENCODE Phase II primary gencNcOrf/Ribo-seq_ORFs.comprehensive.kozak.bb &ndash; GENCODE Phase II comprehensive nuorfdb/nuorfdb.kozak.bb &ndash; nuORFdb metamorf/MetamORF.kozak.bb &ndash; MetamORF openprot/openprot.kozak.bb &ndash; OpenProt openprot/openprot.ms2.kozak.bb &ndash; OpenProt MS&ge;2 References Please refer to each subtrack's description page for references. References for the Kozak / TE methodology: Kozak M. An analysis of 5'-noncoding sequences from 699 vertebrate messenger RNAs. Nucleic Acids Res. 1987 Oct 26;15(20):8125-48. DOI: 10.1093/nar/15.20.8125; PMID: 3313277; PMC: PMC306349 Noderer WL, Flockhart RJ, Bhaduri A, Diaz de Arce AJ, Zhang J, Khavari PA, Wang CL. Quantitative analysis of mammalian translation initiation sites by FACS-seq. Mol Syst Biol. 2014 Aug 28;10(8):748. DOI: 10.15252/msb.20145136; PMID: 25170020; PMC: PMC4299517 
gencNcOrfsPrimary GENCODE Ph2 ncORFs Pri ncORFs: GENCODE Phase II non-canonical ORFs - primary Genes and Gene Predictions Description The three Gencode ncORF tracks in the non-canonical ORF track container show non-canonical translated open reading frames (ncORFs) identified from ribosome profiling (Ribo-seq) data and mapped to the GENCODE annotation by the GENCODE / TransCODE consortium. The data is available in two phases: Phase I The Phase I catalog contains 7,264 unique human ncORFs called from Ribo-seq data across seven publications and mapped to GENCODE v35. Only translations of 16 codons or above and initiating from ATG start codons were incorporated. Redundant sense-overlapping ORFs were merged. Of these, 3,085 ORFs were found by more than one publication, providing independent replication evidence. This catalog was developed as part of an effort to standardize the annotation of translated ORFs across reference databases including Ensembl/GENCODE, HGNC, UniProtKB, and PeptideAtlas. Phase II The Phase II catalog nearly quadruples the Phase I set, defining 28,359 ncORFs in the Comprehensive set, mapped to GENCODE v45. Compared to Phase I, additional published Ribo-seq datasets were incorporated and the restrictions on ORF size and initiation codon were lifted. Two subsets are provided for the Phase II data: Comprehensive (28,359 ncORFs) &ndash; all mapped translations from the expanded catalog Primary (10,127 ncORFs) &ndash; a high-confidence subset filtered for translations with especially robust translation signatures, as extrapolated from Ribo-seq data. These ncORFs demonstrate translation evidence comparable to canonical protein-coding genes. Display Conventions and Configuration All three GENCODE ncORF tracks are displayed in bigGenePred format. Items are labeled with their ORF identifier. Color reflects the categorical Kozak consensus strength: Strong &ndash; A/G at position &minus;3 and G at position +4 Moderate &ndash; only one of those two positions matches Weak &ndash; neither position matches non-ATG &ndash; near-cognate start codon; the Kozak rule does not apply no context &ndash; chromosome edge or context unavailable Mouseover content varies by phase. Phase I shows the ORF identifier in its host gene, gene type, start codon, Kozak strength and TE, replicated status, and source PMIDs. The two Phase II tracks show the same fields except replicated/PMIDs. Common filters on all three tracks: start codon, Kozak strength, Kozak TE. Phase I adds a Replicated filter (cross-publication evidence). Data Access The raw data can be explored interactively with the Table Browser or the Data Integrator. The data can be accessed from scripts through our API; the track names are &quot;gencNcOrfs&quot; (Phase I), &quot;gencNcOrfsPrimary&quot; (Phase II Primary), and &quot;gencNcOrfsComprehensive&quot; (Phase II Comprehensive). For automated download and analysis, the genome annotations are stored in bigBed files that can be downloaded from our download server. Individual regions or the whole genome annotation can be obtained using our tool bigBedToBed, which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. Methods Phase I: Ribo-seq ORFs were consolidated from seven publications and mapped to GENCODE v35. Translations shorter than 16 codons or initiating from near-cognate (non-ATG) start codons were excluded. Redundant sense-overlapping ORFs were merged, yielding 7,264 unique ncORFs. Phase II: The TransCODE consortium expanded the catalog by incorporating additional published Ribo-seq datasets and mapping to GENCODE v45. The size and start-codon restrictions from Phase I were lifted. A data-driven framework was used to identify a Primary subset of ncORFs with translation signatures comparable to canonical protein-coding genes. Credits Thanks to Jonathan Mudge, Jorge Ruiz-Orera, John Prensner, Sebastiaan van Heesch, and the GENCODE / TransCODE consortium for creating and maintaining these annotations. References Chothani S, Ruiz-Orera J, Tierney JAS, Clauwaert J, Deutsch EW, Alba MM, Aspden JL, Baranov PV, Bazzini AA, Bruford EA et al. An expanded reference catalog of translated open reading frames for biomedical research. bioRxiv. 2025 Jul 7;. PMID: 40672165; PMC: PMC12265627 Mudge JM, Ruiz-Orera J, Prensner JR, Brunet MA, Calvet F, Jungreis I, Gonzalez JM, Magrane M, Martinez TF, Schulz JF et al. Standardized annotation of translated open reading frames. Nat Biotechnol. 2022 Jul;40(7):994-999. PMID: 35831657; PMC: PMC9757701 
gencNcOrfs GENCODE Phase I ncORFs ncORFs: GENCODE Phase I non-canonical ORFs supported by Ribo-seq data Genes and Gene Predictions Description The three Gencode ncORF tracks in the non-canonical ORF track container show non-canonical translated open reading frames (ncORFs) identified from ribosome profiling (Ribo-seq) data and mapped to the GENCODE annotation by the GENCODE / TransCODE consortium. The data is available in two phases: Phase I The Phase I catalog contains 7,264 unique human ncORFs called from Ribo-seq data across seven publications and mapped to GENCODE v35. Only translations of 16 codons or above and initiating from ATG start codons were incorporated. Redundant sense-overlapping ORFs were merged. Of these, 3,085 ORFs were found by more than one publication, providing independent replication evidence. This catalog was developed as part of an effort to standardize the annotation of translated ORFs across reference databases including Ensembl/GENCODE, HGNC, UniProtKB, and PeptideAtlas. Phase II The Phase II catalog nearly quadruples the Phase I set, defining 28,359 ncORFs in the Comprehensive set, mapped to GENCODE v45. Compared to Phase I, additional published Ribo-seq datasets were incorporated and the restrictions on ORF size and initiation codon were lifted. Two subsets are provided for the Phase II data: Comprehensive (28,359 ncORFs) &ndash; all mapped translations from the expanded catalog Primary (10,127 ncORFs) &ndash; a high-confidence subset filtered for translations with especially robust translation signatures, as extrapolated from Ribo-seq data. These ncORFs demonstrate translation evidence comparable to canonical protein-coding genes. Display Conventions and Configuration All three GENCODE ncORF tracks are displayed in bigGenePred format. Items are labeled with their ORF identifier. Color reflects the categorical Kozak consensus strength: Strong &ndash; A/G at position &minus;3 and G at position +4 Moderate &ndash; only one of those two positions matches Weak &ndash; neither position matches non-ATG &ndash; near-cognate start codon; the Kozak rule does not apply no context &ndash; chromosome edge or context unavailable Mouseover content varies by phase. Phase I shows the ORF identifier in its host gene, gene type, start codon, Kozak strength and TE, replicated status, and source PMIDs. The two Phase II tracks show the same fields except replicated/PMIDs. Common filters on all three tracks: start codon, Kozak strength, Kozak TE. Phase I adds a Replicated filter (cross-publication evidence). Data Access The raw data can be explored interactively with the Table Browser or the Data Integrator. The data can be accessed from scripts through our API; the track names are &quot;gencNcOrfs&quot; (Phase I), &quot;gencNcOrfsPrimary&quot; (Phase II Primary), and &quot;gencNcOrfsComprehensive&quot; (Phase II Comprehensive). For automated download and analysis, the genome annotations are stored in bigBed files that can be downloaded from our download server. Individual regions or the whole genome annotation can be obtained using our tool bigBedToBed, which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. Methods Phase I: Ribo-seq ORFs were consolidated from seven publications and mapped to GENCODE v35. Translations shorter than 16 codons or initiating from near-cognate (non-ATG) start codons were excluded. Redundant sense-overlapping ORFs were merged, yielding 7,264 unique ncORFs. Phase II: The TransCODE consortium expanded the catalog by incorporating additional published Ribo-seq datasets and mapping to GENCODE v45. The size and start-codon restrictions from Phase I were lifted. A data-driven framework was used to identify a Primary subset of ncORFs with translation signatures comparable to canonical protein-coding genes. Credits Thanks to Jonathan Mudge, Jorge Ruiz-Orera, John Prensner, Sebastiaan van Heesch, and the GENCODE / TransCODE consortium for creating and maintaining these annotations. References Chothani S, Ruiz-Orera J, Tierney JAS, Clauwaert J, Deutsch EW, Alba MM, Aspden JL, Baranov PV, Bazzini AA, Bruford EA et al. An expanded reference catalog of translated open reading frames for biomedical research. bioRxiv. 2025 Jul 7;. PMID: 40672165; PMC: PMC12265627 Mudge JM, Ruiz-Orera J, Prensner JR, Brunet MA, Calvet F, Jungreis I, Gonzalez JM, Magrane M, Martinez TF, Schulz JF et al. Standardized annotation of translated open reading frames. Nat Biotechnol. 2022 Jul;40(7):994-999. PMID: 35831657; PMC: PMC9757701 
interactions Gene Interactions Protein Interactions from Curated Databases and Text-Mining Phenotypes, Variants, and Literature Description The Pathways and Gene Interactions track shows a summary of gene interaction and pathway data collected from two sources: curated pathway/protein-interaction databases and interactions found through text mining of PubMed abstracts. Display Conventions and Configuration Track Display The track features a single item for each gene loci in the genome. On the item itself, the gene symbol for the loci is displayed followed by the top gene interactions noted by their gene symbol. Clicking an item will take you a gene interaction graph that includes detailed information on the support for the various interactions. Items are colored based on the number of documents supporting the interactions of a particular gene. Genes with &gt;100 supporting documents are colored black, genes with &gt;10 but &lt;100 supporting documents are colored dark blue, and those with &gt;10 supporting documents are colored light blue. Pathway and Gene Interaction Display See the help documentation accompanying this gene interaction graph for more information on its configuration. Methods The pathways and gene interactions were imported from a number of databases and mined from millions of PubMed abstracts. More information can be found in the &quot;Data Sources and Methods&quot; section of the help page for the gene interaction graph. Data Access The underlying data for this track can be accessed interactively through the Table Browser or Data Integrator. The data for this track is spread across a number of relational tables. The best way to export or analyze the data is using our public MySQL server. The list of tables and how they are linked together are described in the documentation linked at the bottom of the gene interaction viewer. The genome annotation is just a summary of the actual interactions database and therefore often not of interest to most users. It is stored in a bigBed file that can be obtained from the download server. The data underlying the graphical display is in bigBed formatted file named interactions.bb. Individual regions or the whole genome annotation can be obtained using our tool bigBedToBed. Instructions for downloading source code and precompiled binaries can be found here. The tool can also be used to obtain only features within a given range, for example: bigBedToBed http://hgdownload.soe.ucsc.edu/gbdb/hg38/bbi/interactions.bb -chrom=chr6 -start=0 -end=1000000 stdout Credits The text-mined data for the gene interactions and pathways were generated by Chris Quirk and Hoifung Poon as part of Microsoft Research, Project Hanover. Pathway data was provided by the databases listed under &quot;Data Sources and Methods&quot; section of the help page for the gene interaction graph. In particular, thank you to Ian Donaldson from IRef for his unique collection of interaction databases. The short gene descriptions are a merge of the HPRD and PantherDB gene/molecule classifications. Thanks to Arun Patil from HPRD for making them available as a download. The track display and gene interaction graph were developed at the UCSC Genome Browser by Max Haeussler. References Poon H, Quirk C, DeZiel C, Heckerman D. Literome: PubMed-scale genomic knowledge base in the cloud Bioinformatics. 2014 Oct;30(19):2840-2. PMID: 24939151 
geneHancer GeneHancer GeneHancer Regulatory Elements and Gene Interactions Regulation Description GeneHancer is a database of human regulatory elements (enhancers and promoters) and their inferred target genes, which is embedded in GeneCards, a human gene compendium. The GeneHancer database was created by integrating &gt;1 million regulatory elements from multiple genome-wide databases. Associations between the regulatory elements and target genes were based on multiple sources of linking molecular data, along with distance, as described in Methods below. The GeneHancer track set contains tracks representing: Regulatory elements (GeneHancers) Gene transcription start sites Interactions (associations) between regulatory elements and genes Clustered interactions, by gene target or GeneHancer The full set of elements and interactions is included, along with a highly filtered &quot;double elite&quot; subset. Display Conventions Each GeneHancer regulatory element is identified by a GeneHancer id. For example: GH0XJ101383 is located on chromosome X, with starting position of 101,383 kb (GRCh38/hg38 reference). Based on the id, one can obtain full GeneHancer information, as displayed in the Genomics section within the gene-centric web pages of GeneCards. Links to the GeneCards information pages are provided on the track details pages. For the interaction tracks (Clusters and Interactions) a slight offset can be noticed between the line endpoints. This helps to identify the start and end of the feature. In this case, the higher point is the source (enhancers) and the lower point is the target. Regulatory elements Colors are used to distinguish promoters and enhancers and to indicate the GeneHancer element confidence score: Promoters:&nbsp; &emsp;&emsp;&nbsp;High &emsp;&emsp;&nbsp;Medium &emsp;&emsp;&nbsp;Low Enhancers:&nbsp; &emsp;&emsp;&nbsp;High &emsp;&emsp;&nbsp;Medium &emsp;&emsp;&nbsp;Low Gene TSS Colors are used to improve gene and interactions visibility. Successive genes are colored in different colors, and interactions of a gene have the same color. Interactions The Interactions view in Full mode shows GeneHancers and target genes connected by curves or half-rectangles (when one of the connected regions is off-screen). Configuration options are available to change the drawing style, and to limit the view to interactions with one or both connected items in the region. Interactions are identified on mouseover or clicked on for details at the end regions, or at the curve peak, which is marked with a gray ring shape. Interactions in the reverse direction (Gene TSS precedes GeneHancer on the genome) are drawn with a dashed line. Clusters The Clusters view groups interactions by target gene; the target gene and all GeneHancers associated with it are displayed in a single browser item. The gene TSS and associated GeneHancers are shown as blocks linked together, with the TSS drawn as a &quot;tall&quot; item, and the GeneHancers drawn &quot;short&quot;. A user configuration option is provided to change the view to group by GeneHancer (with tall GeneHancer and short TSS's). Clusters composed of interactions with a single gene are colored to correspond to the gene, and those composed of interactions with multiple genes are colored dark gray. Methods GeneHancer identifications were created from &gt;1 million regulatory elements obtained from seven genome-wide databases: ENCODE project Z-Lab Enhancer-like regions (version v3) Ensembl regulatory build (version 92) FANTOM5 atlas of active enhancers VISTA Enhancer Browser dbSUPER super-enhancers EPDnew promoters UCNEbase ultra-conserved noncoding elements Employing an integration algorithm that removes redundancy, the GeneHancer pipeline identified &tilde;250k integrated candidate regulatory elements (GeneHancers). Each GeneHancer is assigned an annotation-derived confidence score. The GeneHancers that are derived from more than one information source are defined as &quot;elite&quot; GeneHancers. Gene-GeneHancer associations, and their likelihood-based scores, were generated using information that helps link regulatory elements to genes: eQTLs (expression quantitative trait loci) from GTEx (version v6p) Capture Hi-C promoter-enhancer long range interactions FANTOM5 eRNA-gene expression correlations Cross-tissue expression correlations between a transcription factor interacting with a GeneHancer and a candidate target gene Distance-based associations, including several approaches: Nearest neighbors, where each GeneHancer is associated with its two proximal genes Overlaps with the gene territory (intragenic) Proximity to the gene TSS (&lt;2kb) Associations that are derived from more than one information source are defined as &quot;elite&quot; associations, which leads to the definition of the &quot;double elite&quot; dataset - elite gene associations of elite GeneHancers. More details are provided at the GeneCards information page. For a full description of the methods used, refer to the GeneHancer manuscript1. Source data for the GeneHancer version 4.8 was downloaded during May 2018. Data Access Due to our agreement with the Weizmann Institute, we cannot allow full genome queries from the Table Browser or share download files. You can still access data for individual chromosomes or positional data from the Table Browser. GeneHancer is the property of the Weizmann Institute of Science and is not available for download or mirroring by any third party without permission. Please contact the Weizmann Institute directly for data inquiries. Credits Thanks to Simon Fishilevich, Marilyn Safran, Naomi Rosen, and Tsippi Iny Stein of the GeneCards group and Shifra Ben-Dor of the Bioinformatics Core group at the Weizmann Institute, for providing this data and documentation, creating track hub versions of these tracks as prototypes, and overall responsiveness during development of these tracks. Contact: &#115;&#105;&#109;&#111;&#110;. &#102;&#105;&#115;&#104;&#105;&#108;ev&#105;&#99;h&#64;&#119;&#101;&#105;&#122;m&#97;&#110;&#110;. a&#99;. &#105;l Supported in part by a grant from LifeMap Sciences Inc. References Fishilevich S., Nudel R., Rappaport N., Hadar R., Plaschkes I., Iny Stein T., Rosen N., Kohn A., Twik M., Safran M., Lancet D. and Cohen D. GeneHancer: genome-wide integration of enhancers and target genes in GeneCards, Database (Oxford) (2017), doi:10.1093/database/bax028. [PDF] PMID 28605766 Stelzer G, Rosen R, Plaschkes I, Zimmerman S, Twik M, Fishilevich S, Iny Stein T, Nudel R, Lieder I, Mazor Y, Kaplan S, Dahary, D, Warshawsky D, Guan- Golan Y, Kohn A, Rappaport N, Safran M, and Lancet D. The GeneCards Suite: From Gene Data Mining to Disease Genome Sequence Analysis, Current Protocols in Bioinformatics (2016), 54:1.30.1-1.30.33. doi: 10.1002/cpbi.5. PMID 27322403 
ghGeneHancer Reg Elem GeneHancer Regulatory Elements and Gene Interactions Regulation 
geneHancerRegElements GH Reg Elems Enhancers and promoters from GeneHancer Regulation 
geneHancerRegElementsDoubleElite GH Reg Elems (DE) Enhancers and promoters from GeneHancer (Double Elite) Regulation 
ghInteraction Interactions GeneHancer Regulatory Elements and Gene Interactions Regulation 
geneHancerInteractions GH Interactions Interactions between GeneHancer regulatory elements and genes Regulation 
geneHancerInteractionsDoubleElite GH Interactions (DE) Interactions between GeneHancer regulatory elements and genes (Double Elite) Regulation 
ghGeneTss Gene TSS GeneHancer Regulatory Elements and Gene Interactions Regulation 
geneHancerGenes GH genes TSS GH genes TSS Regulation 
geneHancerGenesDoubleElite GH genes TSS (DE) GeneCards genes TSS (Double Elite) Regulation 
ghClusteredInteraction Clustered Interactions GeneHancer Regulatory Elements and Gene Interactions Regulation 
geneHancerClusteredInteractions GH Clusters Clustered interactions of GeneHancer regulatory elements and genes Regulation 
geneHancerClusteredInteractionsDoubleElite GH Clusters (DE) Clustered interactions of GeneHancer regulatory elements and genes (Double Elite) Regulation 
geneid Geneid Genes Geneid Gene Predictions Genes and Gene Predictions Description This track shows gene predictions from the geneid program developed by Roderic Guig&oacute;'s Computational Biology of RNA Processing group which is part of the Centre de Regulaci&oacute; Gen&ograve;mica (CRG) in Barcelona, Catalunya, Spain. Methods Geneid is a program to predict genes in anonymous genomic sequences designed with a hierarchical structure. In the first step, splice sites, start and stop codons are predicted and scored along the sequence using Position Weight Arrays (PWAs). Next, exons are built from the sites. Exons are scored as the sum of the scores of the defining sites, plus the log-likelihood ratio of a Markov Model for coding DNA. Finally, from the set of predicted exons, the gene structure is assembled, maximizing the sum of the scores of the assembled exons. Credits Thanks to Computational Biology of RNA Processing for providing these data. References Blanco E, Parra G, Guig&#243; R. Using geneid to identify genes. Curr Protoc Bioinformatics. 2007 Jun;Chapter 4:Unit 4.3. PMID: 18428791 Parra G, Blanco E, Guig&#243; R. GeneID in Drosophila. Genome Res. 2000 Apr;10(4):511-5. PMID: 10779490; PMC: PMC310871 
geneReviews GeneReviews GeneReviews Phenotypes, Variants, and Literature Description GeneReviews is an online collection of expert-authored, peer-reviewed articles that describe specific gene-related diseases. GeneReviews articles are searchable by disease name, gene symbol, protein name, author, or title. GeneReviews is supported by the National Institutes of Health, hosted at NCBI as part of the Genetic Testing Registry (GTR). The GeneReviews data underlying this track will be updated frequently. The GeneReviews track allows the user to locate the NCBI GeneReviews resource quickly from the Genome Browser. Hovering the mouse on track items shows the gene symbol and associated diseases. A condensed version of the GeneReviews article name and its related diseases are displayed on the item details page as links. Similar information, when available, is provided in the details page of items from the UCSC Genes, RefSeq Genes, and OMIM Genes tracks. Data Access The raw data for the GeneReviews track can be explored interactively with the Table Browser. Cross-referencing can be done with Data Integrator. The complete source file, in bigBed format, can be downloaded from our downloads directory. For automated analysis, the data may be queried from our REST API. Previous versions of this track can be found on our archive download server. References Pagon RA, Adam MP, Bird TD, et al., editors. GeneReviews&reg; [Internet]. Seattle (WA): University of Washington, Seattle; 1993-2014. Available from: https://www.ncbi.nlm.nih.gov/books/NBK1116. 
giab Genome In a Bottle Genome In a Bottle Structural Variants and Trios Variation Description The tracks listed here contain data from The Genome in a Bottle Consortium (GIAB), an open, public consortium hosted by NIST. The priority of GIAB is to develop reference standards, reference methods, and reference data by authoritative characterization of human genomes for use in benchmarking, including analytical validation and technology development that will support translation of whole human genome sequencing to clinical practice. The sole purpose of this work is to provide validated variants and regions to enable technology and bioinformatics developers to benchmark and optimize their detection methods. The Ashkenazim and the Chinese Trio tracks show benchmark SNV calls from two son/father/mother trios of Ashkenazi Jewish and Han Chinese ancestry from the Personal Genome Project, consented for commercial redistribution. The Genome In a Bottle Structural Variants track shows benchmark SV calls (nssv) and variant regions (nsv) (5,262 insertions and 4,095 deletions, &gt 50 bp, in 2.51 Gb of the genome) from the son (HG002/NA24385) from the Ashkenazi Jewish trio. Samples are disseminated as National Institute of Standards and Technology (NIST) Reference Materials. Display Conventions and Configuration These tracks are multi-view composite tracks that contain multiple data types (views). Each view within a track has separate display controls, as described here. Unlike a regular genome browser track, the Ashkenazim and the Chinese Trio tracks display the genome variants of each individual as two haplotypes; SNPs, small insertions and deletions are mapped to each haplotype based on the phasing information of the VCF file. The haplotype 1 and the haplotype 2 are displayed as two separate black lanes for the browser window region. Each variant is drawn as a vertical dash. Homozygous variants will show two identical dashes on both haplotype lanes. Phased heterozygous variants are placed on one of the haplotype lanes and unphased heterozygous variants are displayed in the area between the two haplotype lanes. Predicted de novo variants and variants that are inconsistent with phasing in the trio son can be colored in red using the track Configuration options. Data Access The raw data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Benchmark VCF and BED files for small variants are available for GRCh37 and GRCh38 under each genome at NCBI FTP site. Structural variants are available for GRCh37 at dbVAR nst175. References Zook JM, McDaniel J, Olson ND, Wagner J, Parikh H, Heaton H, Irvine SA, Trigg L, Truty R, McLean CY et al. An open resource for accurately benchmarking small variant and reference calls. Nat Biotechnol. 2019 May;37(5):561-566. PMID: 30936564; PMC: PMC6500473 Zook JM, Hansen NF, Olson ND, Chapman L, Mullikin JC, Xiao C, Sherry S, Koren S, Phillippy AM, Boutros PC et al. A robust benchmark for detection of germline large deletions and insertions. Nat Biotechnol. 2020 Jun 15;. PMID: 32541955 
svView Structural Variants Genome In a Bottle Structural Variants (dbVar nstd175) Variation 
giabSv Structural Variants Genome in a Bottle Structural Variants (dbVar nstd175) Variation 
triosView Genome In a Bottle Trios Genome in a Bottle Ashkenazim and Chinese Trios Variation 
chineseTrio Chinese Trio Genome In a Bottle Chinese  Trio Variation 
ashkenazimTrio Ashkenazim Trio Genome In a Bottle Ashkenazim Trio Variation 
genscan Genscan Genes Genscan Gene Predictions Genes and Gene Predictions Description This track shows predictions from the Genscan program written by Chris Burge. The predictions are based on transcriptional, translational and donor/acceptor splicing signals as well as the length and compositional distributions of exons, introns and intergenic regions. For more information on the different gene tracks, see our Genes FAQ. Display Conventions and Configuration This track follows the display conventions for gene prediction tracks. The track description page offers the following filter and configuration options: Color track by codons: Select the genomic codons option to color and label each codon in a zoomed-in display to facilitate validation and comparison of gene predictions. Go to the Coloring Gene Predictions and Annotations by Codon page for more information about this feature. Methods For a description of the Genscan program and the model that underlies it, refer to Burge and Karlin (1997) in the References section below. The splice site models used are described in more detail in Burge (1998) below. Credits Thanks to Chris Burge for providing the Genscan program. References Burge C. Modeling Dependencies in Pre-mRNA Splicing Signals. In: Salzberg S, Searls D, Kasif S, editors. Computational Methods in Molecular Biology. Amsterdam: Elsevier Science; 1998. p. 127-163. Burge C, Karlin S. Prediction of complete gene structures in human genomic DNA. J. Mol. Biol. 1997 Apr 25;268(1):78-94. PMID: 9149143 
gnfAtlas2 GNF Atlas 2 GNF Expression Atlas 2 Expression Description This track shows expression data from the GNF Gene Expression Atlas 2. This contains two replicates each of 79 human tissues run over Affymetrix microarrays. By default, averages of related tissues are shown. Display all tissues by selecting &quot;All Arrays&quot; from the &quot;Combine arrays&quot; menu on the track settings page. As is standard with microarray data red indicates overexpression in the tissue, and green indicates underexpression. You may want to view gene expression with the Gene Sorter as well as the Genome Browser. Credits Thanks to the Genomics Institute of the Novartis Research Foundation (GNF) for the data underlying this track. References Su AI, Wiltshire T, Batalov S, Lapp H, Ching KA, Block D, Zhang J, Soden R, Hayakawa M, Kreiman G et al. A gene atlas of the mouse and human protein-encoding transcriptomes. Proc Natl Acad Sci U S A. 2004 Apr 20;101(16):6062-7. PMID: 15075390; PMC: PMC395923 
gnomadPLI gnomAD Constraint Metrics Genome Aggregation Database (gnomAD) Predicted Constraint Metrics (LOEUF, pLI, and Z-scores) Variation Description The Genome Aggregation Database (gnomAD) - Predicted Constraint Metrics track set contains metrics of pathogenicity per-gene as predicted for gnomAD v2.1.1, v4.0, or v4.1 and identifies genes subject to strong selection against various classes of mutation. This track includes several subtracks of constraint metrics calculated at gene (canonical transcript) and transcript level. For more information see the following blog post. The metrics include: Observed and expected variant counts per transcript/gene Observed/Expected ratio (O/E) Z-scores of the observed counts compared to expected Probability of loss of function intolerance (pLI), for predicted loss-of-function (pLoF) variation only Display Conventions and Configuration There are two &quot;groups&quot; of tracks in this set, and three gnomAD versions (v2.1.1, v4.0, and v4.1): Gene/Transcript LoF Constraint tracks: Predicted constraint metrics at the whole gene level or whole transcript level for three different types of variation: missense, synonymous, and predicted loss of function. The Gene Constraint track displays metrics for a canonical transcript per gene defined as the longest isoform. The Transcript Constraint track displays metrics for all transcript isoforms. Items on both tracks are shaded according to the pLI score, with outlier items shaded in grey. Please note there is no gene-level track available for v4.0 and v4.1. Gene/Transcript Missense Constraint tracks: The missense constraint tracks are built similarly to the LoF constraint tracks, however the items displayed are based on missense Z scores. All items are colored black, and individual Z scores can be seen on mouseover. All tracks follow the general configuration settings for bigBed tracks. Mouseover on the Gene/Transcript Constraint tracks shows the pLI score and the loss of function observed/expected upper bound fraction (LOEUF), while mouseover on the Regional Constraint track shows only the missense O/E ratio. Clicking on items in any track brings up a table of constraint metrics. Clicking the grey box to the left of the track, or right-clicking and choosing the Configure option, brings up the interface for filtering items based on their pLI score, or labeling the items based on their Ensembl identifier and/or Gene Name. Methods Please see the gnomAD browser help page and FAQ for further explanation of the topics below. Observed and Expected Variant Counts Observed count: The number of unique single-nucleotide variants in each transcript/gene with 123 or fewer alternative alleles (MAF &lt; 0.1%). Expected count: A depth-corrected probability prediction model that takes into account sequence context, coverage, and methylation was used to predict expected variant counts. For more information please see Lek et al., 2016. Variants found in exons with a median depth &lt; 1 were removed from both counts. The O/E constraint score is the ratio of the observed/expected variants in that gene. Each item in this track shows the O/E ratio for three different types of variation: missense, synonymous, and loss-of-function. The O/E ratio is a continuous measurement of how tolerant a gene or transcript is to a certain class of variation. When a gene has a low O/E value, it is under stronger selection for that class of variation than a gene with a higher O/E value. Because Counts depend on gene size and sample size, the precision of the values varies a lot from one gene to the next. Therefore, the 90% confidence interval (CI) is also displayed along with the O/E ratio to better assist interpretation of the scores. When evaluating how constrained a gene is, it is essential to consider the CI when using O/E. In research and clinical interpretation of Mendelian cases, pLI > 0.9 has been widely used for filtering. Accordingly, the Gnomad team suggests using the upper bound of the O/E confidence interval LOEUF &lt; 0.35 as a threshold if needed. Please see the Methods section below for more information about how the scores were calculated. pLI and Z-scores The pLI and Z-scores of the deviation of observed variant counts relative to the expected number are intended to measure how constrained or intolerant a gene or transcript is to a specific type of variation. Genes or transcripts that are particularly depleted of a specific class of variation (as observed in the gnomAD data set) are considered intolerant of that specific type of variation. Z-scores are available for the missense and synonymous categories and pLI scores are available for the loss-of-function variation. Missense and Synonymous: Positive Z-scores indicate more constraint (fewer observed variants than expected), and negative scores indicate less constraint (more observed variants than expected). A greater Z-score indicates more intolerance to the class of variation. Z-scores were generated by a sequence-context-based mutational model that predicted the number of expected rare (&lt; 1% MAF) variants per transcript. The square root of the chi-squared value of the deviation of observed counts from expected counts was multiplied by -1 if the observed count was greater than the expected and vice versa. For the synonymous score, each Z-score was corrected by dividing by the standard deviation of all synonymous Z-scores between -5 and 5. For the missense scores, a mirrored distribution of all Z-scores between -5 and 0 was created, and then all missense Z-scores were corrected by dividing by the standard deviation of the Z-score of the mirror distribution. Loss-of-function: pLI closer to 1 indicates that the gene or transcript cannot tolerate protein truncating variation (nonsense, splice acceptor and splice donor variation). The gnomAD team recommends transcripts with a pLI &gt;= 0.9 for the set of transcripts extremely intolerant to truncating variants. pLI is based on the idea that transcripts can be classified into three categories: null: heterozygous or homozygous protein truncating variation is completely tolerated recessive: heterozygous variants are tolerated but homozygous variants are not haploinsufficient: heterozygous variants are not tolerated An expectation-maximization algorithm was then used to assign a probability of belonging in each class to each gene or transcript. pLI is the probability of belonging in the haploinsufficient class. Please see Samocha et al., 2014 and Lek et al., 2016 for further discussion of these metrics. Transcripts Included For version 2.1.1 only, the GENCODE transcripts were filtered according to the following criteria: Must have methionine at start of coding sequence Must have stop codon at end of coding sequence Must be divisible by 3 Must have at least one observed variant when removing exons with median depth &lt; 1 Must have reasonable number of missense and synonymous variants as determined by a Z-score cutoff For version v2.1.1, the gnomAD gene/transcript data is based on hg19. In order to map transcripts and genes to the hg38 genome the following steps were taken: Transcript track: The gnomAD ENST identifiers were attempted to be matched to all GENCODE versions between V20 and V44, giving coordinate priorities to the most recent models. In total 74550/80950 transcripts were mapped. Genes track: The gnomAD file ENSG identifiers were attempted to be matched to all GENCODE versions between V20 and V44, giving coordinate priorities to the most recent models. This mapped 19221/19704 genes. The remainder of the genes were attempted to be mapped using the same strategy, but matching on gene symbols instead of ENSG identifiers. In total 19567/19704 genes were mapped. For version v4.0 and v4.1, the gnomAD transcript data is based on hg38. In order to map the transcripts to hg38, the transcript version numbers in the gnomAD download file were joined with GENCODE V39 and NCBI RefSeq coordinates available at UCSC. UCSC Track Methods Version based on gnomAD v2.1.1 Gene and Transcript Constraint tracks Per gene and per transcript data were downloaded from the gnomAD Google Storage bucket: gs://gnomad-public/release/2.1.1/constraint/gnomad.v2.1.1.lof_metrics.by_gene.txt.bgz gs://gnomad-public/release/2.1.1/constraint/gnomad.v2.1.1.lof_metrics.by_transcript.txt.bgz These data were then joined to the Gencode set of genes/transcripts available at the UCSC Genome Browser (see previous section) and then transformed into a bigBed 12+5. For the full list of commands used to make this track please see the makedoc. Version based on gnomAD v4.0 Gene and Transcript Constraint tracks Per gene and per transcript data were downloaded from the gnomAD Google Storage bucket: https://storage.googleapis.com/gcp-public-data--gnomad/release/4.0/constraint/gnomad.v4.0.constraint_metrics.tsv These data were then joined to the Gencode/NCBI set of genes/transcripts available at the UCSC Genome Browser and then transformed into a bigBed 12+5. For the full list of commands used to make this track please see the makedoc. Version based on gnomAD v4.1 Gene and Transcript Constraint tracks Per gene and per transcript data were downloaded from the gnomAD Google Storage bucket: https://storage.googleapis.com/gcp-public-data--gnomad/release/4.1/constraint/gnomad.v4.1.constraint_metrics.tsv These data were then joined to the Gencode/NCBI set of genes/transcripts available at the UCSC Genome Browser and then transformed into a bigBed 12+5. For the full list of commands used to make this track please see the makedoc. Data Access The raw data can be explored interactively with the Table Browser, or the Data Integrator. For automated access, this track, like all others, is available via our API. However, for bulk processing, it is recommended to download the dataset. The genome annotation is stored in a bigBed file that can be downloaded from the download server. The exact filenames can be found in the track configuration file. Annotations can be converted to ASCII text by our tool bigBedToBed which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tool can also be used to obtain only features within a given range, for example: bigBedToBed http://hgdownload.soe.ucsc.edu/gbdb/hg38/gnomAD/pLI/pliByTranscript.bb -chrom=chr6 -start=0 -end=1000000 stdout Please refer to our mailing list archives for questions and example queries, or our Data Access FAQ for more information. More information about using and understanding the gnomAD data can be found in the gnomAD FAQ site. Credits Thanks to the Genome Aggregation Database Consortium for making these data available. The data are released under the ODC Open Database License (ODbL) as described here. References Lek M, Karczewski KJ, Minikel EV, Samocha KE, Banks E, Fennell T, O'Donnell-Luria AH, Ware JS, Hill AJ, Cummings BB et al. Analysis of protein-coding genetic variation in 60,706 humans. Nature. 2016 Aug 18;536(7616):285-91. PMID: 27535533; PMC: PMC5018207 Karczewski KJ, Francioli LC, Tiao G, Cummings BB, Alf&#246;ldi J, Wang Q, Collins RL, Laricchia KM, Ganna A, Birnbaum DP et al. The mutational constraint spectrum quantified from variation in 141,456 humans. Nature. 2020 May;581(7809):434-443. PMID: 32461654; PMC: PMC7334197 Collins RL, Brand H, Karczewski KJ, Zhao X, Alf&#246;ldi J, Francioli LC, Khera AV, Lowther C, Gauthier LD, Wang H et al. A structural variation reference for medical and population genetics. Nature. 2020 May;581(7809):444-451. PMID: 32461652; PMC: PMC7334194 Cummings BB, Karczewski KJ, Kosmicki JA, Seaby EG, Watts NA, Singer-Berk M, Mudge JM, Karjalainen J, Satterstrom FK, O'Donnell-Luria AH et al. Transcript expression-aware annotation improves rare variant interpretation. Nature. 2020 May;581(7809):452-458. PMID: 32461655; PMC: PMC7334198 
constraintV4_1 Constraint V4.1 gnomAD Constraint Metrics V4.1 Variation 
missenseByTranscriptV4_1 Transcript Missense v4.1 gnomAD Predicted Missense Constraint Metrics By Transcript (Z-scores) v4.1 Variation 
pliByTranscriptV4_1 Transcript LoF v4.1 gnomAD Predicted Loss of Function Constraint Metrics By Transcript (LOEUF and pLI) v4.1 Variation 
constraintV4 Constraint V4 gnomAD Constraint Metrics V4 Variation 
missenseByTranscriptV4 Transcript Missense v4 gnomAD Predicted Missense Constraint Metrics By Transcript (Z-scores) v4 Variation 
pliByTranscriptV4 Transcript LoF v4 gnomAD Predicted Loss of Function Constraint Metrics By Transcript (LOEUF and pLI) v4 Variation 
constraintV2 Constraint V2 gnomAD Constraint Metrics V2 Variation 
missenseByTranscript Transcript Missense v2 gnomAD Predicted Missense Constraint Metrics By Transcript (Z-scores) v2.1.1 Variation 
pliByTranscript Transcript LoF v2 gnomAD Predicted Loss of Function Constraint Metrics By Transcript (LOEUF and pLI) v2.1.1 Variation 
missenseByGene Gene Missense gnomAD Predicted Missense Constraint Metrics By Gene (Z-scores) v2.1.1 Variation 
pliByGene Gene LoF gnomAD Predicted Loss of Function Constraint Metrics By Gene (LOEUF and pLI) v2.1.1 Variation 
gnomadPext gnomAD pext Genome Aggregation Database (gnomAD) Proportion Expression Across Transcript Scores (pext) Variation Description The Genome Aggregation Database (gnomAD) Proportion Expression Across Transcript Scores (pext) track set displays isoform expression levels across 50 tissues from the Genotype Tissue Expression (GTEx) v10 dataset; tissues with fewer than 50 samples were excluded (Fallopian Tube, Endocervix, Ectocervix, Kidney, Medulla). The gnomAD pext tracks provide a comprehensive view of the expression of exons across a gene using the proportion expression across transcripts, or pext metric, a transcript-level annotation metric that quantifies isoform expression for variants. This metric was calculated by annotating each variant with the expression of all possible consequences across all transcripts for each tissue and normalizing the expression of the annotation to the total expression of the gene, which can be interpreted as a measure of the proportion of the total transcriptional output from a gene that would be affected by the variant annotation in question. More information can be found on the Broad institute's pext help page Each of the subtracks shows the pext metric for a specific tissue, except the gnomAD pext Mean Proportion subtrack that shows the average pext metrics calculated from the 50 GTEx tissues. Display Conventions and Configuration The pext graphs display the mean expression at each base position for protein-coding (CDS) regions. While UTRs do have expression in transcriptome datasets, this information is not included for the visualization. The details page shows calculated sample percentages for the range of sequence within the browser window. Methods The pext values are derived from isoform quantifications using the RSEM tool. Detailed information about development and commands to create these files can be found here. Pext values were downloaded from the gnomAD website and transformed into bigWigs, one per tissue. For the full list of UCSC specific steps, please see the &quot;gnomAD PEXT scores&quot; section of the hg38 makedoc from our GitHub repository. Note that isoform quantification tools can be imprecise, especially for longer genes with many annotated isoforms. Regions with low pext values might be enriched for annotation errors (ie. there may be edge cases for which an exon that is established to be critical for gene function may appear unexpressed with pext). Also note that the GTEx dataset is postmortem adult tissue, and thus the possibility that an exon may be development-specific or may be expressed in tissues not represented in GTEx can not be dismissed. Data Access The raw data can be explored interactively with the Table Browser, or the Data Integrator. For automated access, this track, like all others, is available via our API. The data can also be found directly from the gnomAD downloads page. Please refer to our mailing list archives for questions and example queries, or our Data Access FAQ for more information. More information about using and understanding the gnomAD data can be found in the gnomAD FAQ site. Credits Thanks to the Genome Aggregation Database Consortium for making these data available. The data are released under the ODC Open Database License (ODbL) as described here. References Lek M, Karczewski KJ, Minikel EV, Samocha KE, Banks E, Fennell T, O'Donnell-Luria AH, Ware JS, Hill AJ, Cummings BB et al. Analysis of protein-coding genetic variation in 60,706 humans. Nature. 2016 Aug 18;536(7616):285-91. PMID: 27535533; PMC: PMC5018207 Karczewski KJ, Francioli LC, Tiao G, Cummings BB, Alf&#246;ldi J, Wang Q, Collins RL, Laricchia KM, Ganna A, Birnbaum DP et al. The mutational constraint spectrum quantified from variation in 141,456 humans. Nature. 2020 May;581(7809):434-443. PMID: 32461654; PMC: PMC7334197 Collins RL, Brand H, Karczewski KJ, Zhao X, Alf&#246;ldi J, Francioli LC, Khera AV, Lowther C, Gauthier LD, Wang H et al. A structural variation reference for medical and population genetics. Nature. 2020 May;581(7809):444-451. PMID: 32461652; PMC: PMC7334194 Cummings BB, Karczewski KJ, Kosmicki JA, Seaby EG, Watts NA, Singer-Berk M, Mudge JM, Karjalainen J, Satterstrom FK, O'Donnell-Luria AH et al. Transcript expression-aware annotation improves rare variant interpretation. Nature. 2020 May;581(7809):452-458. PMID: 32461655; PMC: PMC7334198 Cummings BB, Karczewski KJ, Kosmicki JA, Seaby EG, Watts NA, Singer-Berk M, Mudge JM, Karjalainen J, Satterstrom FK, O&#x27;Donnell-Luria AH et al. Transcript expression-aware annotation improves rare variant interpretation. Nature. 2020 May;581(7809):452-458. PMID: 32461655; PMC: PMC7334198 
gnomADPextWholeBlood Whole Blood gnomAD pext Whole Blood Variation 
gnomADPextVagina Vagina gnomAD pext Vagina Variation 
gnomADPextUterus Uterus gnomAD pext Uterus Variation 
gnomADPextThyroid Thyroid gnomAD pext Thyroid Variation 
gnomADPextTestis Testis gnomAD pext Testis Variation 
gnomADPextStomach Stomach gnomAD pext Stomach Variation 
gnomADPextSpleen Spleen gnomAD pext Spleen Variation 
gnomADPextSmallIntestine_TerminalIleum Small Intestine-Terminal Ileum gnomAD pext Small Intestine-Terminal Ileum Variation 
gnomADPextSkin_SunExposed_Lowerleg Skin-Sun Exposed (Lowerleg) gnomAD pext Skin-Sun Exposed (Lowerleg) Variation 
gnomADPextSkin_NotSunExposed_Suprapubic Skin-Not Sun Exposed (Suprapubic) gnomAD pext Skin-Not Sun Exposed (Suprapubic) Variation 
gnomADPextProstate Prostate gnomAD pext Prostate Variation 
gnomADPextPituitary Pituitary gnomAD pext Pituitary Variation 
gnomADPextPancreas Pancreas gnomAD pext Pancreas Variation 
gnomADPextOvary Ovary gnomAD pext Ovary Variation 
gnomADPextNerve_Tibial Nerve-Tibial gnomAD pext Nerve-Tibial Variation 
gnomADPextMuscle_Skeletal Muscle-Skeletal gnomAD pext Muscle-Skeletal Variation 
gnomADPextMinorSalivaryGland Minor Salivary Gland gnomAD pext Minor Salivary Gland Variation 
gnomADPextLung Lung gnomAD pext Lung Variation 
gnomADPextLiver Liver gnomAD pext Liver Variation 
gnomADPextKidney_Cortex Kidney-Cortex gnomAD pext Kidney-Cortex Variation 
gnomADPextHeart_LeftVentricle Heart-Left Ventricle gnomAD pext Heart-Left Ventricle Variation 
gnomADPextHeart_AtrialAppendage Heart-Atrial Appendage gnomAD pext Heart-Atrial Appendage Variation 
gnomADPextEsophagus_Muscularis Esophagus-Muscularis gnomAD pext Esophagus-Muscularis Variation 
gnomADPextEsophagus_Mucosa Esophagus-Mucosa gnomAD pext Esophagus-Mucosa Variation 
gnomADPextEsophagus_GastroesophagealJunction Esophagus-Gastroesophageal Junction gnomAD pext Esophagus-Gastroesophageal Junction Variation 
gnomADPextColon_Transverse Colon-Transverse gnomAD pext Colon-Transverse Variation 
gnomADPextColon_Sigmoid Colon-Sigmoid gnomAD pext Colon-Sigmoid Variation 
gnomADPextCells_EBV_transformedlymphocytes Cells-EBV-transformed Lymphocytes gnomAD pext Cells-EBV-transformed Lymphocytes Variation 
gnomADPextCells_Culturedfibroblasts Cells-Cultured Fibroblasts gnomAD pext Cells-Cultured Fibroblasts Variation 
gnomADPextBreast_MammaryTissue Breast-Mammary Tissue gnomAD pext Breast-Mammary Tissue Variation 
gnomADPextBrain_Substantianigra Brain-Substantia Nigra gnomAD pext Brain-Substantia Nigra Variation 
gnomADPextBrain_Spinalcord_cervicalc_1 Brain-Spinal Cord (cervicalc 1) gnomAD pext Brain-Spinal Cord (cervicalc 1) Variation 
gnomADPextBrain_Putamen_basalganglia Brain-Putamen (basal ganglia) gnomAD pext Brain-Putamen (basal ganglia) Variation 
gnomADPextBrain_Nucleusaccumbens_basalganglia Brain-Nucleus Accumbens (basal ganglia) gnomAD pext Brain-Nucleus Accumbens (basal ganglia) Variation 
gnomADPextBrain_Hypothalamus Brain-Hypothalamus gnomAD pext Brain-Hypothalamus Variation 
gnomADPextBrain_Hippocampus Brain-Hippocampus gnomAD pext Brain-Hippocampus Variation 
gnomADPextBrain_FrontalCortex_BA9 Brain-Frontal Cortex (BA9) gnomAD pext Brain-Frontal Cortex (BA9) Variation 
gnomADPextBrain_Cortex Brain-Cortex gnomAD pext Brain-Cortex Variation 
gnomADPextBrain_Cerebellum Brain-Cerebellum gnomAD pext Brain-Cerebellum Variation 
gnomADPextBrain_CerebellarHemisphere Brain-Cerebellar Hemisphere gnomAD pext Brain-Cerebellar Hemisphere Variation 
gnomADPextBrain_Caudate_basalganglia Brain-Caudate (basal ganglia) gnomAD pext Brain-Caudate (basal ganglia) Variation 
gnomADPextBrain_Anteriorcingulatecortex_BA24 Brain-Anterior Cingulate Cortex (BA24) gnomAD pext Brain-Anterior Cingulate Cortex (BA24) Variation 
gnomADPextBrain_Amygdala Brain-Amygdala gnomAD pext Brain-Amygdala Variation 
gnomADPextBladder Bladder gnomAD pext Bladder Variation 
gnomADPextArtery_Tibial Artery-Tibial gnomAD pext Artery-Tibial Variation 
gnomADPextArtery_Coronary Artery-Coronary gnomAD pext Artery-Coronary Variation 
gnomADPextArtery_Aorta Artery-Aorta gnomAD pext Artery-Aorta Variation 
gnomADPextAdrenalGland Adrenal Gland gnomAD pext Adrenal Gland Variation 
gnomADPextAdipose_Visceral_Omentum Adipose-Visceral (Omentum) gnomAD pext Adipose-Visceral (Omentum) Variation 
gnomADPextAdipose_Subcutaneous Adipose-Subcut gnomAD pext Adipose-Subcutaneous Variation 
gnomADPextmean_proportion Mean Proportion gnomAD pext Mean Proportion Variation 
gnomadCopyNumberVariants gnomAD Rare CNV Variants Genome Aggregation Database (gnomAD) - Rare CNV variants (<1% overall site frequency) v4.1 Variation Description The Genome Aggregation Database (gnomAD) - Rare CNV variants ( track set shows rare autosomal coding copy number variants (CNVs) with an overall site frequency of less than 1%. These variants were identified from exome sequencing (ES) data of 464,297 individuals. The data can also be explored via the gnomAD browser. Display Conventions and Configuration Items are colored by the type of variant: Variant Type Deletion (DEL) 31939 Duplication (DUP) 36760 . Mouseover on an item will display the position, size of variant, genes impacted by variant (&gt;=10% CDS overlap by deletion or &gt;=75% CDS overlap by duplication), and site frequency of non-neuro control samples. Item description pages include a linkout to the gnomAD browser showing additional genetic ancestry group information. Methods Exome CNV Discovery Method: GATK-gCNV To identify rare coding CNVs from the ES data of 464,297 individuals in gnomAD v4, the GATK-gCNV method was employed, as described in Babadi et al., Nat Genet, 2023. The CNV discovery process started with collecting the number of reads mapped to 363,301 autosomal target intervals derived from protein-coding exons (Fig. 1a, b; Babadi et al.). These read counts were used to capture sample-level technical variability, such as differences in exome capture kits or sequencing centers, and generated 1,045 different batches of samples for parallel processing (Fig. 1c). For each of these batches, 200 random samples were selected for training GATK-gCNV in cohort mode,which can be thought of as the creation of a &quot;panel of normals&quot; (PoN). The resulting PoN models were then used to efficiently delineate CNV events on all of the samples of their respective cohorts using the GATK-gCNV case mode (Fig. 1d,e). The raw, individual-level CNV calls produced by GATK-gCNV for all samples were then collated, and variants observed in multiple individuals were clustered using single-linkage clustering. Quality filtering followed the procedures outlined in Babadi et al., filtering CNVs based on sample-level (number of events per individual) and call-level (frequency, size, quality score) metrics Due to the significant increase in cohort size and heterogeneity compared to the datasets reported in Babadi et al., additional filters were applied. Samples with more than five chromosomes harboring rare CNVs, as well as those containing more than three rare terminal CNVs, were excluded. 1,049 sites producing noisy normalized read-depth signals were masked. The final retained CNVs and sites were subsequently annotated for impacted genes and frequencies. Limitations of ES-based rare coding CNVs in gnomAD v4 This dataset includes only rare coding CNVs, filtered to &lt;1% site frequency in the overall dataset. This dataset only includes variants that span three or more exons that received sufficient coverage. This dataset is limited to autosomal CNVs for now. More information can be found at the gnomAD site. The bed files was obtained from the gnomAD Google Storage bucket: https://storage.googleapis.com/gcp-public-data--gnomad/release/4.1/exome_cnv/gnomad.v4.1.cnv.all.bed The data was then transformed into a bigBed track. For the full list of commands used to make this track please see the &quot;gnomAD CNVs v4.1&quot; section of the makedoc. Data Access The raw data can be explored interactively with the Table Browser, or the Data Integrator. For automated access, this track, like all others, is available via our API. However, for bulk processing, it is recommended to download the dataset. The genome annotation is stored in a bigBed file that can be downloaded from the download server. The exact filenames can be found in the track configuration file. Annotations can be converted to ASCII text by our tool bigBedToBed which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tool can also be used to obtain only features within a given range, for example: bigBedToBed http://hgdownload.soe.ucsc.edu/gbdb/hg38/gnomAD/v4/cnv/gnomad.v4.1.cnv.all.bb -chrom=chr6 -start=0 -end=1000000 stdout Please refer to our mailing list archives for questions and example queries, or our Data Access FAQ for more information. More information about using and understanding the gnomAD data can be found in the gnomAD FAQ site. Credits Thanks to the Genome Aggregation Database Consortium for making these data available. The data are released under the ODC Open Database License (ODbL) as described here. References Babadi M, Fu JM, Lee SK, Smirnov AN, Gauthier LD, Walker M, Benjamin DI, Zhao X, Karczewski KJ, Wong I et al. GATK-gCNV enables the discovery of rare copy number variants from exome sequencing data. Nat Genet. 2023 Sep;55(9):1589-1597. PMID: 37604963; PMC: PMC10904014 Collins RL, Brand H, Karczewski KJ, Zhao X, Alf&#246;ldi J, Francioli LC, Khera AV, Lowther C, Gauthier LD, Wang H et al. A structural variation reference for medical and population genetics. Nature. 2020 May;581(7809):444-451. PMID: 32461652; PMC: PMC7334194 Cummings BB, Karczewski KJ, Kosmicki JA, Seaby EG, Watts NA, Singer-Berk M, Mudge JM, Karjalainen J, Satterstrom FK, O'Donnell-Luria AH et al. Transcript expression-aware annotation improves rare variant interpretation. Nature. 2020 May;581(7809):452-458. PMID: 32461655; PMC: PMC7334198 Karczewski KJ, Francioli LC, Tiao G, Cummings BB, Alf&#246;ldi J, Wang Q, Collins RL, Laricchia KM, Ganna A, Birnbaum DP et al. The mutational constraint spectrum quantified from variation in 141,456 humans. Nature. 2020 May;581(7809):434-443. PMID: 32461654; PMC: PMC7334197 Lek M, Karczewski KJ, Minikel EV, Samocha KE, Banks E, Fennell T, O'Donnell-Luria AH, Ware JS, Hill AJ, Cummings BB et al. Analysis of protein-coding genetic variation in 60,706 humans. Nature. 2016 Aug 18;536(7616):285-91. PMID: 27535533; PMC: PMC5018207 
gnomadStr gnomAD STR Genome Aggregation Database (gnomAD) - Short Tandem Repeat Genotypes at Disease-Associated Loci Variation Description The gnomAD STR track displays short tandem repeat (STR) genotypes at 87 disease-associated loci from the Genome Aggregation Database (gnomAD) v3.1.3. The data include individual-level STR genotypes from 18,511 whole-genome sequenced samples across 10 populations, aggregated into per-locus allele frequency distributions. These loci were selected because tandem repeat expansions at these sites have been reported to cause human genetic diseases, including Huntington disease (HTT), fragile X syndrome (FMR1), Friedreich ataxia (FXN), various spinocerebellar ataxias, myotonic dystrophies, and other neurological and neuromuscular disorders. Most loci (56) have motifs between 3&ndash;6 bp, while additional loci have longer motifs of 10&ndash;24 bp. The genotypes were generated using ExpansionHunter v5 on gnomAD v3.1 whole-genome sequencing data (150 bp read lengths). Of the samples, 64% were PCR-free, 13% PCR-plus, and 23% had unknown PCR protocol. ExpansionHunter was selected because it had the best accuracy among existing tools for detecting expansions at disease-associated loci. Results were generated without off-target regions to minimize overestimation of repeat sizes. For each locus, the data show the distribution of repeat allele sizes observed across the gnomAD population, providing a reference for normal and expanded allele ranges. For more details on the methods, see the gnomAD blog post on STR calls. Display Conventions Items are colored by the length of the repeat motif: Red &ndash; mononucleotide (period 1) Blue &ndash; dinucleotide (period 2) Green &ndash; trinucleotide (period 3) Orange &ndash; tetranucleotide (period 4) Purple &ndash; pentanucleotide (period 5) Steel blue &ndash; hexanucleotide (period 6) Gray &ndash; longer or complex motifs Each item is labeled by the gene name. Hovering shows the repeat motif, gene, total sample count, and number passing quality filters. Clicking an item links to the corresponding gnomAD STR locus page with interactive allele frequency histograms and detailed population breakdowns. The detail page for each locus shows: Motif(s) &ndash; the repeat unit(s) genotyped at this locus Samples &ndash; total genotyped individuals and number passing filters Allele distribution &ndash; allele sizes and their frequencies Populations &ndash; sample counts per gnomAD population Methods The gnomAD STR genotype data file (gnomAD_STR_genotypes__2025_03_17.tsv.gz) was downloaded from the gnomAD downloads page. This file contains individual-level STR genotypes at 87 disease-associated loci generated using ExpansionHunter on gnomAD v3.1.3 whole-genome sequencing data. For the UCSC Genome Browser track, the individual genotype records (~1.4 million rows) were aggregated per locus to produce summary statistics: total sample count, PASS-filter count, allele size frequency distributions, and per-population sample counts. Coordinates were used as provided (0-based). Some loci include genotypes for multiple motif patterns (e.g., complex repeat structures) and for adjacent repeats; these are represented as separate records. The 10 populations represented are: African/African American (afr), Admixed American/Latino (amr), Amish (ami), Ashkenazi Jewish (asj), East Asian (eas), Finnish (fin), Middle Eastern (mid), Non-Finnish European (nfe), South Asian (sas), and Other (oth). Data Access The raw data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. The underlying bigBed file can be downloaded from our download server. The complete gnomAD STR dataset, including individual-level genotypes, is available from the gnomAD downloads page. Interactive locus-level views with allele frequency histograms are available at the gnomAD STR browser. Credits Thanks to the gnomAD production team at the Broad Institute for generating and distributing this data. References Chen S, Francioli LC, Goodrich JK, Collins RL, Kanai M, Wang Q, Alf&ouml;ldi J, Watts NA, Vittal C, Gauthier LD et al. A genomic mutational constraint map using variation in 76,156 human genomes. Nature. 2024 Jan;625(7993):92-100. PMID: 38057664; PMC: PMC11629659 Dolzhenko E, Deshpande V, Schlesinger F, Krusche P, Petrovski R, Chen S, Emig-Agius D, Gross A, Narzisi G, Bowman B et al. ExpansionHunter: a sequence-graph-based tool to analyze variation in short tandem repeat regions. Bioinformatics. 2019 Nov 1;35(22):4754-4756. PMID: 31134279; PMC: PMC6853681 
gnomadStructuralVariants gnomAD Structural Variants Genome Aggregation Database (gnomAD) - Structural Variants v4.1 Variation Description NOTE: Only variants that have passed the quality filter are displayed by default. The Genome Aggregation Database (gnomAD) - Structural Variants v4.1 track set shows structural variants calls (&gt;=50 nucleotides) from the gnomAD v4.1 release on 63,046 unrelated genomes. It mostly (but not entirely) overlaps with the genome set used for the gnomAD short variant release. For more information see the following blog post, Structural variants in gnomAD. Display Conventions and Configuration Items are shaded according to variant type, mouseover on items indicates affected protein-coding genes, size of the variant (which may differ from the chromosomal coordinates in cases like insertions), variant type (insertion, duplication, etc), allele count, allele number, and allele frequency. When more than 2 genes are affected by a variant, the full list can be obtained by clicking on the item and reading the details page. A short summary is available in the below table: Variant Type All SV's Breakend (BND) 356035 Complex (CPX) 15189 Translocation (CTX) 99 Deletion (DEL) 1206278 Duplication (DUP) 269326 Insertion (INS) 304645 Inversion (INV) 2193 Copy number variants (CNV) 721 Detailed information on the CNV color code is described here. All tracks can be filtered according to the size of the variant and variant type, using the track Configure options. Filtering Options Three filters are available for this track: Variant Size: Used to exclude/include variants according to the size. Non-neurological allele frequency: Used to exclude/include allele frequency of variants in individuals who do not have a neurological condition, as identified in a case-control study. Common disease control allele frequency: Used to exclude/include allele frequency of variants in individuals not identified as cases in a case-control study of common disease. Methods The bed files was obtained from the gnomAD Google Storage bucket: https://storage.googleapis.com/gcp-public-data--gnomad/release/4.1/genome_sv/gnomad.v4.1.sv.non_neuro_controls.sites.bed.gz The data was then transformed into a bigBed track. For the full list of commands used to make this track please see the &quot;gnomAD Structural Variants v4&quot; section of the makedoc. Data Access The raw data can be explored interactively with the Table Browser, or the Data Integrator. For automated access, this track, like all others, is available via our API. However, for bulk processing, it is recommended to download the dataset. The genome annotation is stored in a bigBed file that can be downloaded from the download server. The exact filenames can be found in the track configuration file. Annotations can be converted to ASCII text by our tool bigBedToBed which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tool can also be used to obtain only features within a given range, for example: bigBedToBed http://hgdownload.soe.ucsc.edu/gbdb/hg38/gnomAD/v4/structuralVariants/gnomad.v4.1.sv.non_neuro_controls.sites.bb -chrom=chr6 -start=0 -end=1000000 stdout Please refer to our mailing list archives for questions and example queries, or our Data Access FAQ for more information. More information about using and understanding the gnomAD data can be found in the gnomAD FAQ site. Credits Thanks to the Genome Aggregation Database Consortium for making these data available. The data are released under the ODC Open Database License (ODbL) as described here. References Lek M, Karczewski KJ, Minikel EV, Samocha KE, Banks E, Fennell T, O'Donnell-Luria AH, Ware JS, Hill AJ, Cummings BB et al. Analysis of protein-coding genetic variation in 60,706 humans. Nature. 2016 Aug 18;536(7616):285-91. PMID: 27535533; PMC: PMC5018207 Karczewski KJ, Francioli LC, Tiao G, Cummings BB, Alf&#246;ldi J, Wang Q, Collins RL, Laricchia KM, Ganna A, Birnbaum DP et al. The mutational constraint spectrum quantified from variation in 141,456 humans. Nature. 2020 May;581(7809):434-443. PMID: 32461654; PMC: PMC7334197 Collins RL, Brand H, Karczewski KJ, Zhao X, Alf&#246;ldi J, Francioli LC, Khera AV, Lowther C, Gauthier LD, Wang H et al. A structural variation reference for medical and population genetics. Nature. 2020 May;581(7809):444-451. PMID: 32461652; PMC: PMC7334194 Cummings BB, Karczewski KJ, Kosmicki JA, Seaby EG, Watts NA, Singer-Berk M, Mudge JM, Karjalainen J, Satterstrom FK, O'Donnell-Luria AH et al. Transcript expression-aware annotation improves rare variant interpretation. Nature. 2020 May;581(7809):452-458. PMID: 32461655; PMC: PMC7334198 
ctgPos2 GRC Contigs Genome Reference Consortium Contigs Mapping and Sequencing Description This track shows the names of the assembled supercontigs for the GRCh38 (hg38) assembly determined by the Genome Reference Consortium (GRC). Data for this track were obtained from localId2acc files downloaded from GenBank. 
grcIncidentDb GRC Incident GRC Incident Database Mapping and Sequencing Description This track shows locations in the human assembly where assembly problems have been noted or resolved, as reported by the Genome Reference Consortium (GRC). If you would like to report an assembly problem, please use the GRC issue reporting system. Methods Data for this track are extracted from the GRC incident database from the specific species *_issues.gff3 file. The track is synchronized once daily to incorporate new updates. Credits The data and presentation of this track were prepared by Hiram Clawson. 
patchesPsl GRC Patches GRC Patches: Alt Haplotypes and Fix Sequences Mapping and Sequencing Description These tracks show the two types of patch sequences from the Genome Reference Consortium (GRC) patch releases: Fix Patches This track shows alignments of fix patch sequences to main chromosome sequences in the reference genome assembly. When errors are corrected in the reference genome assembly, the Genome Reference Consortium (GRC) adds fix patch sequences containing the corrected regions. This strikes a balance between providing the most complete and correct genome sequence, while maintaining stable chromosome coordinates for the original assembly sequences. Fix patches are often associated with incident reports displayed in the GRC Incidents track. Alt Haplotypes This track shows alignments of alternate locus (also known as &quot;alternate haplotype&quot;) reference sequences to main chromosome sequences in the reference genome assembly. Some loci in the genome are highly variable, with sets of variants that tend to segregate into distinct haplotypes. Only one haplotype can be included in a reference assembly chromosome sequence. Instead of providing a separate complete chromosome sequence for each haplotype, which could cause confusion with divergent chromosome coordinates and ambiguity about which sequence is the official reference, the Genome Reference Consortium (GRC) adds alternate locus sequences, ranging from tens of thousands of bases up to low millions of bases in size, to represent the distinct haplotypes. Display Conventions and Configuration Both tracks follow the display conventions for PSL alignment tracks. Mismatching bases are highlighted in red. Several types of alignment gap may also be colored; for more information, see Alignment Insertion/Deletion Display Options. By default, the tracks are only visible when there are items in the view window. This can be disabled by the checkbox Hide empty subtracks. Credits The alignments were provided by NCBI as GFF files and translated into the PSL representation for browser display by UCSC. 
altSeqLiftOverPsl Alt Haplotypes Reference Assembly Alternate Haplotype Sequence Alignments Mapping and Sequencing Description This track shows alignments of alternate locus (also known as &quot;alternate haplotype&quot;) reference sequences to main chromosome sequences in the reference genome assembly. Some loci in the genome are highly variable, with sets of variants that tend to segregate into distinct haplotypes. Only one haplotype can be included in a reference assembly chromosome sequence. Instead of providing a separate complete chromosome sequence for each haplotype, which could cause confusion with divergent chromosome coordinates and ambiguity about which sequence is the official reference, the Genome Reference Consortium (GRC) adds alternate locus sequences, ranging from tens of thousands of bases up to low millions of bases in size, to represent the distinct haplotypes. Display Conventions and Configuration This track follows the display conventions for PSL alignment tracks. Mismatching bases are highlighted in red. Several types of alignment gap may also be colored; for more information, see Alignment Insertion/Deletion Display Options. Credits The alignments were provided by NCBI as GFF files and translated into the PSL representation for browser display by UCSC. 
fixSeqLiftOverPsl Fix Patches Reference Assembly Fix Patch Sequence Alignments Mapping and Sequencing Description This track shows alignments of fix patch sequences to main chromosome sequences in the reference genome assembly. When errors are corrected in the reference genome assembly, the Genome Reference Consortium (GRC) adds fix patch sequences containing the corrected regions. This strikes a balance between providing the most complete and correct genome sequence, while maintaining stable chromosome coordinates for the original assembly sequences. Fix patches are often associated with incident reports displayed in the GRC Incidents track. Display Conventions and Configuration This track follows the display conventions for PSL alignment tracks. Mismatching bases are highlighted in red. Several types of alignment gap may also be colored; for more information, see Alignment Insertion/Deletion Display Options. Credits The alignments were provided by NCBI as GFF files and translated into the PSL representation for browser display by UCSC. 
gtexEqtlHighConf GTEx cis-eQTLs GTEx fine-mapped cis-eQTLs Regulation Description This track shows genetic variants likely affecting proximal gene expression in 49 human tissues from the Genotype-Tissue Expression (GTEx) V8 data release. The data items displayed are gene expression quantitative trait loci within 1MB of gene transcription start sites (cis-eQTLs), significantly associated with gene expression and in the credible set of variants for the gene at a high confidence level. The data can only be calculated for the autosomes, so no data is shown on chrX. Display Conventions Both the CAVIAR and DAP-G tracks show gene/variant pairs for 49 GTEx tissues. Variants are linked to the genes they interact with by a line. Variants are represented by thicker-width, single-base items. Genes are represented as thinner-width items covering the length of the gene. The direction of the chevrons on the line indicate whether the variant is upstream or downstream of the gene with the chevrons always pointing from the variant to the gene. If a variant is internal to the gene, then the variant is shown as a thicker segment than the gene. Items in the track are colored according to their tissue, with the color matching those in the GTEx Gene V8 Track. Hovering over items in the track display will show the variant ID (often a dbSNP rsID), the target gene, tissue, and posterior probablity (Causal Posterior Probability (CPP) for CAVIAR; SNP Posterior Inclusion Probability (PIP) for DAP-G). Clicking an item will show the details of that interaction with link outs to view more details on the GTEx website. Track configuration supports filtering by tissue, gene, or posterior probability. Methods Details on GTEx v8 analysis, including code, can be found in the GTEx GWAS Analysis Github. Raw data for these analyses are available from the GTEx Portal. CAVIAR The CAVIAR track at UCSC was created using the CAVIAR high-confidence set, which represents the high causal variants that have a causal posterior probability (CPP) of &gt; 0.1. DAP-G The DAP-G track at UCSC was created using the DAP-G 95% credible set, which represents varaints with strong eQTLs signals, which are signal clusters with signal-level posterior inclusion probability (SPIP) &gt; 0.95. Data Access The raw data for this track can be accessed in multiple ways. It can be explored interactively using the Table Browser or Data Integrator. You can also access the data entries in JSON format through our JSON API. The data in this track are organized in bigBed file format. The underlying files can be obtained from our downloads server: GTEx CAVIAR - gtexCaviar.bb GTEx DAP-G - gtexDapg.bb Individual regions or the whole set of genome-wide annotations can be obtained using our tool bigBedToBed which can be compiled from the source code or downloaded as a precompiled binary for your system from the utilities directory linked below. For example, to extract only annotations in a given region, you could use the following command: bigBedToBed http://hgdownload.soe.ucsc.edu/gbdb/hg38/gtex/eQtl/gtexCaviar.bb -chrom=chr16 -start=34990190 -end=36727467 stdout Credits Thanks to GTEx investigators, analysts, and portal team for providing this data. References GTEx Consortium. The GTEx Consortium atlas of genetic regulatory effects across human tissues. Science. 2020 Sep 11;369(6509):1318-1330. PMID: 32913098; PMC: PMC7737656 Lee Y, Luca F, Pique-Regi R, Wen X. Bayesian Multi-SNP Genetic Association Analysis: Control of FDR and Use of Summary Statistics. bioRxiv. 2018 May 8. Wen X, Lee Y, Luca F, Pique-Regi R. Efficient Integrative Multi-SNP Association Analysis via Deterministic Approximation of Posteriors. Am J Hum Genet. 2016 Jun 2;98(6):1114-1129. PMID: 27236919; PMC: PMC4908152 Ongen H, Buil A, Brown AA, Dermitzakis ET, Delaneau O. Fast and efficient QTL mapper for thousands of molecular phenotypes. Bioinformatics. 2016 May 15;32(10):1479-85. PMID: 26708335; PMC: PMC4866519 Hormozdiari F, Kostem E, Kang EY, Pasaniuc B, Eskin E. Identifying causal variants at loci with multiple signals of association. Genetics. 2014 Oct;198(2):497-508. PMID: 25104515; PMC: PMC4196608 GTEx Consortium. The Genotype-Tissue Expression (GTEx) project. Nat Genet. 2013 Jun;45(6):580-5. PMID: 23715323; PMC: PMC4010069 GTEx Portal Documentation 
gtexEqtlDapg GTEx DAP-G eQTLs GTEx High-Confidence cis-eQTLs from DAP-G (no chrX) Regulation 
gtexEqtlCaviar GTEx CAVIAR eQTLs GTEx High-Confidence cis-eQTLs from CAVIAR (no chrX) Regulation 
gtexGene GTEx Gene Gene Expression in 53 tissues from GTEx RNA-seq of 8555 samples (570 donors) Expression Description The NIH Genotype-Tissue Expression (GTEx) project was created to establish a sample and data resource for studies on the relationship between genetic variation and gene expression in multiple human tissues. This track shows median gene expression levels in 51 tissues and 2 cell lines, based on RNA-seq data from the GTEx midpoint milestone data release (V6, October 2015). This release is based on data from 8555 tissue samples obtained from 570 adult post-mortem individuals. Display Conventions In Full and Pack display modes, expression for each gene is represented by a colored bargraph, where the height of each bar represents the median expression level across all samples for a tissue, and the bar color indicates the tissue. Tissue colors were assigned to conform to the GTEx Consortium publication conventions. &nbsp;&nbsp;&nbsp;&nbsp;&nbsp; The bargraph display has the same width and tissue order for all genes. Mouse hover over a bar will show the tissue and median expression level. The Squish display mode draws a rectangle for each gene, colored to indicate the tissue with highest expression level if it contributes more than 10% to the overall expression (and colored black if no tissue predominates). In Dense mode, the darkness of the grayscale rectangle displayed for the gene reflects the total median expression level across all tissues. The GTEx transcript model used to quantify expression level is displayed below the graph, colored to indicate the transcript class (coding, noncoding, pseudogene, problem), following GENCODE conventions. Click-through on a graph displays a boxplot of expression level quartiles with outliers, per tissue, along with a link to the corresponding gene page on the GTEx Portal. The track configuration page provides controls to limit the genes and tissues displayed, and to select raw or log transformed expression level display. Methods Tissue samples were obtained using the GTEx standard operating procedures for informed consent and tissue collection, in conjunction with the National Cancer Institute Biorepositories and Biospecimen. All tissue specimens were reviewed by pathologists to characterize and verify organ source. Images from stained tissue samples can be viewed via the NCI histopathology viewer. The Qiagen PAXgene non-formalin tissue preservation product was used to stabilize tissue specimens without cross-linking biomolecules. RNA-seq was performed by the GTEx Laboratory, Data Analysis and Coordinating Center (LDACC) at the Broad Institute. The Illumina TruSeq protocol was used to create an unstranded polyA+ library sequenced on the Illumina HiSeq 2000 platform to produce 76-bp paired end reads at a depth averaging 50M aligned reads per sample. Sequence reads were aligned to the hg19/GRCh37 human genome using Tophat v1.4.1 assisted by the GENCODE v19 transcriptome definition. Gene annotations were produced by taking the union of the GENCODE exons for each gene. Gene expression levels in RPKM were called via the RNA-SeQC tool, after filtering for unique mapping, proper pairing, and exon overlap. For further method details, see the GTEx Portal Documentation page. UCSC obtained the gene-level expression files, gene annotations and sample metadata from the GTEx Portal Download page. Median expression level in RPKM was computed per gene/per tissue. Subject and Sample Characteristics The scientific goal of the GTEx project required that the donors and their biospecimen present with no evidence of disease. The tissue types collected were chosen based on their clinical significance, logistical feasibility and their relevance to the scientific goal of the project and the research community. Postmortem samples were collected from non-diseased donors with ages ranging from 20 to 79. 34.4% of donors were female and 65.6% male. Additional summary plots of GTEx sample characteristics are available at the GTEx Portal Tissue Summary page. Data Access The raw data for the GTEx Gene expression track can be accessed interactively through the Table Browser or Data Integrator. Metadata can be found in the connected tables below. gtexGeneModel describes the gene names and coordinates in genePred format. hgFixed.gtexTissue lists each of the 53 tissues in alphabetical order, corresponding to the comma separated expression values in gtexGene. hgFixed.gtexSampleData has RPKM expression scores for each individual gene-sample data point, connected to gtexSample. hgFixed.gtexSample contains metadata about sample time, collection site, and tissue, connected to the donor field in the gtexDonor table. hgFixed.gtexDonor has anonymized information on the tissue donor. For automated analysis and downloads, the track data files can be downloaded from our downloads server or the JSON API. Individual regions or the whole genome annotation can be accessed as text using our utility bigBedToBed. Instructions for downloading the utility can be found here. That utility can also be used to obtain features within a given range, e.g. bigBedToBed http://hgdownload.soe.ucsc.edu/gbdb/hg19/gtex/gtexTranscExpr.bb -chrom=chr21 -start=0 -end=100000000 stdout Data can also be obtained directly from GTEx at the following link: https://gtexportal.org/home/datasets Credits Statistical analysis and data interpretation was performed by The GTEx Consortium Analysis Working Group. Data was provided by the GTEx LDACC at The Broad Institute of MIT and Harvard. References GTEx Consortium. The Genotype-Tissue Expression (GTEx) project. Nat Genet. 2013 Jun;45(6):580-5. PMID: 23715323; PMC: PMC4010069 Carithers LJ, Ardlie K, Barcus M, Branton PA, Britton A, Buia SA, Compton CC, DeLuca DS, Peter-Demchok J, Gelfand ET et al. A Novel Approach to High-Quality Postmortem Tissue Procurement: The GTEx Project. Biopreserv Biobank. 2015 Oct;13(5):311-9. PMID: 26484571; PMC: PMC4675181 Mel&#233; M, Ferreira PG, Reverter F, DeLuca DS, Monlong J, Sammeth M, Young TR, Goldmann JM, Pervouchine DD, Sullivan TJ et al. Human genomics. The human transcriptome across tissues and individuals. Science. 2015 May 8;348(6235):660-5. PMID: 25954002; PMC: PMC4547472 DeLuca DS, Levin JZ, Sivachenko A, Fennell T, Nazaire MD, Williams C, Reich M, Winckler W, Getz G. RNA-SeQC: RNA-seq metrics for quality control and process optimization. Bioinformatics. 2012 Jun 1;28(11):1530-2. PMID: 22539670; PMC: PMC3356847 
gtexTranscExpr GTEx Transcript Transcript Expression in 53 tissues from GTEx RNA-seq of 8555 samples/570 donors Expression Description The NIH Genotype-Tissue Expression (GTEx) project was created to establish a sample and data resource for studies on the relationship between genetic variation and gene expression in multiple human tissues. This track displays median transcript expression levels in 53 tissues, based on RNA-seq data from the GTEx midpoint milestone data release (V6, October 2015). To view the GTEx tissues in anatomical context, see the GTEx Body Map. Data for this track were computed at UCSC from GTEx RNA-seq sequence data using the Toil pipeline running the kallisto transcript-level quantification tool. Display Conventions In Full and Pack display modes, expression for each transcript is represented by a colored bar chart, where the height of each bar represents the median expression level across all samples for a tissue, and the bar color indicates the tissue. The bar chart display has the same width and tissue order for all transcripts. Mouse hover over a bar will show the tissue and median expression level. The Squish display mode draws a rectangle for each gene, colored to indicate the tissue with highest expression level if it contributes more than 10% to the overall expression (and colored black if no tissue predominates). In Dense mode, the darkness of the grayscale rectangle displayed for the transcript reflects the total median expression level across all tissues. Click-through on a graph displays a boxplot of expression level quartiles with outliers, per tissue. Methods Tissue samples were obtained using the GTEx standard operating procedures for informed consent and tissue collection, in conjunction with the National Cancer Institute Biorepositories and Biospecimen. All tissue specimens were reviewed by pathologists to characterize and verify organ source. Images from stained tissue samples can be viewed via the NCI histopathology viewer. The Qiagen PAXgene non-formalin tissue preservation product was used to stabilize tissue specimens without cross-linking biomolecules. RNA-seq was performed by the GTEx Laboratory, Data Analysis and Coordinating Center (LDACC) at the Broad Institute. The Illumina TruSeq protocol was used to create an unstranded polyA+ library sequenced on the Illumina HiSeq 2000 platform to produce 76-bp paired end reads at a depth averaging 50M aligned reads per sample. Sequence reads for this track were quantified to the hg38/GRCh38 human genome using kallisto assisted by the GENCODE v23 transcriptome definition. Read quantification was performed at UCSC by the Computational Genomics lab, using the Toil pipeline. The resulting kallisto files were combined to generate a transcript per million (TPM) expression matrix using the UCSC tool, kallistoToMatrix. Average TPM expression values for each tissue were calculated and used to generate a bed6+5 file that is the base of the track. This was done using the UCSC tool, expMatrixToBarchartBed. The bed track was then converted to a bigBed file using the UCSC tool, bedToBigBed. The data in the hg19/GRCh37 version of this track was generated by converting the coordinates from the hg38/GRCh38 track data. Of the 189,615 BED entries from the original hg38 track, 176,220 were mapped over by transcript name to hg19 using wgEncodeGencodeCompV24lift37 (~93% coverage). Subject and Sample Characteristics The scientific goal of the GTEx project required that the donors and their biospecimen present with no evidence of disease. The tissue types collected were chosen based on their clinical significance, logistical feasibility and their relevance to the scientific goal of the project and the research community. Postmortem samples were collected from non-diseased donors with ages ranging from 20 to 79. 34.4% of donors were female and 65.6% male. Additional summary plots of GTEx sample characteristics are available at the GTEx Portal Tissue Summary page. Credits Samples were collected by the GTEx Consortium. RNA-seq was performed by the GTEx Laboratory, Data Analysis and Coordinating Center (LDACC) at the Broad Institute. John Vivian, Melissa Cline, and Benedict Paten of the UCSC Computational Genomics lab were responsible for the sequence read quantification used to produce this track. Kate Rosenbloom and Chris Eisenhart of the UCSC Genome Browser group were responsible for data file post-processing and track configuration. References J. Vivian et al., Rapid and efficient analysis of 20,000 RNA-seq samples with Toil bioRxiv bioRxiv, vol. 2, p. 62497, 2016. GTEx Consortium. The Genotype-Tissue Expression (GTEx) project. Nat Genet. 2013 Jun;45(6):580-5. PMID: 23715323; PMC: PMC4010069 Carithers LJ, Ardlie K, Barcus M, Branton PA, Britton A, Buia SA, Compton CC, DeLuca DS, Peter-Demchok J, Gelfand ET et al. A Novel Approach to High-Quality Postmortem Tissue Procurement: The GTEx Project. Biopreserv Biobank. 2015 Oct;13(5):311-9. PMID: 26484571; PMC: PMC4675181 Mel&#233; M, Ferreira PG, Reverter F, DeLuca DS, Monlong J, Sammeth M, Young TR, Goldmann JM, Pervouchine DD, Sullivan TJ et al. Human genomics. The human transcriptome across tissues and individuals. Science. 2015 May 8;348(6235):660-5. PMID: 25954002; PMC: PMC4547472 DeLuca DS, Levin JZ, Sivachenko A, Fennell T, Nazaire MD, Williams C, Reich M, Winckler W, Getz G. RNA-SeQC: RNA-seq metrics for quality control and process optimization. Bioinformatics. 2012 Jun 1;28(11):1530-2. PMID: 22539670; PMC: PMC3356847 
gwasCatalog GWAS Catalog NHGRI-EBI Catalog of Published Genome-Wide Association Studies Phenotypes, Variants, and Literature Description This track displays single nucleotide polymorphisms (SNPs) identified by published Genome-Wide Association Studies (GWAS), collected in the NHGRI-EBI GWAS Catalog published jointly by the National Human Genome Research Institute (NHGRI) and the European Bioinformatics Institute (EMBL-EBI). Some abbreviations are used above. From http://www.ebi.ac.uk/gwas/docs/about: The Catalog is a quality controlled, manually curated, literature-derived collection of all published genome-wide association studies assaying at least 100,000 SNPs and all SNP-trait associations with p-values &lt; 1.0 x 10-5 (Hindorff et al., 2009). For more details about the Catalog curation process and data extraction procedures, please refer to the Methods page. Methods From http://www.ebi.ac.uk/gwas/docs/methods: The GWAS Catalog data is extracted from the literature. Extracted information includes publication information, study cohort information such as cohort size, country of recruitment and subject ethnicity, and SNP-disease association information including SNP identifier (i.e. RSID), p-value, gene and risk allele. Each study is also assigned a trait that best represents the phenotype under investigation. When multiple traits are analysed in the same study either multiple entries are created, or individual SNPs are annotated with their specific traits. Traits are used both to query and visualise the data in the Catalog's web form and diagram-based query interfaces. Data extraction and curation for the GWAS Catalog is an expert activity; each step is performed by scientists supported by a web-based tracking and data entry system which allows multiple curators to search, annotate, verify and publish the Catalog data. Papers that qualify for inclusion in the Catalog are identified through weekly PubMed searches. They then undergo two levels of curation. First all data, including association information for SNPs, traits and general information about the study, are extracted by one curator. A second curator then performs an additional round of curation to double-check the accuracy and consistency of all the information. Finally, an automated pipeline performs validation of the extracted data, see the Quality control and SNP mapping section below for more details. This information is then used for queries and in the production of the diagram. Data Access The raw data can be explored interactively with the Table Browser, or Data Integrator. For automated analysis, the genome annotation can be downloaded from the downloads server (gwasCatalog*.txt.gz) or the public MySQL server. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Previous versions of this track can be found on our archive download server. References Hindorff LA, Sethupathy P, Junkins HA, Ramos EM, Mehta JP, Collins FS, Manolio TA. Potential etiologic and functional implications of genome-wide association loci for human diseases and traits. Proc Natl Acad Sci U S A. 2009 Jun 9;106(23):9362-7. PMID: 19474294; PMC: PMC2687147 
gwipsvizRiboseq GWIPS-viz Riboseq Ribosome Profiling from GWIPS-viz Expression Description Ribosome profiling (ribo-seq) is a technique that takes advantage of NGS technology to sequence ribosome-protected mRNA fragments and consequently allows the locations of translating ribosomes to be determined at the entire transcriptome level (Ingolia et al., 2009). For a more detailed description of the protocol, see Ingolia et al. (2012). For reviews on this technique and its applications, please refer to Ingolia (2014) and Michel et al. (2013). This track displays cumulative ribo-seq data obtained from human cells under different conditions and can be used for the exploration of human genomic loci that are being translated. The values on the y-axis represent the number of ribosome footprint sequence reads at a given position. As of February 2016, the track contains data from 9 studies (see References section for details). Further details about the aggregated track and additional ribo-seq data from these and other studies including data obtained from other organisms can be found at the specialized ribo-seq browser GWIPS-viz. Methods For each study used to generate this track, raw fastq files were downloaded from a repository (e.g., NCBI GEO datasets). Cutadapt was used to trim the relevant adapter sequence from the reads, after which reads below 25 nt in length were discarded. The trimmed reads were aligned to ribosomal RNA using Bowtie and aligning reads were discarded. The remaining reads were then aligned to the hg38 (GRCh38) genome assembly using Bowtie. An offset of 15 nt (to infer the position of the A-site) was added to the most 5' nucleotide coordinate of each uniquely-mapped read. The alignment files from each of the included studies were merged to generate this aggregate track. See individual studies at GWIPS-viz for a full description of the methods of data acquisition and processing. Credits Thanks to Audrey Michel, Stephen Kiniry and GWIPS-viz for providing the data for this track. If you wish to cite this track, please reference: Michel AM, Fox G, M Kiran A, De Bo C, O'Connor PB, Heaphy SM, Mullan JP, Donohue CA, Higgins DG, Baranov PV. GWIPS-viz: development of a ribo-seq genome browser. Nucleic Acids Res. 2014 Jan;42(Database issue):D859-64. PMID: 24185699; PMC: PMC3965066 References Data Battle A, Khan Z, Wang SH, Mitrano A, Ford MJ, Pritchard JK, Gilad Y. Impact of regulatory variation from RNA to protein. Science. 2015 Feb 6;347(6222):664-7. PMID: 25657249; PMC: PMC4507520 Cenik C, Cenik ES, Byeon GW, Grubert F, Candille SI, Spacek D, Alsallakh B, Tilgner H, Araya CL, Tang H et al. Integrative analysis of RNA, translation and protein levels reveals distinct regulatory variation across humans. Genome Res. 2015 Nov;25(11):1610-21. PMID: 26297486; PMC: PMC4617958 Elkon R, Loayza-Puch F, Korkmaz G, Lopes R, van Breugel PC, Bleijerveld OB, Altelaar AM, Wolf E, Lorenzin F, Eilers M et al. Myc coordinates transcription and translation to enhance transformation and suppress invasiveness. EMBO Rep. 2015 Dec;16(12):1723-36. PMID: 26538417; PMC: PMC4687422 Jang C, Lahens NF, Hogenesch JB, Sehgal A. Ribosome profiling reveals an important role for translational control in circadian gene expression. Genome Res 2015 Dec;25(12):1836-47. PMID: 26338483; PMC: PMC4665005 Ji Z, Song R, Regev A, Struhl K. Many lncRNAs, 5&#39UTRs, and pseudogenes are translated and some are likely to express functional proteins. Elife. 2015 Dec 19;4. PMID: 26687005; PMC: PMC4739776 Sidrauski C, McGeachy AM, Ingolia NT, Walter P. The small molecule ISRIB reverses the effects of eIF2&#945; phosphorylation on translation and stress granule assembly. Elife. 2015 Feb 26;4. PMID: 25719440; PMC: PMC4341466 Tanenbaum ME, Stern-Ginossar N, Weissman JS, Vale RD. Regulation of mRNA translation during mitosis. Elife. 2015 Aug 25;4. PMID: 26305499; PMC: PMC4548207 Tirosh O, Cohen Y, Shitrit A, Shani O, Le-Trilling VT, Trilling M, Friedlander G, Tanenbaum M, Stern-Ginossar N. The transcription and translation landscapes during human cytomegalovirus infection reveal novel host-pathogen interactions. PLoS Pathog. 2015 Nov 24;11(11):e1005288. PMID: 26599541; PMC: PMC4658056 Werner A, Iwasaki S, McGourty CA, Medina-Ruiz S, Teerikorpi N, Fedrigo I, Ingolia NT, Rape M. Cell fate determination by ubiquitin-dependent regulation of translation. Nature. 2015 Sep 24;525(7570):523-7. PMID: 26399832; PMC: PMC4602398 Protocol/Technique Ingolia NT. Ribosome profiling: new views of translation, from single codons to genome scale. Nat Rev Genet. 2014 Mar;15(3):205-13. PMID: 24468696 Ingolia NT, Brar GA, Rouskin S, McGeachy AM, Weissman JS. The ribosome profiling strategy for monitoring translation in vivo by deep sequencing of ribosome- protected mRNA fragments. Nat Protoc. 2012 Jul 26;7(8):1534-50. PMID: 22836135; PMC: PMC3535016 Ingolia NT, Ghaemmaghami S, Newman JR, Weissman JS. Genome-wide analysis in vivo of translation with nucleotide resolution using ribosome profiling. Science. 2009 Apr 10;324(5924):218-23. PMID: 19213877; PMC: PMC2746483 Michel AM, Baranov PV. Ribosome profiling: a Hi-Def monitor for protein synthesis at the genome-wide scale. Wiley Interdiscip Rev RNA. 2013 Sep-Oct;4(5):473-90. PMID: 23696005; PMC: PMC3823065 
heartAtlasAgeGroup Heart HCA Age Heart cell RNA binned by age group of donor from https://heartcellatlas.org Single Cell RNA-seq Description This track displays data from Cells of the adult human heart. Single-cell and single-nucleus RNA sequencing (RNA-seq) was used to profile transcriptomes from six regions of the heart: the interventricular septum (SP), apex (AX), left ventricle (LV), right ventricle (RV), left atrium (LA), and right atrium (RA). A total of 11 cardiac cell types were identified along with their marker genes after uniform manifold approximation and projection (UMAP) embedding of 487,106 cells. Note that the RNA-seq data is generated using Tag-sequencing (Tag-seq) and does not cover all exons. This track collection contains nine bar chart tracks of RNA expression in the human heart where cells are grouped by cell type (Heart HCA Cells), age (Heart HCA Age), donor (Heart HCA Donor), region of the heart (Heart HCA Region), sample (Heart HCA Sample), sex (Heart HCA Sex), source (Heart HCA Source), cell state (Heart HCA State), and 10x chemistry version (Heart HCA Version). The default track displayed is Heart HCA Cells. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification neural adipose fibroblast immune muscle lymphoid epithelial endothelial Cells that fall into multiple classes will be colored by blending the colors associated with those classes. The colors will be purest in the Heart HCA Cells subtrack, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Method Healthy heart tissues were obtained from 14 UK and North American transplant organ donors ages 40-75. Tissues were taken from deceased donors after circulatory death (DCD) and after brain death (DBD). To minimize transcriptional degradation, heart tissues were stored and transported on ice until freezing or tissue dissociation. Single nuclei were isolated from flash-frozen tissue using mechanical homogenization with a glass Dounce tissue grinder. Fresh heart tissues were enzymatically dissociated and automatically digested using gentleMACS Octo Dissociator. Next, Hoechst-positive single nuclei were FACS sorted prior to library preparation. In parallel, Cell suspensions from fresh heart tissue were enriched for CD45+ cells using MACS LS columns. Libraries of single cell and single nuclei were prepared using 10x Genomics 3' v2 or v3. 3' gene expression libraries were sequenced on an Illumina HiSeq4000 and NextSeq500. In total 45,870 cells, 78,023 CD45+ enriched cells, and 363,213 nuclei were profiled for 11 major cell types of the heart. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Monika Litvi&#328ukov&#225, Carlos Talavera-L&#243, and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Gerardo Perez. The UCSC work was paid for by the Chan Zuckerberg Initiative. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. References Litvi&#328;ukov&#225; M, Talavera-L&#243;pez C, Maatz H, Reichart D, Worth CL, Lindberg EL, Kanda M, Polanski K, Heinig M, Lee M et al. Cells of the adult human heart. Nature. 2020 Dec;588(7838):466-472. PMID: 32971526; PMC: PMC7681775 
heartCellAtlas Heart Cell Atlas Heart single cell RNA data from https://heartcellatlas.com Single Cell RNA-seq Description This track displays data from Cells of the adult human heart. Single-cell and single-nucleus RNA sequencing (RNA-seq) was used to profile transcriptomes from six regions of the heart: the interventricular septum (SP), apex (AX), left ventricle (LV), right ventricle (RV), left atrium (LA), and right atrium (RA). A total of 11 cardiac cell types were identified along with their marker genes after uniform manifold approximation and projection (UMAP) embedding of 487,106 cells. Note that the RNA-seq data is generated using Tag-sequencing (Tag-seq) and does not cover all exons. This track collection contains nine bar chart tracks of RNA expression in the human heart where cells are grouped by cell type (Heart HCA Cells), age (Heart HCA Age), donor (Heart HCA Donor), region of the heart (Heart HCA Region), sample (Heart HCA Sample), sex (Heart HCA Sex), source (Heart HCA Source), cell state (Heart HCA State), and 10x chemistry version (Heart HCA Version). The default track displayed is Heart HCA Cells. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification neural adipose fibroblast immune muscle lymphoid epithelial endothelial Cells that fall into multiple classes will be colored by blending the colors associated with those classes. The colors will be purest in the Heart HCA Cells subtrack, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Method Healthy heart tissues were obtained from 14 UK and North American transplant organ donors ages 40-75. Tissues were taken from deceased donors after circulatory death (DCD) and after brain death (DBD). To minimize transcriptional degradation, heart tissues were stored and transported on ice until freezing or tissue dissociation. Single nuclei were isolated from flash-frozen tissue using mechanical homogenization with a glass Dounce tissue grinder. Fresh heart tissues were enzymatically dissociated and automatically digested using gentleMACS Octo Dissociator. Next, Hoechst-positive single nuclei were FACS sorted prior to library preparation. In parallel, Cell suspensions from fresh heart tissue were enriched for CD45+ cells using MACS LS columns. Libraries of single cell and single nuclei were prepared using 10x Genomics 3' v2 or v3. 3' gene expression libraries were sequenced on an Illumina HiSeq4000 and NextSeq500. In total 45,870 cells, 78,023 CD45+ enriched cells, and 363,213 nuclei were profiled for 11 major cell types of the heart. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Monika Litvi&#328ukov&#225, Carlos Talavera-L&#243, and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Gerardo Perez. The UCSC work was paid for by the Chan Zuckerberg Initiative. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. References Litvi&#328;ukov&#225; M, Talavera-L&#243;pez C, Maatz H, Reichart D, Worth CL, Lindberg EL, Kanda M, Polanski K, Heinig M, Lee M et al. Cells of the adult human heart. Nature. 2020 Dec;588(7838):466-472. PMID: 32971526; PMC: PMC7681775 
heartAtlasCellTypes Heart HCA Cells Heart cell RNA binned by cell type from https://heartcellatlas.org Single Cell RNA-seq Description This track displays data from Cells of the adult human heart. Single-cell and single-nucleus RNA sequencing (RNA-seq) was used to profile transcriptomes from six regions of the heart: the interventricular septum (SP), apex (AX), left ventricle (LV), right ventricle (RV), left atrium (LA), and right atrium (RA). A total of 11 cardiac cell types were identified along with their marker genes after uniform manifold approximation and projection (UMAP) embedding of 487,106 cells. Note that the RNA-seq data is generated using Tag-sequencing (Tag-seq) and does not cover all exons. This track collection contains nine bar chart tracks of RNA expression in the human heart where cells are grouped by cell type (Heart HCA Cells), age (Heart HCA Age), donor (Heart HCA Donor), region of the heart (Heart HCA Region), sample (Heart HCA Sample), sex (Heart HCA Sex), source (Heart HCA Source), cell state (Heart HCA State), and 10x chemistry version (Heart HCA Version). The default track displayed is Heart HCA Cells. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification neural adipose fibroblast immune muscle lymphoid epithelial endothelial Cells that fall into multiple classes will be colored by blending the colors associated with those classes. The colors will be purest in the Heart HCA Cells subtrack, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Method Healthy heart tissues were obtained from 14 UK and North American transplant organ donors ages 40-75. Tissues were taken from deceased donors after circulatory death (DCD) and after brain death (DBD). To minimize transcriptional degradation, heart tissues were stored and transported on ice until freezing or tissue dissociation. Single nuclei were isolated from flash-frozen tissue using mechanical homogenization with a glass Dounce tissue grinder. Fresh heart tissues were enzymatically dissociated and automatically digested using gentleMACS Octo Dissociator. Next, Hoechst-positive single nuclei were FACS sorted prior to library preparation. In parallel, Cell suspensions from fresh heart tissue were enriched for CD45+ cells using MACS LS columns. Libraries of single cell and single nuclei were prepared using 10x Genomics 3' v2 or v3. 3' gene expression libraries were sequenced on an Illumina HiSeq4000 and NextSeq500. In total 45,870 cells, 78,023 CD45+ enriched cells, and 363,213 nuclei were profiled for 11 major cell types of the heart. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Monika Litvi&#328ukov&#225, Carlos Talavera-L&#243, and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Gerardo Perez. The UCSC work was paid for by the Chan Zuckerberg Initiative. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. References Litvi&#328;ukov&#225; M, Talavera-L&#243;pez C, Maatz H, Reichart D, Worth CL, Lindberg EL, Kanda M, Polanski K, Heinig M, Lee M et al. Cells of the adult human heart. Nature. 2020 Dec;588(7838):466-472. PMID: 32971526; PMC: PMC7681775 
heartAtlasDonor Heart HCA Donor Heart cell RNA binned by organ donor from https://heartcellatlas.org Single Cell RNA-seq Description This track displays data from Cells of the adult human heart. Single-cell and single-nucleus RNA sequencing (RNA-seq) was used to profile transcriptomes from six regions of the heart: the interventricular septum (SP), apex (AX), left ventricle (LV), right ventricle (RV), left atrium (LA), and right atrium (RA). A total of 11 cardiac cell types were identified along with their marker genes after uniform manifold approximation and projection (UMAP) embedding of 487,106 cells. Note that the RNA-seq data is generated using Tag-sequencing (Tag-seq) and does not cover all exons. This track collection contains nine bar chart tracks of RNA expression in the human heart where cells are grouped by cell type (Heart HCA Cells), age (Heart HCA Age), donor (Heart HCA Donor), region of the heart (Heart HCA Region), sample (Heart HCA Sample), sex (Heart HCA Sex), source (Heart HCA Source), cell state (Heart HCA State), and 10x chemistry version (Heart HCA Version). The default track displayed is Heart HCA Cells. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification neural adipose fibroblast immune muscle lymphoid epithelial endothelial Cells that fall into multiple classes will be colored by blending the colors associated with those classes. The colors will be purest in the Heart HCA Cells subtrack, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Method Healthy heart tissues were obtained from 14 UK and North American transplant organ donors ages 40-75. Tissues were taken from deceased donors after circulatory death (DCD) and after brain death (DBD). To minimize transcriptional degradation, heart tissues were stored and transported on ice until freezing or tissue dissociation. Single nuclei were isolated from flash-frozen tissue using mechanical homogenization with a glass Dounce tissue grinder. Fresh heart tissues were enzymatically dissociated and automatically digested using gentleMACS Octo Dissociator. Next, Hoechst-positive single nuclei were FACS sorted prior to library preparation. In parallel, Cell suspensions from fresh heart tissue were enriched for CD45+ cells using MACS LS columns. Libraries of single cell and single nuclei were prepared using 10x Genomics 3' v2 or v3. 3' gene expression libraries were sequenced on an Illumina HiSeq4000 and NextSeq500. In total 45,870 cells, 78,023 CD45+ enriched cells, and 363,213 nuclei were profiled for 11 major cell types of the heart. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Monika Litvi&#328ukov&#225, Carlos Talavera-L&#243, and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Gerardo Perez. The UCSC work was paid for by the Chan Zuckerberg Initiative. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. References Litvi&#328;ukov&#225; M, Talavera-L&#243;pez C, Maatz H, Reichart D, Worth CL, Lindberg EL, Kanda M, Polanski K, Heinig M, Lee M et al. Cells of the adult human heart. Nature. 2020 Dec;588(7838):466-472. PMID: 32971526; PMC: PMC7681775 
heartAtlasRegion Heart HCA Region Heart cell RNA binned by region of collection from https://heartcellatlas.org Single Cell RNA-seq Description This track displays data from Cells of the adult human heart. Single-cell and single-nucleus RNA sequencing (RNA-seq) was used to profile transcriptomes from six regions of the heart: the interventricular septum (SP), apex (AX), left ventricle (LV), right ventricle (RV), left atrium (LA), and right atrium (RA). A total of 11 cardiac cell types were identified along with their marker genes after uniform manifold approximation and projection (UMAP) embedding of 487,106 cells. Note that the RNA-seq data is generated using Tag-sequencing (Tag-seq) and does not cover all exons. This track collection contains nine bar chart tracks of RNA expression in the human heart where cells are grouped by cell type (Heart HCA Cells), age (Heart HCA Age), donor (Heart HCA Donor), region of the heart (Heart HCA Region), sample (Heart HCA Sample), sex (Heart HCA Sex), source (Heart HCA Source), cell state (Heart HCA State), and 10x chemistry version (Heart HCA Version). The default track displayed is Heart HCA Cells. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification neural adipose fibroblast immune muscle lymphoid epithelial endothelial Cells that fall into multiple classes will be colored by blending the colors associated with those classes. The colors will be purest in the Heart HCA Cells subtrack, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Method Healthy heart tissues were obtained from 14 UK and North American transplant organ donors ages 40-75. Tissues were taken from deceased donors after circulatory death (DCD) and after brain death (DBD). To minimize transcriptional degradation, heart tissues were stored and transported on ice until freezing or tissue dissociation. Single nuclei were isolated from flash-frozen tissue using mechanical homogenization with a glass Dounce tissue grinder. Fresh heart tissues were enzymatically dissociated and automatically digested using gentleMACS Octo Dissociator. Next, Hoechst-positive single nuclei were FACS sorted prior to library preparation. In parallel, Cell suspensions from fresh heart tissue were enriched for CD45+ cells using MACS LS columns. Libraries of single cell and single nuclei were prepared using 10x Genomics 3' v2 or v3. 3' gene expression libraries were sequenced on an Illumina HiSeq4000 and NextSeq500. In total 45,870 cells, 78,023 CD45+ enriched cells, and 363,213 nuclei were profiled for 11 major cell types of the heart. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Monika Litvi&#328ukov&#225, Carlos Talavera-L&#243, and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Gerardo Perez. The UCSC work was paid for by the Chan Zuckerberg Initiative. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. References Litvi&#328;ukov&#225; M, Talavera-L&#243;pez C, Maatz H, Reichart D, Worth CL, Lindberg EL, Kanda M, Polanski K, Heinig M, Lee M et al. Cells of the adult human heart. Nature. 2020 Dec;588(7838):466-472. PMID: 32971526; PMC: PMC7681775 
heartAtlasSample Heart HCA Sample Heart cell RNA binned by biosample from https://heartcellatlas.org Single Cell RNA-seq Description This track displays data from Cells of the adult human heart. Single-cell and single-nucleus RNA sequencing (RNA-seq) was used to profile transcriptomes from six regions of the heart: the interventricular septum (SP), apex (AX), left ventricle (LV), right ventricle (RV), left atrium (LA), and right atrium (RA). A total of 11 cardiac cell types were identified along with their marker genes after uniform manifold approximation and projection (UMAP) embedding of 487,106 cells. Note that the RNA-seq data is generated using Tag-sequencing (Tag-seq) and does not cover all exons. This track collection contains nine bar chart tracks of RNA expression in the human heart where cells are grouped by cell type (Heart HCA Cells), age (Heart HCA Age), donor (Heart HCA Donor), region of the heart (Heart HCA Region), sample (Heart HCA Sample), sex (Heart HCA Sex), source (Heart HCA Source), cell state (Heart HCA State), and 10x chemistry version (Heart HCA Version). The default track displayed is Heart HCA Cells. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification neural adipose fibroblast immune muscle lymphoid epithelial endothelial Cells that fall into multiple classes will be colored by blending the colors associated with those classes. The colors will be purest in the Heart HCA Cells subtrack, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Method Healthy heart tissues were obtained from 14 UK and North American transplant organ donors ages 40-75. Tissues were taken from deceased donors after circulatory death (DCD) and after brain death (DBD). To minimize transcriptional degradation, heart tissues were stored and transported on ice until freezing or tissue dissociation. Single nuclei were isolated from flash-frozen tissue using mechanical homogenization with a glass Dounce tissue grinder. Fresh heart tissues were enzymatically dissociated and automatically digested using gentleMACS Octo Dissociator. Next, Hoechst-positive single nuclei were FACS sorted prior to library preparation. In parallel, Cell suspensions from fresh heart tissue were enriched for CD45+ cells using MACS LS columns. Libraries of single cell and single nuclei were prepared using 10x Genomics 3' v2 or v3. 3' gene expression libraries were sequenced on an Illumina HiSeq4000 and NextSeq500. In total 45,870 cells, 78,023 CD45+ enriched cells, and 363,213 nuclei were profiled for 11 major cell types of the heart. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Monika Litvi&#328ukov&#225, Carlos Talavera-L&#243, and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Gerardo Perez. The UCSC work was paid for by the Chan Zuckerberg Initiative. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. References Litvi&#328;ukov&#225; M, Talavera-L&#243;pez C, Maatz H, Reichart D, Worth CL, Lindberg EL, Kanda M, Polanski K, Heinig M, Lee M et al. Cells of the adult human heart. Nature. 2020 Dec;588(7838):466-472. PMID: 32971526; PMC: PMC7681775 
heartAtlasSex Heart HCA Sex Heart cell RNA binned by sex of donor from https://heartcellatlas.org Single Cell RNA-seq Description This track displays data from Cells of the adult human heart. Single-cell and single-nucleus RNA sequencing (RNA-seq) was used to profile transcriptomes from six regions of the heart: the interventricular septum (SP), apex (AX), left ventricle (LV), right ventricle (RV), left atrium (LA), and right atrium (RA). A total of 11 cardiac cell types were identified along with their marker genes after uniform manifold approximation and projection (UMAP) embedding of 487,106 cells. Note that the RNA-seq data is generated using Tag-sequencing (Tag-seq) and does not cover all exons. This track collection contains nine bar chart tracks of RNA expression in the human heart where cells are grouped by cell type (Heart HCA Cells), age (Heart HCA Age), donor (Heart HCA Donor), region of the heart (Heart HCA Region), sample (Heart HCA Sample), sex (Heart HCA Sex), source (Heart HCA Source), cell state (Heart HCA State), and 10x chemistry version (Heart HCA Version). The default track displayed is Heart HCA Cells. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification neural adipose fibroblast immune muscle lymphoid epithelial endothelial Cells that fall into multiple classes will be colored by blending the colors associated with those classes. The colors will be purest in the Heart HCA Cells subtrack, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Method Healthy heart tissues were obtained from 14 UK and North American transplant organ donors ages 40-75. Tissues were taken from deceased donors after circulatory death (DCD) and after brain death (DBD). To minimize transcriptional degradation, heart tissues were stored and transported on ice until freezing or tissue dissociation. Single nuclei were isolated from flash-frozen tissue using mechanical homogenization with a glass Dounce tissue grinder. Fresh heart tissues were enzymatically dissociated and automatically digested using gentleMACS Octo Dissociator. Next, Hoechst-positive single nuclei were FACS sorted prior to library preparation. In parallel, Cell suspensions from fresh heart tissue were enriched for CD45+ cells using MACS LS columns. Libraries of single cell and single nuclei were prepared using 10x Genomics 3' v2 or v3. 3' gene expression libraries were sequenced on an Illumina HiSeq4000 and NextSeq500. In total 45,870 cells, 78,023 CD45+ enriched cells, and 363,213 nuclei were profiled for 11 major cell types of the heart. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Monika Litvi&#328ukov&#225, Carlos Talavera-L&#243, and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Gerardo Perez. The UCSC work was paid for by the Chan Zuckerberg Initiative. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. References Litvi&#328;ukov&#225; M, Talavera-L&#243;pez C, Maatz H, Reichart D, Worth CL, Lindberg EL, Kanda M, Polanski K, Heinig M, Lee M et al. Cells of the adult human heart. Nature. 2020 Dec;588(7838):466-472. PMID: 32971526; PMC: PMC7681775 
heartAtlasSource Heart HCA Source Heart cell RNA binned by source (nucleus vs whole cell) from https://heartcellatlas.org Single Cell RNA-seq Description This track displays data from Cells of the adult human heart. Single-cell and single-nucleus RNA sequencing (RNA-seq) was used to profile transcriptomes from six regions of the heart: the interventricular septum (SP), apex (AX), left ventricle (LV), right ventricle (RV), left atrium (LA), and right atrium (RA). A total of 11 cardiac cell types were identified along with their marker genes after uniform manifold approximation and projection (UMAP) embedding of 487,106 cells. Note that the RNA-seq data is generated using Tag-sequencing (Tag-seq) and does not cover all exons. This track collection contains nine bar chart tracks of RNA expression in the human heart where cells are grouped by cell type (Heart HCA Cells), age (Heart HCA Age), donor (Heart HCA Donor), region of the heart (Heart HCA Region), sample (Heart HCA Sample), sex (Heart HCA Sex), source (Heart HCA Source), cell state (Heart HCA State), and 10x chemistry version (Heart HCA Version). The default track displayed is Heart HCA Cells. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification neural adipose fibroblast immune muscle lymphoid epithelial endothelial Cells that fall into multiple classes will be colored by blending the colors associated with those classes. The colors will be purest in the Heart HCA Cells subtrack, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Method Healthy heart tissues were obtained from 14 UK and North American transplant organ donors ages 40-75. Tissues were taken from deceased donors after circulatory death (DCD) and after brain death (DBD). To minimize transcriptional degradation, heart tissues were stored and transported on ice until freezing or tissue dissociation. Single nuclei were isolated from flash-frozen tissue using mechanical homogenization with a glass Dounce tissue grinder. Fresh heart tissues were enzymatically dissociated and automatically digested using gentleMACS Octo Dissociator. Next, Hoechst-positive single nuclei were FACS sorted prior to library preparation. In parallel, Cell suspensions from fresh heart tissue were enriched for CD45+ cells using MACS LS columns. Libraries of single cell and single nuclei were prepared using 10x Genomics 3' v2 or v3. 3' gene expression libraries were sequenced on an Illumina HiSeq4000 and NextSeq500. In total 45,870 cells, 78,023 CD45+ enriched cells, and 363,213 nuclei were profiled for 11 major cell types of the heart. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Monika Litvi&#328ukov&#225, Carlos Talavera-L&#243, and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Gerardo Perez. The UCSC work was paid for by the Chan Zuckerberg Initiative. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. References Litvi&#328;ukov&#225; M, Talavera-L&#243;pez C, Maatz H, Reichart D, Worth CL, Lindberg EL, Kanda M, Polanski K, Heinig M, Lee M et al. Cells of the adult human heart. Nature. 2020 Dec;588(7838):466-472. PMID: 32971526; PMC: PMC7681775 
heartAtlasCellStates Heart HCA State Heart cell RNA binned by cell state from https://heartcellatlas.org Single Cell RNA-seq Description This track displays data from Cells of the adult human heart. Single-cell and single-nucleus RNA sequencing (RNA-seq) was used to profile transcriptomes from six regions of the heart: the interventricular septum (SP), apex (AX), left ventricle (LV), right ventricle (RV), left atrium (LA), and right atrium (RA). A total of 11 cardiac cell types were identified along with their marker genes after uniform manifold approximation and projection (UMAP) embedding of 487,106 cells. Note that the RNA-seq data is generated using Tag-sequencing (Tag-seq) and does not cover all exons. This track collection contains nine bar chart tracks of RNA expression in the human heart where cells are grouped by cell type (Heart HCA Cells), age (Heart HCA Age), donor (Heart HCA Donor), region of the heart (Heart HCA Region), sample (Heart HCA Sample), sex (Heart HCA Sex), source (Heart HCA Source), cell state (Heart HCA State), and 10x chemistry version (Heart HCA Version). The default track displayed is Heart HCA Cells. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification neural adipose fibroblast immune muscle lymphoid epithelial endothelial Cells that fall into multiple classes will be colored by blending the colors associated with those classes. The colors will be purest in the Heart HCA Cells subtrack, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Method Healthy heart tissues were obtained from 14 UK and North American transplant organ donors ages 40-75. Tissues were taken from deceased donors after circulatory death (DCD) and after brain death (DBD). To minimize transcriptional degradation, heart tissues were stored and transported on ice until freezing or tissue dissociation. Single nuclei were isolated from flash-frozen tissue using mechanical homogenization with a glass Dounce tissue grinder. Fresh heart tissues were enzymatically dissociated and automatically digested using gentleMACS Octo Dissociator. Next, Hoechst-positive single nuclei were FACS sorted prior to library preparation. In parallel, Cell suspensions from fresh heart tissue were enriched for CD45+ cells using MACS LS columns. Libraries of single cell and single nuclei were prepared using 10x Genomics 3' v2 or v3. 3' gene expression libraries were sequenced on an Illumina HiSeq4000 and NextSeq500. In total 45,870 cells, 78,023 CD45+ enriched cells, and 363,213 nuclei were profiled for 11 major cell types of the heart. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Monika Litvi&#328ukov&#225, Carlos Talavera-L&#243, and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Gerardo Perez. The UCSC work was paid for by the Chan Zuckerberg Initiative. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. References Litvi&#328;ukov&#225; M, Talavera-L&#243;pez C, Maatz H, Reichart D, Worth CL, Lindberg EL, Kanda M, Polanski K, Heinig M, Lee M et al. Cells of the adult human heart. Nature. 2020 Dec;588(7838):466-472. PMID: 32971526; PMC: PMC7681775 
heartAtlasVersion Heart HCA Version Heart cell RNA binned by 10x chemistry version from https://heartcellatlas.org Single Cell RNA-seq Description This track displays data from Cells of the adult human heart. Single-cell and single-nucleus RNA sequencing (RNA-seq) was used to profile transcriptomes from six regions of the heart: the interventricular septum (SP), apex (AX), left ventricle (LV), right ventricle (RV), left atrium (LA), and right atrium (RA). A total of 11 cardiac cell types were identified along with their marker genes after uniform manifold approximation and projection (UMAP) embedding of 487,106 cells. Note that the RNA-seq data is generated using Tag-sequencing (Tag-seq) and does not cover all exons. This track collection contains nine bar chart tracks of RNA expression in the human heart where cells are grouped by cell type (Heart HCA Cells), age (Heart HCA Age), donor (Heart HCA Donor), region of the heart (Heart HCA Region), sample (Heart HCA Sample), sex (Heart HCA Sex), source (Heart HCA Source), cell state (Heart HCA State), and 10x chemistry version (Heart HCA Version). The default track displayed is Heart HCA Cells. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification neural adipose fibroblast immune muscle lymphoid epithelial endothelial Cells that fall into multiple classes will be colored by blending the colors associated with those classes. The colors will be purest in the Heart HCA Cells subtrack, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Method Healthy heart tissues were obtained from 14 UK and North American transplant organ donors ages 40-75. Tissues were taken from deceased donors after circulatory death (DCD) and after brain death (DBD). To minimize transcriptional degradation, heart tissues were stored and transported on ice until freezing or tissue dissociation. Single nuclei were isolated from flash-frozen tissue using mechanical homogenization with a glass Dounce tissue grinder. Fresh heart tissues were enzymatically dissociated and automatically digested using gentleMACS Octo Dissociator. Next, Hoechst-positive single nuclei were FACS sorted prior to library preparation. In parallel, Cell suspensions from fresh heart tissue were enriched for CD45+ cells using MACS LS columns. Libraries of single cell and single nuclei were prepared using 10x Genomics 3' v2 or v3. 3' gene expression libraries were sequenced on an Illumina HiSeq4000 and NextSeq500. In total 45,870 cells, 78,023 CD45+ enriched cells, and 363,213 nuclei were profiled for 11 major cell types of the heart. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Monika Litvi&#328ukov&#225, Carlos Talavera-L&#243, and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Gerardo Perez. The UCSC work was paid for by the Chan Zuckerberg Initiative. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. References Litvi&#328;ukov&#225; M, Talavera-L&#243;pez C, Maatz H, Reichart D, Worth CL, Lindberg EL, Kanda M, Polanski K, Heinig M, Lee M et al. Cells of the adult human heart. Nature. 2020 Dec;588(7838):466-472. PMID: 32971526; PMC: PMC7681775 
hg38ContigDiff Hg19 Diff Contigs New to GRCh38/(hg38), Not Carried Forward from GRCh37/(hg19) Mapping and Sequencing Description This track shows the differences between the GRCh38 (hg38) and previous GRCh37 (hg19) human genome assemblies, indicating contigs (or portions of contigs) that are new to the hg38 assembly. The following color/score key is used: colorscorechange from hg19 to hg38 &nbsp;0New contig added to hg38 to update sequence or fill gaps present in hg19 &nbsp;500Different portions of this same contig used in the construction of hg38 and hg19 assemblies &nbsp;1000Updated version of an hg19 contig in which sequence errors have been corrected Use the score filter to select which categories to show in the display. Methods The contig coordinates were extracted from the AGP files for both assemblies. Contigs that matched the same name, same version, and the same specific portion of sequence in both assemblies were considered identical between the two assemblies and were excluded from this data set. The remaining contigs are shown in this track. Credits The data and presentation of this track were prepared by Hiram Clawson, UCSC Genome Browser engineering. 
hgmd HGMD Public 2025 Human Gene Mutation Database - Public Version 2025 Phenotypes, Variants, and Literature Description NOTE: HGMD public is intended for use primarily by physicians and other professionals concerned with genetic disorders, by genetics researchers, and by advanced students in science and medicine. While the HGMD public database is open to all academic users, users seeking information about a personal medical or genetic condition are urged to consult with a qualified physician for diagnosis and for answers to personal questions. DOWNLOADS: As requested by Qiagen, this track is not available for download or mirroring but only for limited API queries, see below. This track shows the genomic positions of variants in the public version of the Human Gene Mutation Database (HGMD). UCSC does not host any further information and provides only the coordinates of mutations. To get details on a mutation (bibliographic reference, phenotype, disease, nucleotide change, etc.), follow the &quot;Link to HGMD&quot; at the top of the details page. Mouse over to show the type of variant (substitution, insertion, deletion, regulatory or splice variant). For deletions, only start coordinates are shown as the end coordinates have not been provided by HGMD. Insertions are located between the two annotated nucleic acids. The HGMD public database is produced at Cardiff University, but is free only for academic use. Academic users can register for a free account at the HGMD User Registration page. Download and commercial use requires a license for the HGMD Professional database, which also contains many mutations not yet added to the public version of HGMD public. The public version is usually 1-2 years behind the professional version. The HGMD database itself does not come with a mapping to genome coordinates, but there is a related product called "GenomeTrax" which includes HGMD in the UCSC Custom Track format. Contact Qiagen for more information. Batch queries Due to license restrictions, the HGMD data is not available for download or for batch queries in the Table Browser. However, it is available for programmatic access via the Global Alliance Beacon API, a web service that accepts queries in the form (genome, chromosome, position, allele) and returns "true" or "false" depending on whether there is information about this allele in the database. For more details see our Beacon Server. Subscribers of the HGMD database can also download the full database or use the HGMD API to retrieve full details, please contact Qiagen support for further information. Academic or non-profit users may be able to obtain a limited version of HGMD public from Qiagen. Display Conventions and Configuration Genomic locations of HGMD variants are labeled with the gene symbol and the accession of the mutation, separated by a colon. All other information is shown on the respective HGMD variation page, accessible via the &quot;Link to HGMD&quot; at the top of the details page. HGMD variants are originally annotated on RefSeq transcripts. You can show all and only those transcripts annotated by HGMD by activating the HGMD subtrack of the track "NCBI RefSeq". Methods The mappings displayed on this track were obtained from Qiagen and reformatted at UCSC as a bigBed file. Credits Thanks to HGMD, Frank Schacherer and Rupert Yip from Qiagen for making these data available. References Stenson PD, Mort M, Ball EV, Shaw K, Phillips A, Cooper DN. The Human Gene Mutation Database: building a comprehensive mutation repository for clinical and molecular genetics, diagnostic testing and personalized genomic medicine. Hum Genet. 2014 Jan;133(1):1-9. PMID: 24077912; PMC: PMC3898141 
hgnc HGNC HUGO Gene Nomenclature Genes and Gene Predictions Description The HGNC is responsible for approving unique symbols and names for human loci, including protein coding genes, ncRNA genes and pseudogenes, to allow unambiguous scientific communication. For each known human gene, the HGNC approves a gene name and symbol (short-form abbreviation). All approved symbols are stored in the HGNC database, www.genenames.org, a curated online repository of HGNC-approved gene nomenclature, gene groups and associated resources including links to genomic, proteomic, and phenotypic information. Each symbol is unique and we ensure that each gene is only given one approved gene symbol. It is necessary to provide a unique symbol for each gene so that we and others can talk about them, and this also facilitates electronic data retrieval from publications and databases. In preference, each symbol maintains parallel construction in different members of a gene family and can also be used in other species, especially other vertebrates including mouse. Data Access The raw data can be explored interactively with the Table Browser, or the Data Integrator. For computational analysis, genome annotations are stored in a bigBigFile file that can be downloaded from the download server. Regional or genome-wide annotations can be converted from binary data to human readable text using our command line utility bigBedToBed which can be compiled from source code or downloaded as a precompiled binary for your system. Files and instructions can be found in the utilities directory. The utility can be used to obtain features within a given range, for example: bigBedToBed -chrom=chr6 -start=0 -end=1000000 http://hgdownload.soe.ucsc.edu/gbdb/hg38/hgnc/hgnc.bb stdout Please refer to our Data Access FAQ for more information or our mailing list for archived user questions. Credits HGNC Database, HUGO Gene Nomenclature Committee (HGNC), European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, United Kingdom www.genenames.org. References Tweedie S, Braschi B, Gray KA, Jones TEM, Seal RL, Yates B, Bruford EA. Genenames.org: the HGNC and VGNC resources in 2021. Nucleic Acids Res. PMID: 33152070 PMCID: PMC7779007 DOI: 10.1093/nar/gkaa980 
hicAndMicroC Hi-C and Micro-C Comparison of Micro-C and In situ Hi-C protocols in H1-hESC and HFFc6 Regulation Description These tracks provide heatmaps of chromatin folding data from in situ Hi-C and Micro-C XL experiments on the H1-hESC (embryonic stem cells) and HFFc6 (foreskin fibroblasts) cell lines (Krietenstein et al., 2020). The data indicate how many interactions were detected between regions of the genome. A high score between two regions suggests that they are probably in close proximity in 3D space within the nucleus of a cell. In the track display, this is shown by a more intense color in the heatmap. Display Conventions This is a composite track with data from experiments that compare two protocols on each of two cell lines. Individual subtrack settings can be adjusted by clicking the wrench next to the subtrack name, and all subtracks can be configured simultaneously using the track controls at the top of the page. Note that some controls (specifically, resolution and normalization options) are only available in the subtrack-specific configuration. The proximity data in these tracks are displayed as heatmaps, with high scores (and more intense colors) corresponding to closer proximity. Draw modes There are three display methods available for Hi-C tracks: square, triangle, and arc. Square mode provides a traditional Hi-C display in which chromosome positions are mapped along the top-left-to-bottom-right diagonal, and interaction values are plotted on both sides of that diagonal to form a square. The upper-left corner of the square corresponds to the left-most position of the window in view, while the bottom-right corner corresponds to the right-most position of the window. The color shade at any point within the square shows the proximity score for two genomic regions: the region where a vertical line drawn from that point intersects with the diagonal, and the region where a horizontal line from that point intersects with the diagonal. A point directly on the diagonal shows the score for how proximal a region is to itself (scores on the diagonal are usually quite high unless no data are available). A point at the extreme bottom left of the square shows the score for how proximal the left-most position within the window is to the right-most position within the window. In triangle mode, the display is quite similar to square except that only the top half of the square is drawn (eliminating the redundancy), and the image is rotated so that the diagonal of the square now lies on the horizontal axis. This display consumes less vertical space in the image, although it may be more difficult to ascertain exactly which positions correspond to a point within the triangle. In arc mode, simple arcs are drawn between the centers of interacting regions. The color of each arc corresponds to the proximity score. Self-interactions are not displayed. Score normalization settings Score values for this type of display correspond to how close two genomic regions are in 3D space. A high score indicates more links were formed between them in the experiment, which suggests that the regions are near to each other. A low score suggests that the regions are farther apart. High scores are displayed with a more intense color value; low scores are displayed in paler shades. There are four score values available in this display: NONE, VC, VC_SQRT, and KR. NONE provides raw, un-normalized counts for the number of interactions between regions. VC, or Vanilla Coverage, normalization (Lieberman-Aiden et al., 2009) and the VC_SQRT variant normalize these count values based on the overall count values for each of the two interacting regions. Knight-Ruiz, or KR, matrix balancing (Knight and Ruiz, 2013) provides an alternative normalization method where the row and column sums of the contact matrix equal 1. Color intensity in the heatmap goes up to indicate higher scores, but eventually saturates at a maximum beyond which all scores share the same color intensity. The value of this maximum score for saturation can be set manually by un-checking the &quot;Auto-scale&quot; box. When the &quot;Auto-scale&quot; box is checked, it automatically sets the saturation maximum to be double (2x) the median score in the current display window. Resolution settings The resolution for each track is measured in base pairs and represents the size of the bins into which proximity data are gathered. The list of available resolutions ranges from 1kb to 10MB. There is also an &quot;Auto&quot; setting, which attempts to use the coarsest resolution that still displays at least 500 bins in the current window. Methods Cells from the H1-hESC and HFFc6 cell lines were processed using two protocols and submitted to the 4D Nucleome Data Coordination and Integration Center (4D Nucleome). The data from the experimental replicates were then combined to create a contact matrix for each cell line, which was then processed to create binary heatmap files like the .hic files used by this track. The first protocol, in situ Hi-C, was published in 2014 as a technique for obtaining full-genome proximity data while keeping the cell nucleus intact (Rao et al., 2014). This method uses a restriction enzyme to cleave DNA before linking. The second protocol, Micro-C XL, is an update to the Micro-C method of obtaining chromatin conformation data (Hsieh et al., 2016, Hsieh et al., 2015), and has largely supplanted the original. Both the original Micro-C and the updated version are variants of Hi-C chromatin conformation capture that use micrococcal nuclease to segment the genome before linking. This results in data sets with resolution down to the nucleosome level. The original Micro-C method had difficulty recovering higher order interactions, and the updated protocol makes use of additional cross-linking chemicals to address that issue. We downloaded the .hic contact matrix files with the following accessions from the 4D Nucleome Data Portal: 4DNFI18Q799K, 4DNFI2TK7L2F, 4DNFIFLJLIS5, and 4DNFIQYQWPF5. The files are parsed for display using the Straw library from the Aiden lab at Baylor College of Medicine. Data Access The data for this track can be explored interactively with the Table Browser in the interact format. Direct access to the raw data files in .hic format can be obtained from the 4D Nucleome Data Portal at the URL provided in the Methods section or from our own download server. The following files for this track can be found in the /gbdb/hg38/hic/ subdirectory: 4DNFI18Q799K.hic, 4DNFI2TK7L2F.hic, 4DNFIFLJLIS5.hic, 4DNFIQYQWPF5.hic. The name of each file corresponds to its identifier at the Data Portal. Details on working with .hic files can be found at https://www.aidenlab.org/documentation.html. References Hsieh TS, Fudenberg G, Goloborodko A, Rando OJ. Micro-C XL: assaying chromosome conformation from the nucleosome to the entire genome. Nat Methods. 2016 Dec;13(12):1009-1011. PMID: 27723753 Knight P, Ruiz D. A fast algorithm for matrix balancing. IMA J Numer Anal. 2013 Jul;33(3):1029-1047. Krietenstein N, Abraham S, Venev SV, Abdennur N, Gibcus J, Hsieh TS, Parsi KM, Yang L, Maehr R, Mirny LA et al. Ultrastructural Details of Mammalian Chromosome Architecture. Mol Cell. 2020 May 7;78(3):554-565.e7. PMID: 32213324 Lieberman-Aiden E, van Berkum NL, Williams L, Imakaev M, Ragoczy T, Telling A, Amit I, Lajoie BR, Sabo PJ, Dorschner MO et al. Comprehensive mapping of long-range interactions reveals folding principles of the human genome. Science. 2009 Oct 9;326(5950):289-93. PMID: 19815776; PMC: PMC2858594 Rao SS, Huntley MH, Durand NC, Stamenova EK, Bochkov ID, Robinson JT, Sanborn AL, Machol I, Omer AD, Lander ES et al. A 3D map of the human genome at kilobase resolution reveals principles of chromatin looping. Cell. 2014 Dec 18;159(7):1665-80. PMID: 25497547; PMC: PMC5635824 
hffc6MicroC HFFc6 Micro-C Micro-C Chromatin Structure on HFFc6 Regulation 
hffc6Insitu HFFc6 In situ In situ Hi-C Chromatin Structure on HFFc6 Regulation 
h1hescMicroC H1-hESC Micro-C Micro-C Chromatin Structure on H1-hESC Regulation 
h1hescInsitu H1-hESC In situ In situ Hi-C Chromatin Structure on H1-hESC Regulation 
cons470way Hiller Lab 470 Mammals Hiller Lab 470 Mammals - 470 mammalian genomes aligned with Multiz by Michael Hiller's Group, Comparative Genomics Description This track shows multiple alignments of 470 mammal assemblies and measurements of evolutionary conservation from the Michael Hiller Lab. There is some duplication of different assemblies for the same species, hence there are 431 distinct species in this collection. The multiple alignments were generated using multiz and other tools in the UCSC/Penn State Bioinformatics comparative genomics alignment pipeline. Conserved elements identified by phastCons are also displayed in this track. The base-wise conservation scores are computed using two methods phastCons and phyloP from the PHAST package, for all species. PhastCons (which has been used in previous Conservation tracks) is a hidden Markov model-based method that estimates the probability that each nucleotide belongs to a conserved element, based on the multiple alignment. It considers not just each individual alignment column, but also its flanking columns. By contrast, phyloP separately measures conservation at individual columns, ignoring the effects of their neighbors. As a consequence, the phyloP plots have a less smooth appearance than the phastCons plots, with more "texture" at individual sites. The two methods have different strengths and weaknesses. PhastCons is sensitive to "runs" of conserved sites, and is therefore effective for picking out conserved elements. PhyloP, on the other hand, is more appropriate for evaluating signatures of selection at particular nucleotides or classes of nucleotides (e.g., third codon positions, or first positions of miRNA target sites). Assemblies The genome assemblies are from a variety of sources. Some are equivalent to UCSC genome browser assemblies, some are from NCBI Genbank assemblies, and some are from the DNA Zoo. When available in the UCSC browser system, links are provided in the table below. Otherwise, links are provided to source locations for the assemblies. count commonname clade scientificname assembly taxon&nbsp;id 1 human primates Homo sapiens Dec. 2013 (GRCh38/hg38) 9606 2 chimpanzee Primates Pan troglodytes Jan. 2018 (Clint_PTRv2/panTro6) 9598 3 pygmy chimpanzee Primates Pan paniscus May 2020 (Mhudiblu_PPA_v0/panPan3) 9597 4 western lowland gorilla Primates Gorilla gorilla gorilla Aug. 2019 (Kamilah_GGO_v0/gorGor6) 9595 5 Sumatran orangutan Primates Pongo abelii Jan. 2018 (Susie_PABv2/ponAbe3) 9601 6 northern white-cheeked gibbon Primates Nomascus leucogenys HLnomLeu4 GCA_006542625.1 61853 7 silvery gibbon Primates Hylobates moloch HLhylMol2 GCA_009828535.2 81572 8 pig-tailed macaque Primates Macaca nemestrina Mar. 2015 (Mnem_1.0/macNem1) 9545 9 gelada Primates Theropithecus gelada HLtheGel1 GCA_003255815.1 9565 10 crab-eating macaque Primates Macaca fascicularis HLmacFas6 GCA_012559485.1 9541 11 Mona monkey Primates Cercopithecus mona HLcerMon1 GCA_014849445.1 36226 12 Ugandan red Colobus Primates Piliocolobus tephrosceles HLpilTep2 GCA_002776525.3 591936 13 Angolan colobus Primates Colobus angolensis palliatus Mar. 2015 (Cang.pa_1.0/colAng1) 336983 14 drill Primates Mandrillus leucophaeus Mar. 2015 (Mleu.le_1.0/manLeu1) 9568 15 sooty mangabey Primates Cercocebus atys Mar. 2015 (Caty_1.0/cerAty1) 9531 16 olive baboon Primates Papio anubis HLpapAnu5 GCA_008728515.1 9555 17 mandrill Primates Mandrillus sphinx HLmanSph1 GCA_004802615.1 9561 18 Hanuman langur Primates Semnopithecus entellus HLsemEnt1 GCA_004025065.1_SemEnt_v1_BIUU 88029 19 Rhesus monkey Primates Macaca mulatta Feb. 2019 (Mmul_10/rheMac10) 9544 20 Japanese macaque Primates Macaca fuscata DNA zoo Macaca fuscata 9542 21 Francois&#39;s langur Primates Trachypithecus francoisi HLtraFra1 GCA_009764315.1 54180 22 black snub-nosed monkey Primates Rhinopithecus bieti Aug. 2016 (ASM169854v1/rhiBie1) 61621 23 golden snub-nosed monkey Primates Rhinopithecus roxellana HLrhiRox2 GCA_007565055.1 61622 24 Red shanked douc langur Primates Pygathrix nemaeus HLpygNem1 GCA_004024825.1_PygNem_v1_BIUU 54133 25 De Brazza&#39;s monkey Primates Cercopithecus neglectus HLcerNeg1 GCA_004027615.1_CertNeg_v1_BIUU 36227 26 proboscis monkey Primates Nasalis larvatus Nov. 2014 (Charlie1.0/nasLar1) 43780 27 Allen&#39;s swamp monkey Primates Allenopithecus nigroviridis DNA zoo Allenopithecus nigroviridis 54135 28 green monkey Primates Chlorocebus sabaeus Mar. 2014 (Chlorocebus_sabeus 1.1/chlSab2) 60711 29 red guenon Primates Erythrocebus patas HLeryPat1 GCA_004027335.1_EryPat_v1_BIUU 9538 30 white-faced saki Primates Pithecia pithecia HLpitPit1 GCA_004026645.1_PitPit_v1_BIUU 43777 31 black-handed spider monkey Primates Ateles geoffroyi HLateGeo1 GCA_004024785.1_AteGeo_v1_BIUU 9509 32 Ma&#39;s night monkey Primates Aotus nancymaae Jun. 2017 (Anan_2.0/aotNan1) 37293 33 Bolivian titi Primates Plecturocebus donacophilus HLpleDon1 GCA_004027715.1_CalDon_v1_BIUU 230833 34 mantled howler monkey Primates Alouatta palliata HLaloPal1 GCA_004027835.1_AloPal_v1_BIUU 30589 35 Bolivian squirrel monkey Primates Saimiri boliviensis DNA zoo Saimiri boliviensis 27679 36 tamarin Primates Saguinus imperator HLsagImp1 GCA_004024885.1_SagImp_v1_BIUU 9491 37 Bolivian squirrel monkey Primates Saimiri boliviensis boliviensis Oct. 2011 (Broad/saiBol1) 39432 38 white-tufted-ear marmoset Primates Callithrix jacchus HLcalJac4 GCA_011100555.1_mCalJac1.pat.X 9483 39 pygmy marmoset Primates Callithrix pygmaea DNA zoo Callithrix pygmaea 9493 40 tufted capuchin Primates Sapajus apella HLsapApe1 GCA_009761245.1 9515 41 Panamanian white-faced capuchin Primates Cebus capucinus imitator Apr. 2016 (Cebus_imitator-1.0/cebCap1) 2715852 42 white-fronted capuchin Primates Cebus albifrons HLcebAlb1 GCA_004027755.1_CebAlb_v1_BIUU 9514 43 aye-aye Primates Daubentonia madagascariensis HLdauMad1 GCA_004027145.1_DauMad_v1_BIUU 31869 44 Coquerel&#39;s sifaka Primates Propithecus coquereli Mar. 2015 (Pcoq_1.0/proCoq1) 379532 45 babakoto Primates Indri indri HLindInd1 GCA_004363605.1_IndInd_v1_BIUU 34827 46 brown lemur Primates Eulemur fulvus HLeulFul1 GCA_004027275.1_EulFul_v1_BIUU 13515 47 Sclater&#39;s lemur Primates Eulemur flavifrons Aug. 2015 (Eflavifronsk33QCA/eulFla1) 87288 48 Ring-tailed lemur Primates Lemur catta HLlemCat1 GCA_004024665.1_LemCat_v1_BIUU 9447 49 greater bamboo lemur Primates Prolemur simus HLproSim1 GCA_003258685.1 1328070 50 mongoose lemur Primates Eulemur mongoz DNA zoo Eulemur mongoz 34828 51 Sclater&#39;s lemur Primates Eulemur flavifrons DNA zoo Eulemur flavifrons 87288 52 Lesser dwarf lemur Primates Cheirogaleus medius HLcheMed1 GCA_008086735.1 9460 53 black lemur Primates Eulemur macaco Aug. 2015 (Emacaco_refEf_BWA_oneround/eulMac1) 30602 54 Philippine tarsier Primates Carlito syrichta Sep. 2013 (Tarsius_syrichta-2.0.1/tarSyr2) 1868482 55 gray mouse lemur Primates Microcebus murinus Feb. 2017 (Mmur_3.0/micMur3) 30608 56 Northern giant mouse lemur Primates Mirza zaza HLmirZaz1 GCA_008750895.1 339999 57 Coquerel&#39;s mouse lemur Primates Mirza coquereli HLmirCoq1 GCA_004024645.1_MizCoq_v1_BIUU 47180 58 mouse lemur Primates Microcebus sp. 3 GT-2019 HLmicSpe31 GCA_008750915.1 2508170 59 Northern rufous mouse lemur Primates Microcebus tavaratra HLmicTav1 GCA_008750935.1 143351 60 slow loris Primates Nycticebus coucang HLnycCou1 GCA_004027815.1_NycCou_v1_BIUU 9470 61 small-eared galago Primates Otolemur garnettii Mar. 2011 (Broad/otoGar3) 30611 62 Sunda flying lemur Euarchontoglires Galeopterus variegatus HLgalVar2 GCA_004027255.2 482537 63 Chinese tree shrew Euarchontoglires Tupaia chinensis Jan 2013 (TupChi_1.0/tupChi1) 246437 64 northern tree shrew Euarchontoglires Tupaia belangeri Dec. 2006 (Broad/tupBel1) 37347 65 puma Carnivora Puma concolor HLpumCon1 GCA_003327715.1_PumCon1.0 9696 66 Amur tiger Carnivora Panthera tigris altaica 06 Sep 2013 (PanTig1.0/panTig1) 74533 67 Clouded leopard Carnivora Neofelis nebulosa DNA zoo Neofelis nebulosa 61452 68 leopard Carnivora Panthera pardus HLpanPar1 GCA_001857705.1_PanPar1.0 9691 69 bearded seal Carnivora Erignathus barbatus DNA zoo Erignathus barbatus 39304 70 jaguar Carnivora Panthera onca HLpanOnc1 GCA_004023805.1_PanOnc_v1_BIUU 9690 71 harbor seal Carnivora Phoca vitulina HLphoVit1 GCA_004348235.1 9720 72 cheetah Carnivora Acinonyx jubatus HLaciJub2 GCF_003709585.1_Aci_jub_2 32536 73 gray seal Carnivora Halichoerus grypus HLhalGry1 GCA_012393455.1 9711 74 Hawaiian monk seal Carnivora Neomonachus schauinslandi Jun. 2017 (ASM220157v1/neoSch1) 29088 75 Weddell seal Carnivora Leptonychotes weddellii Mar 2013 (LepWed1.0/lepWed1) 9713 76 jaguar Carnivora Panthera onca DNA zoo Panthera onca 9690 77 Amur leopard cat Carnivora Prionailurus bengalensis euptilurus HLpriBen1 GCA_005406085.1 300877 78 Asian black bear Carnivora Ursus thibetanus thibetanus HLursThi1 GCA_009660055.1 441215 79 Spanish lynx Carnivora Lynx pardinus HLlynPar1 GCA_900661375.1 191816 80 Southern elephant seal Carnivora Mirounga leonina HLmirLeo1 GCA_011800145.1 9715 81 Canada lynx Carnivora Lynx canadensis HLlynCan1 GCA_007474595.1 61383 82 Northern elephant seal Carnivora Mirounga angustirostris DNA zoo Mirounga angustirostris 9716 83 lion Carnivora Panthera leo HLpanLeo1 GCA_008795835.1 9689 84 walrus Carnivora Odobenus rosmarus DNA zoo Odobenus rosmarus 9707 85 northern fur seal Carnivora Callorhinus ursinus HLcalUrs1 GCA_003265705.1 34884 86 Pacific walrus Carnivora Odobenus rosmarus divergens Jan 2013 (Oros_1.0/odoRosDiv1) 9708 87 giant panda Carnivora Ailuropoda melanoleuca HLailMel2 GCA_002007445.2 9646 88 California sea lion Carnivora Zalophus californianus HLzalCal1 GCA_009762305.1_mZalCal1.pri 9704 89 Steller sea lion Carnivora Eumetopias jubatus HLeumJub1 GCA_004028035.1 34886 90 domestic cat Carnivora Felis catus Nov. 2017 (Felis_catus_9.0/felCat9) 9685 91 jaguarundi Carnivora Puma yagouaroundi HLpumYag1 GCA_014898765.1 1608482 92 grizzly bear Carnivora Ursus arctos horribilis HLursArc1 GCA_003584765.1 116960 93 polar bear Carnivora Ursus maritimus 09 May-2014 (UrsMar_1.0/ursMar1) 29073 94 antarctic fur seal Carnivora Arctocephalus gazella HLarcGaz2 GCA_900642305.1 37190 95 American black bear Carnivora Ursus americanus HLursAme1 GCA_003344425.1 9643 96 American black bear Carnivora Ursus americanus DNA zoo Ursus americanus 9643 97 black-footed cat Carnivora Felis nigripes HLfelNig1 GCA_004023925.1_FelNig_v1_BIUU 61379 98 fossa Carnivora Cryptoprocta ferox DNA zoo Cryptoprocta ferox 94188 99 red fox Carnivora Vulpes vulpes HLvulVul1 GCA_003160815.1 9627 100 dog Carnivora Canis lupus familiaris Mar. 2020 (UU_Cfam_GSD_1.0/canFam4) 9615 101 Arctic fox Carnivora Vulpes lagopus HLvulLag1 GCA_004023825.1_VulLag_v1_BIUU 494514 102 African hunting dog Carnivora Lycaon pictus DNA zoo Lycaon pictus 9622 103 dingo Carnivora Canis lupus dingo HLcanLupDin1 GCA_003254725.1 286419 104 dog Carnivora Canis lupus familiaris May 2019 (UMICH_Zoey_3.1/canFam5) 9615 105 kinkajou Carnivora Potos flavus DNA zoo Potos flavus 29067 106 African hunting dog Carnivora Lycaon pictus HLlycPic2 GCA_004216515.1 9622 107 lesser panda Carnivora Ailurus fulgens DNA zoo Ailurus fulgens 9649 108 spotted hyena Carnivora Crocuta crocuta HLcroCro1 GCA_008692635.1 9678 109 striped hyena Carnivora Hyaena hyaena HLhyaHya1 GCA_003009895.1 95912 110 Asian palm civet Carnivora Paradoxurus hermaphroditus HLparHer1 GCA_004024585.1_ParHer_v1_BIUU 71117 111 White-nosed coati Carnivora Nasua narica DNA zoo Nasua narica 352831 112 sable Carnivora Martes zibellina HLmarZib1 GCA_012583365.1 36722 113 wolverine Carnivora Gulo gulo HLgulGul1 GCA_900006375.2 48420 114 raccoon Carnivora Procyon lotor DNA zoo Procyon lotor 9654 115 Cacomistle Carnivora Bassariscus sumichrasti DNA zoo Bassariscus sumichrasti 392507 116 western spotted skunk Carnivora Spilogale gracilis HLspiGra1 GCA_004023965.1_SpiGra_v1_BIUU 30551 117 North American badger Carnivora Taxidea taxus jeffersonii HLtaxTax1 GCA_003697995.1 2282171 118 ratel Carnivora Mellivora capensis HLmelCap1 GCA_004024625.1_MelCap_v1_BIUU 9664 119 meerkat Carnivora Suricata suricatta HLsurSur2 GCA_004023905.1_SurSur_v1_BIUU 37032 120 meerkat Carnivora Suricata suricatta HLsurSur1 GCA_006229205.1 37032 121 banded mongoose Carnivora Mungos mungo HLmunMug1 GCA_004023785.1_MunMun_v1_BIUU 210652 122 dwarf mongoose Carnivora Helogale parvula HLhelPar1 GCA_004023845.1_HelPar_v1_BIUU 210647 123 Northern American river otter Carnivora Lontra canadensis HLlonCan1 GCA_010015895.1 76717 124 giant otter Carnivora Pteronura brasiliensis DNA zoo Pteronura brasiliensis 9672 125 giant otter Carnivora Pteronura brasiliensis HLpteBra1 GCA_004024605.1_PteBra_v1_BIUU 9672 126 Southern sea otter Carnivora Enhydra lutris nereis Jun. 2019 (ASM641071v1/enhLutNer1) 1049777 127 Northern sea otter Carnivora Enhydra lutris kenyoni Sep. 2017 (ASM228890v2/enhLutKen1) 391180 128 Eurasian river otter Carnivora Lutra lutra HLlutLut1 GCA_902655055.1 9657 129 ermine Carnivora Mustela erminea HLmusErm1 GCA_009829155.1 36723 130 American mink Carnivora Neovison vison HLneoVis1 GCA_900108605.1_NNQGG.v01 452646 131 European polecat Carnivora Mustela putorius HLmusPut1 GCA_902460205.1 9668 132 domestic ferret Carnivora Mustela putorius furo HLmusFur2 GCA_011764305.1 9669 133 Brazilian tapir Laurasiatheria Tapirus terrestris HLtapTer1 GCA_004025025.1_TapTer_v1_BIUU 9801 134 greater Indian rhinoceros Laurasiatheria Rhinoceros unicornis DNA zoo Rhinoceros unicornis 9809 135 Asiatic tapir Laurasiatheria Tapirus indicus HLtapInd1 GCA_004024905.1_TapInd_v1_BIUU 9802 136 Asiatic tapir Laurasiatheria Tapirus indicus DNA zoo Tapirus indicus 9802 137 black rhinoceros Laurasiatheria Diceros bicornis HLdicBic1 GCA_004027315.2 9805 138 Sumatran rhinoceros Laurasiatheria Dicerorhinus sumatrensis sumatrensis HLdicSum1 GCA_002844835.1_ASM284483v1 310712 139 northern white rhinoceros Laurasiatheria Ceratotherium simum cottoni HLcerSimCot1 GCA_004027795.1_CerCot_v1_BIUU 310713 140 southern white rhinoceros Laurasiatheria Ceratotherium simum simum May 2012 (CerSimSim1.0/cerSim1) 73337 141 Equus burchelli boehmi Laurasiatheria Equus burchellii boehmi DNA zoo Equus burchellii boehmi 89250 142 horse Laurasiatheria Equus caballus Jan. 2018 (EquCab3.0/equCab3) 9796 143 Przewalski&#39;s horse Laurasiatheria Equus przewalskii Jun 2014 (Burgud/equPrz1) 9798 144 ass Laurasiatheria Equus asinus HLequAsi1 GCA_001305755.1_ASM130575v1 9793 145 donkey Laurasiatheria Equus asinus asinus HLequAsiAsi2 GCA_003033725.1 83772 146 Tree pangolin Laurasiatheria Manis tricuspis HLmanTri1 GCA_004765945.1 358128 147 Tree pangolin Laurasiatheria Manis tricuspis DNA zoo Manis tricuspis 358128 148 Chinese pangolin Laurasiatheria Manis pentadactyla HLmanPen2 GCA_014570555.1 143292 149 Chinese pangolin Laurasiatheria Manis pentadactyla Aug 2014 (M_pentadactyla-1.1.1/manPen1) 143292 150 Malayan pangolin Laurasiatheria Manis javanica HLmanJav1 GCA_001685135.1_ManJav1.0 9974 151 Malayan pangolin Laurasiatheria Manis javanica HLmanJav2 GCA_014570535.1 9974 152 Hispaniolan solenodon Laurasiatheria Solenodon paradoxus HLsolPar1 GCA_004363575.1_SolPar_v1_BIUU 79805 153 eastern mole Laurasiatheria Scalopus aquaticus HLscaAqu1 GCA_004024925.1_ScaAqu_v1_BIUU 71119 154 Iberian mole Laurasiatheria Talpa occidentalis HLtalOcc1 GCA_014898055.1 50954 155 gracile shrew mole Laurasiatheria Uropsilus gracilis HLuroGra1 GCA_004024945.1_UroGra_v1_BIUU 182669 156 star-nosed mole Laurasiatheria Condylura cristata Mar 2012 (ConCri1.0/conCri1) 143302 157 western European hedgehog Laurasiatheria Erinaceus europaeus May 2012 (EriEur2.0/eriEur2) 9365 158 European shrew Laurasiatheria Sorex araneus Aug. 2008 (Broad/sorAra2) 42254 159 Antarctic minke whale Cetartiodactyla Balaenoptera bonaerensis HLbalBon1 GCA_000978805.1_ASM97880v1 33556 160 grey whale Cetartiodactyla Eschrichtius robustus HLescRob1 GCA_004363415.1_EscRob_v1_BIUU 9764 161 sperm whale Cetartiodactyla Physeter catodon Sep. 2013 (Physeter_macrocephalus-2.0.2/phyCat1) 9755 162 sperm whale Cetartiodactyla Physeter catodon HLphyCat2 GCA_002837175.2 9755 163 Yangtze River dolphin Cetartiodactyla Lipotes vexillifer 31 Jul 2013 (Lipotes_vexillifer_v1/lipVex1) 118797 164 beluga whale Cetartiodactyla Delphinapterus leucas HLdelLeu2 GCA_002288925.3 9749 165 hippopotamus Cetartiodactyla Hippopotamus amphibius HLhipAmp3 GCA_004027065.2 9833 166 hippopotamus Cetartiodactyla Hippopotamus amphibius HLhipAmp1 GCA_002995585.1_ASM299558v1 9833 167 harbor porpoise Cetartiodactyla Phocoena phocoena DNA zoo Phocoena phocoena 9742 168 harbor porpoise Cetartiodactyla Phocoena phocoena HLphoPho1 GCA_004363495.1_PhoPho_v1_BIUU 9742 169 Wild Bactrian camel Cetartiodactyla Camelus ferus HLcamFer3 GCA_009834535.1 419612 170 killer whale Cetartiodactyla Orcinus orca Jan. 2013 (Oorc_1.1/orcOrc1) 9733 171 Bactrian camel Cetartiodactyla Camelus bactrianus HLcamBac1 GCA_000767855.1_Ca_bactrianus_MBC_1.0 9837 172 Indo-pacific humpbacked dolphin Cetartiodactyla Sousa chinensis HLsouChi1 GCA_007760645.1 103600 173 Arabian camel Cetartiodactyla Camelus dromedarius HLcamDro2 GCA_000803125.3 9838 174 alpaca Cetartiodactyla Vicugna pacos Mar. 2013 (Vicugna_pacos-2.0.1/vicPac2) 30538 175 common bottlenose dolphin Cetartiodactyla Tursiops truncatus HLturTru4 GCA_011762595.1_mTurTru1.mat.Y 9739 176 Indo-pacific bottlenose dolphin Cetartiodactyla Tursiops aduncus HLturAdu1 GCA_003227395.1 79784 177 Indo-pacific bottlenose dolphin Cetartiodactyla Tursiops aduncus DNA zoo Tursiops aduncus 79784 178 common bottlenose dolphin Cetartiodactyla Tursiops truncatus Oct. 2011 (Baylor Ttru_1.4/turTru2) 9739 179 common bottlenose dolphin Cetartiodactyla Tursiops truncatus HLturTru3 GCA_001922835.1_NIST_Tur_tru_v1 9739 180 pig Cetartiodactyla Sus scrofa Feb. 2017 (Sscrofa11.1/susScr11) 9823 181 okapi Cetartiodactyla Okapia johnstoni DNA zoo Okapia johnstoni 86973 182 Masai giraffe Cetartiodactyla Giraffa tippelskirchi HLgirTip1 GCA_001651235.1_ASM165123v1 439328 183 water buffalo Cetartiodactyla Bubalus bubalis HLbubBub2 GCA_003121395.1 89462 184 zebu cattle Cetartiodactyla Bos indicus HLbosInd2 GCA_002933975.1 9915 185 cattle Cetartiodactyla Bos taurus Apr. 2018 (ARS-UCD1.2/bosTau9) 9913 186 wild yak Cetartiodactyla Bos mutus HLbosMut2 GCA_007646595.3 72004 187 greater kudu Cetartiodactyla Tragelaphus strepsiceros HLtraStr1 GCA_006410795.1 9946 188 aoudad Cetartiodactyla Ammotragus lervia HLammLer1 GCA_002201775.1_ALER1.0 9899 189 goat Cetartiodactyla Capra hircus HLcapHir2 GCA_001704415.1_ARS1 9925 190 wild goat Cetartiodactyla Capra aegagrus HLcapAeg1 GCA_000765075.1 9923 191 chiru Cetartiodactyla Pantholops hodgsonii May 2013 (PHO1.0/panHod1) 59538 192 white-tailed deer Cetartiodactyla Odocoileus virginianus HLodoVir3 GCA_014726795.1 9874 193 bighorn sheep Cetartiodactyla Ovis canadensis HLoviCan2 GCA_004026945.1_OviCan_v1_BIUU 37174 194 white-tailed deer Cetartiodactyla Odocoileus virginianus DNA zoo Odocoileus virginianus 9874 195 sheep Cetartiodactyla Ovis aries HLoviAri5 GCA_011170295.1 9940 196 Pere David&#39;s deer Cetartiodactyla Elaphurus davidianus HLelaDav1 GCA_002443075.1_Milu1.0 43332 197 argali Cetartiodactyla Ovis ammon HLoviAmm1 GCA_003121645.1 30527 198 North Atlantic right whale Artiodactyla Eubalaena glacialis DNA zoo Eubalaena glacialis 27606 199 North Pacific right whale Artiodactyla Eubalaena japonica HLeubJap1 GCA_004363455.1_EubJap_v1_BIUU 302098 200 minke whale Artiodactyla Balaenoptera acutorostrata scammoni Oct. 2013 (BalAcu1.0/balAcu1) 310752 201 humpback whale Artiodactyla Megaptera novaeangliae HLmegNov1 GCA_004329385.1 9773 202 Fin whale Artiodactyla Balaenoptera physalus HLbalPhy1 GCA_008795845.1 9770 203 bowhead whale Artiodactyla Balaena mysticetus HLbalMys1/http://alfred.liv.ac.uk/downloads/bowhead_whale/bowhead_whale_scaffolds.zip/none 27602 204 Blue whale Artiodactyla Balaenoptera musculus HLbalMus1 GCA_009873245.1 9771 205 pygmy Bryde&#39;s whale Artiodactyla Balaenoptera edeni DNA zoo Balaenoptera edeni 9769 206 Sowerby&#39;s beaked whale Artiodactyla Mesoplodon bidens HLmesBid1 GCA_004027085.1_MesBid_v1_BIUU 48745 207 Indus River dolphin Artiodactyla Platanista minor HLplaMin1 GCA_004363435.1_PlaMin_v1_BIUU 48752 208 Cuvier&#39;s beaked whale Artiodactyla Ziphius cavirostris HLzipCav1 GCA_004364475.1_ZipCav_v1_BIUU 9760 209 boutu Artiodactyla Inia geoffrensis HLlniGeo1 GCA_004363515.1_IniGeo_v1_BIUU 9725 210 narwhal Artiodactyla Monodon monoceros HLmonMon1 GCA_005190385.2 40151 211 Yangtze finless porpoise Artiodactyla Neophocaena asiaeorientalis asiaeorientalis HLneoAsi1 GCA_003031525.1_Neophocaena_asiaeorientalis_V1 1706337 212 pygmy sperm whale Artiodactyla Kogia breviceps HLkogBre1 GCA_004363705.1_KogBre_v1_BIUU 27615 213 vaquita Artiodactyla Phocoena sinus HLphoSin1 GCA_008692025.1 42100 214 franciscana Artiodactyla Pontoporia blainvillei HLponBla1 GCA_011754075.1 48723 215 Lama pacos huacaya Artiodactyla Vicugna pacos huacaya HLvicPacHua3 GCA_000767525.1_Vi_pacos_V1.0 273913 216 llama Artiodactyla Lama glama DNA zoo Lama glama 9844 217 melon-headed whale Artiodactyla Peponocephala electra DNA zoo Peponocephala electra 103596 218 long-finned pilot whale Artiodactyla Globicephala melas HLgloMel1 GCA_006547405.1 9731 219 Pacific white-sided dolphin Artiodactyla Lagenorhynchus obliquidens HLlagObl1 GCA_003676395.1 90247 220 Vicugna mensalis Artiodactyla Vicugna vicugna mensalis HLvicVicMen1 GCA_013265495.1 273917 221 guanaco Artiodactyla Lama guanicoe cacsilensis HLlamGuaCac1 GCA_013239625.1 273908 222 llama Artiodactyla Lama glama chaku HLlamGlaCha1 GCA_013239585.1 273914 223 Chacoan peccary Artiodactyla Catagonus wagneri HLcatWag1 GCA_004024745.2_CatWag_v2_BIUU_UCD 51154 224 giraffe Artiodactyla Giraffa camelopardalis HLgirCam1 GCA_006408565.1 9894 225 giraffe Artiodactyla Giraffa camelopardalis DNA zoo Giraffa camelopardalis 9894 226 African buffalo Artiodactyla Syncerus caffer HLsynCaf1 GCA_902500845.1 9970 227 Bos bison bison Artiodactyla Bison bison bison Oct. 2014 (Bison_UMD1.0/bisBis1) 43346 228 Chinese forest musk deer Artiodactyla Moschus berezovskii HLmosBer1 GCA_006459085.1 68408 229 Siberian musk deer Artiodactyla Moschus moschiferus HLmosMos1 GCA_004024705.2 68415 230 alpine musk deer Artiodactyla Moschus chrysogaster HLmosChr1 GCA_006461725.1 68412 231 Yarkand deer Artiodactyla Cervus hanglu yarkandensis HLcerHanYar1 GCA_010411085.1 84702 232 gaur Artiodactyla Bos gaurus HLbosGau1 GCA_014182915.1 9904 233 gayal Artiodactyla Bos frontalis HLbosFro1 GCA_007844835.1_NRC_Mithun_1 30520 234 white-lipped deer Artiodactyla Przewalskium albirostris HLprzAlb1 GCA_006408465.1 1088058 235 roan antelope Artiodactyla Hippotragus equinus HLhipEqu1 GCA_016433095.1 37186 236 Harvey&#39;s duiker Artiodactyla Cephalophus harveyi HLcepHar1 GCA_006410635.1 129224 237 sable antelope Artiodactyla Hippotragus niger niger HLhipNig1 GCA_006942125.1 82127 238 domestic yak Artiodactyla Bos grunniens HLbosGru1 GCA_005887515.2 30521 239 scimitar-horned oryx Artiodactyla Oryx dammah DNA zoo Oryx dammah 59534 240 bush duiker Artiodactyla Sylvicapra grimmia HLsylGri1 GCA_006408735.1 119562 241 Maxwell&#39;s duiker Artiodactyla Philantomba maxwellii HLphiMax1 GCA_006410695.1 907741 242 gemsbok Artiodactyla Oryx gazella HLoryGaz1 GCA_003945745.1 9958 243 pronghorn Artiodactyla Antilocapra americana HLantAme1 GCA_007570785.1 9891 244 Reeves&#39; muntjac Artiodactyla Muntiacus reevesi HLmunRee1 GCA_008787405.1 9886 245 black muntjac Artiodactyla Muntiacus crinifrons HLmunCri1 GCA_006408485.1 71854 246 Central European red deer Artiodactyla Cervus elaphus hippelaphus HLcerEla1 GCA_002197005.1 46360 247 lesser kudu Artiodactyla Tragelaphus imberbis HLtraImb1 GCA_006410775.1 9947 248 brindled gnu Artiodactyla Connochaetes taurinus DNA zoo Connochaetes taurinus 9927 249 bushbuck Artiodactyla Tragelaphus scriptus HLtraScr1 GCA_006410495.1 66440 250 waterbuck Artiodactyla Kobus ellipsiprymnus HLkobEll1 GCA_006410655.1 9962 251 muntjak Artiodactyla Muntiacus muntjak HLmunMun1 GCA_008782695.1 9888 252 topi Artiodactyla Damaliscus lunatus HLdamLun1 GCA_006408505.1 9929 253 bighorn sheep Artiodactyla Ovis canadensis canadensis HLoviCan1 GCA_001039535.1 112262 254 lechwe Artiodactyla Kobus leche leche HLkobLecLec1 GCA_014926565.1 91880 255 Eastern roe deer Artiodactyla Capreolus pygargus HLcapPyg1 GCA_012922965.1 48560 256 Eurasian elk Artiodactyla Alces alces HLalcAlc1 GCA_007570765.1 9852 257 Cobus hunteri Artiodactyla Beatragus hunteri HLbeaHun1 GCA_004027495.1_BeaHun_v1_BIUU 59527 258 impala Artiodactyla Aepyceros melampus HLaepMel1 GCA_006408695.1 9897 259 mule deer Artiodactyla Odocoileus hemionus hemionus HLodoHem1 GCA_004115125.1 9877 260 Bohar reedbuck Artiodactyla Redunca redunca HLredRed1 GCA_006410935.1 59556 261 Siberian ibex Artiodactyla Capra sibirica HLcapSib1 GCA_003182615.2 72544 262 porcupine caribou Artiodactyla Rangifer tarandus granti HLranTarGra2 GCA_014898785.1 191431 263 reindeer Artiodactyla Rangifer tarandus HLranTar1 GCA_004026565.1_RanTarSib_v1_BIUU 9870 264 klipspringer Artiodactyla Oreotragus oreotragus HLoreOre1 GCA_006410675.1 66444 265 Chinese water deer Artiodactyla Hydropotes inermis HLhydIne1 GCA_006459105.1 9883 266 snow sheep Artiodactyla Ovis nivicola lydekkeri HLoviNivLyd1 GCA_903231385.1 1867112 267 suni Artiodactyla Neotragus moschatus HLneoMos1 GCA_006410615.1 66442 268 white-tailed deer Artiodactyla Odocoileus virginianus texanus HLodoVir1 GCA_002102435.1_Ovir.te_1.0 9880 269 Nilgiri tahr Artiodactyla Hemitragus hylocrius HLhemHyl1 GCA_004026825.1_HemHyl_v1_BIUU 330464 270 Asiatic mouflon Artiodactyla Ovis orientalis HLoviOri1 GCA_014523465.1 469796 271 royal antelope Artiodactyla Neotragus pygmaeus HLneoPyg1 GCA_006410875.1 1027985 272 Grant&#39;s gazelle Artiodactyla Nanger granti HLnanGra1 GCA_006408635.1 27591 273 Przewalski&#39;s gazelle Artiodactyla Procapra przewalskii HLproPrz1 GCA_006410515.1 157668 274 steenbok Artiodactyla Raphicerus campestris HLrapCam1 GCA_006410735.1 59544 275 Thomson&#39;s gazelle Artiodactyla Eudorcas thomsonii HLeudTho1 GCA_006408755.1 69308 276 springbok Artiodactyla Antidorcas marsupialis HLantMar1 GCA_006408585.1 59523 277 gerenuk Artiodactyla Litocranius walleri HLlitWal1 GCA_006410535.1 69311 278 Kirk&#39;s dik-dik Artiodactyla Madoqua kirkii HLmadKir1 GCA_006408675.1 66434 279 Hog deer Artiodactyla Axis porcinus HLaxiPor1 GCA_003798545.1 57737 280 Java mouse-deer Artiodactyla Tragulus javanicus HLtraJav1 GCA_004024965.2 9849 281 lesser mouse-deer Artiodactyla Tragulus kanchil HLtraKan1 GCA_006408655.1 1088131 282 mountain goat Artiodactyla Oreamnos americanus HLoreAme1 GCA_009758055.1 34873 283 saiga antelope Artiodactyla Saiga tatarica HLsaiTat1 GCA_004024985.1_SaiTat_v1_BIUU 34875 284 Alpine ibex Artiodactyla Capra ibex HLcapIbe1 GCA_006410555.1 72542 285 Hoffmann&#39;s two-fingered sloth Xenarthra Choloepus hoffmanni DNA zoo Choloepus hoffmanni 9358 286 southern two-toed sloth Xenarthra Choloepus didactylus HLchoDid2 GCF_015220235.1_mChoDid1.pri 27675 287 southern two-toed sloth Xenarthra Choloepus didactylus HLchoDid1 GCA_004027855.1_ChoDid_v1_BIUU 27675 288 nine-banded armadillo Xenarthra Dasypus novemcinctus Dec. 2011 (Baylor/dasNov3) 9361 289 giant anteater Xenarthra Myrmecophaga tridactyla HLmyrTri1 GCA_004026745.1_MyrTri_v1_BIUU 71006 290 southern tamandua Xenarthra Tamandua tetradactyla HLtamTet1 GCA_004025105.1_TamTet_v1_BIUU 48850 291 Southern three-banded armadillo Xenarthra Tolypeutes matacus HLtolMat1 GCA_004025125.1_TolMat_v1_BIUU 183749 292 Chinese rufous horseshoe bat Chiroptera Rhinolophus sinicus HLrhiSin1 GCA_001888835.1_ASM188883v1 89399 293 great roundleaf bat Chiroptera Hipposideros armiger HLhipArm1 GCA_001890085.1_ASM189008v1 186990 294 black flying fox Chiroptera Pteropus alecto Aug 2012 (ASM32557v1/pteAle1) 9402 295 greater horseshoe bat Chiroptera Rhinolophus ferrumequinum HLrhiFer5/Bat1K published/none 59479 296 Bonin flying fox Chiroptera Pteropus pselaphon HLptePse1 GCA_014363405.1 1496133 297 Brazilian free-tailed bat Chiroptera Tadarida brasiliensis HLtadBra1 GCA_004025005.1_TadBra_v1_BIUU 9438 298 large flying fox Chiroptera Pteropus vampyrus HLpteVam2 GCA_000151845.2 132908 299 Malagasy flying fox Chiroptera Pteropus rufus DNA zoo Pteropus rufus 196297 300 Indian flying fox Chiroptera Pteropus giganteus HLpteGig1 GCA_902729225.1 143291 301 Malagasy straw-colored fruit bat Chiroptera Eidolon dupreanum DNA zoo Eidolon dupreanum 58063 302 straw-colored fruit bat Chiroptera Eidolon helvum HLeidHel2/DNAZoo/none 77214 303 Cantor&#39;s roundleaf bat Chiroptera Hipposideros galeritus HLhipGal1 GCA_004027415.1_HipGal_v1_BIUU 58069 304 lesser short-nosed fruit bat Chiroptera Cynopterus brachyotis HLcynBra1 GCA_009793145.1 58060 305 lesser dawn bat Chiroptera Eonycteris spelaea HLeonSpe1 GCA_003508835.1 58065 306 Leschenault&#39;s rousette Chiroptera Rousettus leschenaultii HLrouLes1 GCA_015472975.1 9408 307 Egyptian rousette Chiroptera Rousettus aegyptiacus HLrouAeg4/Bat1K published/none 9407 308 Madagascan rousette Chiroptera Rousettus madagascariensis DNA zoo Rousettus madagascariensis 77223 309 Indian false vampire Chiroptera Megaderma lyra HLmegLyr2 GCA_004026885.1_MegLyr_v1_BIUU 9413 310 Pallas&#39;s mastiff bat Chiroptera Molossus molossus HLmolMol2/Bat1K published/none 27622 311 long-tongued fruit bat Chiroptera Macroglossus sobrinus HLmacSob1 GCA_004027375.1_MacSob_v1_BIUU 326083 312 Schreibers&#39; long-fingered bat Chiroptera Miniopterus schreibersii HLminSch1 GCA_004026525.1_MinSch_v1_BIUU 9433 313 Miniopterus schreibersii natalensis Chiroptera Miniopterus natalensis HLminNat1 GCA_001595765.1 291302 314 hog-nosed bat Chiroptera Craseonycteris thonglongyai HLcraTho1 GCA_004027555.1_CraTho_v1_BIUU 208972 315 Antillean ghost-faced bat Chiroptera Mormoops blainvillei HLmorBla1 GCA_004026545.1_MorMeg_v1_BIUU 118852 316 Parnell&#39;s mustached bat Chiroptera Pteronotus parnellii Sep. 2013 (ASM46540v1/ptePar1) 59476 317 big brown bat Chiroptera Eptesicus fuscus Jul 2012 (EptFus1.0/eptFus1) 29078 318 greater mouse-eared bat Chiroptera Myotis myotis HLmyoMyo6/Bat1K published/none 51298 319 Brandt&#39;s bat Chiroptera Myotis brandtii 28 Jun 2013 (ASM41265v1/myoBra1) 109478 320 common vampire bat Chiroptera Desmodus rotundus HLdesRot2 9430 321 California big-eared bat Chiroptera Macrotus californicus HLmacCal1 GCA_007922815.1 9419 322 Northern long-eared myotis Chiroptera Myotis septentrionalis DNA zoo Myotis septentrionalis 258941 323 little brown bat Chiroptera Myotis lucifugus DNA zoo Myotis lucifugus 59463 324 little brown bat Chiroptera Myotis lucifugus Jul. 2010 (Broad Institute Myoluc2.0/myoLuc2) 59463 325 Lesser long-nosed bat Chiroptera Leptonycteris yerbabuenae HLlepYer1/GIGADB/none 700936 326 Vespertilio Davidii Chiroptera Myotis davidii Aug 2012 (ASM32734v1/myoDav1) 225400 327 Schizostoma hirsutum Chiroptera Micronycteris hirsuta HLmicHir1 GCA_004026765.1_MicHir_v1_BIUU 148065 328 tailed tailless bat Chiroptera Anoura caudifer HLanoCau1 GCA_004027475.1_AnoCau_v1_BIUU 27642 329 Murina feae Chiroptera Murina aurata feae HLmurAurFea1 GCA_004026665.1_MurFea_v1_BIUU 1453894 330 greater bulldog bat Chiroptera Noctilio leporinus HLnocLep1 GCA_004026585.1_NocLep_v1_BIUU 94963 331 Seba&#39;s short-tailed bat Chiroptera Carollia perspicillata HLcarPer3 GCA_004027735.1_CarPer_v1_BIUU 40233 332 pale spear-nosed bat Chiroptera Phyllostomus discolor HLphyDis3/Bat1K published/none 89673 333 stripe-headed round-eared bat Chiroptera Tonatia saurophila HLtonSau1 GCA_004024845.1_TonSau_v1_BIUU 171122 334 Jamaican fruit-eating bat Chiroptera Artibeus jamaicensis HLartJam1 GCA_004027435.1_ArtJam_v1_BIUU 9417 335 Jamaican fruit-eating bat Chiroptera Artibeus jamaicensis HLartJam2 GCA_014825515.1 9417 336 Honduran yellow-shouldered bat Chiroptera Sturnira hondurensis HLstuHon1 GCA_014824575.1 192404 337 hoary bat Chiroptera Aeorestes cinereus HLaeoCin1 GCA_011751065.1 257879 338 pallid bat Chiroptera Antrozous pallidus HLantPal1 GCA_007922775.1 9440 339 evening bat Chiroptera Nycticeius humeralis HLnycHum2 GCA_007922795.1 27670 340 red bat Chiroptera Lasiurus borealis HLlasBor1 GCA_004026805.1_LasBor_v1_BIUU 258930 341 Kuhl&#39;s pipistrelle Chiroptera Pipistrellus kuhlii HLpipKuh2/Bat1K published/none 59472 342 common pipistrelle Chiroptera Pipistrellus pipistrellus HLpipPip1 GCA_004026625.1_PipPip_v1_BIUU 59474 343 common pipistrelle Chiroptera Pipistrellus pipistrellus HLpipPip2 GCA_903992545.1 59474 344 gray squirrel Glires Sciurus carolinensis HLsciCar1 GCA_902686445.1 30640 345 Eurasian red squirrel Glires Sciurus vulgaris HLsciVul1 GCA_902686455.1_mSciVul1.1 55149 346 South African ground squirrel Glires Xerus inauris HLxerIna1 GCA_004024805.1_XerIna_v1_BIUU 234690 347 mountain beaver Glires Aplodontia rufa HLaplRuf1 GCA_004027875.1_AplRuf_v1_BIUU 51342 348 yellow-bellied marmot Glires Marmota flaviventris HLmarFla1 GCA_003676075.2 93162 349 Alpine marmot Glires Marmota marmota marmota HLmarMar1 GCF_001458135.1_marMar2.1 9994 350 Vancouver Island marmot Glires Marmota vancouverensis HLmarVan1 GCA_005458795.1 93167 351 Himalayan marmot Glires Marmota himalayana HLmarHim1 GCA_005280165.1 93163 352 Daurian ground squirrel Glires Spermophilus dauricus HLspeDau1 GCA_002406435.1_ASM240643v1 99837 353 woodchuck Glires Marmota monax HLmarMon1 GCA_901343595.1_MONAX5 9995 354 woodchuck Glires Marmota monax HLmarMon2 GCA_014533835.1 9995 355 Arctic ground squirrel Glires Urocitellus parryii HLuroPar1 GCA_003426925.1 9999 356 Gunnison&#39;s prairie dog Glires Cynomys gunnisoni HLcynGun1 GCA_011316645.1 45479 357 thirteen-lined ground squirrel Glires Ictidomys tridecemlineatus Nov. 2011 (Broad/speTri2) 43179 358 Fat dormouse Glires Glis glis HLgliGli1 GCA_004027185.1_GliGli_v1_BIUU 41261 359 springhare Glires Pedetes capensis HLpedCap1 GCA_007922755.1 10023 360 American beaver Glires Castor canadensis DNA zoo Castor canadensis 51338 361 woodland dormouse Glires Graphiurus murinus HLgraMur1 GCA_004027655.1_GraMur_v1_BIUU 51346 362 Mountain hare Glires Lepus timidus HLlepTim1 GCA_009760805.1 62621 363 snowshoe hare Glires Lepus americanus HLlepAme1 GCA_004026855.1_LepAme_v1_BIUU 48086 364 European rabbit Glires Oryctolagus cuniculus cuniculus HLoryCunCun4 GCA_013371645.1 568996 365 rabbit Glires Oryctolagus cuniculus Apr. 2009 (Broad/oryCun2) 9986 366 rabbit Glires Oryctolagus cuniculus HLoryCun3 GCA_009806435.1 9986 367 brush rabbit Glires Sylvilagus bachmani DNA zoo Sylvilagus bachmani 365149 368 crested porcupine Glires Hystrix cristata HLhysCri1 GCA_004026905.1_HysCri_v1_BIUU 10137 369 North American porcupine Glires Erethizon dorsatum HLereDor1 GCA_006547115.1 34844 370 Brazilian porcupine Glires Coendou prehensilis DNA zoo Coendou prehensilis 187985 371 hazel dormouse Glires Muscardinus avellanarius HLmusAve1 GCA_004027005.1_MusAve_v1_BIUU 39082 372 naked mole-rat Glires Heterocephalus glaber Jan. 2012 (Broad HetGla_female_1.0/hetGla2) 10181 373 Damara mole-rat Glires Fukomys damarensis HLfukDam2 GCA_012274545.1 885580 374 Upper Galilee mountains blind mole rat Glires Nannospalax galili Jun 2014 (S.galili_v1.0/nanGal1) 1026970 375 long-tailed chinchilla Glires Chinchilla lanigera May 2012 (ChiLan1.0/chiLan1) 34839 376 punctate agouti Glires Dasyprocta punctata HLdasPun1 GCA_004363535.1_DasPun_v1_BIUU 34846 377 northern gundi Glires Ctenodactylus gundi HLcteGun1 GCA_004027205.1_CteGun_v1_BIUU 10166 378 Gobi jerboa Glires Allactaga bullata HLallBul1 GCA_004027895.1_AllBul_v1_BIUU 1041416 379 Stephens&#39;s kangaroo rat Glires Dipodomys stephensi HLdipSte1 GCA_004024685.1_DipSte_v1_BIUU 323379 380 Ord&#39;s kangaroo rat Glires Dipodomys ordii Dec. 2014 (Dord_2.0/dipOrd2) 10020 381 hoary bamboo rat Glires Rhizomys pruinosus HLrhiPru1 GCA_009823505.1 53275 382 pacarana Glires Dinomys branickii HLdinBra1 GCA_004027595.1_DinBra_v1_BIUU 108858 383 lesser Egyptian jerboa Glires Jaculus jaculus May 2012 (JacJac1.0/jacJac1) 51337 384 meadow jumping mouse Glires Zapus hudsonius HLzapHud1 GCA_004024765.1_ZapHud_v1_BIUU 160400 385 Patagonian cavy Glires Dolichotis patagonum HLdolPat1 GCA_004027295.1_DolPat_v1_BIUU 29091 386 Pacific pocket mouse Glires Perognathus longimembris pacificus HLperLonPac1 GCA_004363475.1_PerLonPac_v1_BIUU 214514 387 capybara Glires Hydrochoerus hydrochaeris HLhydHyd1 GCA_004027455.1_HydHyd_v1_BIUU 10149 388 American pika Glires Ochotona princeps May 2012 (OchPri3.0/ochPri3) 9978 389 Brazilian guinea pig Glires Cavia aperea Jan. 2014 (CavAp1.0/cavApe1) 37548 390 dassie-rat Glires Petromus typicus HLpetTyp1 GCA_004026965.1_PetTyp_v1_BIUU 10183 391 Montane guinea pig Glires Cavia tschudii HLcavTsc1 GCA_004027695.1_CavTsc_v1_BIUU 143287 392 domestic guinea pig Glires Cavia porcellus Feb. 2008 (Broad/cavPor3) 10141 393 Greater cane rat Glires Thryonomys swinderianus HLthrSwi1 GCA_004025085.1_ThrSwi_v1_BIUU 10169 394 degu Glires Octodon degus Apr 2012 (OctDeg1.0/octDeg1) 10160 395 Gambian giant pouched rat Glires Cricetomys gambianus HLcriGam1 GCA_004027575.1_CriGam_v1_BIUU 10085 396 desert woodrat Glires Neotoma lepida HLneoLep1 GCA_001675575.1 56216 397 social tuco-tuco Glires Ctenomys sociabilis HLcteSoc1 GCA_004027165.1_CteSoc_v1_BIUU 43321 398 nutria Glires Myocastor coypus HLmyoCoy1 GCA_004027025.1_MyoCoy_v1_BIUU 10157 399 northern rock mouse Glires Peromyscus nasutus DNA zoo Peromyscus nasutus 97212 400 Chinese hamster Glires Cricetulus griseus HLcriGri3 GCA_003668045.1 10029 401 Hesperomys crinitus Glires Peromyscus crinitus DNA zoo Peromyscus crinitus 144753 402 muskrat Glires Ondatra zibethicus HLondZib1 GCA_004026605.1_OndZib_v1_BIUU 10060 403 Peromyscus californicus subsp. insignis Glires Peromyscus californicus insignis HLperCal2 GCA_007827085.2 564181 404 cactus mouse Glires Peromyscus eremicus HLperEre1 GCA_902702925.1 42410 405 southern grasshopper mouse Glires Onychomys torridus HLonyTor1 GCA_903995425.1 38674 406 golden hamster Glires Mesocricetus auratus Mar 2013 (MesAur1.0/mesAur1) 10036 407 white-footed mouse Glires Peromyscus leucopus HLperLeu1 GCA_004664715.1 10041 408 Northern mole vole Glires Ellobius talpinus HLellTal1 GCA_001685095.1_ETalpinus_0.1 329620 409 oldfield mouse Glires Peromyscus polionotus subgriseus HLperPol1 GCA_003704135.2 369710 410 prairie deer mouse Glires Peromyscus maniculatus bairdii HLperManBai2 GCA_003704035.1 230844 411 hispid cotton rat Glires Sigmodon hispidus HLsigHis1 GCA_004025045.1_SigHis_v1_BIUU 42415 412 Transcaucasian mole vole Glires Ellobius lutescens HLellLut1 GCA_001685075.1_ASM168507v1 39086 413 Bank vole Glires Myodes glareolus HLmyoGla2 GCA_902806735.1 447135 414 Eurasian water vole Glires Arvicola amphibius HLarvAmp1 GCA_903992535.1 1047088 415 fat sand rat Glires Psammomys obesus HLpsaObe1 GCA_002215935.2 48139 416 golden spiny mouse Glires Acomys russatus HLacoRus1 GCA_903995435.1 60746 417 African woodland thicket rat Glires Grammomys surdaster HLgraSur1 GCA_004785775.1 491861 418 African grass rat Glires Arvicanthis niloticus HLarvNil1 GCA_011762505.1_mArvNil1.pat.X 61156 419 root vole Glires Microtus oeconomus HLmicOec1 GCA_007455595.1 64717 420 short-tailed field vole Glires Microtus agrestis HLmicAgr2 GCA_902806775.1 29092 421 reed vole Glires Microtus fortis HLmicFor1 GCA_014885135.1 100897 422 Egyptian spiny mouse Glires Acomys cahirinus HLacoCah1 GCA_004027535.1_AcoCah_v1_BIUU 10068 423 Common vole Glires Microtus arvalis HLmicArv1 GCA_007455615.1 47230 424 prairie vole Glires Microtus ochrogaster Oct. 2012 (MicOch1.0/micOch1) 79684 425 great gerbil Glires Rhombomys opimus HLrhoOpi1 GCA_010120015.1 186474 426 southern multimammate mouse Glires Mastomys coucha HLmasCou1 GCA_008632895.1 35658 427 Mongolian gerbil Glires Meriones unguiculatus HLmerUng1 GCA_002204375.1 10047 428 black rat Glires Rattus rattus HLratRat7 GCA_011064425.1 10117 429 Norway rat Glires Rattus norvegicus HLratNor7 GCA_015227675.1 10116 430 Norway rat Glires Rattus norvegicus Jul. 2014 (RGSC 6.0/rn6) 10116 431 shrew mouse Glires Mus pahari HLmusPah1 GCA_900095145.2 10093 432 Ryukyu mouse Glires Mus caroli HLmusCar1 GCA_900094665.2_CAROLI_EIJ_v1.1 10089 433 steppe mouse Glires Mus spicilegus HLmusSpi1 GCA_003336285.1 10103 434 house mouse Glires Mus musculus Jun. 2020 (GRCm39/mm39) 10090 435 house mouse Glires Mus musculus Dec. 2011 (GRCm38/mm10) 10090 436 western wild mouse Glires Mus spretus HLmusSpr1 GCA_001624865.1_SPRET_EiJ_v1 10096 437 European woodmouse Glires Apodemus sylvaticus HLapoSyl1 GCA_001305905.1 10129 438 dugong Afrotheria Dugong dugon HLdugDug1 GCA_015147995.1 29137 439 Florida manatee Afrotheria Trichechus manatus latirostris Oct. 2011 (Broad v1.0/triMan1) 127582 440 Asiatic elephant Afrotheria Elephas maximus DNA zoo Elephas maximus 9783 441 African savanna elephant Afrotheria Loxodonta africana HLloxAfr4/ftp://ftp.broadinstitute.org/pub/assemblies/mammals/elephant/loxAfr4//none 9785 442 aardvark Afrotheria Orycteropus afer afer May 2012 (OryAfe1.0/oryAfe1) 1230840 443 Steller&#39;s sea cow Afrotheria Hydrodamalis gigas HLhydGig1 GCA_013391785.1 63631 444 Cape golden mole Afrotheria Chrysochloris asiatica Aug 2012 (ChrAsi1.0/chrAsi1) 185453 445 yellow-spotted hyrax Afrotheria Heterohyrax brucei HLhetBru1 GCA_004026845.1_HetBruBak_v1_BIUU 77598 446 Cape rock hyrax Afrotheria Procavia capensis HLproCap3 GCA_004026925.2 9813 447 Cape elephant shrew Afrotheria Elephantulus edwardii Aug 2012 (EleEdw1.0/eleEdw1) 28737 448 small Madagascar hedgehog Afrotheria Echinops telfairi Nov. 2012 (Broad/echTel2) 9371 449 Talazac&#39;s shrew tenrec Afrotheria Microgale talazaci HLmicTal1 GCA_004026705.1_MicTal_v1_BIUU 176115 450 common wombat Metatheria Vombatus ursinus HLvomUrs1 GCA_900497805.2 29139 451 koala Metatheria Phascolarctos cinereus HLphaCin1 GCA_002099425.1 38626 452 Agile Gracile Mouse Opossum Metatheria Gracilinanus agilis HLgraAgi1 GCA_016433145.1 191870 453 common brushtail Metatheria Trichosurus vulpecula HLtriVul1 GCA_011100635.1_mTriVul1.pri 9337 454 North American opossum Metatheria Didelphis virginiana DNA zoo Didelphis virginiana 9267 455 ground cuscus Metatheria Phalanger gymnotis DNA zoo Phalanger gymnotis 65615 456 gray short-tailed opossum Metatheria Monodelphis domestica Oct. 2006 (Broad/monDom5) 13616 457 Leadbeater&#39;s possum Metatheria Gymnobelideus leadbeateri HLgymLea1 GCA_011680675.1 38618 458 Tasmanian wolf Metatheria Thylacinus cynocephalus HLthyCyn1 GCA_007646695.1 9275 459 coppery ringtail possum Metatheria Pseudochirops cupreus DNA zoo Pseudochirops cupreus 37702 460 eastern gray kangaroo Metatheria Macropus giganteus DNA zoo Macropus giganteus 9317 461 golden ringtail possum Metatheria Pseudochirops corinnae DNA zoo Pseudochirops corinnae 65629 462 western gray kangaroo Metatheria Macropus fuliginosus DNA zoo Macropus fuliginosus 9316 463 tammar wallaby Metatheria Macropus eugenii DNA zoo Macropus eugenii 9315 464 red kangaroo Metatheria Osphranter rufus DNA zoo Osphranter rufus 9321 465 Western ringtail oppossum Metatheria Pseudocheirus occidentalis DNA zoo Pseudocheirus occidentalis 656515 466 tammar wallaby Metatheria Macropus eugenii Sep. 2009 (TWGS Meug_1.1/macEug2) 9315 467 yellow-footed antechinus Metatheria Antechinus flavipes HLantFla1 GCA_016432865.1_AdamAnt 38775 468 Tasmanian devil Metatheria Sarcophilus harrisii HLsarHar2 GCA_902635505.1 9305 469 platypus Monotremata Ornithorhynchus anatinus HLornAna3 GCA_004115215.1 9258 470 Australian echidna Monotremata Tachyglossus aculeatus HLtacAcu1 GCA_015852505.1 9261 Table 1. Genome assemblies included in the 470-way Conservation track. Data Access Downloads for data in this track are available: Multiz alignments (bigMaf and MAF format), and phylogenetic trees PhyloP conservation (bigWig and WIG format) PhastCons conservation (bigWig and WIG format) Display Conventions and Configuration In full and pack display modes, conservation scores are displayed as a wiggle track (histogram) in which the height reflects the size of the score. The conservation wiggles can be configured in a variety of ways to highlight different aspects of the displayed information. Click the Graph configuration help link for an explanation of the configuration options. Pairwise alignments of each species to the human genome are displayed below the conservation histogram as a grayscale density plot (in pack mode) or as a wiggle (in full mode) that indicates alignment quality. In dense display mode, conservation is shown in grayscale using darker values to indicate higher levels of overall conservation as scored by phastCons. Checkboxes on the track configuration page allow selection of the species to include in the pairwise display. The names of selected species are colored according to their clade, alternating between blue and green. Note that excluding species from the pairwise display does not alter the the conservation score display. To view detailed information about the alignments at a specific position, zoom the display in to 30,000 or fewer bases, then click on the alignment. Gap Annotation The Display chains between alignments configuration option enables display of gaps between alignment blocks in the pairwise alignments in a manner similar to the Chain track display. Missing sequence in any assembly is highlighted in the track display by regions of yellow when zoomed out and by Ns when displayed at base level. The following conventions are used: Single line: No bases in the aligned species. Possibly due to a lineage-specific insertion between the aligned blocks in the human genome or a lineage-specific deletion between the aligned blocks in the aligning species. Double line: Aligning species has one or more unalignable bases in the gap region. Possibly due to excessive evolutionary distance between species or independent indels in the region between the aligned blocks in both species. Pale yellow coloring: Aligning species has Ns in the gap region. Reflects uncertainty in the relationship between the DNA of both species, due to lack of sequence in relevant portions of the aligning species. Genomic Breaks Discontinuities in the genomic context (chromosome, scaffold or region) of the aligned DNA in the aligning species are shown as follows: Vertical blue bar: Represents a discontinuity that persists indefinitely on either side, e.g. a large region of DNA on either side of the bar comes from a different chromosome in the aligned species due to a large scale rearrangement. Green square brackets: Enclose shorter alignments consisting of DNA from one genomic context in the aligned species nested inside a larger chain of alignments from a different genomic context. The alignment within the brackets may represent a short misalignment, a lineage-specific insertion of a transposon in the human genome that aligns to a paralogous copy somewhere else in the aligned species, or other similar occurrence. Base Level When zoomed-in to the base-level display, the track shows the base composition of each alignment. The numbers and symbols on the Gaps line indicate the lengths of gaps in the human sequence at those alignment positions relative to the longest non-human sequence. If there is sufficient space in the display, the size of the gap is shown. If the space is insufficient and the gap size is a multiple of 3, a &quot;*&quot; is displayed; other gap sizes are indicated by &quot;+&quot;. Codon translation is available in base-level display mode if the displayed region is identified as a coding segment. To display this annotation, select the species for translation from the pull-down menu in the Codon Translation configuration section at the top of the page. Then, select one of the following modes: No codon translation: The gene annotation is not used; the bases are displayed without translation. Use default species reading frames for translation: The annotations from the genome displayed in the Default species to establish reading frame pull-down menu are used to translate all the aligned species present in the alignment. Use reading frames for species if available, otherwise no translation: Codon translation is performed only for those species where the region is annotated as protein coding. Use reading frames for species if available, otherwise use default species: Codon translation is done on those species that are annotated as being protein coding over the aligned region using species-specific annotation; the remaining species are translated using the default species annotation. Codon translation uses the following gene tracks as the basis for translation: Gene TrackSpecies RefSeq Genesaardvark, American pika, Amur tiger, Angolan colobus, big brown bat, black flying fox, black snub-nosed monkey, Bolivian squirrel monkey, Brandt's bat, Cape elephant shrew, Cape golden mole, cattle, chimpanzee, Chinese tree shrew, Coquerel's sifaka, degu, dog, domestic cat, domestic guinea pig, drill, European shrew, Florida manatee, golden hamster, gray mouse lemur, green monkey, Hawaiian monk seal, horse, house mouse, house mouse, human, killer whale, lesser Egyptian jerboa, little brown bat, long-tailed chinchilla, Ma's night monkey, minke whale, naked mole-rat, nine-banded armadillo, Northern sea otter, Norway rat, Ord's kangaroo rat, Pacific walrus, Panamanian white-faced capuchin, Philippine tarsier, pig, pig-tailed macaque, polar bear, prairie vole, Przewalski's horse, pygmy chimpanzee, rabbit, Rhesus monkey, small Madagascar hedgehog, small-eared galago, sooty mangabey, southern white rhinoceros, star-nosed mole, Sumatran orangutan, thirteen-lined ground squirrel, Upper Galilee mountains blind mole rat, Vespertilio Davidii, Weddell seal, western European hedgehog, western lowland gorilla, Yangtze River dolphin Ensembl GenesBos bison bison, Brazilian guinea pig, dog, gray short-tailed opossum, northern tree shrew Xeno RefGenealpaca, black lemur, Chinese pangolin, common bottlenose dolphin, proboscis monkey, Sclater's lemur, Southern sea otter, tammar wallaby no annotationAfrican buffalo, African grass rat, African hunting dog, African hunting dog, African savanna elephant, African woodland thicket rat, Agile Gracile Mouse Opossum, Allen's swamp monkey, Alpine ibex, Alpine marmot, alpine musk deer, American beaver, American black bear, American black bear, American mink, Amur leopard cat, antarctic fur seal, Antarctic minke whale, Antillean ghost-faced bat, aoudad, Arabian camel, Arctic fox, Arctic ground squirrel, argali, Asian black bear, Asian palm civet, Asiatic elephant, Asiatic mouflon, Asiatic tapir, Asiatic tapir, ass, Australian echidna, aye-aye, babakoto, Bactrian camel, banded mongoose, Bank vole, bearded seal, beluga whale, bighorn sheep, bighorn sheep, black muntjac, black rat, black rhinoceros, black-footed cat, black-handed spider monkey, Blue whale, Bohar reedbuck, Bolivian squirrel monkey, Bolivian titi, Bonin flying fox, boutu, bowhead whale, Brazilian free-tailed bat, Brazilian porcupine, Brazilian tapir, brindled gnu, brown lemur, brush rabbit, bush duiker, bushbuck, Cacomistle, cactus mouse, California big-eared bat, California sea lion, Canada lynx, Cantor's roundleaf bat, Cape rock hyrax, capybara, Central European red deer, Chacoan peccary, cheetah, Chinese forest musk deer, Chinese hamster, Chinese pangolin, Chinese rufous horseshoe bat, Chinese water deer, chiru, Clouded leopard, Cobus hunteri, common bottlenose dolphin, common bottlenose dolphin, common brushtail, common pipistrelle, common pipistrelle, common vampire bat, Common vole, common wombat, coppery ringtail possum, Coquerel's mouse lemur, crab-eating macaque, crested porcupine, Cuvier's beaked whale, Damara mole-rat, dassie-rat, Daurian ground squirrel, De Brazza's monkey, desert woodrat, dingo, domestic ferret, domestic yak, donkey, dugong, dwarf mongoose, eastern gray kangaroo, eastern mole, Eastern roe deer, Egyptian rousette, Egyptian spiny mouse, Equus burchelli boehmi, ermine, Eurasian elk, Eurasian red squirrel, Eurasian river otter, Eurasian water vole, European polecat, European rabbit, European woodmouse, evening bat, Fat dormouse, fat sand rat, Fin whale, fossa, franciscana, Francois's langur, Gambian giant pouched rat, gaur, gayal, gelada, gemsbok, gerenuk, giant anteater, giant otter, giant otter, giant panda, giraffe, giraffe, goat, Gobi jerboa, golden ringtail possum, golden snub-nosed monkey, golden spiny mouse, gracile shrew mole, Grant's gazelle, gray seal, gray squirrel, great gerbil, great roundleaf bat, greater bamboo lemur, greater bulldog bat, Greater cane rat, greater horseshoe bat, greater Indian rhinoceros, greater kudu, greater mouse-eared bat, grey whale, grizzly bear, ground cuscus, guanaco, Gunnison's prairie dog, Hanuman langur, harbor porpoise, harbor porpoise, harbor seal, Harvey's duiker, hazel dormouse, Hesperomys crinitus, Himalayan marmot, hippopotamus, hippopotamus, Hispaniolan solenodon, hispid cotton rat, hoary bamboo rat, hoary bat, Hoffmann's two-fingered sloth, Hog deer, hog-nosed bat, Honduran yellow-shouldered bat, humpback whale, Iberian mole, impala, Indian false vampire, Indian flying fox, Indo-pacific bottlenose dolphin, Indo-pacific bottlenose dolphin, Indo-pacific humpbacked dolphin, Indus River dolphin, jaguar, jaguar, jaguarundi, Jamaican fruit-eating bat, Jamaican fruit-eating bat, Japanese macaque, Java mouse-deer, kinkajou, Kirk's dik-dik, klipspringer, koala, Kuhl's pipistrelle, Lama pacos huacaya, large flying fox, Leadbeater's possum, lechwe, leopard, Leschenault's rousette, lesser dawn bat, Lesser dwarf lemur, lesser kudu, Lesser long-nosed bat, lesser mouse-deer, lesser panda, lesser short-nosed fruit bat, lion, little brown bat, llama, llama, long-finned pilot whale, long-tongued fruit bat, Madagascan rousette, Malagasy flying fox, Malagasy straw-colored fruit bat, Malayan pangolin, Malayan pangolin, mandrill, mantled howler monkey, Masai giraffe, Maxwell's duiker, meadow jumping mouse, meerkat, meerkat, melon-headed whale, Miniopterus schreibersii natalensis, Mona monkey, Mongolian gerbil, mongoose lemur, Montane guinea pig, mountain beaver, mountain goat, Mountain hare, mouse lemur, mule deer, muntjak, Murina feae, muskrat, narwhal, Nilgiri tahr, North American badger, North American opossum, North American porcupine, North Atlantic right whale, North Pacific right whale, Northern American river otter, Northern elephant seal, northern fur seal, Northern giant mouse lemur, northern gundi, Northern long-eared myotis, Northern mole vole, northern rock mouse, Northern rufous mouse lemur, northern white rhinoceros, northern white-cheeked gibbon, Norway rat, nutria, okapi, oldfield mouse, olive baboon, pacarana, Pacific pocket mouse, Pacific white-sided dolphin, pale spear-nosed bat, Pallas's mastiff bat, pallid bat, Parnell's mustached bat, Patagonian cavy, Pere David's deer, Peromyscus californicus subsp. insignis, platypus, porcupine caribou, prairie deer mouse, pronghorn, Przewalski's gazelle, puma, punctate agouti, pygmy Bryde's whale, pygmy marmoset, pygmy sperm whale, rabbit, raccoon, ratel, red bat, red fox, red guenon, red kangaroo, Red shanked douc langur, reed vole, Reeves' muntjac, reindeer, Ring-tailed lemur, roan antelope, root vole, royal antelope, Ryukyu mouse, sable, sable antelope, saiga antelope, Schizostoma hirsutum, Schreibers' long-fingered bat, scimitar-horned oryx, Sclater's lemur, Seba's short-tailed bat, sheep, short-tailed field vole, shrew mouse, Siberian ibex, Siberian musk deer, silvery gibbon, slow loris, snow sheep, snowshoe hare, social tuco-tuco, South African ground squirrel, Southern elephant seal, southern grasshopper mouse, southern multimammate mouse, southern tamandua, Southern three-banded armadillo, southern two-toed sloth, southern two-toed sloth, Sowerby's beaked whale, Spanish lynx, sperm whale, sperm whale, spotted hyena, springbok, springhare, steenbok, Steller sea lion, Steller's sea cow, Stephens's kangaroo rat, steppe mouse, straw-colored fruit bat, stripe-headed round-eared bat, striped hyena, Sumatran rhinoceros, Sunda flying lemur, suni, tailed tailless bat, Talazac's shrew tenrec, tamarin, tammar wallaby, Tasmanian devil, Tasmanian wolf, Thomson's gazelle, topi, Transcaucasian mole vole, Tree pangolin, Tree pangolin, tufted capuchin, Ugandan red Colobus, Vancouver Island marmot, vaquita, Vicugna mensalis, walrus, water buffalo, waterbuck, western gray kangaroo, Western ringtail oppossum, western spotted skunk, western wild mouse, white-faced saki, white-footed mouse, white-fronted capuchin, white-lipped deer, White-nosed coati, white-tailed deer, white-tailed deer, white-tailed deer, white-tufted-ear marmoset, Wild Bactrian camel, wild goat, wild yak, wolverine, woodchuck, woodchuck, woodland dormouse, Yangtze finless porpoise, Yarkand deer, yellow-bellied marmot, yellow-footed antechinus, yellow-spotted hyrax, zebu cattle, Table 2. Gene tracks used for codon translation. Methods Pairwise alignments with the human genome were generated for each species using lastz from repeat-masked genomic sequence. Pairwise alignments were then linked into chains using a dynamic programming algorithm that finds maximally scoring chains of gapless subsections of the alignments organized in a kd-tree. The scoring matrix and parameters for pairwise alignment and chaining were tuned for each species based on phylogenetic distance from the reference. High-scoring chains were then placed along the genome, with gaps filled by lower-scoring chains, to produce an alignment net. Phylogenetic Tree Model The phyloP are phylogenetic methods that rely on a tree model containing the tree topology, branch lengths representing evolutionary distance at neutrally evolving sites, the background distribution of nucleotides, and a substitution rate matrix. The all-species tree model for this track was generated using the phyloFit program from the PHAST package (REV model, EM algorithm, medium precision) using multiple alignments of 4-fold degenerate sites extracted from the 470-way alignment (msa_view). The 4d sites were derived from the RefSeq (Reviewed+Coding) gene set, filtered to select single-coverage long transcripts. This same tree model was used in the phyloP calculations; however, the background frequencies were modified to maintain reversibility. The resulting tree model: all species. PhyloP Conservation The phyloP program supports several different methods for computing p-values of conservation or acceleration, for individual nucleotides or larger elements ( http://compgen.cshl.edu/phast/). Here it was used to produce separate scores at each base (--wig-scores option), considering all branches of the phylogeny rather than a particular subtree or lineage (i.e., the --subtree option was not used). The scores were computed by performing a likelihood ratio test at each alignment column (--method LRT), and scores for both conservation and acceleration were produced (--mode CONACC). Credits This track was created using the following programs: Alignment tools: lastz (formerly blastz) and multiz by Minmei Hou, Scott Schwartz and Webb Miller of the Penn State Bioinformatics Group Chaining and Netting: axtChain, chainNet by Jim Kent at UCSC Conservation scoring: phastCons, phyloP, phyloFit, tree_doctor, msa_view and other programs in PHAST by Adam Siepel at Cold Spring Harbor Laboratory (original development done at the Haussler lab at UCSC). MAF Annotation tools: mafAddIRows by Brian Raney, UCSC; mafAddQRows by Richard Burhans, Penn State; genePredToMafFrames by Mark Diekhans, UCSC Tree image generator: phyloPng by Galt Barber, UCSC Conservation track display: Kate Rosenbloom, Hiram Clawson (wiggle display), and Brian Raney (gap annotation and codon framing) at UCSC References Harris RS. Improved pairwise alignment of genomic DNA. Ph.D. Thesis. Pennsylvania State University, USA. 2007. PhyloP: Cooper GM, Stone EA, Asimenos G, NISC Comparative Sequencing Program., Green ED, Batzoglou S, Sidow A. Distribution and intensity of constraint in mammalian genomic sequence. Genome Res. 2005 Jul;15(7):901-13. PMID: 15965027; PMC: PMC1172034; DOI: 10.1101/gr.3577405 Pollard KS, Hubisz MJ, Rosenbloom KR, Siepel A. Detection of nonneutral substitution rates on mammalian phylogenies. Genome Res. 2010 Jan;20(1):110-21. PMID: 19858363; PMC: PMC2798823 Siepel A, Haussler D. Phylogenetic Hidden Markov Models. In: Nielsen R, editor. Statistical Methods in Molecular Evolution. New York: Springer; 2005. pp. 325-351. DOI: 10.1007/0-387-27733-1_12 Siepel A, Pollard KS, and Haussler D. New methods for detecting lineage-specific selection. In Proceedings of the 10th International Conference on Research in Computational Molecular Biology (RECOMB 2006), pp. 190-205. DOI: 10.1007/11732990_17 
cons470wayViewalign Multiz 470-way Hiller Lab 470 Mammals - 470 mammalian genomes aligned with Multiz by Michael Hiller's Group, Comparative Genomics 
multiz470way Multiz 470-way Multiz Alignments of 470 mammals Comparative Genomics 
cons470wayViewphastcons Element Conservation (phastCons) Hiller Lab 470 Mammals - 470 mammalian genomes aligned with Multiz by Michael Hiller's Group, Comparative Genomics 
phastCons470way Cons 470 Mammals 470 mammals conservation by PhastCons Comparative Genomics 
cons470wayViewelements Conserved Elements Hiller Lab 470 Mammals - 470 mammalian genomes aligned with Multiz by Michael Hiller's Group, Comparative Genomics 
phastConsElements470way 470 Mamm. El 470 mammals Conserved Elements Comparative Genomics 
cons470wayViewphyloP Basewise Conservation (phyloP) Hiller Lab 470 Mammals - 470 mammalian genomes aligned with Multiz by Michael Hiller's Group, Comparative Genomics 
phyloP470wayBW 470 phyloP 470 mammals Basewise Conservation by PhyloP Comparative Genomics 
hprcDecomposed HPRC All Variants HPRC variants decomposed from hprc-v1.0-mc.grch38.vcfbub.a100k.wave.vcf.gz (Liao et al 2023), no size filtering Human Pangenome - HPRC Description This track shows short nucleotide variants of a few base pairs when aligning HPRC genomes to the hg38 reference assembly. The alignment was made with the Minigraph-cactus approach described in the references below. There are three subtracks in this superTrack: All short variants up to 50bp, without any length filter All short variants &lt;= 3 bp long All short variants &gt; 3 bp long VCF Decomposition from HPRC Pangenome Resources Github: &quot;The Raw VCF files contain a site for each bubble in the graph. Nested bubbles will result in overlapping sites. The nesting relationships are denoted with the PS (parent snarl), LV (level) and AT (allele traversal) tags and need to be taken into account when interpreting the VCF. Alternatively, you can use the &apos;Decomposed VCFs&apos; which have been normalized by using vcfbub to &apos;pop&apos; bubbles with alleles larger than 100k and vcfwave to realign each alt (script). Note that in order to reproduce the PanGenie analyses from the papers, you should instead use the PanGenie HPRC Workflow. This workflow has a CHM13 branch to use when working with that reference. The exact tools and commands used to produce the VCFs are given here.&quot; Display Conventions and Configuration The Name of the items are the pair of node labels that denote the site&apos;s location in the graph, with the &apos;&gt;&apos; and &apos;&lt;&apos; denoting the forward and reverse orientation of the node. Mouseover on items in &quot;squish&quot; and &quot;pack&quot; modes shows the items Name and Genotypes. Mouseover on items in &quot;full&quot; mode shows Alleles. Methods The Minigraph-Cactus HPRC v1.0 graph was converted to VCF using vg deconstruct. This result was further postprocessed using vcfbub to flatten nested sites then vcfwave to normalize by realigning alt alleles to the reference. All steps are described in Hickey et al 2023. The postprocessing command lines and data can be found on Github. Finally, the resulting VCF was filtered by length and split into two VCFs using a cutoff of 3bp. Credits Thanks to Glenn Hickey for providing the HAL file from the HPRC project and for making these VCFs from them. References Armstrong J, Hickey G, Diekhans M, Fiddes IT, Novak AM, Deran A, Fang Q, Xie D, Feng S, Stiller J et al. Progressive Cactus is a multiple-genome aligner for the thousand-genome era. Nature. 2020 Nov;587(7833):246-251. PMID: 33177663; PMC: PMC7673649; DOI: 10.1038/s41586-020-2871-y Glenn Hickey, Jean Monlong, Jana Ebler, Adam M Novak, Jordan M Eizenga, Yan Gao; Human Pangenome Reference Consortium; Tobias Marschall, Heng Li, Benedict Paten Pangenome graph construction from genome alignments with Minigraph-Cactus. Nature Biotechnology. 2023 May 10. doi: 10.1038/s41587-023-01793-w. PMID: 37165083; DOI: 10.1038/s41587-023-01793-w Paten B, Earl D, Nguyen N, Diekhans M, Zerbino D, Haussler D. Cactus: Algorithms for genome multiple sequence alignment. Genome Res. 2011 Sep;21(9):1512-28. PMID: 21665927; PMC: PMC3166836; DOI: 10.1101/gr.123356.111 Wen-Wei Liao, Mobin Asri, Jana Ebler, ...et al, Heng Lin, Benedict Paten A draft human pangenome reference. Nature. 2023 May;617(7960):312-324. PMID: 37165242; PMC: PMC1017212; DOI: 10.1038/s41586-023-05896-x 
hprcVCF Short Variants Short Variants Human Pangenome - HPRC Description This track shows short nucleotide variants of a few base pairs when aligning HPRC genomes to the hg38 reference assembly. The alignment was made with the Minigraph-cactus approach described in the references below. There are three subtracks in this superTrack: All short variants up to 50bp, without any length filter All short variants &lt;= 3 bp long All short variants &gt; 3 bp long VCF Decomposition from HPRC Pangenome Resources Github: &quot;The Raw VCF files contain a site for each bubble in the graph. Nested bubbles will result in overlapping sites. The nesting relationships are denoted with the PS (parent snarl), LV (level) and AT (allele traversal) tags and need to be taken into account when interpreting the VCF. Alternatively, you can use the &apos;Decomposed VCFs&apos; which have been normalized by using vcfbub to &apos;pop&apos; bubbles with alleles larger than 100k and vcfwave to realign each alt (script). Note that in order to reproduce the PanGenie analyses from the papers, you should instead use the PanGenie HPRC Workflow. This workflow has a CHM13 branch to use when working with that reference. The exact tools and commands used to produce the VCFs are given here.&quot; Display Conventions and Configuration The Name of the items are the pair of node labels that denote the site&apos;s location in the graph, with the &apos;&gt;&apos; and &apos;&lt;&apos; denoting the forward and reverse orientation of the node. Mouseover on items in &quot;squish&quot; and &quot;pack&quot; modes shows the items Name and Genotypes. Mouseover on items in &quot;full&quot; mode shows Alleles. Methods The Minigraph-Cactus HPRC v1.0 graph was converted to VCF using vg deconstruct. This result was further postprocessed using vcfbub to flatten nested sites then vcfwave to normalize by realigning alt alleles to the reference. All steps are described in Hickey et al 2023. The postprocessing command lines and data can be found on Github. Finally, the resulting VCF was filtered by length and split into two VCFs using a cutoff of 3bp. Credits Thanks to Glenn Hickey for providing the HAL file from the HPRC project and for making these VCFs from them. References Armstrong J, Hickey G, Diekhans M, Fiddes IT, Novak AM, Deran A, Fang Q, Xie D, Feng S, Stiller J et al. Progressive Cactus is a multiple-genome aligner for the thousand-genome era. Nature. 2020 Nov;587(7833):246-251. PMID: 33177663; PMC: PMC7673649; DOI: 10.1038/s41586-020-2871-y Glenn Hickey, Jean Monlong, Jana Ebler, Adam M Novak, Jordan M Eizenga, Yan Gao; Human Pangenome Reference Consortium; Tobias Marschall, Heng Li, Benedict Paten Pangenome graph construction from genome alignments with Minigraph-Cactus. Nature Biotechnology. 2023 May 10. doi: 10.1038/s41587-023-01793-w. PMID: 37165083; DOI: 10.1038/s41587-023-01793-w Paten B, Earl D, Nguyen N, Diekhans M, Zerbino D, Haussler D. Cactus: Algorithms for genome multiple sequence alignment. Genome Res. 2011 Sep;21(9):1512-28. PMID: 21665927; PMC: PMC3166836; DOI: 10.1101/gr.123356.111 Wen-Wei Liao, Mobin Asri, Jana Ebler, ...et al, Heng Lin, Benedict Paten A draft human pangenome reference. Nature. 2023 May;617(7960):312-324. PMID: 37165242; PMC: PMC1017212; DOI: 10.1038/s41586-023-05896-x 
hprcVCFDecomposedUnder4 HPRC Variants <= 3bp HPRC VCF variants filtered for items size <= 3bp Human Pangenome - HPRC Description This track shows short nucleotide variants of a few base pairs when aligning HPRC genomes to the hg38 reference assembly. The alignment was made with the Minigraph-cactus approach described in the references below. There are three subtracks in this superTrack: All short variants up to 50bp, without any length filter All short variants &lt;= 3 bp long All short variants &gt; 3 bp long VCF Decomposition from HPRC Pangenome Resources Github: &quot;The Raw VCF files contain a site for each bubble in the graph. Nested bubbles will result in overlapping sites. The nesting relationships are denoted with the PS (parent snarl), LV (level) and AT (allele traversal) tags and need to be taken into account when interpreting the VCF. Alternatively, you can use the &apos;Decomposed VCFs&apos; which have been normalized by using vcfbub to &apos;pop&apos; bubbles with alleles larger than 100k and vcfwave to realign each alt (script). Note that in order to reproduce the PanGenie analyses from the papers, you should instead use the PanGenie HPRC Workflow. This workflow has a CHM13 branch to use when working with that reference. The exact tools and commands used to produce the VCFs are given here.&quot; Display Conventions and Configuration The Name of the items are the pair of node labels that denote the site&apos;s location in the graph, with the &apos;&gt;&apos; and &apos;&lt;&apos; denoting the forward and reverse orientation of the node. Mouseover on items in &quot;squish&quot; and &quot;pack&quot; modes shows the items Name and Genotypes. Mouseover on items in &quot;full&quot; mode shows Alleles. Methods The Minigraph-Cactus HPRC v1.0 graph was converted to VCF using vg deconstruct. This result was further postprocessed using vcfbub to flatten nested sites then vcfwave to normalize by realigning alt alleles to the reference. All steps are described in Hickey et al 2023. The postprocessing command lines and data can be found on Github. Finally, the resulting VCF was filtered by length and split into two VCFs using a cutoff of 3bp. Credits Thanks to Glenn Hickey for providing the HAL file from the HPRC project and for making these VCFs from them. References Armstrong J, Hickey G, Diekhans M, Fiddes IT, Novak AM, Deran A, Fang Q, Xie D, Feng S, Stiller J et al. Progressive Cactus is a multiple-genome aligner for the thousand-genome era. Nature. 2020 Nov;587(7833):246-251. PMID: 33177663; PMC: PMC7673649; DOI: 10.1038/s41586-020-2871-y Glenn Hickey, Jean Monlong, Jana Ebler, Adam M Novak, Jordan M Eizenga, Yan Gao; Human Pangenome Reference Consortium; Tobias Marschall, Heng Li, Benedict Paten Pangenome graph construction from genome alignments with Minigraph-Cactus. Nature Biotechnology. 2023 May 10. doi: 10.1038/s41587-023-01793-w. PMID: 37165083; DOI: 10.1038/s41587-023-01793-w Paten B, Earl D, Nguyen N, Diekhans M, Zerbino D, Haussler D. Cactus: Algorithms for genome multiple sequence alignment. Genome Res. 2011 Sep;21(9):1512-28. PMID: 21665927; PMC: PMC3166836; DOI: 10.1101/gr.123356.111 Wen-Wei Liao, Mobin Asri, Jana Ebler, ...et al, Heng Lin, Benedict Paten A draft human pangenome reference. Nature. 2023 May;617(7960):312-324. PMID: 37165242; PMC: PMC1017212; DOI: 10.1038/s41586-023-05896-x 
hprcVCFDecomposedOver3 HPRC Variants > 3bp HPRC VCF variants filtered for items size > 3bp Human Pangenome - HPRC Description This track shows short nucleotide variants of a few base pairs when aligning HPRC genomes to the hg38 reference assembly. The alignment was made with the Minigraph-cactus approach described in the references below. There are three subtracks in this superTrack: All short variants up to 50bp, without any length filter All short variants &lt;= 3 bp long All short variants &gt; 3 bp long VCF Decomposition from HPRC Pangenome Resources Github: &quot;The Raw VCF files contain a site for each bubble in the graph. Nested bubbles will result in overlapping sites. The nesting relationships are denoted with the PS (parent snarl), LV (level) and AT (allele traversal) tags and need to be taken into account when interpreting the VCF. Alternatively, you can use the &apos;Decomposed VCFs&apos; which have been normalized by using vcfbub to &apos;pop&apos; bubbles with alleles larger than 100k and vcfwave to realign each alt (script). Note that in order to reproduce the PanGenie analyses from the papers, you should instead use the PanGenie HPRC Workflow. This workflow has a CHM13 branch to use when working with that reference. The exact tools and commands used to produce the VCFs are given here.&quot; Display Conventions and Configuration The Name of the items are the pair of node labels that denote the site&apos;s location in the graph, with the &apos;&gt;&apos; and &apos;&lt;&apos; denoting the forward and reverse orientation of the node. Mouseover on items in &quot;squish&quot; and &quot;pack&quot; modes shows the items Name and Genotypes. Mouseover on items in &quot;full&quot; mode shows Alleles. Methods The Minigraph-Cactus HPRC v1.0 graph was converted to VCF using vg deconstruct. This result was further postprocessed using vcfbub to flatten nested sites then vcfwave to normalize by realigning alt alleles to the reference. All steps are described in Hickey et al 2023. The postprocessing command lines and data can be found on Github. Finally, the resulting VCF was filtered by length and split into two VCFs using a cutoff of 3bp. Credits Thanks to Glenn Hickey for providing the HAL file from the HPRC project and for making these VCFs from them. References Armstrong J, Hickey G, Diekhans M, Fiddes IT, Novak AM, Deran A, Fang Q, Xie D, Feng S, Stiller J et al. Progressive Cactus is a multiple-genome aligner for the thousand-genome era. Nature. 2020 Nov;587(7833):246-251. PMID: 33177663; PMC: PMC7673649; DOI: 10.1038/s41586-020-2871-y Glenn Hickey, Jean Monlong, Jana Ebler, Adam M Novak, Jordan M Eizenga, Yan Gao; Human Pangenome Reference Consortium; Tobias Marschall, Heng Li, Benedict Paten Pangenome graph construction from genome alignments with Minigraph-Cactus. Nature Biotechnology. 2023 May 10. doi: 10.1038/s41587-023-01793-w. PMID: 37165083; DOI: 10.1038/s41587-023-01793-w Paten B, Earl D, Nguyen N, Diekhans M, Zerbino D, Haussler D. Cactus: Algorithms for genome multiple sequence alignment. Genome Res. 2011 Sep;21(9):1512-28. PMID: 21665927; PMC: PMC3166836; DOI: 10.1101/gr.123356.111 Wen-Wei Liao, Mobin Asri, Jana Ebler, ...et al, Heng Lin, Benedict Paten A draft human pangenome reference. Nature. 2023 May;617(7960):312-324. PMID: 37165242; PMC: PMC1017212; DOI: 10.1038/s41586-023-05896-x 
est Human ESTs Human ESTs Including Unspliced RNA and Transcriptome Description This track shows alignments between human expressed sequence tags (ESTs) in GenBank and the genome. ESTs are single-read sequences, typically about 500 bases in length, that usually represent fragments of transcribed genes. NOTE: As of April, 2007, we no longer include GenBank sequences that contain the following URL as part of the record: http://fulllength.invitrogen.com Some of these entries are the result of alignment to pseudogenes, followed by &quot;correction&quot; of the EST to match the genomic sequence. It is therefore not the sequence of the actual EST and makes it appear that the EST is transcribed. Invitrogen no longer sells the clones. Display Conventions and Configuration This track follows the display conventions for PSL alignment tracks. In dense display mode, the items that are more darkly shaded indicate matches of better quality. The strand information (+/-) indicates the direction of the match between the EST and the matching genomic sequence. It bears no relationship to the direction of transcription of the RNA with which it might be associated. The description page for this track has a filter that can be used to change the display mode, alter the color, and include/exclude a subset of items within the track. This may be helpful when many items are shown in the track display, especially when only some are relevant to the current task. To use the filter: Type a term in one or more of the text boxes to filter the EST display. For example, to apply the filter to all ESTs expressed in a specific organ, type the name of the organ in the tissue box. To view the list of valid terms for each text box, consult the table in the Table Browser that corresponds to the factor on which you wish to filter. For example, the &quot;tissue&quot; table contains all the types of tissues that can be entered into the tissue text box. Multiple terms may be entered at once, separated by a space. Wildcards may also be used in the filter. If filtering on more than one value, choose the desired combination logic. If &quot;and&quot; is selected, only ESTs that match all filter criteria will be highlighted. If &quot;or&quot; is selected, ESTs that match any one of the filter criteria will be highlighted. Choose the color or display characteristic that should be used to highlight or include/exclude the filtered items. If &quot;exclude&quot; is chosen, the browser will not display ESTs that match the filter criteria. If &quot;include&quot; is selected, the browser will display only those ESTs that match the filter criteria. This track may also be configured to display base labeling, a feature that allows the user to display all bases in the aligning sequence or only those that differ from the genomic sequence. For more information about this option, click here. Several types of alignment gap may also be colored; for more information, click here. Methods To make an EST, RNA is isolated from cells and reverse transcribed into cDNA. Typically, the cDNA is cloned into a plasmid vector and a read is taken from the 5' and/or 3' primer. For most &mdash; but not all &mdash; ESTs, the reverse transcription is primed by an oligo-dT, which hybridizes with the poly-A tail of mature mRNA. The reverse transcriptase may or may not make it to the 5' end of the mRNA, which may or may not be degraded. In general, the 3' ESTs mark the end of transcription reasonably well, but the 5' ESTs may end at any point within the transcript. Some of the newer cap-selected libraries cover transcription start reasonably well. Before the cap-selection techniques emerged, some projects used random rather than poly-A priming in an attempt to retrieve sequence distant from the 3' end. These projects were successful at this, but as a side effect also deposited sequences from unprocessed mRNA and perhaps even genomic sequences into the EST databases. Even outside of the random-primed projects, there is a degree of non-mRNA contamination. Because of this, a single unspliced EST should be viewed with considerable skepticism. To generate this track, human ESTs from GenBank were aligned against the genome using blat. Note that the maximum intron length allowed by blat is 750,000 bases, which may eliminate some ESTs with very long introns that might otherwise align. When a single EST aligned in multiple places, the alignment having the highest base identity was identified. Only alignments having a base identity level within 0.5% of the best and at least 96% base identity with the genomic sequence were kept. Credits This track was produced at UCSC from EST sequence data submitted to the international public sequence databases by scientists worldwide. References Benson DA, Karsch-Mizrachi I, Lipman DJ, Ostell J, Wheeler DL. GenBank: update. Nucleic Acids Res. 2004 Jan 1;32(Database issue):D23-6. Kent WJ. BLAT - The BLAST-Like Alignment Tool. Genome Res. 2002 Apr;12(4):656-64. 
mrna Human mRNAs Human mRNAs from GenBank RNA and Transcriptome Description The mRNA track shows alignments between human mRNAs in GenBank and the genome. Display Conventions and Configuration This track follows the display conventions for PSL alignment tracks. In dense display mode, the items that are more darkly shaded indicate matches of better quality. The description page for this track has a filter that can be used to change the display mode, alter the color, and include/exclude a subset of items within the track. This may be helpful when many items are shown in the track display, especially when only some are relevant to the current task. To use the filter: Type a term in one or more of the text boxes to filter the mRNA display. For example, to apply the filter to all mRNAs expressed in a specific organ, type the name of the organ in the tissue box. To view the list of valid terms for each text box, consult the table in the Table Browser that corresponds to the factor on which you wish to filter. For example, the &quot;tissue&quot; table contains all the types of tissues that can be entered into the tissue text box. Multiple terms may be entered at once, separated by a space. Wildcards may also be used in the filter. If filtering on more than one value, choose the desired combination logic. If &quot;and&quot; is selected, only mRNAs that match all filter criteria will be highlighted. If &quot;or&quot; is selected, mRNAs that match any one of the filter criteria will be highlighted. Choose the color or display characteristic that should be used to highlight or include/exclude the filtered items. If &quot;exclude&quot; is chosen, the browser will not display mRNAs that match the filter criteria. If &quot;include&quot; is selected, the browser will display only those mRNAs that match the filter criteria. This track may also be configured to display codon coloring, a feature that allows the user to quickly compare mRNAs against the genomic sequence. For more information about this option, go to the Codon and Base Coloring for Alignment Tracks page. Several types of alignment gap may also be colored; for more information, go to the Alignment Insertion/Deletion Display Options page. Methods GenBank human mRNAs were aligned against the genome using the blat program. When a single mRNA aligned in multiple places, the alignment having the highest base identity was found. Only alignments having a base identity level within 0.5% of the best and at least 96% base identity with the genomic sequence were kept. Credits The mRNA track was produced at UCSC from mRNA sequence data submitted to the international public sequence databases by scientists worldwide. References Benson DA, Cavanaugh M, Clark K, Karsch-Mizrachi I, Lipman DJ, Ostell J, Sayers EW. GenBank. Nucleic Acids Res. 2013 Jan;41(Database issue):D36-42. PMID: 23193287; PMC: PMC3531190 Benson DA, Karsch-Mizrachi I, Lipman DJ, Ostell J, Wheeler DL. GenBank: update. Nucleic Acids Res. 2004 Jan 1;32(Database issue):D23-6. PMID: 14681350; PMC: PMC308779 Kent WJ. BLAT - the BLAST-like alignment tool. Genome Res. 2002 Apr;12(4):656-64. PMID: 11932250; PMC: PMC187518 
hgIkmc IKMC Genes Mapped International Knockout Mouse Consortium Genes Mapped to Human Genome Genes and Gene Predictions Description This track shows genes targeted by International Knockout Mouse Consortium (IKMC) mapped to the human genome. IKMC is a collaboration to generate a public resource of mouse embryonic stem (ES) cells containing a null mutation in every gene in the mouse genome. Gene targets are color-coded by status: Green: Reagent(s) Available Yellow: In Progress Blue: Not Started/On Hold Black: Withdrawn/Problematic The KnockOut Mouse Project Data Coordination Center (KOMP DCC) is the central database resource for coordinating mouse gene targeting within IKMC and provides web-based query and display tools for IKMC data. In addition, the KOMP DCC website provides a tool for the scientific community to nominate genes of interest to be knocked out by the KOMP initiative. IKMC members include KnockOut Mouse Project (KOMP), a trans-NIH initiative (USA) European Conditional Mouse Mutagenesis Program (EUCOMM), funded by the European Union Framework 6 programme (EU) North American Conditional Mouse Mutagenesis Project (NorCOMM), a Genome Prairie Project (Canada) Texas A&amp;M Institute for Genomic Medicine (TIGM) (USA) KOMP includes two production centers: CSD, a collaborative team at the Children's Hospital Oakland Research Institute (CHORI), the Wellcome Trust Sanger Institute and the University of California at Davis School of Veterinary Medicine, and a team at the VelociGene division of Regeneron Pharmaceuticals, Inc. EUCOMM includes 9 participating institutions. NorCOMM includes several participating institutions. Methods Using complementary targeting strategies, the IKMC centers design and create targeting vectors, mutant ES cell lines and, to some extent, mutant mice, embryos or sperm. Materials are distributed to the research community. The KOMP Repository archives, maintains, and distributes IKMC products. Researchers can order products and get product information from the Repository. Researchers can also express interest in products that are still in the pipeline. They will then receive email notification as soon as KOMP generated products are available for distribution. The process for ordering EUCOMM materials can be found here. The process for ordering TIGM materials can be found here. Information on NorCOMM products and services can be found here. Genes were mapped to the human genome by IKMC. Credits Thanks to the International Knockout Mouse Consortium, and Carol Bult in particular, for providing these data. References Austin CP, Battey JF, Bradley A, Bucan M, Capecchi M, Collins FS, Dove WF, Duyk G, Dymecki S, Eppig JT et al. The knockout mouse project. Nat Genet. 2004 Sep;36(9):921-4. PMID: 15340423; PMC: PMC2716027 Collins FS, Finnell RH, Rossant J, Wurst W. A new partner for the international knockout mouse consortium. Cell. 2007 Apr 20;129(2):235. PMID: 17448981 International Mouse Knockout Consortium, Collins FS, Rossant J, Wurst W. A mouse for all reasons. Cell. 2007 Jan 12;128(1):9-13. PMID: 17218247 
ileumWangCellType Ileum Cells Ileum cells binned by cell type from Wang et al 2020 Single Cell RNA-seq Description This track shows data from Single-cell transcriptome analysis reveals differential nutrient absorption functions in human intestine. Droplet-based single-cell RNA sequencing (scRNA-seq) was used to survey gene expression profiles of the epithelium in the human ileum, colon, and rectum. A total of 7 cell clusters were identified: enterocytes (EC), goblet cells (G), paneth-like cells (PLC), enteroendocrine cells (EEC), progenitor cells (PRO), transient-amplifying cells (TA) and stem cells (SC). This track collection contains two bar chart tracks of RNA expression in ileum cells where cells are grouped by cell type (Ileum Cells) or donor (Ileum Donor). The default track displayed is Ileum Cells. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification epithelial secretory stem cell Cells that fall into multiple classes will be colored by blending the colors associated with those classes. Note that the Ileum Donor track is colored by donor for improved clarity. Method Using single-cell RNA sequencing, RNA profiles of intestinal epithelial cells were obtained for 6,167 cells from two human ileum samples. Tissue samples belonged to a male donor age 60 with Neuroendocrine Carcinoma (Ileum-1) and a female donor age 67 with Adenocarcinoma (Ileum-2). The healthy intestinal mucous membranes used for each sample were cut away from the tumor border in surgically removed ileum tissue. Additionally, the intestinal tissues were washed in Hank's balanced salt solution (HBSS) to remove mucus, blood cells, and muscle tissue. The sample was enriched for epithelial cells through centrifugation before being dissociated with Tryple to obtain single-cell suspensions. RNA-seq libraries were prepared using 10x Genomics 3' v2 kit and sequenced on an Illumina Hiseq X Ten PE150. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Yalong Wang, Wanlu Song, and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Luis Nassar. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Wang Y, Song W, Wang J, Wang T, Xiong X, Qi Z, Fu W, Yang X, Chen YG. Single-cell transcriptome analysis reveals differential nutrient absorption functions in human intestine. J Exp Med. 2020 Feb 3;217(2). PMID: 31753849; PMC: PMC7041720 
ileumWang Ileum Wang Ileum single cell sequencing from Wang et al 2020 Single Cell RNA-seq Description This track shows data from Single-cell transcriptome analysis reveals differential nutrient absorption functions in human intestine. Droplet-based single-cell RNA sequencing (scRNA-seq) was used to survey gene expression profiles of the epithelium in the human ileum, colon, and rectum. A total of 7 cell clusters were identified: enterocytes (EC), goblet cells (G), paneth-like cells (PLC), enteroendocrine cells (EEC), progenitor cells (PRO), transient-amplifying cells (TA) and stem cells (SC). This track collection contains two bar chart tracks of RNA expression in ileum cells where cells are grouped by cell type (Ileum Cells) or donor (Ileum Donor). The default track displayed is Ileum Cells. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification epithelial secretory stem cell Cells that fall into multiple classes will be colored by blending the colors associated with those classes. Note that the Ileum Donor track is colored by donor for improved clarity. Method Using single-cell RNA sequencing, RNA profiles of intestinal epithelial cells were obtained for 6,167 cells from two human ileum samples. Tissue samples belonged to a male donor age 60 with Neuroendocrine Carcinoma (Ileum-1) and a female donor age 67 with Adenocarcinoma (Ileum-2). The healthy intestinal mucous membranes used for each sample were cut away from the tumor border in surgically removed ileum tissue. Additionally, the intestinal tissues were washed in Hank's balanced salt solution (HBSS) to remove mucus, blood cells, and muscle tissue. The sample was enriched for epithelial cells through centrifugation before being dissociated with Tryple to obtain single-cell suspensions. RNA-seq libraries were prepared using 10x Genomics 3' v2 kit and sequenced on an Illumina Hiseq X Ten PE150. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Yalong Wang, Wanlu Song, and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Luis Nassar. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Wang Y, Song W, Wang J, Wang T, Xiong X, Qi Z, Fu W, Yang X, Chen YG. Single-cell transcriptome analysis reveals differential nutrient absorption functions in human intestine. J Exp Med. 2020 Feb 3;217(2). PMID: 31753849; PMC: PMC7041720 
ileumWangDonor Ileum Donor Ileum cells binned by organ donor from Wang et al 2020 Single Cell RNA-seq Description This track shows data from Single-cell transcriptome analysis reveals differential nutrient absorption functions in human intestine. Droplet-based single-cell RNA sequencing (scRNA-seq) was used to survey gene expression profiles of the epithelium in the human ileum, colon, and rectum. A total of 7 cell clusters were identified: enterocytes (EC), goblet cells (G), paneth-like cells (PLC), enteroendocrine cells (EEC), progenitor cells (PRO), transient-amplifying cells (TA) and stem cells (SC). This track collection contains two bar chart tracks of RNA expression in ileum cells where cells are grouped by cell type (Ileum Cells) or donor (Ileum Donor). The default track displayed is Ileum Cells. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification epithelial secretory stem cell Cells that fall into multiple classes will be colored by blending the colors associated with those classes. Note that the Ileum Donor track is colored by donor for improved clarity. Method Using single-cell RNA sequencing, RNA profiles of intestinal epithelial cells were obtained for 6,167 cells from two human ileum samples. Tissue samples belonged to a male donor age 60 with Neuroendocrine Carcinoma (Ileum-1) and a female donor age 67 with Adenocarcinoma (Ileum-2). The healthy intestinal mucous membranes used for each sample were cut away from the tumor border in surgically removed ileum tissue. Additionally, the intestinal tissues were washed in Hank's balanced salt solution (HBSS) to remove mucus, blood cells, and muscle tissue. The sample was enriched for epithelial cells through centrifugation before being dissociated with Tryple to obtain single-cell suspensions. RNA-seq libraries were prepared using 10x Genomics 3' v2 kit and sequenced on an Illumina Hiseq X Ten PE150. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Yalong Wang, Wanlu Song, and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Luis Nassar. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Wang Y, Song W, Wang J, Wang T, Xiong X, Qi Z, Fu W, Yang X, Chen YG. Single-cell transcriptome analysis reveals differential nutrient absorption functions in human intestine. J Exp Med. 2020 Feb 3;217(2). PMID: 31753849; PMC: PMC7041720 
ucscToINSDC INSDC Accession at INSDC - International Nucleotide Sequence Database Collaboration Mapping and Sequencing Description This track associates UCSC Genome Browser chromosome names to accession names from the International Nucleotide Sequence Database Collaboration (INSDC). The data were downloaded from the NCBI assembly database. Credits The data for this track was prepared by Hiram Clawson. 
jaspar JASPAR Transcription Factors JASPAR Transcription Factor Binding Site Database Regulation Description This track represents the genome-wide predicted binding sites for TF (transcription factor) binding profiles in the JASPAR database CORE collection. Display Conventions and Configuration Shaded boxes represent predicted binding sites for each of the TF profiles in the JASPAR CORE collection. The shading of the boxes indicates the p-value of the profile's match to that position (scaled between 0-1000 scores, where 0 corresponds to a p-value of 1 and 1000 to a p-value &le; 10-10). Thus, the darker the shade, the lower (better) the p-value. The default view shows only predicted binding sites with scores of 400 or greater but can be adjusted in the track settings. Multi-select filters allow viewing of particular transcription factors. At window sizes of greater than 10,000 base pairs, this track turns to density graph mode. Zoom to a smaller region and click into an item to see more detail. From BED format documentation: shade &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; score in range &le; 166 167-277 278-388 389-499 500-611 612-722 723-833 834-944 &ge; 945 Conversion table: Item score 0 100 131 200 300 400 500 600 700 800 900 1000 p-value 1 0.1 0.049 10-2 10-3 10-4 10-5 10-6 10-7 10-8 10-9 &le; 10-10 Methods For each TF binding profile in the JASPAR database CORE collection, genomes were scanned for matches. For the computation of relative scores and p-values, we used PWMScan (Ambrosini et al. 2018). We selected TFBS predictions with a PWM relative score &ge; 0.8 and a p-value &lt; 0.05. P-values were scaled between 0 (corresponding to a p-value of 1) and 1000 (p-value &le; 10-10) for colouring of the genome tracks and to allow for comparison of prediction confidence between different profiles. Please refer to the supplementary information of the JASPAR 2020 manuscript for more details. Brief overview of each release The JASPAR 2026 update expanded the JASPAR CORE collection by 12% (306 added or upgraded profiles), culminating to a set of 2633 non-redundant TF binding profiles. Genome sequences were scanned with JASPAR 2026 CORE TF binding profiles for each taxon independently using PWMScan. TFBS predictions were selected with a PWM relative score &ge; 0.8 and a p-value &lt; 0.05. P-values were scaled between 0 (corresponding to a p-value of 1) and 1000 (p-value &le; 10-10) for coloring of the genome tracks and to allow for comparison of prediction confidence between different profiles. More information on the methods can be found in the JASPAR 2026 publication or on the JASPAR website. The JASPAR 2024 update expanded the JASPAR CORE collection by 20% (329 added and 72 upgraded profiles). The new profiles were introduced after manual curation, in which 26 629 TF binding motifs were curated and obtained as PFMs or discovered from ChIP-seq/-exo or DAP-seq data. 2500 profiles from JASPAR 2022 were revised to either promote them to the CORE collection, update the associated metadata, or remove them because of validation inconsistencies or poor quality. The JASPAR database stores and focuses mostly on PFMs as the model of choice for TF-DNA interactions. More information on the methods can be found in the JASPAR 2024 publication or on the JASPAR website. JASPAR 2022 contains updated transcription factor binding sites with additional transcription factor profiles. More information on the methods can be found in the JASPAR 2022 publication JASPAR 2022 publication or on the JASPAR website. JASPAR 2020 scanned DNA sequences with JASPAR CORE TF-binding profiles for each taxa independently using PWMScan. TFBS predictions were selected with a PWM relative score &ge; 0.8 and a p-value &lt; 0.05. P-values were scaled between 0 (corresponding to a p-value of 1) and 1000 (p-value &le; 10-10) for coloring of the genome tracks and to allow for comparison of prediction confidence between different profiles. JASPAR 2018 used the TFBS Perl module (Lenhard and Wasserman 2002) and FIMO (Grant, Bailey, and Noble 2011), as distributed within the MEME suite (version 4.11.2) (Bailey et al. 2009). For scanning genomes with the BioPerl TFBS module, profiles were converted to PWMs and matches were kept with a relative score &ge; 0.8. For the FIMO scan, profiles were reformatted to MEME motifs and matches with a p-value &lt; 0.05 were kept. TFBS predictions that were not consistent between the two methods (TFBS Perl module and FIMO) were removed. The remaining TFBS predictions were colored according to their FIMO p-value to allow for comparison of prediction confidence between different profiles. Data Access JASPAR Transcription Factor Binding data includes billions of items. Because of the data size, the Table Browser does not allow "Genome" as a query region for this track. Limited regions can be explored interactively with the Table Browser and cross-referenced with Data Integrator, although positional queries that are too big can lead to timing out. This results in a black page or truncated output. In this case, you may try reducing the chromosomal query to a smaller window. For programmatic access, the track can be accessed using the Genome Browser's REST API. JASPAR annotations can be downloaded from the Genome Browser's download server as a bigBed file. This compressed binary format can be remotely queried through command line utilities. Please note that some of the download files can be quite large. The utilities for working with bigBed-formatted binary files can be downloaded here. Run a utility with no arguments to see a brief description of the utility and its options. bigBedInfo provides summary statistics about a bigBed file including the number of items in the file. With the -as option, the output includes an autoSql definition of data columns, useful for interpreting the column values. bigBedToBed converts the binary bigBed data to tab-separated text. Output can be restricted to a particular region by using the -chrom, -start and -end options. Example: retrieve all JASPAR items in chr1:200001-200400 bigBedToBed http://hgdownload.soe.ucsc.edu/gbdb/hg38/jaspar/JASPAR2024.bb -chrom=chr1 -start=200000 -end=200400 stdout All data are freely available. Additional resources are available directly from the JASPAR group: Binding site predictions for all and individual TF profiles are available for download at https://mencius.uio.no/JASPAR/JASPAR_genome_browser_tracks/. Code used to create the UCSC tracks is available at https://github.com/ievarau/JASPAR-UCSC-tracks/tree/master. The underlying JASPAR motif data is available through the JASPAR website at https://jaspar.elixir.no. Other Genomes The JASPAR group provides TFBS predictions for many additional species and genomes. The 2026 release is available as a native track on the following genomes, and additionally on mm10 and araTha1 by connection to their Public Hub or by clicking the assembly links below: Species Genome assembly versions Human - Homo sapiens hg38 Mouse - Mus musculus mm39 Zebrafish - Danio rerio danRer11 Fruitfly - Drosophila melanogaster dm6 Nematode - Caenorhabditis elegans ce11 Vase tunicate - Ciona intestinalis ci3 Thale cress - Arabidopsis thaliana araTha1 Yeast - Saccharomyces cerevisiae sacCer3 Chicken - Gallus gallus galGal6 Credits The JASPAR database is a joint effort between several labs (please see the latest JASPAR paper, below). Binding site predictions and UCSC tracks were computed by the CBGR team at NCMBM using code developed at the Wasserman Lab. For enquiries about the data, please contact Anthony Mathelier ( &#97;&#110;&#116;&#104;&#111;&#110;y. &#109;&#97;&#116;&#104;e&#108;&#105;&#101;&#114;&#64;&#110;&#99;&#109;b&#109;. &#117;i&#111;. &#110;o ) or Ieva Rauluseviciute ( &#105;&#101;&#118;&#97;. &#114;&#97;&#117;&#108;us&#101;&#118;&#105;&#99;&#105;u&#116;&#101;&#64;&#110;&#99;m&#98;m. &#117;&#105;&#111;. &#110;o ). CBGR Computational Biology &amp; Gene Regulation Norwegian Centre for Molecular Biosciences and Medicine (NCMBM) University of Oslo Oslo, Norway Wasserman Lab Centre for Molecular Medicine and Therapeutics BC Children's Hospital Research Institute Department of Medical Genetics University of British Columbia Vancouver, Canada References Ovek Baydar D, Rauluseviciute I, Aronsen DR, Blanc-Mathieu R, Bonthuis I, de Beukelaer H, Ferenc K, Jegou A, Kumar V, Lemma RB et al. JASPAR 2026: expansion of transcription factor binding profiles and integration of deep learning models. Nucleic Acids Res. 2026; PMID: 41325984; PMC: PMC12807658 Sandelin A, Alkema W, Engstrom P, Wasserman WW, Lenhard B. JASPAR: an open-access database for eukaryotic transcription factor binding profiles. Nucleic Acids Res. 2004;. PMID: 14681366 
jaspar2018 JASPAR 2018 TFBS JASPAR CORE 2018 - Predicted Transcription Factor Binding Sites Regulation 
jaspar2020 JASPAR 2020 TFBS JASPAR CORE 2020 - Predicted Transcription Factor Binding Sites Regulation 
jaspar2022 JASPAR 2022 TFBS JASPAR CORE 2022 - Predicted Transcription Factor Binding Sites Regulation 
jaspar2024 JASPAR 2024 TFBS JASPAR CORE 2024 - Predicted Transcription Factor Binding Sites Regulation 
jaspar2026 JASPAR 2026 TFBS JASPAR CORE 2026 - Predicted Transcription Factor Binding Sites Regulation 
kidneyStewartBroadCellType Kidney Broad CT Kidney RNA binned by broad cell type from Stewart et al 2019 Single Cell RNA-seq Description This track displays data from Spatiotemporal immune zonation of the human kidney. Droplet-based single-cell RNA sequencing (scRNA-seq) was used to profile 40,268 mature human kidney cells. After principal component analysis, identified clusters were manually curated into four major cellular compartments using canonical markers as found in Stewart et al., 2019: endothelial, immune, fibroblast, and epithelium. This track collection contains six bar chart tracks of RNA expression in the human kidney where cells are grouped by merged cell type (Kidney Cells), broad cell type (Kidney Broad CT), detailed cell type (Kidney Details), compartment (Kidney Compartment), experiment (Kidney Experiment), and project (Kidney Project). The default track displayed is Kidney Cells. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification fibroblast immune kidney specific epithelial endothelial Cells that fall into multiple classes will be colored by blending the colors associated with those classes. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Method 14 mature healthy human kidney samples were obtained from individuals (ages 1-72) that either underwent tumor nephrectomy (n=10) or from kidneys donated for transplantation (n=4) but were unsuitable for use. Kidney tissues from tumor nephrectomies were collected from unaffected areas estimated to be corticomedullary. Samples were enzymatically dissociated and enriched for live cells (experiment set 1) or enriched for leukocytes with a density gradient and then for live cells (experiment set 2). Single cell libraries were prepared using 10x Genomics 3' v2 kit and sequenced on an Illumina HiSeq4000. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Benjamin J Stewart, John R Ferdinand, and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Daniel Schmelter. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Stewart BJ, Ferdinand JR, Young MD, Mitchell TJ, Loudon KW, Riding AM, Richoz N, Frazer GL, Staniforth JUL, Vieira Braga FA et al. Spatiotemporal immune zonation of the human kidney. Science. 2019 Sep 27;365(6460):1461-1466. PMID: 31604275; PMC: PMC7343525 
kidneyStewart Kidney Stewart Kidney single cell data from  Stewart et al 2019 Single Cell RNA-seq Description This track displays data from Spatiotemporal immune zonation of the human kidney. Droplet-based single-cell RNA sequencing (scRNA-seq) was used to profile 40,268 mature human kidney cells. After principal component analysis, identified clusters were manually curated into four major cellular compartments using canonical markers as found in Stewart et al., 2019: endothelial, immune, fibroblast, and epithelium. This track collection contains six bar chart tracks of RNA expression in the human kidney where cells are grouped by merged cell type (Kidney Cells), broad cell type (Kidney Broad CT), detailed cell type (Kidney Details), compartment (Kidney Compartment), experiment (Kidney Experiment), and project (Kidney Project). The default track displayed is Kidney Cells. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification fibroblast immune kidney specific epithelial endothelial Cells that fall into multiple classes will be colored by blending the colors associated with those classes. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Method 14 mature healthy human kidney samples were obtained from individuals (ages 1-72) that either underwent tumor nephrectomy (n=10) or from kidneys donated for transplantation (n=4) but were unsuitable for use. Kidney tissues from tumor nephrectomies were collected from unaffected areas estimated to be corticomedullary. Samples were enzymatically dissociated and enriched for live cells (experiment set 1) or enriched for leukocytes with a density gradient and then for live cells (experiment set 2). Single cell libraries were prepared using 10x Genomics 3' v2 kit and sequenced on an Illumina HiSeq4000. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Benjamin J Stewart, John R Ferdinand, and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Daniel Schmelter. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Stewart BJ, Ferdinand JR, Young MD, Mitchell TJ, Loudon KW, Riding AM, Richoz N, Frazer GL, Staniforth JUL, Vieira Braga FA et al. Spatiotemporal immune zonation of the human kidney. Science. 2019 Sep 27;365(6460):1461-1466. PMID: 31604275; PMC: PMC7343525 
kidneyStewartCellType Kidney Cells Kidney RNA binned by merged cell type from Stewart et al 2019 Single Cell RNA-seq Description This track displays data from Spatiotemporal immune zonation of the human kidney. Droplet-based single-cell RNA sequencing (scRNA-seq) was used to profile 40,268 mature human kidney cells. After principal component analysis, identified clusters were manually curated into four major cellular compartments using canonical markers as found in Stewart et al., 2019: endothelial, immune, fibroblast, and epithelium. This track collection contains six bar chart tracks of RNA expression in the human kidney where cells are grouped by merged cell type (Kidney Cells), broad cell type (Kidney Broad CT), detailed cell type (Kidney Details), compartment (Kidney Compartment), experiment (Kidney Experiment), and project (Kidney Project). The default track displayed is Kidney Cells. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification fibroblast immune kidney specific epithelial endothelial Cells that fall into multiple classes will be colored by blending the colors associated with those classes. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Method 14 mature healthy human kidney samples were obtained from individuals (ages 1-72) that either underwent tumor nephrectomy (n=10) or from kidneys donated for transplantation (n=4) but were unsuitable for use. Kidney tissues from tumor nephrectomies were collected from unaffected areas estimated to be corticomedullary. Samples were enzymatically dissociated and enriched for live cells (experiment set 1) or enriched for leukocytes with a density gradient and then for live cells (experiment set 2). Single cell libraries were prepared using 10x Genomics 3' v2 kit and sequenced on an Illumina HiSeq4000. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Benjamin J Stewart, John R Ferdinand, and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Daniel Schmelter. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Stewart BJ, Ferdinand JR, Young MD, Mitchell TJ, Loudon KW, Riding AM, Richoz N, Frazer GL, Staniforth JUL, Vieira Braga FA et al. Spatiotemporal immune zonation of the human kidney. Science. 2019 Sep 27;365(6460):1461-1466. PMID: 31604275; PMC: PMC7343525 
kidneyStewartCompartment Kidney Compartment Kidney RNA binned by compartment from Stewart et al 2019 Single Cell RNA-seq Description This track displays data from Spatiotemporal immune zonation of the human kidney. Droplet-based single-cell RNA sequencing (scRNA-seq) was used to profile 40,268 mature human kidney cells. After principal component analysis, identified clusters were manually curated into four major cellular compartments using canonical markers as found in Stewart et al., 2019: endothelial, immune, fibroblast, and epithelium. This track collection contains six bar chart tracks of RNA expression in the human kidney where cells are grouped by merged cell type (Kidney Cells), broad cell type (Kidney Broad CT), detailed cell type (Kidney Details), compartment (Kidney Compartment), experiment (Kidney Experiment), and project (Kidney Project). The default track displayed is Kidney Cells. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification fibroblast immune kidney specific epithelial endothelial Cells that fall into multiple classes will be colored by blending the colors associated with those classes. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Method 14 mature healthy human kidney samples were obtained from individuals (ages 1-72) that either underwent tumor nephrectomy (n=10) or from kidneys donated for transplantation (n=4) but were unsuitable for use. Kidney tissues from tumor nephrectomies were collected from unaffected areas estimated to be corticomedullary. Samples were enzymatically dissociated and enriched for live cells (experiment set 1) or enriched for leukocytes with a density gradient and then for live cells (experiment set 2). Single cell libraries were prepared using 10x Genomics 3' v2 kit and sequenced on an Illumina HiSeq4000. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Benjamin J Stewart, John R Ferdinand, and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Daniel Schmelter. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Stewart BJ, Ferdinand JR, Young MD, Mitchell TJ, Loudon KW, Riding AM, Richoz N, Frazer GL, Staniforth JUL, Vieira Braga FA et al. Spatiotemporal immune zonation of the human kidney. Science. 2019 Sep 27;365(6460):1461-1466. PMID: 31604275; PMC: PMC7343525 
kidneyStewartDetailedCellType Kidney Details Kidney RNA binned by detailed cell type from Stewart et al 2019 Single Cell RNA-seq Description This track displays data from Spatiotemporal immune zonation of the human kidney. Droplet-based single-cell RNA sequencing (scRNA-seq) was used to profile 40,268 mature human kidney cells. After principal component analysis, identified clusters were manually curated into four major cellular compartments using canonical markers as found in Stewart et al., 2019: endothelial, immune, fibroblast, and epithelium. This track collection contains six bar chart tracks of RNA expression in the human kidney where cells are grouped by merged cell type (Kidney Cells), broad cell type (Kidney Broad CT), detailed cell type (Kidney Details), compartment (Kidney Compartment), experiment (Kidney Experiment), and project (Kidney Project). The default track displayed is Kidney Cells. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification fibroblast immune kidney specific epithelial endothelial Cells that fall into multiple classes will be colored by blending the colors associated with those classes. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Method 14 mature healthy human kidney samples were obtained from individuals (ages 1-72) that either underwent tumor nephrectomy (n=10) or from kidneys donated for transplantation (n=4) but were unsuitable for use. Kidney tissues from tumor nephrectomies were collected from unaffected areas estimated to be corticomedullary. Samples were enzymatically dissociated and enriched for live cells (experiment set 1) or enriched for leukocytes with a density gradient and then for live cells (experiment set 2). Single cell libraries were prepared using 10x Genomics 3' v2 kit and sequenced on an Illumina HiSeq4000. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Benjamin J Stewart, John R Ferdinand, and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Daniel Schmelter. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Stewart BJ, Ferdinand JR, Young MD, Mitchell TJ, Loudon KW, Riding AM, Richoz N, Frazer GL, Staniforth JUL, Vieira Braga FA et al. Spatiotemporal immune zonation of the human kidney. Science. 2019 Sep 27;365(6460):1461-1466. PMID: 31604275; PMC: PMC7343525 
kidneyStewartExperiment Kidney Experiment Kidney RNA binned by Experiment from Stewart et al 2019 Single Cell RNA-seq Description This track displays data from Spatiotemporal immune zonation of the human kidney. Droplet-based single-cell RNA sequencing (scRNA-seq) was used to profile 40,268 mature human kidney cells. After principal component analysis, identified clusters were manually curated into four major cellular compartments using canonical markers as found in Stewart et al., 2019: endothelial, immune, fibroblast, and epithelium. This track collection contains six bar chart tracks of RNA expression in the human kidney where cells are grouped by merged cell type (Kidney Cells), broad cell type (Kidney Broad CT), detailed cell type (Kidney Details), compartment (Kidney Compartment), experiment (Kidney Experiment), and project (Kidney Project). The default track displayed is Kidney Cells. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification fibroblast immune kidney specific epithelial endothelial Cells that fall into multiple classes will be colored by blending the colors associated with those classes. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Method 14 mature healthy human kidney samples were obtained from individuals (ages 1-72) that either underwent tumor nephrectomy (n=10) or from kidneys donated for transplantation (n=4) but were unsuitable for use. Kidney tissues from tumor nephrectomies were collected from unaffected areas estimated to be corticomedullary. Samples were enzymatically dissociated and enriched for live cells (experiment set 1) or enriched for leukocytes with a density gradient and then for live cells (experiment set 2). Single cell libraries were prepared using 10x Genomics 3' v2 kit and sequenced on an Illumina HiSeq4000. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Benjamin J Stewart, John R Ferdinand, and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Daniel Schmelter. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Stewart BJ, Ferdinand JR, Young MD, Mitchell TJ, Loudon KW, Riding AM, Richoz N, Frazer GL, Staniforth JUL, Vieira Braga FA et al. Spatiotemporal immune zonation of the human kidney. Science. 2019 Sep 27;365(6460):1461-1466. PMID: 31604275; PMC: PMC7343525 
kidneyStewartProject Kidney Project Kidney RNA binned by project from Stewart et al 2019 Single Cell RNA-seq Description This track displays data from Spatiotemporal immune zonation of the human kidney. Droplet-based single-cell RNA sequencing (scRNA-seq) was used to profile 40,268 mature human kidney cells. After principal component analysis, identified clusters were manually curated into four major cellular compartments using canonical markers as found in Stewart et al., 2019: endothelial, immune, fibroblast, and epithelium. This track collection contains six bar chart tracks of RNA expression in the human kidney where cells are grouped by merged cell type (Kidney Cells), broad cell type (Kidney Broad CT), detailed cell type (Kidney Details), compartment (Kidney Compartment), experiment (Kidney Experiment), and project (Kidney Project). The default track displayed is Kidney Cells. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification fibroblast immune kidney specific epithelial endothelial Cells that fall into multiple classes will be colored by blending the colors associated with those classes. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Method 14 mature healthy human kidney samples were obtained from individuals (ages 1-72) that either underwent tumor nephrectomy (n=10) or from kidneys donated for transplantation (n=4) but were unsuitable for use. Kidney tissues from tumor nephrectomies were collected from unaffected areas estimated to be corticomedullary. Samples were enzymatically dissociated and enriched for live cells (experiment set 1) or enriched for leukocytes with a density gradient and then for live cells (experiment set 2). Single cell libraries were prepared using 10x Genomics 3' v2 kit and sequenced on an Illumina HiSeq4000. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Benjamin J Stewart, John R Ferdinand, and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Daniel Schmelter. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Stewart BJ, Ferdinand JR, Young MD, Mitchell TJ, Loudon KW, Riding AM, Richoz N, Frazer GL, Staniforth JUL, Vieira Braga FA et al. Spatiotemporal immune zonation of the human kidney. Science. 2019 Sep 27;365(6460):1461-1466. PMID: 31604275; PMC: PMC7343525 
liftHg19 LiftOver & ReMap UCSC LiftOver and NCBI ReMap: Genome alignments to convert annotations to hg19 Mapping and Sequencing Description This track shows alignments from the hg38 to the hg19 genome assembly, used by the UCSC liftOver tool and NCBI's ReMap service, respectively. Display Conventions and Configuration The track has three subtracks, one for UCSC and two for NCBI alignments. The alignments are shown as &quot;chains&quot; of alignable regions. The display is similar to the other chain tracks, see our chain display documentation for more information. Data access UCSC liftOver chain files for hg19 to hg38 can be obtained from a dedicated directory on our Download server. The NCBI chain file can be obtained from the MySQL tables directory on our download server, the filename is 'chainHg19ReMap.txt.gz'. Both tables can also be explored interactively with the Table Browser or the Data Integrator. Methods ReMap 2.2 alignments were downloaded from the NCBI FTP site and converted with the UCSC kent command line tools. The UCSC tool chainSwap was used to swap target and query genome to show the mappings on the hg38 genome. Like all data processing for the genome browser, the procedure is documented in our hg19 makeDoc file. Credits Thanks to NCBI for making the ReMap data available and to Angie Hinrichs for the file conversion. 
chainHg19ReMapAxtChain ReMap + axtChain hg19 NCBI ReMap alignments to hg19/GRCh37, joined by axtChain Mapping and Sequencing 
chainHg19ReMap NCBI ReMap hg19 NCBI ReMap alignments to hg19/GRCh37 Mapping and Sequencing 
liftOverHg19 UCSC liftOver to hg19 UCSC liftOver alignments to hg19 Mapping and Sequencing 
lincRNAsTranscripts lincRNA TUCP lincRNA and TUCP transcripts Genes and Gene Predictions Description This track displays the Human Body Map lincRNAs (large intergenic non coding RNAs) and TUCPs (transcripts of uncertain coding potential), as well as their expression levels across 22 human tissues and cell lines. The Human Body Map catalog was generated by integrating previously existing annotation sources with transcripts that were de-novo assembled from RNA-Seq data. These transcripts were collected from ~4 billion RNA-Seq reads across 24 tissues and cell types. Expression abundance was estimated by Cufflinks (Trapnell et al., 2010) based on RNA-Seq. Expression abundances were estimated on the gene locus level, rather than for each transcript separately and are given as raw FPKM. The prefixes tcons_ and tcons_l2_ are used to describe lincRNAs and TUCP transcripts, respectively. Specific details about the catalog generation and data sets used for this study can be found in Cabili et al (2011). Extended characterization of each transcript in the human body map catalog can be found at the Human lincRNA Catalog website. Expression abundance scores range from 0 to 1000, and are displayed from light blue to dark blue respectively: 01000 Credits The body map RNA-Seq data was kindly provided by the Gene Expression Applications research group at Illumina. References Cabili MN, Trapnell C, Goff L, Koziol M, Tazon-Vega B, Regev A, Rinn JL. Integrative annotation of human large intergenic noncoding RNAs reveals global properties and specific subclasses. Genes Dev. 2011 Sep 15;25(18):1915-27. PMID: 21890647; PMC: PMC3185964 Trapnell C, Williams BA, Pertea G, Mortazavi A, Kwan G, van Baren MJ, Salzberg SL, Wold BJ, Pachter L. Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation. Nat Biotechnol. 2010 May;28(5):511-5. PMID: 20436464; PMC: PMC3146043 
liverMacParlandBroadCellType Liver Broad Liver cells binned by broad cell type from MacParland et al 2018 Single Cell RNA-seq Description This track shows data from Single cell RNA sequencing of human liver reveals distinct intrahepatic macrophage populations. Liver tissue was analyzed using droplet-based single-cell RNA-sequencing (scRNA-seq) and subsequent clustering distinguished 20 hepatic cell populations based on their identified marker genes found in MacParland et al., 2018. There are three bar chart tracks in this track collection with liver cells grouped by either broad cell type (Liver Broad), specific cell type (Liver Cells) and donor (Liver Donor). The default track displayed is Liver Cells. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification immune endothelial fibroblast epithelial stem cell hepatocyte Cells that fall into multiple classes will be colored by blending the colors associated with those classes. The colors will be purest in the Liver Cells subtrack, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Method Fresh liver samples were taken from 5 neurologically deceased donors (NDD) deemed acceptable for liver transplantation. The caudate lobe of the liver was surgically separated and flushed with HTK solution to leave only tissue resident cells that were used to prepare a cell suspension for scRNA-seq analysis. Samples were prepared using 10x Genomics 3' v2 library kit and sequenced on the Illumina HiSeq 2500. A total of 8,444 transcriptional profiles were obtained for organ specific and non-organ specific cells from healthy hepatic tissue. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Sonya MacParland and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Daniel Schmelter. The UCSC work was paid for by the Chan Zuckerberg Initiative. References MacParland SA, Liu JC, Ma XZ, Innes BT, Bartczak AM, Gage BK, Manuel J, Khuu N, Echeverri J, Linares I et al. Single cell RNA sequencing of human liver reveals distinct intrahepatic macrophage populations. Nat Commun. 2018 Oct 22;9(1):4383. PMID: 30348985; PMC: PMC6197289 
liverMacParland Liver MacParland Liver single cell sequencing from MacParland et al 2018 Single Cell RNA-seq Description This track shows data from Single cell RNA sequencing of human liver reveals distinct intrahepatic macrophage populations. Liver tissue was analyzed using droplet-based single-cell RNA-sequencing (scRNA-seq) and subsequent clustering distinguished 20 hepatic cell populations based on their identified marker genes found in MacParland et al., 2018. There are three bar chart tracks in this track collection with liver cells grouped by either broad cell type (Liver Broad), specific cell type (Liver Cells) and donor (Liver Donor). The default track displayed is Liver Cells. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification immune endothelial fibroblast epithelial stem cell hepatocyte Cells that fall into multiple classes will be colored by blending the colors associated with those classes. The colors will be purest in the Liver Cells subtrack, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. The default track displayed is liver RNA grouped by cell type. Method Fresh liver samples were taken from 5 neurologically deceased donors (NDD) deemed acceptable for liver transplantation. The caudate lobe of the liver was surgically separated and flushed with HTK solution to leave only tissue resident cells that were used to prepare a cell suspension for scRNA-seq analysis. Samples were prepared using 10x Genomics 3' v2 library kit and sequenced on the Illumina HiSeq 2500. A total of 8,444 transcriptional profiles were obtained for organ specific and non-organ specific cells from healthy hepatic tissue. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Sonya MacParland and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Daniel Schmelter. The UCSC work was paid for by the Chan Zuckerberg Initiative. References MacParland SA, Liu JC, Ma XZ, Innes BT, Bartczak AM, Gage BK, Manuel J, Khuu N, Echeverri J, Linares I et al. Single cell RNA sequencing of human liver reveals distinct intrahepatic macrophage populations. Nat Commun. 2018 Oct 22;9(1):4383. PMID: 30348985; PMC: PMC6197289 
liverMacParlandCellType Liver Cells Liver cells binned by cell type from MacParland et al 2018 Single Cell RNA-seq Description This track shows data from Single cell RNA sequencing of human liver reveals distinct intrahepatic macrophage populations. Liver tissue was analyzed using droplet-based single-cell RNA-sequencing (scRNA-seq) and subsequent clustering distinguished 20 hepatic cell populations based on their identified marker genes found in MacParland et al., 2018. There are three bar chart tracks in this track collection with liver cells grouped by either broad cell type (Liver Broad), specific cell type (Liver Cells) and donor (Liver Donor). The default track displayed is Liver Cells. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification immune endothelial fibroblast epithelial stem cell hepatocyte Cells that fall into multiple classes will be colored by blending the colors associated with those classes. The colors will be purest in the Liver Cells subtrack, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Relevant Figures From MacParland et al., 2018 Map of the human liver and its associated cell types. The liver is constructed of hepatic lobules which are composed of a portal triad (hepatic artery, the portal vein and the bile duct), hepatocytes aligned between a capillary network, and a central vein. MacParland et al. Nat Commun. 2018. / CC BY 4.0 Method Fresh liver samples were taken from 5 neurologically deceased donors (NDD) deemed acceptable for liver transplantation. The caudate lobe of the liver was surgically separated and flushed with HTK solution to leave only tissue resident cells that were used to prepare a cell suspension for scRNA-seq analysis. Samples were prepared using 10x Genomics 3' v2 library kit and sequenced on the Illumina HiSeq 2500. A total of 8,444 transcriptional profiles were obtained for organ specific and non-organ specific cells from healthy hepatic tissue. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Sonya MacParland and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Daniel Schmelter. The UCSC work was paid for by the Chan Zuckerberg Initiative. References MacParland SA, Liu JC, Ma XZ, Innes BT, Bartczak AM, Gage BK, Manuel J, Khuu N, Echeverri J, Linares I et al. Single cell RNA sequencing of human liver reveals distinct intrahepatic macrophage populations. Nat Commun. 2018 Oct 22;9(1):4383. PMID: 30348985; PMC: PMC6197289 
liverMacParlandDonor Liver Donor Liver cells binned by organ donor from MacParland et al 2018 Single Cell RNA-seq Description This track shows data from Single cell RNA sequencing of human liver reveals distinct intrahepatic macrophage populations. Liver tissue was analyzed using droplet-based single-cell RNA-sequencing (scRNA-seq) and subsequent clustering distinguished 20 hepatic cell populations based on their identified marker genes found in MacParland et al., 2018. There are three bar chart tracks in this track collection with liver cells grouped by either broad cell type (Liver Broad), specific cell type (Liver Cells) and donor (Liver Donor). The default track displayed is Liver Cells. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification immune endothelial fibroblast epithelial stem cell hepatocyte Cells that fall into multiple classes will be colored by blending the colors associated with those classes. The colors will be purest in the Liver Cells subtrack, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Relevant Figures From MacParland et al., 2018 Contribution of cells from each liver sample to each cell cluster. Note that the liver number corresponds to the donor number (e.g. Liver 1 = Donor 1). MacParland et al. Nat Commun. 2018. / CC BY 4.0 t-SNE plot of human liver resident cells colored by source donor (Liver 1-5) and labeled with cluster number. MacParland et al. Nat Commun. 2018. / CC BY 4.0 Method Fresh liver samples were taken from 5 neurologically deceased donors (NDD) deemed acceptable for liver transplantation. The caudate lobe of the liver was surgically separated and flushed with HTK solution to leave only tissue resident cells that were used to prepare a cell suspension for scRNA-seq analysis. Samples were prepared using 10x Genomics 3' v2 library kit and sequenced on the Illumina HiSeq 2500. A total of 8,444 transcriptional profiles were obtained for organ specific and non-organ specific cells from healthy hepatic tissue. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Sonya MacParland and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Daniel Schmelter. The UCSC work was paid for by the Chan Zuckerberg Initiative. References MacParland SA, Liu JC, Ma XZ, Innes BT, Bartczak AM, Gage BK, Manuel J, Khuu N, Echeverri J, Linares I et al. Single cell RNA sequencing of human liver reveals distinct intrahepatic macrophage populations. Nat Commun. 2018 Oct 22;9(1):4383. PMID: 30348985; PMC: PMC6197289 
lovdComp LOVD Variants LOVD: Leiden Open Variation Database Public Variants Phenotypes, Variants, and Literature Description NOTE: LOVD is intended for use primarily by physicians and other professionals concerned with genetic disorders, by genetics researchers, and by advanced students in science and medicine. While the LOVD database is open to the public, users seeking information about a personal medical or genetic condition are urged to consult with a qualified physician for diagnosis and for answers to personal questions. Further, please be sure to visit the LOVD web site for the very latest, as they are continually updating data. DOWNLOADS: LOVD databases are owned by their respective curators and are not available for download or mirroring by any third party without their permission. Batch queries on this track are only available via the UCSC Beacon API (see below). See also the LOVD web site for a list of database installations and the respective curators. This track shows the genomic positions of all public entries in public installations of the Leiden Open Variation Database system (LOVD) and the effect of the variant, if annotated. Due to the copyright restrictions of the LOVD databases, UCSC is not allowed to host any further information. To get details on a variant (bibliographic reference, phenotype, disease, patient, etc.), follow the &quot;Link to LOVD&quot; to the central server at Leiden, which will then redirect you to the details page on the particular LOVD server reporting this variant. Since Apr 2020, similar to the ClinVar track, the data is split into two subtracks, for variants with a length of &lt; 50 bp and &gt;= 50 bp, respectively. LOVD is a flexible, freely-available tool for gene-centered collection and display of DNA variations. It is not a database itself, but rather a platform where curators store and analyze data. While the LOVD team and the biggest LOVD sites are run at the Leiden University Medical Center, LOVD installations and their curators are spread over the whole world. Most LOVD databases report at least some of their content back to Leiden to allow global cross-database search, which is, among others, exported to this UCSC Genome Browser track every month. A few LOVD databases are entirely missing from this track. Reasons include configuration issues and intentionally blocked data search. During the last check in November 2019, the following databases did not export any variants: https://databases.lovd.nl/shared/genes/LDLR http://sysbio.org.cn/ https://ab-openlab.csir.res.in/mitolsdb/ Curators who want to share data in their database so it is present in this track can find more details in the LOVD FAQ. Batch queries The LOVD data is not available for download or for batch queries in the Table Browser. However, it is available for programmatic access via the Global Alliance Beacon API, a web service that accepts queries in the form (genome, chromosome, position, allele) and returns &quot;true&quot; or &quot;false&quot; depending on whether there is information about this allele in the database. For more details see our Beacon Server. To find all LOVD databases that contain variants of a given gene, you can get a list of databases by constructing a url in the format geneSymbol.lovd.nl, for example, tp53.lovd.nl. You can then use the LOVD API to retrieve more detailed information from a particular database. See the LOVD FAQ. Display Conventions and Configuration Genomic locations of LOVD variation entries are labeled with the gene symbol and the description of the mutation according to Human Gene Variation Society standards. For instance, the label AGRN:c.172G&gt;A means that the cDNA of AGRN is mutated from G to A at position 172. Since October 2017, the functional effect for variants is shown on the details page, if annotated. The possible values are: notClassified functionAffected notThisDisease notAnyDisease functionProbablyAffected functionProbablyNotAffected functionNotAffected unknown LOVD does not use the term &quot;pathogenic&quot;, please see the HGVS Terminology page for more details. All other information is shown on the respective LOVD variation page, accessible via the &quot;Link to LOVD&quot; above. Methods The mappings displayed in this track were provided by LOVD. Credits Thanks to the LOVD team, Ivo Fokkema, Peter Taschner, Johan den Dunnen, and all LOVD curators who gave permission to show their data. References Fokkema IF, Taschner PE, Schaafsma GC, Celli J, Laros JF, den Dunnen JT. LOVD v.2.0: the next generation in gene variant databases. Hum Mutat. 2011 May;32(5):557-63. PMID: 21520333 
lovdLong LOVD Variants >= 50 bp LOVD: Leiden Open Variation Database Public Variants, long >= 50 bp variants Phenotypes, Variants, and Literature 
lovdShort LOVD Variants < 50 bp + ins LOVD: Leiden Open Variation Database, short < 50 bp variants and insertions of any length Phenotypes, Variants, and Literature 
lrg LRG Regions Locus Reference Genomic (LRG) / RefSeqGene Sequences Mapped to Dec. 2013 (GRCh38/hg38) Assembly Mapping and Sequencing Description Locus Reference Genomic (LRG) sequences are manually curated, stable DNA sequences that surround a locus (typically a gene) and provide an unchanging coordinate system for reporting sequence variants. They are not necessarily identical to the corresponding sequence in a particular reference genome assembly (such as Dec. 2013 (GRCh38/hg38)), but can be mapped to each version of a reference genome assembly in order to convert between the stable LRG variant coordinates and the various assembly coordinates. We import the data from the LRG database at the EBI. The NCBI RefSeqGene database is almost identical to LRG, but it may contain a few more sequences. See the NCBI documentation. Each LRG record also includes at least one stable transcript on which variants may be reported. These transcripts appear in the LRG Transcripts track in the Gene and Gene Predictions track section. Methods LRG sequences are suggested by the community studying a locus (for example, Locus-Specific Database curators, research laboratories, mutation consortia). LRG curators then examine the submitted transcript as well as other known transcripts at the locus, in the context of alignment and public expression data. For more information on the selection and annotation process, see the LRG FAQ, (Dalgleish, et al.) and (MacArthur, et al.). Credits This track was produced at UCSC using LRG XML files. Thanks to LRG collaborators for making these data available. References Dalgleish R, Flicek P, Cunningham F, Astashyn A, Tully RE, Proctor G, Chen Y, McLaren WM, Larsson P, Vaughan BW et al. Locus Reference Genomic sequences: an improved basis for describing human DNA variants. Genome Med. 2010 Apr 15;2(4):24. PMID: 20398331; PMC: PMC2873802 MacArthur JA, Morales J, Tully RE, Astashyn A, Gil L, Bruford EA, Larsson P, Flicek P, Dalgleish R, Maglott DR et al. Locus Reference Genomic: reference sequences for the reporting of clinically relevant sequence variants. Nucleic Acids Res. 2014 Jan;42(Database issue):D873-8. PMID: 24285302; PMC: PMC3965024 
lrgTranscriptAli LRG Transcripts Locus Reference Genomic (LRG) / RefSeqGene Fixed Transcript Annotations Genes and Gene Predictions Description This track shows the fixed (unchanging) transcript(s) associated with each Locus Reference Genomic (LRG) sequence. LRG sequences are manually curated, stable DNA sequences that surround a locus (typically a gene) and provide an unchanging coordinate system for reporting sequence variants. They are not necessarily identical to the corresponding sequence in a particular reference genome assembly (such as Dec. 2013 (GRCh38/hg38)), but can be mapped to each version of a reference genome assembly in order to convert between the stable LRG variant coordinates and the various assembly coordinates. We import the data from the LRG database at the EBI. The NCBI RefSeqGene database is almost identical to LRG, but it may contain a few more sequences. See the NCBI documentation. The LRG Regions track, in the Mapping and Sequencing Tracks section, includes more information about the LRG including the HGNC gene symbol for the gene at that locus, source of the LRG sequence, and summary of differences between LRG sequence and the genome assembly. Methods LRG sequences are suggested by the community studying a locus (for example, Locus-Specific Database curators, research laboratories, mutation consortia). LRG curators then examine the submitted transcript as well as other known transcripts at the locus, in the context of alignment and public expression data. For more information on the selection and annotation process, see the LRG FAQ, (Dalgleish, et al.) and (MacArthur, et al.). Credits This track was produced at UCSC using LRG XML files. Thanks to LRG collaborators for making these data available. References Dalgleish R, Flicek P, Cunningham F, Astashyn A, Tully RE, Proctor G, Chen Y, McLaren WM, Larsson P, Vaughan BW et al. Locus Reference Genomic sequences: an improved basis for describing human DNA variants. Genome Med. 2010 Apr 15;2(4):24. PMID: 20398331; PMC: PMC2873802 MacArthur JA, Morales J, Tully RE, Astashyn A, Gil L, Bruford EA, Larsson P, Flicek P, Dalgleish R, Maglott DR et al. Locus Reference Genomic: reference sequences for the reporting of clinically relevant sequence variants. Nucleic Acids Res. 2014 Jan;42(Database issue):D873-8. PMID: 24285302; PMC: PMC3965024 
lungTravaglini2020CellType10x Lung Cells Lung cells 10x method binned by merged cell type from Travaglini et al 2020 Single Cell RNA-seq Description This track displays data from A molecular cell atlas of the human lung from single-cell RNA sequencing. Using droplet-based and plate-based single-cell RNA sequencing (scRNA-seq), 58 lung cell type populations were identified: 15 epithelial, 9 endothelial, 9 stromal, and 25 immune. This dataset covers ~75,000 human cells across all lung tissue compartments and circulating blood. This track collection contains 19 bar chart tracks of RNA expression in the human lung where cells are grouped such as by cell type (Lung Cells, Lung Cells FACS), tissue compartments (Lung Compart, Lung Compart FACS), detailed cell type (Lung Detail, Lung Detail FACS), organ donor (Lung Donor, Lung Donor FACS), halfway detailed cell type (Lung Half Det, Lung Half Det FACS), sample location (Lung Locat, Lung Locat FACS), or organ (Lung Organ, Lung Organ FACS). The default track displayed is Lung Cells. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification fibroblast immune muscle secretory ciliated epithelial endothelial Cells that fall into multiple classes will be colored by blending the colors associated with those classes. The colors will be purest in the Lung Cells subtrack, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Method Healthy lung tissue and peripheral blood was surgically removed from 2 male patients (ages 46 and 75) and 1 female patient (age 51) undergoing lobectomy for focal lung tumors. Lung tissue was sampled from the bronchi (proximal), bronchiole (medial), and alveolar (distal) regions. Lung samples were dissociated and enriched with magnetic columns before being sorted into epithelial, endothelial/immune, and stromal cell suspensions. Lung and peripheral blood libraries were prepared using the 10x Genomics 3' v2 kit. In parallel, Smart-Seq2 (SS2) cDNA libraries were prepared using the Nextera XT library kit. Both 10x and SS2 libraries were sequenced on a NovaSeq 6000. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Kyle J. Travaglini, Ahmad N. Nabhan, and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Gerardo Perez. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Travaglini KJ, Nabhan AN, Penland L, Sinha R, Gillich A, Sit RV, Chang S, Conley SD, Mori Y, Seita J et al. A molecular cell atlas of the human lung from single-cell RNA sequencing. Nature. 2020 Nov;587(7835):619-625. PMID: 33208946; PMC: PMC7704697 
lungTravaglini2020 Lung Travaglini Lung cells from from Travaglini et al 2020 Single Cell RNA-seq Description This track displays data from A molecular cell atlas of the human lung from single-cell RNA sequencing. Using droplet-based and plate-based single-cell RNA sequencing (scRNA-seq), 58 lung cell type populations were identified: 15 epithelial, 9 endothelial, 9 stromal, and 25 immune. This dataset covers ~75,000 human cells across all lung tissue compartments and circulating blood. This track collection contains 19 bar chart tracks of RNA expression in the human lung where cells are grouped such as by cell type (Lung Cells, Lung Cells FACS), tissue compartments (Lung Compart, Lung Compart FACS), detailed cell type (Lung Detail, Lung Detail FACS), organ donor (Lung Donor, Lung Donor FACS), halfway detailed cell type (Lung Half Det, Lung Half Det FACS), sample location (Lung Locat, Lung Locat FACS), or organ (Lung Organ, Lung Organ FACS). The default track displayed is Lung Cells. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification fibroblast immune muscle secretory ciliated epithelial endothelial Cells that fall into multiple classes will be colored by blending the colors associated with those classes. The colors will be purest in the Lung Cells subtrack, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Method Healthy lung tissue and peripheral blood was surgically removed from 2 male patients (ages 46 and 75) and 1 female patient (age 51) undergoing lobectomy for focal lung tumors. Lung tissue was sampled from the bronchi (proximal), bronchiole (medial), and alveolar (distal) regions. Lung samples were dissociated and enriched with magnetic columns before being sorted into epithelial, endothelial/immune, and stromal cell suspensions. Lung and peripheral blood libraries were prepared using the 10x Genomics 3' v2 kit. In parallel, Smart-Seq2 (SS2) cDNA libraries were prepared using the Nextera XT library kit. Both 10x and SS2 libraries were sequenced on a NovaSeq 6000. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Kyle J. Travaglini, Ahmad N. Nabhan, and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Gerardo Perez. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Travaglini KJ, Nabhan AN, Penland L, Sinha R, Gillich A, Sit RV, Chang S, Conley SD, Mori Y, Seita J et al. A molecular cell atlas of the human lung from single-cell RNA sequencing. Nature. 2020 Nov;587(7835):619-625. PMID: 33208946; PMC: PMC7704697 
lungTravaglini2020CellTypeFacs Lung Cells FACS Lung cells FACS method binned by merged cell type from Travaglini et al 2020 Single Cell RNA-seq Description This track displays data from A molecular cell atlas of the human lung from single-cell RNA sequencing. Using droplet-based and plate-based single-cell RNA sequencing (scRNA-seq), 58 lung cell type populations were identified: 15 epithelial, 9 endothelial, 9 stromal, and 25 immune. This dataset covers ~75,000 human cells across all lung tissue compartments and circulating blood. This track collection contains 19 bar chart tracks of RNA expression in the human lung where cells are grouped such as by cell type (Lung Cells, Lung Cells FACS), tissue compartments (Lung Compart, Lung Compart FACS), detailed cell type (Lung Detail, Lung Detail FACS), organ donor (Lung Donor, Lung Donor FACS), halfway detailed cell type (Lung Half Det, Lung Half Det FACS), sample location (Lung Locat, Lung Locat FACS), or organ (Lung Organ, Lung Organ FACS). The default track displayed is Lung Cells. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification fibroblast immune muscle secretory ciliated epithelial endothelial Cells that fall into multiple classes will be colored by blending the colors associated with those classes. The colors will be purest in the Lung Cells subtrack, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Method Healthy lung tissue and peripheral blood was surgically removed from 2 male patients (ages 46 and 75) and 1 female patient (age 51) undergoing lobectomy for focal lung tumors. Lung tissue was sampled from the bronchi (proximal), bronchiole (medial), and alveolar (distal) regions. Lung samples were dissociated and enriched with magnetic columns before being sorted into epithelial, endothelial/immune, and stromal cell suspensions. Lung and peripheral blood libraries were prepared using the 10x Genomics 3' v2 kit. In parallel, Smart-Seq2 (SS2) cDNA libraries were prepared using the Nextera XT library kit. Both 10x and SS2 libraries were sequenced on a NovaSeq 6000. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Kyle J. Travaglini, Ahmad N. Nabhan, and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Gerardo Perez. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Travaglini KJ, Nabhan AN, Penland L, Sinha R, Gillich A, Sit RV, Chang S, Conley SD, Mori Y, Seita J et al. A molecular cell atlas of the human lung from single-cell RNA sequencing. Nature. 2020 Nov;587(7835):619-625. PMID: 33208946; PMC: PMC7704697 
lungTravaglini2020Compartment10x Lung Compart Lung cells 10x method binned by compartment from Travaglini et al 2020 Single Cell RNA-seq Description This track displays data from A molecular cell atlas of the human lung from single-cell RNA sequencing. Using droplet-based and plate-based single-cell RNA sequencing (scRNA-seq), 58 lung cell type populations were identified: 15 epithelial, 9 endothelial, 9 stromal, and 25 immune. This dataset covers ~75,000 human cells across all lung tissue compartments and circulating blood. This track collection contains 19 bar chart tracks of RNA expression in the human lung where cells are grouped such as by cell type (Lung Cells, Lung Cells FACS), tissue compartments (Lung Compart, Lung Compart FACS), detailed cell type (Lung Detail, Lung Detail FACS), organ donor (Lung Donor, Lung Donor FACS), halfway detailed cell type (Lung Half Det, Lung Half Det FACS), sample location (Lung Locat, Lung Locat FACS), or organ (Lung Organ, Lung Organ FACS). The default track displayed is Lung Cells. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification fibroblast immune muscle secretory ciliated epithelial endothelial Cells that fall into multiple classes will be colored by blending the colors associated with those classes. The colors will be purest in the Lung Cells subtrack, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Method Healthy lung tissue and peripheral blood was surgically removed from 2 male patients (ages 46 and 75) and 1 female patient (age 51) undergoing lobectomy for focal lung tumors. Lung tissue was sampled from the bronchi (proximal), bronchiole (medial), and alveolar (distal) regions. Lung samples were dissociated and enriched with magnetic columns before being sorted into epithelial, endothelial/immune, and stromal cell suspensions. Lung and peripheral blood libraries were prepared using the 10x Genomics 3' v2 kit. In parallel, Smart-Seq2 (SS2) cDNA libraries were prepared using the Nextera XT library kit. Both 10x and SS2 libraries were sequenced on a NovaSeq 6000. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Kyle J. Travaglini, Ahmad N. Nabhan, and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Gerardo Perez. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Travaglini KJ, Nabhan AN, Penland L, Sinha R, Gillich A, Sit RV, Chang S, Conley SD, Mori Y, Seita J et al. A molecular cell atlas of the human lung from single-cell RNA sequencing. Nature. 2020 Nov;587(7835):619-625. PMID: 33208946; PMC: PMC7704697 
lungTravaglini2020CompartmentFacs Lung Compart FACS Lung cells FACS method binned by compartment from Travaglini et al 2020 Single Cell RNA-seq Description This track displays data from A molecular cell atlas of the human lung from single-cell RNA sequencing. Using droplet-based and plate-based single-cell RNA sequencing (scRNA-seq), 58 lung cell type populations were identified: 15 epithelial, 9 endothelial, 9 stromal, and 25 immune. This dataset covers ~75,000 human cells across all lung tissue compartments and circulating blood. This track collection contains 19 bar chart tracks of RNA expression in the human lung where cells are grouped such as by cell type (Lung Cells, Lung Cells FACS), tissue compartments (Lung Compart, Lung Compart FACS), detailed cell type (Lung Detail, Lung Detail FACS), organ donor (Lung Donor, Lung Donor FACS), halfway detailed cell type (Lung Half Det, Lung Half Det FACS), sample location (Lung Locat, Lung Locat FACS), or organ (Lung Organ, Lung Organ FACS). The default track displayed is Lung Cells. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification fibroblast immune muscle secretory ciliated epithelial endothelial Cells that fall into multiple classes will be colored by blending the colors associated with those classes. The colors will be purest in the Lung Cells subtrack, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Method Healthy lung tissue and peripheral blood was surgically removed from 2 male patients (ages 46 and 75) and 1 female patient (age 51) undergoing lobectomy for focal lung tumors. Lung tissue was sampled from the bronchi (proximal), bronchiole (medial), and alveolar (distal) regions. Lung samples were dissociated and enriched with magnetic columns before being sorted into epithelial, endothelial/immune, and stromal cell suspensions. Lung and peripheral blood libraries were prepared using the 10x Genomics 3' v2 kit. In parallel, Smart-Seq2 (SS2) cDNA libraries were prepared using the Nextera XT library kit. Both 10x and SS2 libraries were sequenced on a NovaSeq 6000. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Kyle J. Travaglini, Ahmad N. Nabhan, and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Gerardo Perez. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Travaglini KJ, Nabhan AN, Penland L, Sinha R, Gillich A, Sit RV, Chang S, Conley SD, Mori Y, Seita J et al. A molecular cell atlas of the human lung from single-cell RNA sequencing. Nature. 2020 Nov;587(7835):619-625. PMID: 33208946; PMC: PMC7704697 
lungTravaglini2020DetailedCellType10x Lung Detail Lung cells 10x method binned by detailed cell type from Travaglini et al 2020 Single Cell RNA-seq Description This track displays data from A molecular cell atlas of the human lung from single-cell RNA sequencing. Using droplet-based and plate-based single-cell RNA sequencing (scRNA-seq), 58 lung cell type populations were identified: 15 epithelial, 9 endothelial, 9 stromal, and 25 immune. This dataset covers ~75,000 human cells across all lung tissue compartments and circulating blood. This track collection contains 19 bar chart tracks of RNA expression in the human lung where cells are grouped such as by cell type (Lung Cells, Lung Cells FACS), tissue compartments (Lung Compart, Lung Compart FACS), detailed cell type (Lung Detail, Lung Detail FACS), organ donor (Lung Donor, Lung Donor FACS), halfway detailed cell type (Lung Half Det, Lung Half Det FACS), sample location (Lung Locat, Lung Locat FACS), or organ (Lung Organ, Lung Organ FACS). The default track displayed is Lung Cells. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification fibroblast immune muscle secretory ciliated epithelial endothelial Cells that fall into multiple classes will be colored by blending the colors associated with those classes. The colors will be purest in the Lung Cells subtrack, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Method Healthy lung tissue and peripheral blood was surgically removed from 2 male patients (ages 46 and 75) and 1 female patient (age 51) undergoing lobectomy for focal lung tumors. Lung tissue was sampled from the bronchi (proximal), bronchiole (medial), and alveolar (distal) regions. Lung samples were dissociated and enriched with magnetic columns before being sorted into epithelial, endothelial/immune, and stromal cell suspensions. Lung and peripheral blood libraries were prepared using the 10x Genomics 3' v2 kit. In parallel, Smart-Seq2 (SS2) cDNA libraries were prepared using the Nextera XT library kit. Both 10x and SS2 libraries were sequenced on a NovaSeq 6000. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Kyle J. Travaglini, Ahmad N. Nabhan, and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Gerardo Perez. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Travaglini KJ, Nabhan AN, Penland L, Sinha R, Gillich A, Sit RV, Chang S, Conley SD, Mori Y, Seita J et al. A molecular cell atlas of the human lung from single-cell RNA sequencing. Nature. 2020 Nov;587(7835):619-625. PMID: 33208946; PMC: PMC7704697 
lungTravaglini2020DetailedCellTypeFacs Lung Detail FACS Lung cells FACS method binned by detailed cell type from Travaglini et al 2020 Single Cell RNA-seq Description This track displays data from A molecular cell atlas of the human lung from single-cell RNA sequencing. Using droplet-based and plate-based single-cell RNA sequencing (scRNA-seq), 58 lung cell type populations were identified: 15 epithelial, 9 endothelial, 9 stromal, and 25 immune. This dataset covers ~75,000 human cells across all lung tissue compartments and circulating blood. This track collection contains 19 bar chart tracks of RNA expression in the human lung where cells are grouped such as by cell type (Lung Cells, Lung Cells FACS), tissue compartments (Lung Compart, Lung Compart FACS), detailed cell type (Lung Detail, Lung Detail FACS), organ donor (Lung Donor, Lung Donor FACS), halfway detailed cell type (Lung Half Det, Lung Half Det FACS), sample location (Lung Locat, Lung Locat FACS), or organ (Lung Organ, Lung Organ FACS). The default track displayed is Lung Cells. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification fibroblast immune muscle secretory ciliated epithelial endothelial Cells that fall into multiple classes will be colored by blending the colors associated with those classes. The colors will be purest in the Lung Cells subtrack, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Method Healthy lung tissue and peripheral blood was surgically removed from 2 male patients (ages 46 and 75) and 1 female patient (age 51) undergoing lobectomy for focal lung tumors. Lung tissue was sampled from the bronchi (proximal), bronchiole (medial), and alveolar (distal) regions. Lung samples were dissociated and enriched with magnetic columns before being sorted into epithelial, endothelial/immune, and stromal cell suspensions. Lung and peripheral blood libraries were prepared using the 10x Genomics 3' v2 kit. In parallel, Smart-Seq2 (SS2) cDNA libraries were prepared using the Nextera XT library kit. Both 10x and SS2 libraries were sequenced on a NovaSeq 6000. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Kyle J. Travaglini, Ahmad N. Nabhan, and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Gerardo Perez. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Travaglini KJ, Nabhan AN, Penland L, Sinha R, Gillich A, Sit RV, Chang S, Conley SD, Mori Y, Seita J et al. A molecular cell atlas of the human lung from single-cell RNA sequencing. Nature. 2020 Nov;587(7835):619-625. PMID: 33208946; PMC: PMC7704697 
lungTravaglini2020Donor10x Lung Donor Lung cells 10x method binned by organ donor from Travaglini et al 2020 Single Cell RNA-seq Description This track displays data from A molecular cell atlas of the human lung from single-cell RNA sequencing. Using droplet-based and plate-based single-cell RNA sequencing (scRNA-seq), 58 lung cell type populations were identified: 15 epithelial, 9 endothelial, 9 stromal, and 25 immune. This dataset covers ~75,000 human cells across all lung tissue compartments and circulating blood. This track collection contains 19 bar chart tracks of RNA expression in the human lung where cells are grouped such as by cell type (Lung Cells, Lung Cells FACS), tissue compartments (Lung Compart, Lung Compart FACS), detailed cell type (Lung Detail, Lung Detail FACS), organ donor (Lung Donor, Lung Donor FACS), halfway detailed cell type (Lung Half Det, Lung Half Det FACS), sample location (Lung Locat, Lung Locat FACS), or organ (Lung Organ, Lung Organ FACS). The default track displayed is Lung Cells. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification fibroblast immune muscle secretory ciliated epithelial endothelial Cells that fall into multiple classes will be colored by blending the colors associated with those classes. The colors will be purest in the Lung Cells subtrack, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Method Healthy lung tissue and peripheral blood was surgically removed from 2 male patients (ages 46 and 75) and 1 female patient (age 51) undergoing lobectomy for focal lung tumors. Lung tissue was sampled from the bronchi (proximal), bronchiole (medial), and alveolar (distal) regions. Lung samples were dissociated and enriched with magnetic columns before being sorted into epithelial, endothelial/immune, and stromal cell suspensions. Lung and peripheral blood libraries were prepared using the 10x Genomics 3' v2 kit. In parallel, Smart-Seq2 (SS2) cDNA libraries were prepared using the Nextera XT library kit. Both 10x and SS2 libraries were sequenced on a NovaSeq 6000. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Kyle J. Travaglini, Ahmad N. Nabhan, and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Gerardo Perez. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Travaglini KJ, Nabhan AN, Penland L, Sinha R, Gillich A, Sit RV, Chang S, Conley SD, Mori Y, Seita J et al. A molecular cell atlas of the human lung from single-cell RNA sequencing. Nature. 2020 Nov;587(7835):619-625. PMID: 33208946; PMC: PMC7704697 
lungTravaglini2020DonorFacs Lung Donor FACS Lung cells FACS method binned by organ donor from Travaglini et al 2020 Single Cell RNA-seq Description This track displays data from A molecular cell atlas of the human lung from single-cell RNA sequencing. Using droplet-based and plate-based single-cell RNA sequencing (scRNA-seq), 58 lung cell type populations were identified: 15 epithelial, 9 endothelial, 9 stromal, and 25 immune. This dataset covers ~75,000 human cells across all lung tissue compartments and circulating blood. This track collection contains 19 bar chart tracks of RNA expression in the human lung where cells are grouped such as by cell type (Lung Cells, Lung Cells FACS), tissue compartments (Lung Compart, Lung Compart FACS), detailed cell type (Lung Detail, Lung Detail FACS), organ donor (Lung Donor, Lung Donor FACS), halfway detailed cell type (Lung Half Det, Lung Half Det FACS), sample location (Lung Locat, Lung Locat FACS), or organ (Lung Organ, Lung Organ FACS). The default track displayed is Lung Cells. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification fibroblast immune muscle secretory ciliated epithelial endothelial Cells that fall into multiple classes will be colored by blending the colors associated with those classes. The colors will be purest in the Lung Cells subtrack, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Method Healthy lung tissue and peripheral blood was surgically removed from 2 male patients (ages 46 and 75) and 1 female patient (age 51) undergoing lobectomy for focal lung tumors. Lung tissue was sampled from the bronchi (proximal), bronchiole (medial), and alveolar (distal) regions. Lung samples were dissociated and enriched with magnetic columns before being sorted into epithelial, endothelial/immune, and stromal cell suspensions. Lung and peripheral blood libraries were prepared using the 10x Genomics 3' v2 kit. In parallel, Smart-Seq2 (SS2) cDNA libraries were prepared using the Nextera XT library kit. Both 10x and SS2 libraries were sequenced on a NovaSeq 6000. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Kyle J. Travaglini, Ahmad N. Nabhan, and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Gerardo Perez. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Travaglini KJ, Nabhan AN, Penland L, Sinha R, Gillich A, Sit RV, Chang S, Conley SD, Mori Y, Seita J et al. A molecular cell atlas of the human lung from single-cell RNA sequencing. Nature. 2020 Nov;587(7835):619-625. PMID: 33208946; PMC: PMC7704697 
lungTravaglini2020GatingFacs Lung Gating FACS Lung cells FACS method binned by gating from Travaglini et al 2020 Single Cell RNA-seq Description This track displays data from A molecular cell atlas of the human lung from single-cell RNA sequencing. Using droplet-based and plate-based single-cell RNA sequencing (scRNA-seq), 58 lung cell type populations were identified: 15 epithelial, 9 endothelial, 9 stromal, and 25 immune. This dataset covers ~75,000 human cells across all lung tissue compartments and circulating blood. This track collection contains 19 bar chart tracks of RNA expression in the human lung where cells are grouped such as by cell type (Lung Cells, Lung Cells FACS), tissue compartments (Lung Compart, Lung Compart FACS), detailed cell type (Lung Detail, Lung Detail FACS), organ donor (Lung Donor, Lung Donor FACS), halfway detailed cell type (Lung Half Det, Lung Half Det FACS), sample location (Lung Locat, Lung Locat FACS), or organ (Lung Organ, Lung Organ FACS). The default track displayed is Lung Cells. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification fibroblast immune muscle secretory ciliated epithelial endothelial Cells that fall into multiple classes will be colored by blending the colors associated with those classes. The colors will be purest in the Lung Cells subtrack, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Method Healthy lung tissue and peripheral blood was surgically removed from 2 male patients (ages 46 and 75) and 1 female patient (age 51) undergoing lobectomy for focal lung tumors. Lung tissue was sampled from the bronchi (proximal), bronchiole (medial), and alveolar (distal) regions. Lung samples were dissociated and enriched with magnetic columns before being sorted into epithelial, endothelial/immune, and stromal cell suspensions. Lung and peripheral blood libraries were prepared using the 10x Genomics 3' v2 kit. In parallel, Smart-Seq2 (SS2) cDNA libraries were prepared using the Nextera XT library kit. Both 10x and SS2 libraries were sequenced on a NovaSeq 6000. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Kyle J. Travaglini, Ahmad N. Nabhan, and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Gerardo Perez. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Travaglini KJ, Nabhan AN, Penland L, Sinha R, Gillich A, Sit RV, Chang S, Conley SD, Mori Y, Seita J et al. A molecular cell atlas of the human lung from single-cell RNA sequencing. Nature. 2020 Nov;587(7835):619-625. PMID: 33208946; PMC: PMC7704697 
lungTravaglini2020HalfDetailedCellType10x Lung Half Det Lung cells 10x method binned by halfway detailed cell type from Travaglini et al 2020 Single Cell RNA-seq Description This track displays data from A molecular cell atlas of the human lung from single-cell RNA sequencing. Using droplet-based and plate-based single-cell RNA sequencing (scRNA-seq), 58 lung cell type populations were identified: 15 epithelial, 9 endothelial, 9 stromal, and 25 immune. This dataset covers ~75,000 human cells across all lung tissue compartments and circulating blood. This track collection contains 19 bar chart tracks of RNA expression in the human lung where cells are grouped such as by cell type (Lung Cells, Lung Cells FACS), tissue compartments (Lung Compart, Lung Compart FACS), detailed cell type (Lung Detail, Lung Detail FACS), organ donor (Lung Donor, Lung Donor FACS), halfway detailed cell type (Lung Half Det, Lung Half Det FACS), sample location (Lung Locat, Lung Locat FACS), or organ (Lung Organ, Lung Organ FACS). The default track displayed is Lung Cells. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification fibroblast immune muscle secretory ciliated epithelial endothelial Cells that fall into multiple classes will be colored by blending the colors associated with those classes. The colors will be purest in the Lung Cells subtrack, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Method Healthy lung tissue and peripheral blood was surgically removed from 2 male patients (ages 46 and 75) and 1 female patient (age 51) undergoing lobectomy for focal lung tumors. Lung tissue was sampled from the bronchi (proximal), bronchiole (medial), and alveolar (distal) regions. Lung samples were dissociated and enriched with magnetic columns before being sorted into epithelial, endothelial/immune, and stromal cell suspensions. Lung and peripheral blood libraries were prepared using the 10x Genomics 3' v2 kit. In parallel, Smart-Seq2 (SS2) cDNA libraries were prepared using the Nextera XT library kit. Both 10x and SS2 libraries were sequenced on a NovaSeq 6000. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Kyle J. Travaglini, Ahmad N. Nabhan, and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Gerardo Perez. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Travaglini KJ, Nabhan AN, Penland L, Sinha R, Gillich A, Sit RV, Chang S, Conley SD, Mori Y, Seita J et al. A molecular cell atlas of the human lung from single-cell RNA sequencing. Nature. 2020 Nov;587(7835):619-625. PMID: 33208946; PMC: PMC7704697 
lungTravaglini2020HalfDetailedFacs Lung Half Det FACS Lung cells FACS method binned by merged cell type from Travaglini et al 2020 Single Cell RNA-seq Description This track displays data from A molecular cell atlas of the human lung from single-cell RNA sequencing. Using droplet-based and plate-based single-cell RNA sequencing (scRNA-seq), 58 lung cell type populations were identified: 15 epithelial, 9 endothelial, 9 stromal, and 25 immune. This dataset covers ~75,000 human cells across all lung tissue compartments and circulating blood. This track collection contains 19 bar chart tracks of RNA expression in the human lung where cells are grouped such as by cell type (Lung Cells, Lung Cells FACS), tissue compartments (Lung Compart, Lung Compart FACS), detailed cell type (Lung Detail, Lung Detail FACS), organ donor (Lung Donor, Lung Donor FACS), halfway detailed cell type (Lung Half Det, Lung Half Det FACS), sample location (Lung Locat, Lung Locat FACS), or organ (Lung Organ, Lung Organ FACS). The default track displayed is Lung Cells. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification fibroblast immune muscle secretory ciliated epithelial endothelial Cells that fall into multiple classes will be colored by blending the colors associated with those classes. The colors will be purest in the Lung Cells subtrack, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Method Healthy lung tissue and peripheral blood was surgically removed from 2 male patients (ages 46 and 75) and 1 female patient (age 51) undergoing lobectomy for focal lung tumors. Lung tissue was sampled from the bronchi (proximal), bronchiole (medial), and alveolar (distal) regions. Lung samples were dissociated and enriched with magnetic columns before being sorted into epithelial, endothelial/immune, and stromal cell suspensions. Lung and peripheral blood libraries were prepared using the 10x Genomics 3' v2 kit. In parallel, Smart-Seq2 (SS2) cDNA libraries were prepared using the Nextera XT library kit. Both 10x and SS2 libraries were sequenced on a NovaSeq 6000. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Kyle J. Travaglini, Ahmad N. Nabhan, and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Gerardo Perez. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Travaglini KJ, Nabhan AN, Penland L, Sinha R, Gillich A, Sit RV, Chang S, Conley SD, Mori Y, Seita J et al. A molecular cell atlas of the human lung from single-cell RNA sequencing. Nature. 2020 Nov;587(7835):619-625. PMID: 33208946; PMC: PMC7704697 
lungTravaglini2020LabelFacs Lung Label FACS Lung cells FACS method binned by label from Travaglini et al 2020 Single Cell RNA-seq Description This track displays data from A molecular cell atlas of the human lung from single-cell RNA sequencing. Using droplet-based and plate-based single-cell RNA sequencing (scRNA-seq), 58 lung cell type populations were identified: 15 epithelial, 9 endothelial, 9 stromal, and 25 immune. This dataset covers ~75,000 human cells across all lung tissue compartments and circulating blood. This track collection contains 19 bar chart tracks of RNA expression in the human lung where cells are grouped such as by cell type (Lung Cells, Lung Cells FACS), tissue compartments (Lung Compart, Lung Compart FACS), detailed cell type (Lung Detail, Lung Detail FACS), organ donor (Lung Donor, Lung Donor FACS), halfway detailed cell type (Lung Half Det, Lung Half Det FACS), sample location (Lung Locat, Lung Locat FACS), or organ (Lung Organ, Lung Organ FACS). The default track displayed is Lung Cells. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification fibroblast immune muscle secretory ciliated epithelial endothelial Cells that fall into multiple classes will be colored by blending the colors associated with those classes. The colors will be purest in the Lung Cells subtrack, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Method Healthy lung tissue and peripheral blood was surgically removed from 2 male patients (ages 46 and 75) and 1 female patient (age 51) undergoing lobectomy for focal lung tumors. Lung tissue was sampled from the bronchi (proximal), bronchiole (medial), and alveolar (distal) regions. Lung samples were dissociated and enriched with magnetic columns before being sorted into epithelial, endothelial/immune, and stromal cell suspensions. Lung and peripheral blood libraries were prepared using the 10x Genomics 3' v2 kit. In parallel, Smart-Seq2 (SS2) cDNA libraries were prepared using the Nextera XT library kit. Both 10x and SS2 libraries were sequenced on a NovaSeq 6000. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Kyle J. Travaglini, Ahmad N. Nabhan, and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Gerardo Perez. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Travaglini KJ, Nabhan AN, Penland L, Sinha R, Gillich A, Sit RV, Chang S, Conley SD, Mori Y, Seita J et al. A molecular cell atlas of the human lung from single-cell RNA sequencing. Nature. 2020 Nov;587(7835):619-625. PMID: 33208946; PMC: PMC7704697 
lungTravaglini2020Location10x Lung Locat Lung cells 10x method binned by location from Travaglini et al 2020 Single Cell RNA-seq Description This track displays data from A molecular cell atlas of the human lung from single-cell RNA sequencing. Using droplet-based and plate-based single-cell RNA sequencing (scRNA-seq), 58 lung cell type populations were identified: 15 epithelial, 9 endothelial, 9 stromal, and 25 immune. This dataset covers ~75,000 human cells across all lung tissue compartments and circulating blood. This track collection contains 19 bar chart tracks of RNA expression in the human lung where cells are grouped such as by cell type (Lung Cells, Lung Cells FACS), tissue compartments (Lung Compart, Lung Compart FACS), detailed cell type (Lung Detail, Lung Detail FACS), organ donor (Lung Donor, Lung Donor FACS), halfway detailed cell type (Lung Half Det, Lung Half Det FACS), sample location (Lung Locat, Lung Locat FACS), or organ (Lung Organ, Lung Organ FACS). The default track displayed is Lung Cells. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification fibroblast immune muscle secretory ciliated epithelial endothelial Cells that fall into multiple classes will be colored by blending the colors associated with those classes. The colors will be purest in the Lung Cells subtrack, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Method Healthy lung tissue and peripheral blood was surgically removed from 2 male patients (ages 46 and 75) and 1 female patient (age 51) undergoing lobectomy for focal lung tumors. Lung tissue was sampled from the bronchi (proximal), bronchiole (medial), and alveolar (distal) regions. Lung samples were dissociated and enriched with magnetic columns before being sorted into epithelial, endothelial/immune, and stromal cell suspensions. Lung and peripheral blood libraries were prepared using the 10x Genomics 3' v2 kit. In parallel, Smart-Seq2 (SS2) cDNA libraries were prepared using the Nextera XT library kit. Both 10x and SS2 libraries were sequenced on a NovaSeq 6000. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Kyle J. Travaglini, Ahmad N. Nabhan, and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Gerardo Perez. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Travaglini KJ, Nabhan AN, Penland L, Sinha R, Gillich A, Sit RV, Chang S, Conley SD, Mori Y, Seita J et al. A molecular cell atlas of the human lung from single-cell RNA sequencing. Nature. 2020 Nov;587(7835):619-625. PMID: 33208946; PMC: PMC7704697 
lungTravaglini2020LocationFacs Lung Locat FACS Lung cells FACS method binned by location from Travaglini et al 2020 Single Cell RNA-seq Description This track displays data from A molecular cell atlas of the human lung from single-cell RNA sequencing. Using droplet-based and plate-based single-cell RNA sequencing (scRNA-seq), 58 lung cell type populations were identified: 15 epithelial, 9 endothelial, 9 stromal, and 25 immune. This dataset covers ~75,000 human cells across all lung tissue compartments and circulating blood. This track collection contains 19 bar chart tracks of RNA expression in the human lung where cells are grouped such as by cell type (Lung Cells, Lung Cells FACS), tissue compartments (Lung Compart, Lung Compart FACS), detailed cell type (Lung Detail, Lung Detail FACS), organ donor (Lung Donor, Lung Donor FACS), halfway detailed cell type (Lung Half Det, Lung Half Det FACS), sample location (Lung Locat, Lung Locat FACS), or organ (Lung Organ, Lung Organ FACS). The default track displayed is Lung Cells. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification fibroblast immune muscle secretory ciliated epithelial endothelial Cells that fall into multiple classes will be colored by blending the colors associated with those classes. The colors will be purest in the Lung Cells subtrack, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Method Healthy lung tissue and peripheral blood was surgically removed from 2 male patients (ages 46 and 75) and 1 female patient (age 51) undergoing lobectomy for focal lung tumors. Lung tissue was sampled from the bronchi (proximal), bronchiole (medial), and alveolar (distal) regions. Lung samples were dissociated and enriched with magnetic columns before being sorted into epithelial, endothelial/immune, and stromal cell suspensions. Lung and peripheral blood libraries were prepared using the 10x Genomics 3' v2 kit. In parallel, Smart-Seq2 (SS2) cDNA libraries were prepared using the Nextera XT library kit. Both 10x and SS2 libraries were sequenced on a NovaSeq 6000. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Kyle J. Travaglini, Ahmad N. Nabhan, and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Gerardo Perez. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Travaglini KJ, Nabhan AN, Penland L, Sinha R, Gillich A, Sit RV, Chang S, Conley SD, Mori Y, Seita J et al. A molecular cell atlas of the human lung from single-cell RNA sequencing. Nature. 2020 Nov;587(7835):619-625. PMID: 33208946; PMC: PMC7704697 
lungTravaglini2020MagneticSelection10x Lung Mag Sel Lung cells 10x method binned by magnetic.selection from Travaglini et al 2020 Single Cell RNA-seq Description This track displays data from A molecular cell atlas of the human lung from single-cell RNA sequencing. Using droplet-based and plate-based single-cell RNA sequencing (scRNA-seq), 58 lung cell type populations were identified: 15 epithelial, 9 endothelial, 9 stromal, and 25 immune. This dataset covers ~75,000 human cells across all lung tissue compartments and circulating blood. This track collection contains 19 bar chart tracks of RNA expression in the human lung where cells are grouped such as by cell type (Lung Cells, Lung Cells FACS), tissue compartments (Lung Compart, Lung Compart FACS), detailed cell type (Lung Detail, Lung Detail FACS), organ donor (Lung Donor, Lung Donor FACS), halfway detailed cell type (Lung Half Det, Lung Half Det FACS), sample location (Lung Locat, Lung Locat FACS), or organ (Lung Organ, Lung Organ FACS). The default track displayed is Lung Cells. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification fibroblast immune muscle secretory ciliated epithelial endothelial Cells that fall into multiple classes will be colored by blending the colors associated with those classes. The colors will be purest in the Lung Cells subtrack, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Method Healthy lung tissue and peripheral blood was surgically removed from 2 male patients (ages 46 and 75) and 1 female patient (age 51) undergoing lobectomy for focal lung tumors. Lung tissue was sampled from the bronchi (proximal), bronchiole (medial), and alveolar (distal) regions. Lung samples were dissociated and enriched with magnetic columns before being sorted into epithelial, endothelial/immune, and stromal cell suspensions. Lung and peripheral blood libraries were prepared using the 10x Genomics 3' v2 kit. In parallel, Smart-Seq2 (SS2) cDNA libraries were prepared using the Nextera XT library kit. Both 10x and SS2 libraries were sequenced on a NovaSeq 6000. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Kyle J. Travaglini, Ahmad N. Nabhan, and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Gerardo Perez. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Travaglini KJ, Nabhan AN, Penland L, Sinha R, Gillich A, Sit RV, Chang S, Conley SD, Mori Y, Seita J et al. A molecular cell atlas of the human lung from single-cell RNA sequencing. Nature. 2020 Nov;587(7835):619-625. PMID: 33208946; PMC: PMC7704697 
lungTravaglini2020Organ10x Lung Organ Lung cells 10x method binned by organ from Travaglini et al 2020 Single Cell RNA-seq Description This track displays data from A molecular cell atlas of the human lung from single-cell RNA sequencing. Using droplet-based and plate-based single-cell RNA sequencing (scRNA-seq), 58 lung cell type populations were identified: 15 epithelial, 9 endothelial, 9 stromal, and 25 immune. This dataset covers ~75,000 human cells across all lung tissue compartments and circulating blood. This track collection contains 19 bar chart tracks of RNA expression in the human lung where cells are grouped such as by cell type (Lung Cells, Lung Cells FACS), tissue compartments (Lung Compart, Lung Compart FACS), detailed cell type (Lung Detail, Lung Detail FACS), organ donor (Lung Donor, Lung Donor FACS), halfway detailed cell type (Lung Half Det, Lung Half Det FACS), sample location (Lung Locat, Lung Locat FACS), or organ (Lung Organ, Lung Organ FACS). The default track displayed is Lung Cells. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification fibroblast immune muscle secretory ciliated epithelial endothelial Cells that fall into multiple classes will be colored by blending the colors associated with those classes. The colors will be purest in the Lung Cells subtrack, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Method Healthy lung tissue and peripheral blood was surgically removed from 2 male patients (ages 46 and 75) and 1 female patient (age 51) undergoing lobectomy for focal lung tumors. Lung tissue was sampled from the bronchi (proximal), bronchiole (medial), and alveolar (distal) regions. Lung samples were dissociated and enriched with magnetic columns before being sorted into epithelial, endothelial/immune, and stromal cell suspensions. Lung and peripheral blood libraries were prepared using the 10x Genomics 3' v2 kit. In parallel, Smart-Seq2 (SS2) cDNA libraries were prepared using the Nextera XT library kit. Both 10x and SS2 libraries were sequenced on a NovaSeq 6000. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Kyle J. Travaglini, Ahmad N. Nabhan, and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Gerardo Perez. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Travaglini KJ, Nabhan AN, Penland L, Sinha R, Gillich A, Sit RV, Chang S, Conley SD, Mori Y, Seita J et al. A molecular cell atlas of the human lung from single-cell RNA sequencing. Nature. 2020 Nov;587(7835):619-625. PMID: 33208946; PMC: PMC7704697 
lungTravaglini2020OrganFacs Lung Organ FACS Lung cells FACS method binned by organ from Travaglini et al 2020 Single Cell RNA-seq Description This track displays data from A molecular cell atlas of the human lung from single-cell RNA sequencing. Using droplet-based and plate-based single-cell RNA sequencing (scRNA-seq), 58 lung cell type populations were identified: 15 epithelial, 9 endothelial, 9 stromal, and 25 immune. This dataset covers ~75,000 human cells across all lung tissue compartments and circulating blood. This track collection contains 19 bar chart tracks of RNA expression in the human lung where cells are grouped such as by cell type (Lung Cells, Lung Cells FACS), tissue compartments (Lung Compart, Lung Compart FACS), detailed cell type (Lung Detail, Lung Detail FACS), organ donor (Lung Donor, Lung Donor FACS), halfway detailed cell type (Lung Half Det, Lung Half Det FACS), sample location (Lung Locat, Lung Locat FACS), or organ (Lung Organ, Lung Organ FACS). The default track displayed is Lung Cells. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification fibroblast immune muscle secretory ciliated epithelial endothelial Cells that fall into multiple classes will be colored by blending the colors associated with those classes. The colors will be purest in the Lung Cells subtrack, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Method Healthy lung tissue and peripheral blood was surgically removed from 2 male patients (ages 46 and 75) and 1 female patient (age 51) undergoing lobectomy for focal lung tumors. Lung tissue was sampled from the bronchi (proximal), bronchiole (medial), and alveolar (distal) regions. Lung samples were dissociated and enriched with magnetic columns before being sorted into epithelial, endothelial/immune, and stromal cell suspensions. Lung and peripheral blood libraries were prepared using the 10x Genomics 3' v2 kit. In parallel, Smart-Seq2 (SS2) cDNA libraries were prepared using the Nextera XT library kit. Both 10x and SS2 libraries were sequenced on a NovaSeq 6000. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Kyle J. Travaglini, Ahmad N. Nabhan, and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Gerardo Perez. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Travaglini KJ, Nabhan AN, Penland L, Sinha R, Gillich A, Sit RV, Chang S, Conley SD, Mori Y, Seita J et al. A molecular cell atlas of the human lung from single-cell RNA sequencing. Nature. 2020 Nov;587(7835):619-625. PMID: 33208946; PMC: PMC7704697 
lungTravaglini2020Sample10x Lung Sample Lung cells 10x method binned by sample from Travaglini et al 2020 Single Cell RNA-seq Description This track displays data from A molecular cell atlas of the human lung from single-cell RNA sequencing. Using droplet-based and plate-based single-cell RNA sequencing (scRNA-seq), 58 lung cell type populations were identified: 15 epithelial, 9 endothelial, 9 stromal, and 25 immune. This dataset covers ~75,000 human cells across all lung tissue compartments and circulating blood. This track collection contains 19 bar chart tracks of RNA expression in the human lung where cells are grouped such as by cell type (Lung Cells, Lung Cells FACS), tissue compartments (Lung Compart, Lung Compart FACS), detailed cell type (Lung Detail, Lung Detail FACS), organ donor (Lung Donor, Lung Donor FACS), halfway detailed cell type (Lung Half Det, Lung Half Det FACS), sample location (Lung Locat, Lung Locat FACS), or organ (Lung Organ, Lung Organ FACS). The default track displayed is Lung Cells. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification fibroblast immune muscle secretory ciliated epithelial endothelial Cells that fall into multiple classes will be colored by blending the colors associated with those classes. The colors will be purest in the Lung Cells subtrack, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Method Healthy lung tissue and peripheral blood was surgically removed from 2 male patients (ages 46 and 75) and 1 female patient (age 51) undergoing lobectomy for focal lung tumors. Lung tissue was sampled from the bronchi (proximal), bronchiole (medial), and alveolar (distal) regions. Lung samples were dissociated and enriched with magnetic columns before being sorted into epithelial, endothelial/immune, and stromal cell suspensions. Lung and peripheral blood libraries were prepared using the 10x Genomics 3' v2 kit. In parallel, Smart-Seq2 (SS2) cDNA libraries were prepared using the Nextera XT library kit. Both 10x and SS2 libraries were sequenced on a NovaSeq 6000. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Kyle J. Travaglini, Ahmad N. Nabhan, and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Gerardo Perez. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Travaglini KJ, Nabhan AN, Penland L, Sinha R, Gillich A, Sit RV, Chang S, Conley SD, Mori Y, Seita J et al. A molecular cell atlas of the human lung from single-cell RNA sequencing. Nature. 2020 Nov;587(7835):619-625. PMID: 33208946; PMC: PMC7704697 
lungTravaglini2020SampleFacs Lung Sample FACS Lung cells FACS method binned by sample from Travaglini et al 2020 Single Cell RNA-seq Description This track displays data from A molecular cell atlas of the human lung from single-cell RNA sequencing. Using droplet-based and plate-based single-cell RNA sequencing (scRNA-seq), 58 lung cell type populations were identified: 15 epithelial, 9 endothelial, 9 stromal, and 25 immune. This dataset covers ~75,000 human cells across all lung tissue compartments and circulating blood. This track collection contains 19 bar chart tracks of RNA expression in the human lung where cells are grouped such as by cell type (Lung Cells, Lung Cells FACS), tissue compartments (Lung Compart, Lung Compart FACS), detailed cell type (Lung Detail, Lung Detail FACS), organ donor (Lung Donor, Lung Donor FACS), halfway detailed cell type (Lung Half Det, Lung Half Det FACS), sample location (Lung Locat, Lung Locat FACS), or organ (Lung Organ, Lung Organ FACS). The default track displayed is Lung Cells. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification fibroblast immune muscle secretory ciliated epithelial endothelial Cells that fall into multiple classes will be colored by blending the colors associated with those classes. The colors will be purest in the Lung Cells subtrack, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Method Healthy lung tissue and peripheral blood was surgically removed from 2 male patients (ages 46 and 75) and 1 female patient (age 51) undergoing lobectomy for focal lung tumors. Lung tissue was sampled from the bronchi (proximal), bronchiole (medial), and alveolar (distal) regions. Lung samples were dissociated and enriched with magnetic columns before being sorted into epithelial, endothelial/immune, and stromal cell suspensions. Lung and peripheral blood libraries were prepared using the 10x Genomics 3' v2 kit. In parallel, Smart-Seq2 (SS2) cDNA libraries were prepared using the Nextera XT library kit. Both 10x and SS2 libraries were sequenced on a NovaSeq 6000. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Kyle J. Travaglini, Ahmad N. Nabhan, and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Gerardo Perez. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Travaglini KJ, Nabhan AN, Penland L, Sinha R, Gillich A, Sit RV, Chang S, Conley SD, Mori Y, Seita J et al. A molecular cell atlas of the human lung from single-cell RNA sequencing. Nature. 2020 Nov;587(7835):619-625. PMID: 33208946; PMC: PMC7704697 
mane MANE MANE Select Plus Clinical: Representative transcript from RefSeq & GENCODE Genes and Gene Predictions Description The Matched Annotation from NCBI and EMBL-EBI (MANE) project aims to produce a matched set of high-confidence transcripts that are identically annotated between RefSeq (NCBI) and Ensembl/GENCODE (led by EMBL-EBI). Transcripts for MANE are chosen by a combination of automated and manual methods based on conservation, expression levels, clinical significance, and other factors. Transcripts are matched between the NCBI RefSeq and Ensembl/GENCODE annotations based on the GRCh38 genome assembly, with precise 5' and 3' ends defined by high-throughput sequencing or other available data. This track is automatically updated, see the source data version above for the current version number. MANE includes almost all human protein-coding genes and genes of clinical relevance, including genes in the American College of Medical Genetics and Genomics (ACMG) Secondary Findings list (SF) v3.0. It includes both MANE Select and MANE Plus Clinical transcripts. MANE Plus Clinical items are colored red. For more information on the different gene tracks, including MANE vs GENCODE or RefSeq, see our Genes FAQ. Data Access The raw data can be explored interactively with the Table Browser, or the Data Integrator. For computational analysis, genome annotations are stored in a bigGenePred file that can be downloaded from the download server. Regional or genome-wide annotations can be converted from binary data to human readable text using our command line utility bigBedToBed which can be compiled from source code or downloaded as a precompiled binary for your system. Files and instructions can be found in the utilities directory. The utility can be used to obtain features within a given range, for example: bigBedToBed -chrom=chr6 -start=0 -end=1000000 http://hgdownload.soe.ucsc.edu/gbdb/hg38/mane/mane.bb stdout Download links for MANE: ftp://ftp.ncbi.nlm.nih.gov/refseq/MANE Previous MANE versions are also available on our download archive. Please refer to our Data Access FAQ for more information or our mailing list for archived user questions. Credits Thank you to the RefSeq project at NCBI and the Ensembl/GENCODE project at EMBL-EBI. You can contact the authors directly at &#77;A&#78;&#69;&#45;h&#101;&#108;&#112;&#64;&#110;&#99;&#98;&#105;.&#110;&#108;&#109;.&#110;ih.&#103;&#111;&#118; or &#109;&#97;&#110;&#101;&#45;&#104;el&#112;&#64;&#101;&#98;&#105;.a&#99;.&#117;&#107;. References Morales J, Pujar S, Loveland JE, Astashyn A, Bennett R, Berry A, Cox E, Davidson C, Ermolaeva O, Farrell CM et al. A joint NCBI and EMBL-EBI transcript set for clinical genomics and research. Nature. 2022 Apr;604(7905):310-315. PMID: 35388217; PMC: PMC9007741 
mastermind Mastermind Variants Genomenon Mastermind Variants extracted from full text publications Phenotypes, Variants, and Literature Description The tracks that are listed here contain genetic variants and links to scientific publications that mention them. The Mastermind track was created by Genomenon, a company that analyzes fulltext of publications with their own proprietary software with an unknown false positive rate. The VarChat track was created by enGenome and links to its proprietary software, VarChat, with an unknown false positive rate. The AVADA track was created in the Bejerano lab at Stanford by J. Birgmeier also on fulltext papers, using sophisticated machine learning methods and was evaluated to have a false positive rate of around 50% in their study. The PubTator rsIDs track was created using PubTator 3 data. The Varaico tracks were created using literature mining in a fashion similar to AVADA. Coloring is a gradient between blue and red, and represent the number of publications per variant. See the Varaico website for more details. For additional information please click on the hyperlink of the respective track above. Display conventions By default, each variant is labeled with the nucleotide change. Hover over the feature to see more information, explained on the track details page of the particular track or when clicking onto the feature. Credits For data provenance, access and descriptions, please click the documentation via the link above. 
metamorf MetamORF ncORFs: MetamORF - meta-database of non-canonical ORFs Genes and Gene Predictions Description This track displays 664,558 unique small open reading frames (sORFs) in the human genome from MetamORF, a meta-database that consolidates sORF data identified by both experimental and computational approaches. sORFs are defined as ORFs encoding fewer than 100 amino acids (excluding stop codons and introns). MetamORF was built by gathering publicly available sORF data from multiple sources, normalizing it, and removing redundancy. From 2,594,154 source ORFs across human and mouse, MetamORF identified 1,162,675 unique ORFs (664,771 human, 497,904 mouse) associated with 153,553 unique transcripts. The database enables comparison of sORFs across distinct original data sources at the ORF, transcript, and gene levels. For full documentation, see the MetamORF documentation page. Data Sources The human sORFs in MetamORF were compiled from seven primary data sources and 46 individual ribosome profiling datasets from sORFs.org. The primary sources are: Source Description Reference Erhard et al. 2018 Union of ORFs detected by PRICE, RP-BP, ORF-RATER, or annotated in Ensembl v75 Nat Methods 2018 Johnstone et al. 2016 Location and translation data for analyzed transcripts and ORFs EMBO J 2016 Laumont et al. 2016 Cryptic MAPs (minor ORF-encoded peptides) with genomic and proteomic features Nat Commun 2016 Mackowiak et al. 2015 Systematic identification of sORFs across vertebrate genomes Genome Biol 2015 Samandi et al. 2017 Alternative protein predictions based on RefSeq GRCh38 eLife 2017 sORFs.org Repository of sORFs from 46 individual ribosome profiling experiments Olexiouk et al., Nucleic Acids Res 2018 ORFs were identified using three main approaches: bioinformatic predictions, ribosome profiling experiments, and mass spectrometry (proteomics, peptidomics, and proteogenomics). ORF Classification MetamORF classifies ORFs by their position relative to annotated coding sequences: Upstream &ndash; located in the 5' UTR, upstream of the main CDS Downstream &ndash; located in the 3' UTR, downstream of the main CDS Overlapping &ndash; overlapping with the annotated CDS Intronic &ndash; located within an intron InCDS / CDS / NewCDS &ndash; within or coinciding with a coding sequence Alternative &ndash; in a different reading frame than the annotated CDS start Opposite &ndash; on the opposite strand from the transcript ORFs are also classified by the biotype of their host RNA: intergenic, ncRNA, pseudogene, NMD (nonsense-mediated decay), or readthrough transcripts. Display Conventions and Configuration Items are displayed in bigGenePred format. Each item is labeled with its MetamORF ORF ID. Color reflects the categorical Kozak consensus strength: Strong &ndash; A/G at position &minus;3 and G at position +4 Moderate &ndash; only one of those positions matches Weak &ndash; neither position matches non-ATG &ndash; near-cognate start codon; the Kozak rule does not apply no context &ndash; chromosome edge or context unavailable Mouseover shows the ORF ID, ORF annotation, start codon, Kozak strength and TE, host transcripts, and the cell types where the ORF was reported. Available filters: start codon, Kozak strength, Kozak TE. Data Access The raw data can be explored interactively with the Table Browser or the Data Integrator. The data can be accessed from scripts through our API; the track name is &quot;metamorf&quot;. For automated download and analysis, the genome annotation is stored in a bigBed file that can be downloaded from our download server. Individual regions or the whole genome annotation can be obtained using our tool bigBedToBed, which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tool can also be used to obtain only features within a given range, e.g. bigBedToBed http://hgdownload.soe.ucsc.edu/gbdb/hg38/ncOrfs/metamorf/MetamORF.kozak.bb -chrom=chr21 -start=0 -end=100000000 stdout The original data and additional downloads are available from the MetamORF website. Source code is available on GitHub. Methods The MetamORF BED 12 data was obtained from the MetamORF track hub and converted to bigBed format at UCSC. Coordinates are on the GRCh38/hg38 assembly (based on Ensembl release 90). Credits Thanks to the MetamORF team at the TAGC (Theories and Approaches of Genomic Complexity) laboratory, Aix-Marseille University, for creating this resource and making it publicly available. References Erhard F, Halenius A, Zimmermann C, L'Hernault A, Kowalewski DJ, Weekes MP, Stevanovic S, Zimmer R, D&#246;lken L. Improved Ribo-seq enables identification of cryptic translation events. Nat Methods. 2018 May;15(5):363-366. PMID: 29529017; PMC: PMC6152898 Johnstone TG, Bazzini AA, Giraldez AJ. Upstream ORFs are prevalent translational repressors in vertebrates. EMBO J. 2016 Apr 1;35(7):706-23. PMID: 26896445; PMC: PMC4818764 Laumont CM, Daouda T, Laverdure JP, Bonneil &#201;, Caron-Lizotte O, Hardy MP, Granados DP, Durette C, Lemieux S, Thibault P et al. Global proteogenomic analysis of human MHC class I-associated peptides derived from non-canonical reading frames. Nat Commun. 2016 Jan 5;7:10238. PMID: 26728094; PMC: PMC4728431 Mackowiak SD, Zauber H, Bielow C, Thiel D, Kutz K, Calviello L, Mastrobuoni G, Rajewsky N, Kempa S, Selbach M et al. Extensive identification and analysis of conserved small ORFs in animals. Genome Biol. 2015 Sep 14;16:179. PMID: 26364619; PMC: PMC4568590 Olexiouk V, Van Criekinge W, Menschaert G. An update on sORFs.org: a repository of small ORFs identified by ribosome profiling. Nucleic Acids Res. 2018 Jan 4;46(D1):D497-D502. PMID: 29140531; PMC: PMC5753181 Samandi S, Roy AV, Delcourt V, Lucier JF, Gagnon J, Beaudoin MC, Vanderperre B, Breton MA, Motard J, Jacques JF et al. Deep transcriptome annotation enables the discovery and functional characterization of cryptic small proteins. Elife. 2017 Oct 30;6. PMID: 29083303; PMC: PMC5703645 
mgcFullMrna MGC Genes Mammalian Gene Collection Full ORF mRNAs Genes and Gene Predictions Description This track show alignments of human mRNAs from the Mammalian Gene Collection (MGC) having full-length open reading frames (ORFs) to the genome. The goal of the Mammalian Gene Collection is to provide researchers with unrestricted access to sequence-validated full-length protein-coding cDNA clones for human, mouse, rat, xenopus, and zerbrafish genes. Display Conventions and Configuration The track follows the display conventions for gene prediction tracks. An optional codon coloring feature is available for quick validation and comparison of gene predictions. To display codon colors, select the genomic codons option from the Color track by codons pull-down menu. For more information about this feature, go to the Coloring Gene Predictions and Annotations by Codon page. Methods GenBank human MGC mRNAs identified as having full-length ORFs were aligned against the genome using blat. When a single mRNA aligned in multiple places, the alignment having the highest base identity was found. Only alignments having a base identity level within 1% of the best and at least 95% base identity with the genomic sequence were kept. Credits The human MGC full-length mRNA track was produced at UCSC from mRNA sequence data submitted to GenBank by the Mammalian Gene Collection project. References Mammalian Gene Collection project references. Kent WJ. BLAT--the BLAST-like alignment tool. Genome Res. 2002 Apr;12(4):656-64. PMID: 11932250; PMC: PMC187518 
mgcOrfeomeMrna MGC/ORFeome Genes MGC/ORFeome Full ORF mRNA Clones Genes and Gene Predictions Description These tracks show alignments of human mRNAs from the Mammalian Gene Collection (MGC) and ORFeome Collaboration having full-length open reading frames (ORFs) to the genome. The goal of the Mammalian Gene Collection is to provide researchers with unrestricted access to sequence-validated full-length protein-coding cDNA clones for human, mouse, and rat genes. The ORFeome project extended MGC to provide additional human, mouse, and zebrafish clones. Display Conventions and Configuration The track follows the display conventions for gene prediction tracks. An optional codon coloring feature is available for quick validation and comparison of gene predictions. To display codon colors, select the genomic codons option from the Color track by codons pull-down menu. For more information about this feature, go to the Coloring Gene Predictions and Annotations by Codon page. Methods GenBank human MGC mRNAs identified as having full-length ORFs were aligned against the genome using blat. When a single mRNA aligned in multiple places, the alignment having the highest base identity was found. Only alignments having a base identity level within 1% of the best and at least 95% base identity with the genomic sequence were kept. Credits The human MGC full-length mRNA track was produced at UCSC from mRNA sequence data submitted to GenBank by the Mammalian Gene Collection project. Visit the ORFeome Collaboration members page for a list of credits and references. References Mammalian Gene Collection project references. Kent WJ. BLAT--the BLAST-like alignment tool. Genome Res. 2002 Apr;12(4):656-64. PMID: 11932250; PMC: PMC187518 
miRnaAtlas miRNA Tissue Atlas Tissue-Specific microRNA Expression from Two Individuals Expression Description The Human miRNA Tissue Atlas is a catalog of tissue-specific microRNA (miRNA) expression across 62 tissues. This track contains quantile normalized miRNA expression data sampled from two individuals and mapped to miRBase v21 coordinates. The track contains two subtracks, one for each individual sampled. The Tissue Specificity Index (TSI) is analogous to the &quot;tau&quot; value for mRNA expression, and is calculated as described in the associated publication. Values closer to 0 indicate miRNAs expressed in many or all tissues, while values closer to 1 indicate miRNAs expressed only in a specific tissue or tissues. To browse miRNAs by TSI value, please see the miRNA Tissue Atlas. Display Conventions and Configuration This track is formatted as a barChart track, similar to the GTEx or the TCGA Cancer Expression tracks, where the heights of each bar indicate the expression value for the miRNA in a specific tissue. The tissues sampled are described in the table below: Bar ColorSample 1Sample 2 AdipocyteAdipocyte ArteryArtery ColonColon Dura materDura mater KidneyKidney LiverLiver LungLung MuscleMuscle MyocardiumMyocardium SkinSkin SpleenSpleen StomachStomach TestisTestis ThyroidThyroid Small intestine Bone Gallbladder Fascia Bladder Epididymis Tunica albuginea Nervus intercostalis Arachnoid mater Brain Small intestine duodenum Small intestine jejunum Pancreas Kidney glandula suprarenalis Kidney cortex renalis Esophagus Prostate Bone marrow Vein Lymph node Nerve not specified Pleura Pituitary gland Spinal cord Thalamus Brain white matter Nucleus caudatus Kidney medulla renalis Brain gray_matter Cerebral cortex temporal Cerebral cortex frontal Cerebral cortex occipital Cerebellum The 14 shared tissues sampled across both individuals are presented in the same order for easier comparison. Data Access The underlying expression matrix and TSI values can be obtained from the miRNA tissue atlas website, in the data_matrix_quantile.txt and tsi_quantile.csv files. References Ludwig N, Leidinger P, Becker K, Backes C, Fehlmann T, Pallasch C, Rheinheimer S, Meder B, St&#228;hler C, Meese E et al. Distribution of miRNA expression across human tissues. Nucleic Acids Res. 2016 May 5;44(8):3865-77. PMID: 26921406; PMC: PMC4856985 
miRnaAtlasSample1 miRNA Tissue Atlas Tissue-Specific microRNA Expression from Two Individuals Expression 
miRnaAtlasSample1BarChart Sample 1 miRNA Tissue Atlas microRna Expression Expression Description The Human miRNA Tissue Atlas is a catalog of tissue-specific microRNA (miRNA) expression across 62 tissues. This track contains quantile normalized miRNA expression data sampled from two individuals and mapped to miRBase v21 coordinates. The track contains two subtracks, one for each individual sampled. The Tissue Specificity Index (TSI) is analogous to the &quot;tau&quot; value for mRNA expression, and is calculated as described in the associated publication. Values closer to 0 indicate miRNAs expressed in many or all tissues, while values closer to 1 indicate miRNAs expressed only in a specific tissue or tissues. To browse miRNAs by TSI value, please see the miRNA Tissue Atlas. Display Conventions and Configuration This track is formatted as a barChart track, similar to the GTEx or the TCGA Cancer Expression tracks, where the heights of each bar indicate the expression value for the miRNA in a specific tissue. The tissues sampled are described in the table below: Bar ColorSample 1Sample 2 AdipocyteAdipocyte ArteryArtery ColonColon Dura materDura mater KidneyKidney LiverLiver LungLung MuscleMuscle MyocardiumMyocardium SkinSkin SpleenSpleen StomachStomach TestisTestis ThyroidThyroid Small intestine Bone Gallbladder Fascia Bladder Epididymis Tunica albuginea Nervus intercostalis Arachnoid mater Brain Small intestine duodenum Small intestine jejunum Pancreas Kidney glandula suprarenalis Kidney cortex renalis Esophagus Prostate Bone marrow Vein Lymph node Nerve not specified Pleura Pituitary gland Spinal cord Thalamus Brain white matter Nucleus caudatus Kidney medulla renalis Brain gray_matter Cerebral cortex temporal Cerebral cortex frontal Cerebral cortex occipital Cerebellum The 14 shared tissues sampled across both individuals are presented in the same order for easier comparison. Data Access The underlying expression matrix and TSI values can be obtained from the miRNA tissue atlas website, in the data_matrix_quantile.txt and tsi_quantile.csv files. References Ludwig N, Leidinger P, Becker K, Backes C, Fehlmann T, Pallasch C, Rheinheimer S, Meder B, St&#228;hler C, Meese E et al. Distribution of miRNA expression across human tissues. Nucleic Acids Res. 2016 May 5;44(8):3865-77. PMID: 26921406; PMC: PMC4856985 
miRnaAtlasSample2 miRNA Tissue Atlas Tissue-Specific microRNA Expression from Two Individuals Expression 
miRnaAtlasSample2BarChart Sample 2 miRNA Tissue Atlas microRna Expression Expression Description The Human miRNA Tissue Atlas is a catalog of tissue-specific microRNA (miRNA) expression across 62 tissues. This track contains quantile normalized miRNA expression data sampled from two individuals and mapped to miRBase v21 coordinates. The track contains two subtracks, one for each individual sampled. The Tissue Specificity Index (TSI) is analogous to the &quot;tau&quot; value for mRNA expression, and is calculated as described in the associated publication. Values closer to 0 indicate miRNAs expressed in many or all tissues, while values closer to 1 indicate miRNAs expressed only in a specific tissue or tissues. To browse miRNAs by TSI value, please see the miRNA Tissue Atlas. Display Conventions and Configuration This track is formatted as a barChart track, similar to the GTEx or the TCGA Cancer Expression tracks, where the heights of each bar indicate the expression value for the miRNA in a specific tissue. The tissues sampled are described in the table below: Bar ColorSample 1Sample 2 AdipocyteAdipocyte ArteryArtery ColonColon Dura materDura mater KidneyKidney LiverLiver LungLung MuscleMuscle MyocardiumMyocardium SkinSkin SpleenSpleen StomachStomach TestisTestis ThyroidThyroid Small intestine Bone Gallbladder Fascia Bladder Epididymis Tunica albuginea Nervus intercostalis Arachnoid mater Brain Small intestine duodenum Small intestine jejunum Pancreas Kidney glandula suprarenalis Kidney cortex renalis Esophagus Prostate Bone marrow Vein Lymph node Nerve not specified Pleura Pituitary gland Spinal cord Thalamus Brain white matter Nucleus caudatus Kidney medulla renalis Brain gray_matter Cerebral cortex temporal Cerebral cortex frontal Cerebral cortex occipital Cerebellum The 14 shared tissues sampled across both individuals are presented in the same order for easier comparison. Data Access The underlying expression matrix and TSI values can be obtained from the miRNA tissue atlas website, in the data_matrix_quantile.txt and tsi_quantile.csv files. References Ludwig N, Leidinger P, Becker K, Backes C, Fehlmann T, Pallasch C, Rheinheimer S, Meder B, St&#228;hler C, Meese E et al. Distribution of miRNA expression across human tissues. Nucleic Acids Res. 2016 May 5;44(8):3865-77. PMID: 26921406; PMC: PMC4856985 
mitoMap MITOMAP MITOMAP: A human mitochondrial genome database Phenotypes, Variants, and Literature Description NOTE: MITOMAP data is available for chrM on hg38 and chrMT on hg19. This track shows annotations from MITOMAP. MITOMAP is a database of human mitochondrial DNA (mtDNA) information containing a compilation of mtDNA variation. It allows users to look up human mitochondrial gene loci, search for public mitochondrial sequences, and browse or search for reported general population nucleotide variants as well as those reported in clinical disease. The data in these tracks are automatically updated from MitoMap weekly. Display Conventions and Configuration These data are separated into two tracks: MITOMAP Control and Coding Variants This data track contains variants, including mini insertions and deletions, in the complete mtDNA. The item colors correspond to the variant type: control region vs. coding region. MITOMAP Disease Mutations This data track contains disease-annotated mutations (variants) in the complete mtDNA. The item colors correspond to the variant type: coding/control vs. rRNA/tRNA. For both tracks, item names correspond to the variant nucleotide change, and mousing over features displays all available metadata for MITOMAP. Linkouts to the specific MITOMAP datasets are available from the item description pages, however, you must input the variant on MITOMAP. Abbreviations and Definitions FL: Full-length sequences CR: Control region sequences Nucleotide changes are indicated as L-strand substitutions. MT-NC: Non-coding locus syn: Synonymous mutation Variant Classification: B: Benign LB: Likely Benign VUS: Variant of Uncertain Significance LP: Likely Pathogenic P: Pathogenic Disease Associations: LHON: Leber Hereditary Optic Neuropathy MM: Mitochondrial Myopathy AD: Alzheimer's Disease LIMM: Lethal Infantile Mitochondrial Myopathy ADPD: Alzheimer's Disease and Parkinson's Disease MMC: Maternal Myopathy and Cardiomyopathy NARP: Neurogenic muscle weakness, Ataxia, and Retinitis Pigmentosa (alternate phenotype: Leigh Disease) FICP: Fatal Infantile Cardiomyopathy Plus, a MELAS-associated cardiomyopathy MELAS: Mitochondrial Encephalomyopathy, Lactic Acidosis, and Stroke-like episodes LDYT: Leber's Hereditary Optic Neuropathy and Dystonia MERRF: Myoclonic Epilepsy and Ragged Red Muscle Fibers MHCM: Maternally Inherited Hypertrophic Cardiomyopathy CPEO: Chronic Progressive External Ophthalmoplegia KSS: Kearns-Sayre Syndrome DM: Diabetes Mellitus DMDF: Diabetes Mellitus with Deafness CIPO: Chronic Intestinal Pseudoobstruction with Myopathy and Ophthalmoplegia DEAF: Maternally Inherited Deafness or Aminoglycoside-Induced Deafness PEM: Progressive Encephalopathy SNHL: Sensorineural Hearing Loss Mutation Terminology: Homoplasmy: Pure mutant mtDNAs Heteroplasmy: Mixture of mutant and normal mtDNAs nd: Not determined Mutation Status Definitions: Reported: Indicates that one or more publications suggest the mutation may be pathogenic. This is not an assignment of pathogenicity by MITOMAP but is a report of literature. Previously, mutations with this status were termed &quot;Prov&quot; (provisional). Cfrm (Confirmed): Indicates that at least two or more independent laboratories have published reports on the pathogenicity of a specific mutation. These mutations are generally accepted by the mitochondrial research community as being pathogenic. A status of &quot;Cfrm&quot; is not an assignment of pathogenicity by MITOMAP but is a report of published literature. Researchers and clinicians are cautioned that additional data and/or analysis may still be necessary to confirm the pathological significance of some of these mutations. P.M. (Point Mutation/Polymorphism): Indicates that some published reports have determined the mutation to be a non-pathogenic polymorphism. Methods MITOMAP collected the sequences from GenBank, aligned them to the rCRS using BLASTn, and haplotyped them with Haplogrep via the Mitomaster web service. The data were originally downloaded from the MITOMAP resource. For the Control and Coding Variants track, the following datasets were combined: Control Region Variants (16024-576) Coding & RNA Variants (577-16023, MTTF-MTTP) And for the Disease Mutations track, the following two were combined: rRNA/tRNA Mutations, all Coding & Non-Coding/Control Region Mutations, all These tracks have since been updated to automatically fetch files from the MitoMap server. For all the details on how the data are processed and combined, see the MITOMAP makedoc. Data Access All source data can be found on the MITOMAP site. The MITOMAP data on the UCSC Genome Browser can be explored interactively with the Table Browser or the Data Integrator. For automated download and analysis, the genome annotation is stored at UCSC in bigBed files that can be downloaded from the respective file, e.g. MITOMAP Variants, on our download server. The data may also be explored interactively using our REST API. The file for this track may also be locally explored using our tools bigBedToBed which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tools can also be used to obtain features confined to a given range, e.g., bigBedToBed -chrom=chr1 -start=100000 -end=100500 http://hgdownload.soe.ucsc.edu/gbdb/hg38/bbi/mitoMapVars.bb stdout Credits Thanks to Shiping Zhang and the entire MITOMAP resource for making these annotations available. References Lott MT, Leipzig JN, Derbeneva O, Xie HM, Chalkia D, Sarmady M, Procaccio V, Wallace DC. mtDNA Variation and Analysis Using Mitomap and Mitomaster. Curr Protoc Bioinformatics. 2013Dec;44(123):1.23.1-26. PMID: 25489354; PMC: PMC4257604 
mitoMapDiseaseMuts MITOMAP Disease Muts MITOMAP Disease Mutations Phenotypes, Variants, and Literature 
mitoMapVars MITOMAP Variants MITOMAP Control and Coding Variants Phenotypes, Variants, and Literature 
consHprc90way Multiple Alignment Multiple Alignment on 90 human genome assemblies Human Pangenome - HPRC Description This track shows multiple alignments of 90 human genomes generated by the Minigraph-Cactus pangenome pipeline, which creates pangenomes directly from whole-genome alignments. This method builds graphs containing all forms of genetic variation while allowing use of current mapping and genotyping tools. Display Conventions and Configuration In full and pack display modes, conservation scores are displayed as a wiggle track (histogram) in which the height reflects the size of the score. The conservation wiggles can be configured in a variety of ways to highlight different aspects of the displayed information. Click the Graph configuration help link for an explanation of the configuration options. Pairwise alignments of each species to the human genome are displayed below the conservation histogram as a grayscale density plot (in pack mode) or as a wiggle (in full mode) that indicates alignment quality. In dense display mode, conservation is shown in grayscale using darker values to indicate higher levels of overall conservation as scored by phastCons. Checkboxes on the track configuration page allow selection of the species to include in the pairwise display. Note that excluding species from the pairwise display does not alter the the conservation score display. To view detailed information about the alignments at a specific position, zoom the display in to 30,000 or fewer bases, then click on the alignment. Gap Annotation The Display chains between alignments configuration option enables display of gaps between alignment blocks in the pairwise alignments in a manner similar to the Chain track display. The following conventions are used: Single line: No bases in the aligned species. Possibly due to a lineage-specific insertion between the aligned blocks in the human genome or a lineage-specific deletion between the aligned blocks in the aligning species. Double line: Aligning species has one or more unalignable bases in the gap region. Possibly due to excessive evolutionary distance between species or independent indels in the region between the aligned blocks in both species. Pale yellow coloring: Aligning species has Ns in the gap region. Reflects uncertainty in the relationship between the DNA of both species, due to lack of sequence in relevant portions of the aligning species. Genomic Breaks Discontinuities in the genomic context (chromosome, scaffold or region) of the aligned DNA in the aligning species are shown as follows: Vertical blue bar: Represents a discontinuity that persists indefinitely on either side, e.g. a large region of DNA on either side of the bar comes from a different chromosome in the aligned species due to a large scale rearrangement. Green square brackets: Enclose shorter alignments consisting of DNA from one genomic context in the aligned species nested inside a larger chain of alignments from a different genomic context. The alignment within the brackets may represent a short misalignment, a lineage-specific insertion of a transposon in the human genome that aligns to a paralogous copy somewhere else in the aligned species, or other similar occurrence. Base Level When zoomed-in to the base-level display, the track shows the base composition of each alignment. The numbers and symbols on the Gaps line indicate the lengths of gaps in the human sequence at those alignment positions relative to the longest non-human sequence. If there is sufficient space in the display, the size of the gap is shown. If the space is insufficient and the gap size is a multiple of 3, a &quot;*&quot; is displayed; other gap sizes are indicated by &quot;+&quot;. Methods The MAF was obtained from the HPRC v1.0 minigraph-cactus HAL file (renamed to replace all &quot;.&quot; characters in sample names with &quot;#&quot; using halRenameGenomes) using cactus v2.6.4 as follows. cactus-hal2maf ./js ./hprc-v1.0-mc-grch38.h al hprc-v1.0-mc-grch38.maf.gz --noAncestors --refGenome GRCh38 --filterGapCausingDupes --chunkSize 100000 --batchCores 96 --batchCount 1 0 --noAncestors --batchParallelTaf 32 --batchSystem slurm --logFile hprc-v1.0-mc-grch38.maf.gz.log zcat hprc-v1.0-mc-grch38.maf.gz | mafDuplicateFilter -m - -k | bgzip > hprc-v1.0-mc-grch38-single-copy.maf.gz Credits Thank you to Glenn Hickey for providing the HAL file from the HPRC project. References Liao WW, Asri M, Ebler J, Doerr D, Haukness M, Hickey G, Lu S, Lucas JK, Monlong J, Abel HJ et al. A draft human pangenome reference. Nature. 2023 May;617(7960):312-324. DOI: 10.1038/s41586-023-05896-x; PMID: 37165242; PMC: PMC10172123 Hickey G, Monlong J, Ebler J, Novak AM, Eizenga JM, Gao Y, Human Pangenome Reference Consortium, Marschall T, Li H, Paten B. Pangenome graph construction from genome alignments with Minigraph-Cactus. Nat Biotechnol. 2023 May 10;. DOI: 10.1038/s41587-023-01793-w; PMID: 37165083; PMC: PMC10638906 Armstrong J, Hickey G, Diekhans M, Fiddes IT, Novak AM, Deran A, Fang Q, Xie D, Feng S, Stiller J et al. Progressive Cactus is a multiple-genome aligner for the thousand-genome era. Nature. 2020 Nov;587(7833):246-251. DOI: 10.1038/s41586-020-2871-y; PMID: 33177663; PMC: PMC7673649 Paten B, Earl D, Nguyen N, Diekhans M, Zerbino D, Haussler D. Cactus: Algorithms for genome multiple sequence alignment. Genome Res. 2011 Sep;21(9):1512-28. DOI: 10.1101/gr.123356.111; PMID: 21665927; PMC: PMC3166836 
consHprc90wayViewalign 90-way Multiple Alignment on 90 human genome assemblies Human Pangenome - HPRC 
hprc90way Multiple Alignment Multiple Alignment on 90 human genome assemblies Human Pangenome - HPRC Description This track shows multiple alignments of 90 human genomes generated by the Minigraph-Cactus pangenome pipeline, which creates pangenomes directly from whole-genome alignments. This method builds graphs containing all forms of genetic variation while allowing use of current mapping and genotyping tools. Display Conventions and Configuration In full and pack display modes, conservation scores are displayed as a wiggle track (histogram) in which the height reflects the size of the score. The conservation wiggles can be configured in a variety of ways to highlight different aspects of the displayed information. Click the Graph configuration help link for an explanation of the configuration options. Pairwise alignments of each species to the human genome are displayed below the conservation histogram as a grayscale density plot (in pack mode) or as a wiggle (in full mode) that indicates alignment quality. In dense display mode, conservation is shown in grayscale using darker values to indicate higher levels of overall conservation as scored by phastCons. Checkboxes on the track configuration page allow selection of the species to include in the pairwise display. Note that excluding species from the pairwise display does not alter the the conservation score display. To view detailed information about the alignments at a specific position, zoom the display in to 30,000 or fewer bases, then click on the alignment. Gap Annotation The Display chains between alignments configuration option enables display of gaps between alignment blocks in the pairwise alignments in a manner similar to the Chain track display. The following conventions are used: Single line: No bases in the aligned species. Possibly due to a lineage-specific insertion between the aligned blocks in the human genome or a lineage-specific deletion between the aligned blocks in the aligning species. Double line: Aligning species has one or more unalignable bases in the gap region. Possibly due to excessive evolutionary distance between species or independent indels in the region between the aligned blocks in both species. Pale yellow coloring: Aligning species has Ns in the gap region. Reflects uncertainty in the relationship between the DNA of both species, due to lack of sequence in relevant portions of the aligning species. Genomic Breaks Discontinuities in the genomic context (chromosome, scaffold or region) of the aligned DNA in the aligning species are shown as follows: Vertical blue bar: Represents a discontinuity that persists indefinitely on either side, e.g. a large region of DNA on either side of the bar comes from a different chromosome in the aligned species due to a large scale rearrangement. Green square brackets: Enclose shorter alignments consisting of DNA from one genomic context in the aligned species nested inside a larger chain of alignments from a different genomic context. The alignment within the brackets may represent a short misalignment, a lineage-specific insertion of a transposon in the human genome that aligns to a paralogous copy somewhere else in the aligned species, or other similar occurrence. Base Level When zoomed-in to the base-level display, the track shows the base composition of each alignment. The numbers and symbols on the Gaps line indicate the lengths of gaps in the human sequence at those alignment positions relative to the longest non-human sequence. If there is sufficient space in the display, the size of the gap is shown. If the space is insufficient and the gap size is a multiple of 3, a &quot;*&quot; is displayed; other gap sizes are indicated by &quot;+&quot;. Methods The MAF was obtained from the HPRC v1.0 minigraph-cactus HAL file (renamed to replace all &quot;.&quot; characters in sample names with &quot;#&quot; using halRenameGenomes) using cactus v2.6.4 as follows. cactus-hal2maf ./js ./hprc-v1.0-mc-grch38.h al hprc-v1.0-mc-grch38.maf.gz --noAncestors --refGenome GRCh38 --filterGapCausingDupes --chunkSize 100000 --batchCores 96 --batchCount 1 0 --noAncestors --batchParallelTaf 32 --batchSystem slurm --logFile hprc-v1.0-mc-grch38.maf.gz.log zcat hprc-v1.0-mc-grch38.maf.gz | mafDuplicateFilter -m - -k | bgzip > hprc-v1.0-mc-grch38-single-copy.maf.gz Credits Thank you to Glenn Hickey for providing the HAL file from the HPRC project. References Liao WW, Asri M, Ebler J, Doerr D, Haukness M, Hickey G, Lu S, Lucas JK, Monlong J, Abel HJ et al. A draft human pangenome reference. Nature. 2023 May;617(7960):312-324. DOI: 10.1038/s41586-023-05896-x; PMID: 37165242; PMC: PMC10172123 Hickey G, Monlong J, Ebler J, Novak AM, Eizenga JM, Gao Y, Human Pangenome Reference Consortium, Marschall T, Li H, Paten B. Pangenome graph construction from genome alignments with Minigraph-Cactus. Nat Biotechnol. 2023 May 10;. DOI: 10.1038/s41587-023-01793-w; PMID: 37165083; PMC: PMC10638906 Armstrong J, Hickey G, Diekhans M, Fiddes IT, Novak AM, Deran A, Fang Q, Xie D, Feng S, Stiller J et al. Progressive Cactus is a multiple-genome aligner for the thousand-genome era. Nature. 2020 Nov;587(7833):246-251. DOI: 10.1038/s41586-020-2871-y; PMID: 33177663; PMC: PMC7673649 Paten B, Earl D, Nguyen N, Diekhans M, Zerbino D, Haussler D. Cactus: Algorithms for genome multiple sequence alignment. Genome Res. 2011 Sep;21(9):1512-28. DOI: 10.1101/gr.123356.111; PMID: 21665927; PMC: PMC3166836 
muscleDeMicheliCellType Muscle Cells Muscle RNA binned by cell type from De Micheli et al 2020 Single Cell RNA-seq Description This track displays data from A reference single-cell transcriptomic atlas of human skeletal muscle tissue reveals bifurcated muscle stem cell populations. Muscle tissue was analyzed using single-cell RNA-sequencing (scRNA-seq) and subsequent clustering distinguished 16 muscle-resident cell types based on their identified marker genes found in De Micheli et al., 2020. Muscle samples were from surgically discarded tissue taken from a wide variety of anatomical sites. This track collection contains two bar chart tracks of RNA expression in the human muscle where cells are grouped by cell type (Muscle Cells) or biosample (Muscle Sample). The default track displayed is Muscle Cells. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification stem cell adipose fibroblast immune muscle endothelial Cells that fall into multiple classes will be colored by blending the colors associated with those classes. The colors will be purest in the Muscle Cells subtrack, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Note that the Muscle Sample subtrack is colored based on colors provided from Figure 1 from De Micheli et al., 2020. Relevant Figures From De Micheli et al. 2020 Muscle tissue cell type populations. De Micheli et al. Skelet Muscle. 2020. / CC BY 4.0 Method Muscle samples were taken from 10 healthy donors of ages ranging from 41-81 years old from different sections of the face (F), trunk (T), and leg (L). Excessive fat and connective tissue were removed from the muscle samples prior to enzymatic dissociation. Next, libraries were prepared using the 10x Genomics 3' v2 or v3 library kit and sequenced on the Illumina NextSeq 500. This resulted in libraries with 200-250 million reads which were processed using Cell Ranger version 3.1. In total, over 22,000 RNA transcriptomic profiles were generated from all of the samples after quality control filtering. The single cell transcriptomes from all 10 datasets were integrated using a scRNA-seq integration method called Scanorama as described in the reference below. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Andrea De Micheli of the Cosgrove Laboratory at Cornell University and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed Luis Nassar. The UCSC work was paid for by the Chan Zuckerberg Initiative. References De Micheli AJ, Spector JA, Elemento O, Cosgrove BD. A reference single-cell transcriptomic atlas of human skeletal muscle tissue reveals bifurcated muscle stem cell populations. Skelet Muscle. 2020 Jul 6;10(1):19. PMID: 32624006; PMC: PMC7336639 
muscleDeMicheli Muscle De Micheli Muscle single cell data from De Micheli et al 2020 Single Cell RNA-seq Description This track displays data from A reference single-cell transcriptomic atlas of human skeletal muscle tissue reveals bifurcated muscle stem cell populations. Muscle tissue was analyzed using single-cell RNA-sequencing (scRNA-seq) and subsequent clustering distinguished 16 muscle-resident cell types based on their identified marker genes found in De Micheli et al., 2020. Muscle samples were from surgically discarded tissue taken from a wide variety of anatomical sites. This track collection contains two bar chart tracks of RNA expression in the human muscle where cells are grouped by cell type (Muscle Cells) or biosample (Muscle Sample). The default track displayed is Muscle Cells. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification stem cell adipose fibroblast immune muscle endothelial Cells that fall into multiple classes will be colored by blending the colors associated with those classes. The colors will be purest in the Muscle Cells subtrack, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Note that the Muscle Sample subtrack is colored based on colors provided from Figure 1 from De Micheli et al., 2020. Method Muscle samples were taken from 10 healthy donors of ages ranging from 41-81 years old from different sections of the face (F), trunk (T), and leg (L). Excessive fat and connective tissue were removed from the muscle samples prior to enzymatic dissociation. Next, libraries were prepared using the 10x Genomics 3' v2 or v3 library kit and sequenced on the Illumina NextSeq 500. This resulted in libraries with 200-250 million reads which were processed using Cell Ranger version 3.1. In total, over 22,000 RNA transcriptomic profiles were generated from all of the samples after quality control filtering. The single cell transcriptomes from all 10 datasets were integrated using a scRNA-seq integration method called Scanorama as described in the reference below. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Andrea De Micheli of the Cosgrove Laboratory at Cornell University and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed Luis Nassar. The UCSC work was paid for by the Chan Zuckerberg Initiative. References De Micheli AJ, Spector JA, Elemento O, Cosgrove BD. A reference single-cell transcriptomic atlas of human skeletal muscle tissue reveals bifurcated muscle stem cell populations. Skelet Muscle. 2020 Jul 6;10(1):19. PMID: 32624006; PMC: PMC7336639 
muscleDeMicheliSample Muscle Sample Muscle RNA binned by biosample from De Micheli et al 2020 Single Cell RNA-seq Description This track displays data from A reference single-cell transcriptomic atlas of human skeletal muscle tissue reveals bifurcated muscle stem cell populations. Muscle tissue was analyzed using single-cell RNA-sequencing (scRNA-seq) and subsequent clustering distinguished 16 muscle-resident cell types based on their identified marker genes found in De Micheli et al., 2020. Muscle samples were from surgically discarded tissue taken from a wide variety of anatomical sites. This track collection contains two bar chart tracks of RNA expression in the human muscle where cells are grouped by cell type (Muscle Cells) or biosample (Muscle Sample). The default track displayed is Muscle Cells. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification stem cell adipose fibroblast immune muscle endothelial Cells that fall into multiple classes will be colored by blending the colors associated with those classes. The colors will be purest in the Muscle Cells subtrack, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Note that the Muscle Sample subtrack is colored based on colors provided from Figure 1 from De Micheli et al., 2020. Relevant Figures From De Micheli et al. 2020 Details on sex, age, anatomical site, and single-cell transcriptomes after quality control (QC) filtering from 10 donors. Colors represent areas from which samples were taken from. De Micheli et al. Skelet Muscle. 2020. / CC BY 4.0 Cell type proportions across the 10 donors and grouped by leg (donors 02, 07, 08), trunk (donors 01, 05, 06, 09, 10), and face (donors 03, 04). De Micheli et al. Skelet Muscle. 2020. / CC BY 4.0 Method Muscle samples were taken from 10 healthy donors of ages ranging from 41-81 years old from different sections of the face (F), trunk (T), and leg (L). Excessive fat and connective tissue were removed from the muscle samples prior to enzymatic dissociation. Next, libraries were prepared using the 10x Genomics 3' v2 or v3 library kit and sequenced on the Illumina NextSeq 500. This resulted in libraries with 200-250 million reads which were processed using Cell Ranger version 3.1. In total, over 22,000 RNA transcriptomic profiles were generated from all of the samples after quality control filtering. The single cell transcriptomes from all 10 datasets were integrated using a scRNA-seq integration method called Scanorama as described in the reference below. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Andrea De Micheli of the Cosgrove Laboratory at Cornell University and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed Luis Nassar. The UCSC work was paid for by the Chan Zuckerberg Initiative. References De Micheli AJ, Spector JA, Elemento O, Cosgrove BD. A reference single-cell transcriptomic atlas of human skeletal muscle tissue reveals bifurcated muscle stem cell populations. Skelet Muscle. 2020 Jul 6;10(1):19. PMID: 32624006; PMC: PMC7336639 
mutScore MutScore MutScore: Variant clustering in 3D protein structures Phenotypes, Variants, and Literature Description The "Prediction Scores" container track contains subtracks showing the results of variant impact prediction scores. Usually these are prediction algorithms that use protein features, conservation, nucleotide composition and similar signals to determine if a genome variant is pathogenic or not. BayesDel - Only hg19 BayesDel is a deleteriousness meta-score for coding and non-coding variants, single nucleotide variants, and small insertion/deletions. The range of the score is from -1.29334 to 0.75731. The higher the score, the more likely the variant is pathogenic. MaxAF stands for maximum allele frequency. The old ACMG (American College of Medical Genetics and Genomics) rules utilize allele frequency to classify variants, so the "BayesDel without MaxAF" tracks were created to avoid double-dipping. However, new ACMG rules will not include allele frequency, so it is okay to use the "BayesDel with MaxAF" for variant classification in the future. For gene discovery research, it is better to use BayesDel with MaxAF. For gene discovery research, a universal cutoff value (0.0692655 with MaxAF, -0.0570105 without MaxAF) was obtained by maximizing sensitivity and specificity in classifying ClinVar variants; Version 1 (build date 2017-08-24). For clinical variant classification, Bayesdel thresholds have been calculated for a variant to reach various levels of evidence; please refer to Pejaver et al. 2022 for general application of these scores in clinical applications. M-CAP - Only hg19 Interpretation: The authors define that at an M-CAP score &gt; 0.025, 5% of pathogenic variants are misclassified as benign. 0.025 is the recommended cutoff. The Mendelian Clinically Applicable Pathogenicity (M-CAP) score (Jagadeesh et al, Nat Genetics 2016) is a pathogenicity likelihood score that aims to misclassify no more than 5% of pathogenic variants while aggressively reducing the list of variants of uncertain significance. Much like allele frequency, M-CAP is readily interpreted; if it classifies a variant as benign, then that variant can be trusted to be benign with high confidence. At an M-CAP score &gt; 0.025, 5% of pathogenic variants are misclassified as benign. The score varies from 0.0 - 1.0, following a geometric distribution with a mean of 0.09. MutScore - hg38/hg19 Interpretation: The authors defined the thresholds &lt;0.140 for a variant to be benign, and &gt; 0.730 for pathogenic with 95% confidence. The within-gene clustering of pathogenic and benign DNA changes is an important feature of the human exome. MutScore score (Quinodoz, AJHG 2022) integrates qualitative features of DNA substitutions with new additional information derived from positional clustering. Variants of unknown significance that are scored as benign by other algorithms but located close to known pathogenic variants should be weighted more pathogenic by MutScore. The score ranges from 0.0-1.0, resembles a negative binomial distribution with a maximum ~0.05, depending on the nucleotide. MutScore was seen to outperform other scores by papers Porretta et al and Brock et al. PrimateAI-3D - hg38/hg19 Interpretation: Scores range from 0 to 1, with higher values indicating greater predicted pathogenicity. The authors suggest a clinical threshold of 0.821 for distinguishing pathogenic from benign missense variants. 75% of all possible missense variants are classified as benign, 25% as pathogenic. PrimateAI-3D (Gao et al, Science 2023) is a semi-supervised 3D convolutional neural network trained on 4.5 million benign missense variants from 233 primate species and common human variants. It operates on voxelized protein structures at 2 &Aring; resolution (from AlphaFold or homology models) combined with multiple sequence alignments from 592 species. The track contains pre-computed scores for all 70.7 million possible single nucleotide missense variants. Pathogenic variants are shown in red, benign in blue. Items can be filtered by prediction and by percentile score. PromoterAI - hg38 Interpretation: Scores range from -1 to 1. Positive scores indicate predicted disruption of promoter function, negative scores indicate the variant is tolerated. PromoterAI predicts the impact of single nucleotide variants in gene promoter regions, scoring all possible substitutions within 500 bp of annotated transcription start sites. The track contains four bigWig subtracks (one per alternate allele) covering 39.5 million positions, plus a bigBed track for the 3.8% of positions where overlapping transcripts produce different scores. ClinPred - hg38/hg19 Interpretation: Scores range from 0 to 1, with higher values indicating greater predicted likelihood of pathogenicity. The authors recommend a threshold of &ge; 0.5 to flag variants as likely disease-relevant. ClinPred (Alirezaie et al, AJHG 2018) is a machine-learning predictor for nonsynonymous (missense) single-nucleotide variants. It combines existing pathogenicity scores with population allele frequency from gnomAD, and was trained on confidently annotated disease-causing and benign variants from ClinVar. The track contains four bigWig subtracks (one per alternate allele) with pre-computed scores for all possible human missense variants in the exome. Pathogenic variants are shown in red, benign in blue. Display Conventions and Configuration BayesDel There are eight subtracks for the BayesDel track: four include pre-computed MaxAF-integrated BayesDel scores for missense variants, one for each base. The other four are of the same format, but scores are not MaxAF-integrated. For SNVs, at each genome position, there are three values per position, one for every possible nucleotide mutation. The fourth value, &quot;no mutation&quot;, representing the reference allele, (e.g. A to A) is always set to zero. Note: There are cases in which a genomic position will have one value missing. When using this track, zoom in until you can see every base pair at the top of the display. Otherwise, there are several nucleotides per pixel under your mouse cursor and instead of an actual score, the tooltip text will show the average score of all nucleotides under the cursor. This is indicated by the prefix &quot;~&quot; in the mouseover. Details on suggested ranges for BayesDel can be found in Bergquist et al Genet Med 2025, Table 2: M-CAP and MutScore There are four subtracks: one for each nucleotide. ClinPred There are four subtracks: one for each alternate nucleotide. Each shows the ClinPred score for variants from the reference base to that nucleotide. Reference and synonymous alternates are set to 0; positions with no exome coverage appear as gaps. The track is colored at each position by the recommended threshold (&ge; 0.5 = pathogenic, &lt; 0.5 = benign). PrimateAI-3D A single bigBed track containing all possible missense variants. Items are colored by prediction (red = pathogenic, blue = benign) and can be filtered by prediction or percentile score. See the per-track description page for details. PromoterAI Four bigWig subtracks (one per alternate nucleotide) covering positions within 500&nbsp;bp of annotated transcription start sites, plus a bigBed track for positions where overlapping transcripts produce different scores. Data Access The raw data can be explored interactively with the Table Browser or the Data Integrator. The data can be accessed from scripts through our API, the track names can be found via the table browser or by clicking onto the signal tracks. For automated download and analysis, the genome annotation is stored in a bigBed file that can be downloaded from our download server, there is one subdirectory per score. The files for this track are called usually called by their alternate allele, e.g. mcapA.bw and mutScoreA.bw. Individual regions or the whole genome annotation can be obtained using our tool bigWigToBedGraph which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tool can also be used to obtain only features within a given range, e.g. bigWigToBedGraph http://hgdownload.soe.ucsc.edu/gbdb/hg19/mcap/mcapA.bw -chrom=chr21 -start=0 -end=100000000 stdout The original BayesDel files are available at the BayesDel website. The other algorithms also have their own download formats, on the M-CAP website and the MutScore Website. Methods BayesDel data was converted from the files provided on the BayesDel_170824 Database. The number 170824 is the date (2017-08-24) the scores were created. Both sets of BayesDel scores are available in this database, one integrated MaxAF (named BayesDel_170824_addAF) and one without (named BayesDel_170824_noAF). Data conversion was performed using custom Python scripts. M-CAP data was converted using a custom Python script and converted to bigWig, as documented in the our makeDoc text file. MutScore was already available in bigWig format to download. Credits Thanks to the BayesDel, MutScore, M-CAP, ClinPred, PrimateAI-3D and PromoterAI teams for providing precomputed data, and to Tiana Pereira, Christopher Lee, Gerardo Perez, and Anna Benet-Pages of the Genome Browser team. References Alirezaie N, Kernohan KD, Hartley T, Majewski J, Hocking TD. ClinPred: Prediction Tool to Identify Disease-Relevant Nonsynonymous Single-Nucleotide Variants. Am J Hum Genet. 2018 Oct 4;103(4):474-483. PMID: 30220433; PMC: PMC6174354 Bergquist T, Stenton SL, Nadeau EAW, Byrne AB, Greenblatt MS, Harrison SM, Tavtigian SV, O&#x27;Donnell-Luria A, Biesecker LG, Radivojac P et al. Calibration of additional computational tools expands ClinGen recommendation options for variant classification with PP3/BP4 criteria. Genet Med. 2025 Mar 10;27(6):101402. PMID: 40084623 Feng BJ. PERCH: A Unified Framework for Disease Gene Prioritization. Hum Mutat. 2017 Mar;38(3):243-251. PMID: 27995669; PMC: PMC5299048 Gao H, Hamp T, Ede J, Schraiber JG, McRae J, Singer-Berk M, Yang Y, Dietrich ASD, Fiziev PP, Kuderna LFK et al. The landscape of tolerated genetic variation in humans and primates. Science. 2023 Jun 2;380(6648):eabn8197. PMID: 37262156; PMC: PMC10187174 Jagadeesh KA, Wenger AM, Berger MJ, Guturu H, Stenson PD, Cooper DN, Bernstein JA, Bejerano G. M-CAP eliminates a majority of variants of uncertain significance in clinical exomes at high sensitivity. Nat Genet. 2016 Dec;48(12):1581-1586. PMID: 27776117 Pejaver V, Byrne AB, Feng BJ, Pagel KA, Mooney SD, Karchin R, O'Donnell-Luria A, Harrison SM, Tavtigian SV, Greenblatt MS et al. Calibration of computational tools for missense variant pathogenicity classification and ClinGen recommendations for PP3/BP4 criteria. Am J Hum Genet. 2022 Dec 1;109(12):2163-2177. PMID: 36413997; PMC: PMC9748256 Quinodoz M, Peter VG, Cisarova K, Royer-Bertrand B, Stenson PD, Cooper DN, Unger S, Superti-Furga A, Rivolta C. Analysis of missense variants in the human genome reveals widespread gene-specific clustering and improves prediction of pathogenicity. Am J Hum Genet. 2022 Mar 3;109(3):457-470. PMID: 35120630; PMC: PMC8948164 Sundaram L, Gao H, Padigepati SR, McRae JF, Li Y, Kosmicki JA, Fritzilas N, Hakenberg J, Dutta A, Shon J et al. Predicting the clinical impact of human mutation with deep neural networks. Nat Genet. 2018 Aug;50(8):1161-1170. PMID: 30038395; PMC: PMC6237276 Tian Y, Pesaran T, Chamberlin A, Fenwick RB, Li S, Gau CL, Chao EC, Lu HM, Black MH, Qian D. REVEL and BayesDel outperform other in silico meta-predictors for clinical variant classification. Sci Rep. 2019 Sep 4;9(1):12752. PMID: 31484976; PMC: PMC6726608 
predictionScoresSuper Deleteriousness Predictions Variant Deleteriousness / Variant Impact Prediction Scores Phenotypes, Variants, and Literature Description The "Prediction Scores" container track contains subtracks showing the results of variant impact prediction scores. Usually these are prediction algorithms that use protein features, conservation, nucleotide composition and similar signals to determine if a genome variant is pathogenic or not. BayesDel - Only hg19 BayesDel is a deleteriousness meta-score for coding and non-coding variants, single nucleotide variants, and small insertion/deletions. The range of the score is from -1.29334 to 0.75731. The higher the score, the more likely the variant is pathogenic. MaxAF stands for maximum allele frequency. The old ACMG (American College of Medical Genetics and Genomics) rules utilize allele frequency to classify variants, so the "BayesDel without MaxAF" tracks were created to avoid double-dipping. However, new ACMG rules will not include allele frequency, so it is okay to use the "BayesDel with MaxAF" for variant classification in the future. For gene discovery research, it is better to use BayesDel with MaxAF. For gene discovery research, a universal cutoff value (0.0692655 with MaxAF, -0.0570105 without MaxAF) was obtained by maximizing sensitivity and specificity in classifying ClinVar variants; Version 1 (build date 2017-08-24). For clinical variant classification, Bayesdel thresholds have been calculated for a variant to reach various levels of evidence; please refer to Pejaver et al. 2022 for general application of these scores in clinical applications. M-CAP - Only hg19 Interpretation: The authors define that at an M-CAP score &gt; 0.025, 5% of pathogenic variants are misclassified as benign. 0.025 is the recommended cutoff. The Mendelian Clinically Applicable Pathogenicity (M-CAP) score (Jagadeesh et al, Nat Genetics 2016) is a pathogenicity likelihood score that aims to misclassify no more than 5% of pathogenic variants while aggressively reducing the list of variants of uncertain significance. Much like allele frequency, M-CAP is readily interpreted; if it classifies a variant as benign, then that variant can be trusted to be benign with high confidence. At an M-CAP score &gt; 0.025, 5% of pathogenic variants are misclassified as benign. The score varies from 0.0 - 1.0, following a geometric distribution with a mean of 0.09. MutScore - hg38/hg19 Interpretation: The authors defined the thresholds &lt;0.140 for a variant to be benign, and &gt; 0.730 for pathogenic with 95% confidence. The within-gene clustering of pathogenic and benign DNA changes is an important feature of the human exome. MutScore score (Quinodoz, AJHG 2022) integrates qualitative features of DNA substitutions with new additional information derived from positional clustering. Variants of unknown significance that are scored as benign by other algorithms but located close to known pathogenic variants should be weighted more pathogenic by MutScore. The score ranges from 0.0-1.0, resembles a negative binomial distribution with a maximum ~0.05, depending on the nucleotide. MutScore was seen to outperform other scores by papers Porretta et al and Brock et al. PrimateAI-3D - hg38/hg19 Interpretation: Scores range from 0 to 1, with higher values indicating greater predicted pathogenicity. The authors suggest a clinical threshold of 0.821 for distinguishing pathogenic from benign missense variants. 75% of all possible missense variants are classified as benign, 25% as pathogenic. PrimateAI-3D (Gao et al, Science 2023) is a semi-supervised 3D convolutional neural network trained on 4.5 million benign missense variants from 233 primate species and common human variants. It operates on voxelized protein structures at 2 &Aring; resolution (from AlphaFold or homology models) combined with multiple sequence alignments from 592 species. The track contains pre-computed scores for all 70.7 million possible single nucleotide missense variants. Pathogenic variants are shown in red, benign in blue. Items can be filtered by prediction and by percentile score. PromoterAI - hg38 Interpretation: Scores range from -1 to 1. Positive scores indicate predicted disruption of promoter function, negative scores indicate the variant is tolerated. PromoterAI predicts the impact of single nucleotide variants in gene promoter regions, scoring all possible substitutions within 500 bp of annotated transcription start sites. The track contains four bigWig subtracks (one per alternate allele) covering 39.5 million positions, plus a bigBed track for the 3.8% of positions where overlapping transcripts produce different scores. ClinPred - hg38/hg19 Interpretation: Scores range from 0 to 1, with higher values indicating greater predicted likelihood of pathogenicity. The authors recommend a threshold of &ge; 0.5 to flag variants as likely disease-relevant. ClinPred (Alirezaie et al, AJHG 2018) is a machine-learning predictor for nonsynonymous (missense) single-nucleotide variants. It combines existing pathogenicity scores with population allele frequency from gnomAD, and was trained on confidently annotated disease-causing and benign variants from ClinVar. The track contains four bigWig subtracks (one per alternate allele) with pre-computed scores for all possible human missense variants in the exome. Pathogenic variants are shown in red, benign in blue. Display Conventions and Configuration BayesDel There are eight subtracks for the BayesDel track: four include pre-computed MaxAF-integrated BayesDel scores for missense variants, one for each base. The other four are of the same format, but scores are not MaxAF-integrated. For SNVs, at each genome position, there are three values per position, one for every possible nucleotide mutation. The fourth value, &quot;no mutation&quot;, representing the reference allele, (e.g. A to A) is always set to zero. Note: There are cases in which a genomic position will have one value missing. When using this track, zoom in until you can see every base pair at the top of the display. Otherwise, there are several nucleotides per pixel under your mouse cursor and instead of an actual score, the tooltip text will show the average score of all nucleotides under the cursor. This is indicated by the prefix &quot;~&quot; in the mouseover. Details on suggested ranges for BayesDel can be found in Bergquist et al Genet Med 2025, Table 2: M-CAP and MutScore There are four subtracks: one for each nucleotide. ClinPred There are four subtracks: one for each alternate nucleotide. Each shows the ClinPred score for variants from the reference base to that nucleotide. Reference and synonymous alternates are set to 0; positions with no exome coverage appear as gaps. The track is colored at each position by the recommended threshold (&ge; 0.5 = pathogenic, &lt; 0.5 = benign). PrimateAI-3D A single bigBed track containing all possible missense variants. Items are colored by prediction (red = pathogenic, blue = benign) and can be filtered by prediction or percentile score. See the per-track description page for details. PromoterAI Four bigWig subtracks (one per alternate nucleotide) covering positions within 500&nbsp;bp of annotated transcription start sites, plus a bigBed track for positions where overlapping transcripts produce different scores. Data Access The raw data can be explored interactively with the Table Browser or the Data Integrator. The data can be accessed from scripts through our API, the track names can be found via the table browser or by clicking onto the signal tracks. For automated download and analysis, the genome annotation is stored in a bigBed file that can be downloaded from our download server, there is one subdirectory per score. The files for this track are called usually called by their alternate allele, e.g. mcapA.bw and mutScoreA.bw. Individual regions or the whole genome annotation can be obtained using our tool bigWigToBedGraph which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tool can also be used to obtain only features within a given range, e.g. bigWigToBedGraph http://hgdownload.soe.ucsc.edu/gbdb/hg19/mcap/mcapA.bw -chrom=chr21 -start=0 -end=100000000 stdout The original BayesDel files are available at the BayesDel website. The other algorithms also have their own download formats, on the M-CAP website and the MutScore Website. Methods BayesDel data was converted from the files provided on the BayesDel_170824 Database. The number 170824 is the date (2017-08-24) the scores were created. Both sets of BayesDel scores are available in this database, one integrated MaxAF (named BayesDel_170824_addAF) and one without (named BayesDel_170824_noAF). Data conversion was performed using custom Python scripts. M-CAP data was converted using a custom Python script and converted to bigWig, as documented in the our makeDoc text file. MutScore was already available in bigWig format to download. Credits Thanks to the BayesDel, MutScore, M-CAP, ClinPred, PrimateAI-3D and PromoterAI teams for providing precomputed data, and to Tiana Pereira, Christopher Lee, Gerardo Perez, and Anna Benet-Pages of the Genome Browser team. References Alirezaie N, Kernohan KD, Hartley T, Majewski J, Hocking TD. ClinPred: Prediction Tool to Identify Disease-Relevant Nonsynonymous Single-Nucleotide Variants. Am J Hum Genet. 2018 Oct 4;103(4):474-483. PMID: 30220433; PMC: PMC6174354 Bergquist T, Stenton SL, Nadeau EAW, Byrne AB, Greenblatt MS, Harrison SM, Tavtigian SV, O&#x27;Donnell-Luria A, Biesecker LG, Radivojac P et al. Calibration of additional computational tools expands ClinGen recommendation options for variant classification with PP3/BP4 criteria. Genet Med. 2025 Mar 10;27(6):101402. PMID: 40084623 Feng BJ. PERCH: A Unified Framework for Disease Gene Prioritization. Hum Mutat. 2017 Mar;38(3):243-251. PMID: 27995669; PMC: PMC5299048 Gao H, Hamp T, Ede J, Schraiber JG, McRae J, Singer-Berk M, Yang Y, Dietrich ASD, Fiziev PP, Kuderna LFK et al. The landscape of tolerated genetic variation in humans and primates. Science. 2023 Jun 2;380(6648):eabn8197. PMID: 37262156; PMC: PMC10187174 Jagadeesh KA, Wenger AM, Berger MJ, Guturu H, Stenson PD, Cooper DN, Bernstein JA, Bejerano G. M-CAP eliminates a majority of variants of uncertain significance in clinical exomes at high sensitivity. Nat Genet. 2016 Dec;48(12):1581-1586. PMID: 27776117 Pejaver V, Byrne AB, Feng BJ, Pagel KA, Mooney SD, Karchin R, O'Donnell-Luria A, Harrison SM, Tavtigian SV, Greenblatt MS et al. Calibration of computational tools for missense variant pathogenicity classification and ClinGen recommendations for PP3/BP4 criteria. Am J Hum Genet. 2022 Dec 1;109(12):2163-2177. PMID: 36413997; PMC: PMC9748256 Quinodoz M, Peter VG, Cisarova K, Royer-Bertrand B, Stenson PD, Cooper DN, Unger S, Superti-Furga A, Rivolta C. Analysis of missense variants in the human genome reveals widespread gene-specific clustering and improves prediction of pathogenicity. Am J Hum Genet. 2022 Mar 3;109(3):457-470. PMID: 35120630; PMC: PMC8948164 Sundaram L, Gao H, Padigepati SR, McRae JF, Li Y, Kosmicki JA, Fritzilas N, Hakenberg J, Dutta A, Shon J et al. Predicting the clinical impact of human mutation with deep neural networks. Nat Genet. 2018 Aug;50(8):1161-1170. PMID: 30038395; PMC: PMC6237276 Tian Y, Pesaran T, Chamberlin A, Fenwick RB, Li S, Gau CL, Chao EC, Lu HM, Black MH, Qian D. REVEL and BayesDel outperform other in silico meta-predictors for clinical variant classification. Sci Rep. 2019 Sep 4;9(1):12752. PMID: 31484976; PMC: PMC6726608 
mutScoreT Mutation: T MutScore: Mutation is T Phenotypes, Variants, and Literature 
mutScoreG Mutation: G MutScore: Mutation is G Phenotypes, Variants, and Literature 
mutScoreC Mutation: C MutScore: Mutation is C Phenotypes, Variants, and Literature 
mutScoreA Mutation: A MutScore: Mutation is A Phenotypes, Variants, and Literature 
nuorfdb nuORFdb ncORFs: nuORFdb - non-canonical ORFs from nuORFdb v1.2 Genes and Gene Predictions Description This track displays 229,251 non-canonical open reading frames (ORFs) from nuORFdb v1.2 (novel unannotated ORF database), a database of ORFs with evidence of translation detected by ribosome profiling (Ribo-seq). nuORFdb was developed at the Broad Institute of MIT and Harvard as a resource for identifying non-canonical peptides in immunopeptidomic mass spectrometry datasets. The ORFs were predicted using a hierarchical pipeline that aggregates ribosome profiling signal across 29 primary healthy and cancer tissue samples and cell lines. The pipeline operates at multiple levels&mdash;individual samples, tissues, and combined across all samples&mdash;to predict lowly translated ORFs while maintaining sensitivity for tissue-specific variants. All ORFs have a minimum length of 8 amino acids. Display Conventions and Configuration Items are displayed in bigGenePred format. Each item is labeled with the nuORFdb ORF identifier, which encodes the source Ensembl transcript and ORF number (e.g. ENST00000488147.1_1_1). Color reflects the categorical Kozak consensus strength: Strong &ndash; A/G at position &minus;3 and G at position +4 Moderate &ndash; only one of those positions matches Weak &ndash; neither position matches non-ATG &ndash; near-cognate start codon; the Kozak rule does not apply no context &ndash; chromosome edge or context unavailable Mouseover shows the ORF ID in its host gene, gene biotype, start codon, Kozak strength and TE, predictor type, and the simplified plotType category. Available filters: start codon, Kozak strength, Kozak TE, ORF category (plotType: 8 broad classes; or type: 25 finer categories). The track includes the following ORF categories (by type): Out-of-Frame &ndash; ORFs overlapping a CDS but in a different reading frame (57,713) 5' uORF &ndash; upstream ORFs in the 5' UTR (32,595) 3' dORF &ndash; downstream ORFs in the 3' UTR (30,656) lincRNA &ndash; ORFs in long intergenic non-coding RNAs (20,399) 5' Overlap uORF &ndash; upstream ORFs overlapping the main CDS (20,119) ncRNA Retained Intron &ndash; ORFs in retained-intron transcripts (19,259) 3' Overlap dORF &ndash; downstream ORFs overlapping the main CDS (18,028) ncRNA Processed Transcript &ndash; ORFs in processed transcripts (14,173) Pseudogene &ndash; ORFs in pseudogenes (7,727) Antisense &ndash; ORFs in antisense transcripts (6,300) and other minor categories Each item also includes the predicted protein sequence and additional classification fields (predictorType, plotType, geneType) from the nuORFdb annotations. Data Access The raw data can be explored interactively with the Table Browser or the Data Integrator. The data can be accessed from scripts through our API; the track name is &quot;nuorfdb&quot;. For automated download and analysis, the genome annotation is stored in a bigBed file that can be downloaded from our download server. Individual regions or the whole genome annotation can be obtained using our tool bigBedToBed, which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tool can also be used to obtain only features within a given range, e.g. bigBedToBed http://hgdownload.soe.ucsc.edu/gbdb/hg38/ncOrfs/nuorfdb/nuorfdb.kozak.bb -chrom=chr21 -start=0 -end=100000000 stdout The original data files can be downloaded from the nuORFdb website at the Broad Institute. Methods The nuORFdb v1.2 data files (BED12 coordinates, Excel annotations, and protein FASTA sequences) were downloaded from the Broad Institute. The BED12 file was combined with the annotation spreadsheet (keyed on ORF_ID_hg38) and protein FASTA (keyed on sequence header ID) to produce a bigGenePred+ format file with 23 fields (12 standard BED fields, 8 bigGenePred fields, and 3 extended fields: predictorType, plotType, and proteinSequence). A small number of entries (176 out of 229,251) used non-standard chromosome names (e.g. chrGL000008.2, chrMT) which were mapped to UCSC standard names (e.g. chr4_GL000008v2_random, chrM). Credits Thanks to Tamara Ouspenskaia, Travis Law, Karl Clauser, and colleagues at the Broad Institute of MIT and Harvard for creating nuORFdb and making the data publicly available. Thanks to Eric Malekos, UCSC, for suggesting this database. References Ouspenskaia T, Law T, Clauser KR, Klaeger S, Sarkizova S, Aguet F, Li B, Christian E, Knisbacher BA, Le PM et al. Unannotated proteins expand the MHC-I-restricted immunopeptidome in cancer. Nat Biotechnol. 2022 Feb;40(2):209-217. DOI: 10.1038/s41587-021-01021-3; PMID: 34663921; PMC: PMC10198624 
openprot OpenProt ncORFs: OpenProt - alternative and reference proteins v2.2 Genes and Gene Predictions Description This track displays 921,170 protein-coding ORFs from OpenProt v2.2, a database that provides a comprehensive annotation of all possible protein-coding ORFs in the human genome. In addition to currently annotated coding sequences (CDSs) and their reference proteins (RefProts), OpenProt predicts alternative ORFs (AltORFs) and their corresponding alternative proteins (AltProts) that are hidden within transcripts previously considered to encode only a single protein. A pre-filtered subtrack (OpenProt MS>=2) is also available, containing only the 377,916 ORFs with at least 2 unique mass spectrometry peptides detected across studies, matching the MS-evidence threshold used by OpenProt for their curated downloads. OpenProt classifies proteins into three types: RefProt (246,578) &ndash; reference proteins translated from annotated CDSs in mRNAs, representing non-redundant sequences from UniProtKB/SwissProt, Ensembl, and NCBI RefSeq AltProt (603,586) &ndash; alternative proteins translated from AltORFs in mRNA UTRs, in frameshifted reading frames overlapping the CDS, or from ORFs in non-coding RNAs Isoform (71,006) &ndash; novel predicted isoforms of known proteins, translated from AltORFs that share clear sequence homology with a RefProt from the same gene AltORFs are further classified by their localization relative to the annotated CDS: 5'UTR &ndash; start codon in the 5' UTR (upstream ORFs) CDS &ndash; overlapping the annotated CDS in a different reading frame 3'UTR &ndash; start codon in the 3' UTR (downstream ORFs) ncRNA &ndash; ORFs in transcripts classified as non-coding RNAs Display Conventions and Configuration Items are displayed in bigGenePred format. Items are labeled with the protein accession number: IDs starting with IP_ are predicted AltProts, II_ are novel isoforms, and other IDs (e.g. NP_, ENSP) are RefProts from existing annotations. Color reflects the categorical Kozak consensus strength: Strong &ndash; A/G at position &minus;3 and G at position +4 Moderate &ndash; only one of those positions matches Weak &ndash; neither position matches non-ATG &ndash; near-cognate start codon; the Kozak rule does not apply no context &ndash; chromosome edge or context unavailable Mouseover shows the protein accession in its host gene, protein type and ORF localization, start codon, Kozak strength and TE, MS score, TE score, and InterPro domain count. The track includes the following filter options: Start codon, Kozak strength, Kozak TE &ndash; common Kozak filters Protein type &ndash; AltProt, RefProt, or Isoform Localization &ndash; 5'UTR, 3'UTR, CDS, ncRNA, multiple MS score &ndash; minimum unique MS peptides (range) Kozak motif &ndash; OpenProt's own +/&minus; annotation Data Access The raw data can be explored interactively with the Table Browser or the Data Integrator. The data can be accessed from scripts through our API; the track name is &quot;openprot&quot; (all ORFs) or &quot;openprotMs&quot; (MS-filtered). For automated download and analysis, the genome annotations are stored in bigBed files that can be downloaded from our download server. Individual regions or the whole genome annotation can be obtained using our tool bigBedToBed, which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tool can also be used to obtain only features within a given range, e.g. bigBedToBed http://hgdownload.soe.ucsc.edu/gbdb/hg38/ncOrfs/openprot/openprot.kozak.bb -chrom=chr21 -start=0 -end=100000000 stdout The original data files can be downloaded from the OpenProt download page. Methods The OpenProt v2.2 BED12 and TSV annotation files were downloaded from the OpenProt API. The BED file (2,846,289 rows) contains genomic coordinates for all predicted ORFs; since the same protein can be mapped through multiple transcripts to identical genomic coordinates, deduplication reduced this to 921,170 unique genomic features (3 entries with overlapping BED blocks were excluded). Each BED entry was annotated with metadata from the TSV file by joining on protein accession. For proteins with multiple transcript entries in the TSV, the annotation with the highest MS score was retained. Extended fields include protein type (AltProt/RefProt/Isoform), ORF localization, MS score, TE (Translation Event) score, Kozak motif status, InterPro domain count, and reading frame. The annotation is based on GRCh38.p13, Ensembl release 106, and UniProt release 2022_06_01. Credits Thanks to Xavier Roucou and the OpenProt team at the Universit&eacute; de Sherbrooke for creating OpenProt and making the data publicly available. References Brunet MA, Brunelle M, Lucier JF, Delcourt V, Levesque M, Grenier F, Samandi S, Leblanc S, Aguilar JD, Dufour P et al. OpenProt: a more comprehensive guide to explore eukaryotic coding potential and proteomes. Nucleic Acids Res. 2019 Jan 8;47(D1):D403-D410. PMID: 30299502; PMC: PMC6323990 Brunet MA, Lucier JF, Levesque M, Leblanc S, Jacques JF, Al-Saedi HRH, Guilloy N, Grenier F, Avino M, Fournier I et al. OpenProt 2021: deeper functional annotation of the coding potential of eukaryotic genomes. Nucleic Acids Res. 2021 Jan 8;49(D1):D380-D388. PMID: 33179748; PMC: PMC7779043 
openprotMs OpenProt (MS>=2) ncORFs: OpenProt - proteins with at least 2 MS peptides v2.2 Genes and Gene Predictions Description This track displays 921,170 protein-coding ORFs from OpenProt v2.2, a database that provides a comprehensive annotation of all possible protein-coding ORFs in the human genome. In addition to currently annotated coding sequences (CDSs) and their reference proteins (RefProts), OpenProt predicts alternative ORFs (AltORFs) and their corresponding alternative proteins (AltProts) that are hidden within transcripts previously considered to encode only a single protein. A pre-filtered subtrack (OpenProt MS>=2) is also available, containing only the 377,916 ORFs with at least 2 unique mass spectrometry peptides detected across studies, matching the MS-evidence threshold used by OpenProt for their curated downloads. OpenProt classifies proteins into three types: RefProt (246,578) &ndash; reference proteins translated from annotated CDSs in mRNAs, representing non-redundant sequences from UniProtKB/SwissProt, Ensembl, and NCBI RefSeq AltProt (603,586) &ndash; alternative proteins translated from AltORFs in mRNA UTRs, in frameshifted reading frames overlapping the CDS, or from ORFs in non-coding RNAs Isoform (71,006) &ndash; novel predicted isoforms of known proteins, translated from AltORFs that share clear sequence homology with a RefProt from the same gene AltORFs are further classified by their localization relative to the annotated CDS: 5'UTR &ndash; start codon in the 5' UTR (upstream ORFs) CDS &ndash; overlapping the annotated CDS in a different reading frame 3'UTR &ndash; start codon in the 3' UTR (downstream ORFs) ncRNA &ndash; ORFs in transcripts classified as non-coding RNAs Display Conventions and Configuration Items are displayed in bigGenePred format. Items are labeled with the protein accession number: IDs starting with IP_ are predicted AltProts, II_ are novel isoforms, and other IDs (e.g. NP_, ENSP) are RefProts from existing annotations. Color reflects the categorical Kozak consensus strength: Strong &ndash; A/G at position &minus;3 and G at position +4 Moderate &ndash; only one of those positions matches Weak &ndash; neither position matches non-ATG &ndash; near-cognate start codon; the Kozak rule does not apply no context &ndash; chromosome edge or context unavailable Mouseover shows the protein accession in its host gene, protein type and ORF localization, start codon, Kozak strength and TE, MS score, TE score, and InterPro domain count. The track includes the following filter options: Start codon, Kozak strength, Kozak TE &ndash; common Kozak filters Protein type &ndash; AltProt, RefProt, or Isoform Localization &ndash; 5'UTR, 3'UTR, CDS, ncRNA, multiple MS score &ndash; minimum unique MS peptides (range) Kozak motif &ndash; OpenProt's own +/&minus; annotation Data Access The raw data can be explored interactively with the Table Browser or the Data Integrator. The data can be accessed from scripts through our API; the track name is &quot;openprot&quot; (all ORFs) or &quot;openprotMs&quot; (MS-filtered). For automated download and analysis, the genome annotations are stored in bigBed files that can be downloaded from our download server. Individual regions or the whole genome annotation can be obtained using our tool bigBedToBed, which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tool can also be used to obtain only features within a given range, e.g. bigBedToBed http://hgdownload.soe.ucsc.edu/gbdb/hg38/ncOrfs/openprot/openprot.kozak.bb -chrom=chr21 -start=0 -end=100000000 stdout The original data files can be downloaded from the OpenProt download page. Methods The OpenProt v2.2 BED12 and TSV annotation files were downloaded from the OpenProt API. The BED file (2,846,289 rows) contains genomic coordinates for all predicted ORFs; since the same protein can be mapped through multiple transcripts to identical genomic coordinates, deduplication reduced this to 921,170 unique genomic features (3 entries with overlapping BED blocks were excluded). Each BED entry was annotated with metadata from the TSV file by joining on protein accession. For proteins with multiple transcript entries in the TSV, the annotation with the highest MS score was retained. Extended fields include protein type (AltProt/RefProt/Isoform), ORF localization, MS score, TE (Translation Event) score, Kozak motif status, InterPro domain count, and reading frame. The annotation is based on GRCh38.p13, Ensembl release 106, and UniProt release 2022_06_01. Credits Thanks to Xavier Roucou and the OpenProt team at the Universit&eacute; de Sherbrooke for creating OpenProt and making the data publicly available. References Brunet MA, Brunelle M, Lucier JF, Delcourt V, Levesque M, Grenier F, Samandi S, Leblanc S, Aguilar JD, Dufour P et al. OpenProt: a more comprehensive guide to explore eukaryotic coding potential and proteomes. Nucleic Acids Res. 2019 Jan 8;47(D1):D403-D410. PMID: 30299502; PMC: PMC6323990 Brunet MA, Lucier JF, Levesque M, Leblanc S, Jacques JF, Al-Saedi HRH, Guilloy N, Grenier F, Avino M, Fournier I et al. OpenProt 2021: deeper functional annotation of the coding potential of eukaryotic genomes. Nucleic Acids Res. 2021 Jan 8;49(D1):D380-D388. PMID: 33179748; PMC: PMC7779043 
oreganno ORegAnno Regulatory elements from ORegAnno Regulation Description This track displays literature-curated regulatory regions, transcription factor binding sites, and regulatory polymorphisms from ORegAnno (Open Regulatory Annotation). For more detailed information on a particular regulatory element, follow the link to ORegAnno from the details page. ORegAnno (Open Regulatory Annotation). --> Display Conventions and Configuration The display may be filtered to show only selected region types, such as: regulatory regions (shown in light blue) regulatory polymorphisms (shown in dark blue) transcription factor binding sites (shown in orange) regulatory haplotypes (shown in red) miRNA binding sites (shown in blue-green) To exclude a region type, uncheck the appropriate box in the list at the top of the Track Settings page. Methods An ORegAnno record describes an experimentally proven and published regulatory region (promoter, enhancer, etc.), transcription factor binding site, or regulatory polymorphism. Each annotation must have the following attributes: A stable ORegAnno identifier. A valid taxonomy ID from the NCBI taxonomy database. A valid PubMed reference. A target gene that is either user-defined, in Entrez Gene or in EnsEMBL. A sequence with at least 40 flanking bases (preferably more) to allow the site to be mapped to any release of an associated genome. At least one piece of specific experimental evidence, including the biological technique used to discover the regulatory sequence. (Currently only the evidence subtypes are supplied with the UCSC track.) A positive, neutral or negative outcome based on the experimental results from the primary reference. (Only records with a positive outcome are currently included in the UCSC track.) The following attributes are optionally included: A transcription factor that is either user-defined, in Entrez Gene or in EnsEMBL. A specific cell type for each piece of experimental evidence, using the eVOC cell type ontology. A specific dataset identifier (e.g. the REDfly dataset) that allows external curators to manage particular annotation sets using ORegAnno's curation tools. A &quot;search space&quot; sequence that specifies the region that was assayed, not just the regulatory sequence. A dbSNP identifier and type of variant (germline, somatic or artificial) for regulatory polymorphisms. Mapping to genome coordinates is performed periodically to current genome builds by BLAST sequence alignment. The information provided in this track represents an abbreviated summary of the details for each ORegAnno record. Please visit the official ORegAnno entry (by clicking on the ORegAnno link on the details page of a specific regulatory element) for complete details such as evidence descriptions, comments, validation score history, etc. Credits ORegAnno core team and principal contacts: Stephen Montgomery, Obi Griffith, and Steven Jones from Canada's Michael Smith Genome Sciences Centre, Vancouver, British Columbia, Canada. The ORegAnno community (please see individual citations for various features): ORegAnno Citation. References Lesurf R, Cotto KC, Wang G, Griffith M, Kasaian K, Jones SJ, Montgomery SB, Griffith OL, Open Regulatory Annotation Consortium.. ORegAnno 3.0: a community-driven resource for curated regulatory annotation. Nucleic Acids Res. 2016 Jan 4;44(D1):D126-32. PMID: 26578589; PMC: PMC4702855 Griffith OL, Montgomery SB, Bernier B, Chu B, Kasaian K, Aerts S, Mahony S, Sleumer MC, Bilenky M, Haeussler M et al. ORegAnno: an open-access community-driven resource for regulatory annotation. Nucleic Acids Res. 2008 Jan;36(Database issue):D107-13. PMID: 18006570; PMC: PMC2239002 Montgomery SB, Griffith OL, Sleumer MC, Bergman CM, Bilenky M, Pleasance ED, Prychyna Y, Zhang X, Jones SJ. ORegAnno: an open access database and curation system for literature-derived promoters, transcription factor binding sites and regulatory variation. Bioinformatics. 2006 Mar 1;22(5):637-40. PMID: 16397004 
orfeomeMrna ORFeome Clones ORFeome Collaboration Gene Clones Genes and Gene Predictions Description This track show alignments of human clones from the ORFeome Collaboration. The goal of the project is to be an &quot;unrestricted source of fully sequence-validated full-ORF human cDNA clones in a format allowing easy transfer of the ORF sequences into virtually any type of expression vector. A major goal is to provide at least one fully-sequenced full-ORF clone for each human, mouse, and zebrafish gene. This track is updated automatically as new clones become available. Display Conventions and Configuration The track follows the display conventions for gene prediction tracks. Methods ORFeome human clones were obtained from GenBank and aligned against the genome using the blat program. When a single clone aligned in multiple places, the alignment having the highest base identity was found. Only alignments having a base identity level within 0.5% of the best and at least 96% base identity with the genomic sequence were kept. Credits and References Visit the ORFeome Collaboration members page for a list of credits and references. 
orphadata Orphanet Orphadata: Aggregated Data From Orphanet Phenotypes, Variants, and Literature Description NOTE: These data are for research purposes only. While the Orphadata data is open to the public, users seeking information about a personal medical or genetic condition are urged to consult with a qualified physician for diagnosis and for answers to personal medical questions. UCSC presents these data for use by qualified professionals, and even such professionals should use caution in interpreting the significance of information found here. No single data point should be taken at face value and such data should always be used in conjunction with as much corroborating data as possible. No treatment protocols should be developed or patient advice given on the basis of these data without careful consideration of all possible sources of information. No attempt to identify individual patients should be undertaken. No one is authorized to attempt to identify patients by any means. The Orphadata: Aggregated data from Orphanet (Orphanet) track shows genomic positions of genes and their association to human disorders, related epidemiological data, and phenotypic annotations. As a consortium of 40 countries throughout the world, Orphanet gathers and improves knowledge regarding rare diseases and maintains the Orphanet rare disease nomenclature (ORPHAcode), essential in improving the visibility of rare diseases in health and research information systems. The data is updated monthly by Orphanet and updated monthly on the UCSC Genome Browser. Display Conventions Mouseover on items shows the gene name, disorder name, modes of inheritance(s) (if available), and age(s) of onset (if available). Tracks can be filtered according to gene-disorder association types, modes of inheritance, and ages of onset. Clicking an item from the browser will return the complete entry, including gene linkouts to Ensembl, OMIM, and HGNC, as well as phenotype information using HPO (human phenotype ontology) terms. For more information on the use of this data, see the Orphadata FAQs. Data Access The raw data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Data is also freely available through Orphadata datasets. Methods Orphadata files were reformatted at UCSC to the bigBed format. Credits Thank you to the Orphanet and Orphadata team and to Tiana Pereira, Christopher Lee, Daniel Schmelter, and Anna Benet-Pages of the Genome Browser team. References Pavan S, Rommel K, Mateo Marquina ME, H&#246;hn S, Lanneau V, Rath A. Clinical Practice Guidelines for Rare Diseases: The Orphanet Database. PLoS One. 2017;12(1):e0170365. PMID: 28099516; PMC: PMC5242437 Nguengang Wakap S, Lambert DM, Olry A, Rodwell C, Gueydan C, Lanneau V, Murphy D, Le Cam Y, Rath A. Estimating cumulative point prevalence of rare diseases: analysis of the Orphanet database. Eur J Hum Genet. 2020 Feb;28(2):165-173. PMID: 31527858; PMC: PMC6974615 
xenoEst Other ESTs Non-Human ESTs from GenBank RNA and Transcriptome Description This track displays translated blat alignments of expressed sequence tags (ESTs) in GenBank from organisms other than human. ESTs are single-read sequences, typically about 500 bases in length, that usually represent fragments of transcribed genes. Display Conventions and Configuration This track follows the display conventions for PSL alignment tracks. In dense display mode, the items that are more darkly shaded indicate matches of better quality. The strand information (+/-) for this track is in two parts. The first + or - indicates the orientation of the query sequence whose translated protein produced the match. The second + or - indicates the orientation of the matching translated genomic sequence. Because the two orientations of a DNA sequence give different predicted protein sequences, there are four combinations. ++ is not the same as --, nor is +- the same as -+. The description page for this track has a filter that can be used to change the display mode, alter the color, and include/exclude a subset of items within the track. This may be helpful when many items are shown in the track display, especially when only some are relevant to the current task. To use the filter: Type a term in one or more of the text boxes to filter the EST display. For example, to apply the filter to all ESTs expressed in a specific organ, type the name of the organ in the tissue box. To view the list of valid terms for each text box, consult the table in the Table Browser that corresponds to the factor on which you wish to filter. For example, the &quot;tissue&quot; table contains all the types of tissues that can be entered into the tissue text box. Multiple terms may be entered at once, separated by a space. Wildcards may also be used in the filter. If filtering on more than one value, choose the desired combination logic. If &quot;and&quot; is selected, only ESTs that match all filter criteria will be highlighted. If &quot;or&quot; is selected, ESTs that match any one of the filter criteria will be highlighted. Choose the color or display characteristic that should be used to highlight or include/exclude the filtered items. If &quot;exclude&quot; is chosen, the browser will not display ESTs that match the filter criteria. If &quot;include&quot; is selected, the browser will display only those ESTs that match the filter criteria. This track may also be configured to display base labeling, a feature that allows the user to display all bases in the aligning sequence or only those that differ from the genomic sequence. For more information about this option, go to the Base Coloring for Alignment Tracks page. Several types of alignment gap may also be colored; for more information, go to the Alignment Insertion/Deletion Display Options page. Methods To generate this track, the ESTs were aligned against the genome using blat. When a single EST aligned in multiple places, the alignment having the highest base identity was found. Only alignments having a base identity level within 0.5% of the best and at least 96% base identity with the genomic sequence were kept. Credits This track was produced at UCSC from EST sequence data submitted to the international public sequence databases by scientists worldwide. References Benson DA, Cavanaugh M, Clark K, Karsch-Mizrachi I, Lipman DJ, Ostell J, Sayers EW. GenBank. Nucleic Acids Res. 2013 Jan;41(Database issue):D36-42. PMID: 23193287; PMC: PMC3531190 Benson DA, Karsch-Mizrachi I, Lipman DJ, Ostell J, Wheeler DL. GenBank: update. Nucleic Acids Res. 2004 Jan 1;32(Database issue):D23-6. PMID: 14681350; PMC: PMC308779 Kent WJ. BLAT - the BLAST-like alignment tool. Genome Res. 2002 Apr;12(4):656-64. PMID: 11932250; PMC: PMC187518 
xenoMrna Other mRNAs Non-Human mRNAs from GenBank RNA and Transcriptome Description This track displays translated blat alignments of vertebrate and invertebrate mRNA in GenBank from organisms other than human. Display Conventions and Configuration This track follows the display conventions for PSL alignment tracks. In dense display mode, the items that are more darkly shaded indicate matches of better quality. The strand information (+/-) for this track is in two parts. The first + indicates the orientation of the query sequence whose translated protein produced the match (here always 5' to 3', hence +). The second + or - indicates the orientation of the matching translated genomic sequence. Because the two orientations of a DNA sequence give different predicted protein sequences, there are four combinations. ++ is not the same as --, nor is +- the same as -+. The description page for this track has a filter that can be used to change the display mode, alter the color, and include/exclude a subset of items within the track. This may be helpful when many items are shown in the track display, especially when only some are relevant to the current task. To use the filter: Type a term in one or more of the text boxes to filter the mRNA display. For example, to apply the filter to all mRNAs expressed in a specific organ, type the name of the organ in the tissue box. To view the list of valid terms for each text box, consult the table in the Table Browser that corresponds to the factor on which you wish to filter. For example, the &quot;tissue&quot; table contains all the types of tissues that can be entered into the tissue text box. Multiple terms may be entered at once, separated by a space. Wildcards may also be used in the filter. If filtering on more than one value, choose the desired combination logic. If &quot;and&quot; is selected, only mRNAs that match all filter criteria will be highlighted. If &quot;or&quot; is selected, mRNAs that match any one of the filter criteria will be highlighted. Choose the color or display characteristic that should be used to highlight or include/exclude the filtered items. If &quot;exclude&quot; is chosen, the browser will not display mRNAs that match the filter criteria. If &quot;include&quot; is selected, the browser will display only those mRNAs that match the filter criteria. This track may also be configured to display codon coloring, a feature that allows the user to quickly compare mRNAs against the genomic sequence. For more information about this option, go to the Codon and Base Coloring for Alignment Tracks page. Several types of alignment gap may also be colored; for more information, go to the Alignment Insertion/Deletion Display Options page. Methods The mRNAs were aligned against the human genome using translated blat. When a single mRNA aligned in multiple places, the alignment having the highest base identity was found. Only those alignments having a base identity level within 1% of the best and at least 25% base identity with the genomic sequence were kept. Credits The mRNA track was produced at UCSC from mRNA sequence data submitted to the international public sequence databases by scientists worldwide. References Benson DA, Cavanaugh M, Clark K, Karsch-Mizrachi I, Lipman DJ, Ostell J, Sayers EW. GenBank. Nucleic Acids Res. 2013 Jan;41(Database issue):D36-42. PMID: 23193287; PMC: PMC3531190 Benson DA, Karsch-Mizrachi I, Lipman DJ, Ostell J, Wheeler DL. GenBank: update. Nucleic Acids Res. 2004 Jan 1;32(Database issue):D23-6. PMID: 14681350; PMC: PMC308779 Kent WJ. BLAT - the BLAST-like alignment tool. Genome Res. 2002 Apr;12(4):656-64. PMID: 11932250; PMC: PMC187518 
xenoRefGene Other RefSeq Non-Human RefSeq Genes Genes and Gene Predictions Description This track shows known protein-coding and non-protein-coding genes for organisms other than human, taken from the NCBI RNA reference sequences collection (RefSeq). The data underlying this track are updated weekly. Display Conventions and Configuration This track follows the display conventions for gene prediction tracks. The color shading indicates the level of review the RefSeq record has undergone: predicted (light), provisional (medium), reviewed (dark). The item labels and display colors of features within this track can be configured through the controls at the top of the track description page. Label: By default, items are labeled by gene name. Click the appropriate Label option to display the accession name instead of the gene name, show both the gene and accession names, or turn off the label completely. Codon coloring: This track contains an optional codon coloring feature that allows users to quickly validate and compare gene predictions. To display codon colors, select the genomic codons option from the Color track by codons pull-down menu. For more information about this feature, go to the Coloring Gene Predictions and Annotations by Codon page. Hide non-coding genes: By default, both the protein-coding and non-protein-coding genes are displayed. If you wish to see only the coding genes, click this box. Methods The RNAs were aligned against the human genome using blat; those with an alignment of less than 15% were discarded. When a single RNA aligned in multiple places, the alignment having the highest base identity was identified. Only alignments having a base identity level within 0.5% of the best and at least 25% base identity with the genomic sequence were kept. Credits This track was produced at UCSC from RNA sequence data generated by scientists worldwide and curated by the NCBI RefSeq project. References Kent WJ. BLAT--the BLAST-like alignment tool. Genome Res. 2002 Apr;12(4):656-64. PMID: 11932250; PMC: PMC187518 Pruitt KD, Brown GR, Hiatt SM, Thibaud-Nissen F, Astashyn A, Ermolaeva O, Farrell CM, Hart J, Landrum MJ, McGarvey KM et al. RefSeq: an update on mammalian reference sequences. Nucleic Acids Res. 2014 Jan;42(Database issue):D756-63. PMID: 24259432; PMC: PMC3965018 Pruitt KD, Tatusova T, Maglott DR. NCBI Reference Sequence (RefSeq): a curated non-redundant sequence database of genomes, transcripts and proteins. Nucleic Acids Res. 2005 Jan 1;33(Database issue):D501-4. PMID: 15608248; PMC: PMC539979 
hprcChainNet Pairwise Alignments Human Genomes, Chain/Net pairwise alignments, as mapped by the HPRC project Human Pangenome - HPRC Description This track shows regions of the human genome that are alignable to other Homo sapiens genomes. The alignable parts are shown with thick blocks that look like exons. Non-alignable parts between these are shown with thin lines like introns. More description on this display can be found below. Other assemblies included in this track are from the HPRC project. Display Conventions and Configuration Chain Track The chain track shows alignments of the human genome to other Homo sapiens genomes using a gap scoring system that allows longer gaps than traditional affine gap scoring systems. It can also tolerate gaps in both source and target assemblies simultaneously. These &quot;double-sided&quot; gaps can be caused by local inversions and overlapping deletions in both species. The chain track displays boxes joined together by either single or double lines. The boxes represent aligning regions. Single lines indicate gaps that are largely due to a deletion in the query assembly or an insertion in the target assembly. assembly. Double lines represent more complex gaps that involve substantial sequence in both species. This may result from inversions, overlapping deletions, an abundance of local mutation, or an unsequenced gap in one species. In cases where multiple chains align over a particular region of the target genome, the chains with single-lined gaps are often due to processed pseudogenes, while chains with double-lined gaps are more often due to paralogs and unprocessed pseudogenes. In the &quot;pack&quot; and &quot;full&quot; display modes, the individual feature names indicate the chromosome, strand, and location (in thousands) of the match for each matching alignment. By default, the chains to chromosome-based assemblies are colored based on which chromosome they map to in the aligning organism. To turn off the coloring, check the &quot;off&quot; button next to: Color track based on chromosome. To display only the chains of one chromosome in the aligning organism, enter the name of that chromosome (e.g. chr4) in box next to: Filter by chromosome. Methods The bigChain files were obtained from the HPRC S3 bucket (Amazon Web Services). For more information about how the bigChain files were generated, please refer to the HPRC publication below. Credits Thank you to Glenn Hickey for providing the HAL file from the HPRC project. References Liao WW, Asri M, Ebler J, Doerr D, Haukness M, Hickey G, Lu S, Lucas JK, Monlong J, Abel HJ et al. A draft human pangenome reference. Nature. 2023 May;617(7960):312-324. DOI: 10.1038/s41586-023-05896-x; PMID: 37165242; PMC: PMC10172123 Hickey G, Monlong J, Ebler J, Novak AM, Eizenga JM, Gao Y, Human Pangenome Reference Consortium, Marschall T, Li H, Paten B. Pangenome graph construction from genome alignments with Minigraph-Cactus. Nat Biotechnol. 2023 May 10;. DOI: 10.1038/s41587-023-01793-w; PMID: 37165083; PMC: PMC10638906 Armstrong J, Hickey G, Diekhans M, Fiddes IT, Novak AM, Deran A, Fang Q, Xie D, Feng S, Stiller J et al. Progressive Cactus is a multiple-genome aligner for the thousand-genome era. Nature. 2020 Nov;587(7833):246-251. DOI: 10.1038/s41586-020-2871-y; PMID: 33177663; PMC: PMC7673649 Paten B, Earl D, Nguyen N, Diekhans M, Zerbino D, Haussler D. Cactus: Algorithms for genome multiple sequence alignment. Genome Res. 2011 Sep;21(9):1512-28. DOI: 10.1101/gr.123356.111; PMID: 21665927; PMC: PMC3166836 
hprcChainNetViewnet Nets Human Genomes, Chain/Net pairwise alignments, as mapped by the HPRC project Human Pangenome - HPRC 
netHprcGCA_018503285v1 NA18906.pat NA18906.pat NA18906.alt.pat.f1_v2 (May 2021 GCA_018503285.1_NA18906.alt.pat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018503255v1 NA18906.mat NA18906.mat NA18906.pri.mat.f1_v2 (May 2021 GCA_018503255.1_NA18906.pri.mat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcHs1 T2T-CHM13v2.0 T2T-CHM13v2.0 T2T-CHM13v2.0 (Jan. 2022 GCF_009914755.1_T2T-CHM13v2.0) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018506955v1 HG00733.pat HG00733.pat HG00733.alt.pat.f1_v2 (May 2021 GCA_018506955.1_HG00733.alt.pat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018504645v1 HG01109.pat HG01109.pat HG01109.alt.pat.f1_v2 (May 2021 GCA_018504645.1_HG01109.alt.pat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018504045v1 HG01243.pat HG01243.pat HG01243.alt.pat.f1_v2 (May 2021 GCA_018504045.1_HG01243.alt.pat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018472725v1 HG01071.pat HG01071.pat HG01071.alt.pat.f1_v2 (May 2021 GCA_018472725.1_HG01071.alt.pat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018472715v1 HG00735.pat HG00735.pat HG00735.alt.pat.f1_v2 (May 2021 GCA_018472715.1_HG00735.alt.pat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018471105v1 HG00741.pat HG00741.pat HG00741.alt.pat.f1_v2 (May 2021 GCA_018471105.1_HG00741.alt.pat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018471075v1 HG01106.pat HG01106.pat HG01106.alt.pat.f1_v2 (May 2021 GCA_018471075.1_HG01106.alt.pat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018471065v1 HG01175.pat HG01175.pat HG01175.alt.pat.f1_v2 (May 2021 GCA_018471065.1_HG01175.alt.pat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018506975v1 HG00733.mat HG00733.mat HG00733.pri.mat.f1_v2 (May 2021 GCA_018506975.1_HG00733.pri.mat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018504375v1 HG01243.mat HG01243.mat HG01243.pri.mat.f1_v2 (May 2021 GCA_018504375.1_HG01243.pri.mat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018504365v1 HG01109.mat HG01109.mat HG01109.pri.mat.f1_v2 (May 2021 GCA_018504365.1_HG01109.pri.mat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018472765v1 HG00735.mat HG00735.mat HG00735.pri.mat.f1_v2 (May 2021 GCA_018472765.1_HG00735.pri.mat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018472685v1 HG01071.mat HG01071.mat HG01071.pri.mat.f1_v2 (May 2021 GCA_018472685.1_HG01071.pri.mat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018471345v1 HG01106.mat HG01106.mat HG01106.pri.mat.f1_v2 (May 2021 GCA_018471345.1_HG01106.pri.mat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018471095v1 HG00741.mat HG00741.mat HG00741.pri.mat.f1_v2 (May 2021 GCA_018471095.1_HG00741.pri.mat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018471085v1 HG01175.mat HG01175.mat HG01175.pri.mat.f1_v2 (May 2021 GCA_018471085.1_HG01175.pri.mat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018505835v1 HG03492.pat HG03492.pat HG03492.alt.pat.f1_v2 (May 2021 GCA_018505835.1_HG03492.alt.pat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018505845v1 HG03492.mat HG03492.mat HG03492.pri.mat.f1_v2 (May 2021 GCA_018505845.1_HG03492.pri.mat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018472845v1 HG01978.pat HG01978.pat HG01978.alt.pat.f1_v2 (May 2021 GCA_018472845.1_HG01978.alt.pat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018472705v1 HG01928.pat HG01928.pat HG01928.alt.pat.f1_v2 (May 2021 GCA_018472705.1_HG01928.alt.pat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018471555v1 HG01952.pat HG01952.pat HG01952.alt.pat.f1_v2 (May 2021 GCA_018471555.1_HG01952.alt.pat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018471525v1 HG02148.pat HG02148.pat HG02148.alt.pat.f1_v2 (May 2021 GCA_018471525.1_HG02148.alt.pat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018472865v1 HG01978.mat HG01978.mat HG01978.pri.mat.f1_v2 (May 2021 GCA_018472865.1_HG01978.pri.mat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018472695v1 HG01928.mat HG01928.mat HG01928.pri.mat.f1_v2 (May 2021 GCA_018472695.1_HG01928.pri.mat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018471545v1 HG01952.mat HG01952.mat HG01952.pri.mat.f1_v2 (May 2021 GCA_018471545.1_HG01952.pri.mat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018471535v1 HG02148.mat HG02148.mat HG02148.pri.mat.f1_v2 (May 2021 GCA_018471535.1_HG02148.pri.mat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018506155v1 HG03098.pat HG03098.pat HG03098.alt.pat.f1_v2 (May 2021 GCA_018506155.1_HG03098.alt.pat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018503245v1 HG03486.pat HG03486.pat HG03486.alt.pat.f1_v2 (May 2021 GCA_018503245.1_HG03486.alt.pat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018473305v1 HG03453.pat HG03453.pat HG03453.alt.pat.f1_v2 (May 2021 GCA_018473305.1_HG03453.alt.pat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018472835v1 HG03579.pat HG03579.pat HG03579.alt.pat.f1_v2 (May 2021 GCA_018472835.1_HG03579.alt.pat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018506165v1 HG03098.mat HG03098.mat HG03098.pri.mat.f1_v2 (May 2021 GCA_018506165.1_HG03098.pri.mat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018503525v1 HG03486.mat HG03486.mat HG03486.pri.mat.f1_v2 (May 2021 GCA_018503525.1_HG03486.pri.mat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018472855v1 HG03453.mat HG03453.mat HG03453.pri.mat.f1_v2 (May 2021 GCA_018472855.1_HG03453.pri.mat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018472825v1 HG03579.mat HG03579.mat HG03579.pri.mat.f1_v2 (May 2021 GCA_018472825.1_HG03579.pri.mat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018504055v1 HG02080.pat HG02080.pat HG02080.alt.pat.f1_v2 (May 2021 GCA_018504055.1_HG02080.alt.pat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018504085v1 HG02080.mat HG02080.mat HG02080.pri.mat.f1_v2 (May 2021 GCA_018504085.1_HG02080.pri.mat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018504665v1 NA21309.pat NA21309.pat NA21309.alt.pat.f1_v2 (May 2021 GCA_018504665.1_NA21309.alt.pat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018504075v1 HG02723.pat HG02723.pat HG02723.alt.pat.f1_v2 (May 2021 GCA_018504075.1_HG02723.alt.pat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018503575v1 HG02818.pat HG02818.pat HG02818.alt.pat.f1_v2 (May 2021 GCA_018503575.1_HG02818.alt.pat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018473315v1 HG03540.pat HG03540.pat HG03540.alt.pat.f1_v2 (May 2021 GCA_018473315.1_HG03540.alt.pat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018470465v1 HG02886.pat HG02886.pat HG02886.alt.pat.f1_v2 (May 2021 GCA_018470465.1_HG02886.alt.pat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018470435v1 HG02572.pat HG02572.pat HG02572.alt.pat.f1_v2 (May 2021 GCA_018470435.1_HG02572.alt.pat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018470425v1 HG02717.pat HG02717.pat HG02717.alt.pat.f1_v2 (May 2021 GCA_018470425.1_HG02717.alt.pat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018469945v1 HG02630.pat HG02630.pat HG02630.alt.pat.f1_v2 (May 2021 GCA_018469945.1_HG02630.alt.pat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018469925v1 HG02622.pat HG02622.pat HG02622.alt.pat.f1_v2 (May 2021 GCA_018469925.1_HG02622.alt.pat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018504065v1 HG02723.mat HG02723.mat HG02723.pri.mat.f1_v2 (May 2021 GCA_018504065.1_HG02723.pri.mat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018503585v1 HG02818.mat HG02818.mat HG02818.pri.mat.f1_v2 (May 2021 GCA_018503585.1_HG02818.pri.mat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018473295v1 HG03540.mat HG03540.mat HG03540.pri.mat.f1_v2 (May 2021 GCA_018473295.1_HG03540.pri.mat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018470455v1 HG02886.mat HG02886.mat HG02886.pri.mat.f1_v2 (May 2021 GCA_018470455.1_HG02886.pri.mat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018470445v1 HG02572.mat HG02572.mat HG02572.pri.mat.f1_v2 (May 2021 GCA_018470445.1_HG02572.pri.mat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018469955v1 HG02630.mat HG02630.mat HG02630.pri.mat.f1_v2 (May 2021 GCA_018469955.1_HG02630.pri.mat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018469935v1 HG02717.mat HG02717.mat HG02717.pri.mat.f1_v2 (May 2021 GCA_018469935.1_HG02717.pri.mat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018469875v1 HG02622.mat HG02622.mat HG02622.pri.mat.f1_v2 (May 2021 GCA_018469875.1_HG02622.pri.mat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018469415v1 HG03516.pat HG03516.pat HG03516.alt.pat.f1_v2 (May 2021 GCA_018469415.1_HG03516.alt.pat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018469425v1 HG03516.mat HG03516.mat HG03516.pri.mat.f1_v2 (May 2021 GCA_018469425.1_HG03516.pri.mat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018469965v1 HG01358.pat HG01358.pat HG01358.alt.pat.f1_v2.1 (May 2021 GCA_018469965.1_HG01358.alt.pat.f1_v2.1) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018469705v1 HG01361.pat HG01361.pat HG01361.alt.pat.f1_v2 (May 2021 GCA_018469705.1_HG01361.alt.pat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018469695v1 HG01123.pat HG01123.pat HG01123.alt.pat.f1_v2.1 (May 2021 GCA_018469695.1_HG01123.alt.pat.f1_v2.1) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018469675v1 HG01258.pat HG01258.pat HG01258.alt.pat.f1_v2 (May 2021 GCA_018469675.1_HG01258.alt.pat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018469865v1 HG01358.mat HG01358.mat HG01358.pri.mat.f1_v2.1 (May 2021 GCA_018469865.1_HG01358.pri.mat.f1_v2.1) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018469685v1 HG01361.mat HG01361.mat HG01361.pri.mat.f1_v2 (May 2021 GCA_018469685.1_HG01361.pri.mat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018469665v1 HG01123.mat HG01123.mat HG01123.pri.mat.f1_v2.1 (May 2021 GCA_018469665.1_HG01123.pri.mat.f1_v2.1) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018469405v1 HG01258.mat HG01258.mat HG01258.pri.mat.f1_v2 (May 2021 GCA_018469405.1_HG01258.pri.mat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018472595v1 HG00438.pat HG00438.pat HG00438.alt.pat.f1_v2 (May 2021 GCA_018472595.1_HG00438.alt.pat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018472585v1 HG00673.pat HG00673.pat HG00673.alt.pat.f1_v2 (May 2021 GCA_018472585.1_HG00673.alt.pat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018472575v1 HG00621.pat HG00621.pat HG00621.alt.pat.f1_v2 (May 2021 GCA_018472575.1_HG00621.alt.pat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018472605v1 HG00621.mat HG00621.mat HG00621.pri.mat.f1_v2 (May 2021 GCA_018472605.1_HG00621.pri.mat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018472565v1 HG00673.mat HG00673.mat HG00673.pri.mat.f1_v2 (May 2021 GCA_018472565.1_HG00673.pri.mat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018471515v1 HG00438.mat HG00438.mat HG00438.pri.mat.f1_v2 (May 2021 GCA_018471515.1_HG00438.pri.mat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018504625v1 NA20129.pat NA20129.pat NA20129.alt.pat.f1_v2 (May 2021 GCA_018504625.1_NA20129.alt.pat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018504635v1 NA20129.mat NA20129.mat NA20129.pri.mat.f1_v2 (May 2021 GCA_018504635.1_NA20129.pri.mat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018852595v1 HG02145.pat HG02145.pat HG02145.alt.pat.f1_v2 (Jun. 2021 GCA_018852595.1_HG02145.alt.pat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018505865v1 HG02109.pat HG02109.pat HG02109.alt.pat.f1_v2 (May 2021 GCA_018505865.1_HG02109.alt.pat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018505855v1 HG02055.pat HG02055.pat HG02055.alt.pat.f1_v2 (May 2021 GCA_018505855.1_HG02055.alt.pat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018467165v1 HG01891.pat HG01891.pat HG01891.alt.pat.f1_v2 (May 2021 GCA_018467165.1_HG01891.alt.pat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018467005v1 HG02486.pat HG02486.pat HG02486.alt.pat.f1_v2 (May 2021 GCA_018467005.1_HG02486.alt.pat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018466855v1 HG02559.pat HG02559.pat HG02559.alt.pat.f1_v2 (May 2021 GCA_018466855.1_HG02559.alt.pat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018466835v1 HG02257.pat HG02257.pat HG02257.alt.pat.f1_v2 (May 2021 GCA_018466835.1_HG02257.alt.pat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018852585v1 HG02145.mat HG02145.mat HG02145.pri.mat.f1_v2 (Jun. 2021 GCA_018852585.1_HG02145.pri.mat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018506125v1 HG02055.mat HG02055.mat HG02055.pri.mat.f1_v2 (May 2021 GCA_018506125.1_HG02055.pri.mat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018505825v1 HG02109.mat HG02109.mat HG02109.pri.mat.f1_v2 (May 2021 GCA_018505825.1_HG02109.pri.mat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018467155v1 HG01891.mat HG01891.mat HG01891.pri.mat.f1_v2 (May 2021 GCA_018467155.1_HG01891.pri.mat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018467015v1 HG02486.mat HG02486.mat HG02486.pri.mat.f1_v2 (May 2021 GCA_018467015.1_HG02486.pri.mat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018466985v1 HG02559.mat HG02559.mat HG02559.pri.mat.f1_v2 (May 2021 GCA_018466985.1_HG02559.pri.mat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
netHprcGCA_018466845v1 HG02257.mat HG02257.mat HG02257.pri.mat.f1_v2 (May 2021 GCA_018466845.1_HG02257.pri.mat.f1_v2) HPRC project computed Chain Nets Human Pangenome - HPRC 
hprcChainNetViewchain Chains Human Genomes, Chain/Net pairwise alignments, as mapped by the HPRC project Human Pangenome - HPRC 
chainHprcGCA_018503285v1 NA18906.pat NA18906.pat NA18906.alt.pat.f1_v2 (May 2021 GCA_018503285.1_NA18906.alt.pat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018503255v1 NA18906.mat NA18906.mat NA18906.pri.mat.f1_v2 (May 2021 GCA_018503255.1_NA18906.pri.mat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcHs1 T2T-CHM13v2.0 T2T-CHM13v2.0 T2T-CHM13v2.0 (Jan. 2022 GCF_009914755.1_T2T-CHM13v2.0) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018506955v1 HG00733.pat HG00733.pat HG00733.alt.pat.f1_v2 (May 2021 GCA_018506955.1_HG00733.alt.pat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018504645v1 HG01109.pat HG01109.pat HG01109.alt.pat.f1_v2 (May 2021 GCA_018504645.1_HG01109.alt.pat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018504045v1 HG01243.pat HG01243.pat HG01243.alt.pat.f1_v2 (May 2021 GCA_018504045.1_HG01243.alt.pat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018472725v1 HG01071.pat HG01071.pat HG01071.alt.pat.f1_v2 (May 2021 GCA_018472725.1_HG01071.alt.pat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018472715v1 HG00735.pat HG00735.pat HG00735.alt.pat.f1_v2 (May 2021 GCA_018472715.1_HG00735.alt.pat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018471105v1 HG00741.pat HG00741.pat HG00741.alt.pat.f1_v2 (May 2021 GCA_018471105.1_HG00741.alt.pat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018471075v1 HG01106.pat HG01106.pat HG01106.alt.pat.f1_v2 (May 2021 GCA_018471075.1_HG01106.alt.pat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018471065v1 HG01175.pat HG01175.pat HG01175.alt.pat.f1_v2 (May 2021 GCA_018471065.1_HG01175.alt.pat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018506975v1 HG00733.mat HG00733.mat HG00733.pri.mat.f1_v2 (May 2021 GCA_018506975.1_HG00733.pri.mat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018504375v1 HG01243.mat HG01243.mat HG01243.pri.mat.f1_v2 (May 2021 GCA_018504375.1_HG01243.pri.mat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018504365v1 HG01109.mat HG01109.mat HG01109.pri.mat.f1_v2 (May 2021 GCA_018504365.1_HG01109.pri.mat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018472765v1 HG00735.mat HG00735.mat HG00735.pri.mat.f1_v2 (May 2021 GCA_018472765.1_HG00735.pri.mat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018472685v1 HG01071.mat HG01071.mat HG01071.pri.mat.f1_v2 (May 2021 GCA_018472685.1_HG01071.pri.mat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018471345v1 HG01106.mat HG01106.mat HG01106.pri.mat.f1_v2 (May 2021 GCA_018471345.1_HG01106.pri.mat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018471095v1 HG00741.mat HG00741.mat HG00741.pri.mat.f1_v2 (May 2021 GCA_018471095.1_HG00741.pri.mat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018471085v1 HG01175.mat HG01175.mat HG01175.pri.mat.f1_v2 (May 2021 GCA_018471085.1_HG01175.pri.mat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018505835v1 HG03492.pat HG03492.pat HG03492.alt.pat.f1_v2 (May 2021 GCA_018505835.1_HG03492.alt.pat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018505845v1 HG03492.mat HG03492.mat HG03492.pri.mat.f1_v2 (May 2021 GCA_018505845.1_HG03492.pri.mat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018472845v1 HG01978.pat HG01978.pat HG01978.alt.pat.f1_v2 (May 2021 GCA_018472845.1_HG01978.alt.pat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018472705v1 HG01928.pat HG01928.pat HG01928.alt.pat.f1_v2 (May 2021 GCA_018472705.1_HG01928.alt.pat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018471555v1 HG01952.pat HG01952.pat HG01952.alt.pat.f1_v2 (May 2021 GCA_018471555.1_HG01952.alt.pat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018471525v1 HG02148.pat HG02148.pat HG02148.alt.pat.f1_v2 (May 2021 GCA_018471525.1_HG02148.alt.pat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018472865v1 HG01978.mat HG01978.mat HG01978.pri.mat.f1_v2 (May 2021 GCA_018472865.1_HG01978.pri.mat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018472695v1 HG01928.mat HG01928.mat HG01928.pri.mat.f1_v2 (May 2021 GCA_018472695.1_HG01928.pri.mat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018471545v1 HG01952.mat HG01952.mat HG01952.pri.mat.f1_v2 (May 2021 GCA_018471545.1_HG01952.pri.mat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018471535v1 HG02148.mat HG02148.mat HG02148.pri.mat.f1_v2 (May 2021 GCA_018471535.1_HG02148.pri.mat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018506155v1 HG03098.pat HG03098.pat HG03098.alt.pat.f1_v2 (May 2021 GCA_018506155.1_HG03098.alt.pat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018503245v1 HG03486.pat HG03486.pat HG03486.alt.pat.f1_v2 (May 2021 GCA_018503245.1_HG03486.alt.pat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018473305v1 HG03453.pat HG03453.pat HG03453.alt.pat.f1_v2 (May 2021 GCA_018473305.1_HG03453.alt.pat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018472835v1 HG03579.pat HG03579.pat HG03579.alt.pat.f1_v2 (May 2021 GCA_018472835.1_HG03579.alt.pat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018506165v1 HG03098.mat HG03098.mat HG03098.pri.mat.f1_v2 (May 2021 GCA_018506165.1_HG03098.pri.mat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018503525v1 HG03486.mat HG03486.mat HG03486.pri.mat.f1_v2 (May 2021 GCA_018503525.1_HG03486.pri.mat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018472855v1 HG03453.mat HG03453.mat HG03453.pri.mat.f1_v2 (May 2021 GCA_018472855.1_HG03453.pri.mat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018472825v1 HG03579.mat HG03579.mat HG03579.pri.mat.f1_v2 (May 2021 GCA_018472825.1_HG03579.pri.mat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018504055v1 HG02080.pat HG02080.pat HG02080.alt.pat.f1_v2 (May 2021 GCA_018504055.1_HG02080.alt.pat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018504085v1 HG02080.mat HG02080.mat HG02080.pri.mat.f1_v2 (May 2021 GCA_018504085.1_HG02080.pri.mat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018504665v1 NA21309.pat NA21309.pat NA21309.alt.pat.f1_v2 (May 2021 GCA_018504665.1_NA21309.alt.pat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018504075v1 HG02723.pat HG02723.pat HG02723.alt.pat.f1_v2 (May 2021 GCA_018504075.1_HG02723.alt.pat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018503575v1 HG02818.pat HG02818.pat HG02818.alt.pat.f1_v2 (May 2021 GCA_018503575.1_HG02818.alt.pat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018473315v1 HG03540.pat HG03540.pat HG03540.alt.pat.f1_v2 (May 2021 GCA_018473315.1_HG03540.alt.pat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018470465v1 HG02886.pat HG02886.pat HG02886.alt.pat.f1_v2 (May 2021 GCA_018470465.1_HG02886.alt.pat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018470435v1 HG02572.pat HG02572.pat HG02572.alt.pat.f1_v2 (May 2021 GCA_018470435.1_HG02572.alt.pat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018470425v1 HG02717.pat HG02717.pat HG02717.alt.pat.f1_v2 (May 2021 GCA_018470425.1_HG02717.alt.pat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018469945v1 HG02630.pat HG02630.pat HG02630.alt.pat.f1_v2 (May 2021 GCA_018469945.1_HG02630.alt.pat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018469925v1 HG02622.pat HG02622.pat HG02622.alt.pat.f1_v2 (May 2021 GCA_018469925.1_HG02622.alt.pat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018504065v1 HG02723.mat HG02723.mat HG02723.pri.mat.f1_v2 (May 2021 GCA_018504065.1_HG02723.pri.mat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018503585v1 HG02818.mat HG02818.mat HG02818.pri.mat.f1_v2 (May 2021 GCA_018503585.1_HG02818.pri.mat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018473295v1 HG03540.mat HG03540.mat HG03540.pri.mat.f1_v2 (May 2021 GCA_018473295.1_HG03540.pri.mat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018470455v1 HG02886.mat HG02886.mat HG02886.pri.mat.f1_v2 (May 2021 GCA_018470455.1_HG02886.pri.mat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018470445v1 HG02572.mat HG02572.mat HG02572.pri.mat.f1_v2 (May 2021 GCA_018470445.1_HG02572.pri.mat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018469955v1 HG02630.mat HG02630.mat HG02630.pri.mat.f1_v2 (May 2021 GCA_018469955.1_HG02630.pri.mat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018469935v1 HG02717.mat HG02717.mat HG02717.pri.mat.f1_v2 (May 2021 GCA_018469935.1_HG02717.pri.mat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018469875v1 HG02622.mat HG02622.mat HG02622.pri.mat.f1_v2 (May 2021 GCA_018469875.1_HG02622.pri.mat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018469415v1 HG03516.pat HG03516.pat HG03516.alt.pat.f1_v2 (May 2021 GCA_018469415.1_HG03516.alt.pat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018469425v1 HG03516.mat HG03516.mat HG03516.pri.mat.f1_v2 (May 2021 GCA_018469425.1_HG03516.pri.mat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018469965v1 HG01358.pat HG01358.pat HG01358.alt.pat.f1_v2.1 (May 2021 GCA_018469965.1_HG01358.alt.pat.f1_v2.1) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018469705v1 HG01361.pat HG01361.pat HG01361.alt.pat.f1_v2 (May 2021 GCA_018469705.1_HG01361.alt.pat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018469695v1 HG01123.pat HG01123.pat HG01123.alt.pat.f1_v2.1 (May 2021 GCA_018469695.1_HG01123.alt.pat.f1_v2.1) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018469675v1 HG01258.pat HG01258.pat HG01258.alt.pat.f1_v2 (May 2021 GCA_018469675.1_HG01258.alt.pat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018469865v1 HG01358.mat HG01358.mat HG01358.pri.mat.f1_v2.1 (May 2021 GCA_018469865.1_HG01358.pri.mat.f1_v2.1) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018469685v1 HG01361.mat HG01361.mat HG01361.pri.mat.f1_v2 (May 2021 GCA_018469685.1_HG01361.pri.mat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018469665v1 HG01123.mat HG01123.mat HG01123.pri.mat.f1_v2.1 (May 2021 GCA_018469665.1_HG01123.pri.mat.f1_v2.1) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018469405v1 HG01258.mat HG01258.mat HG01258.pri.mat.f1_v2 (May 2021 GCA_018469405.1_HG01258.pri.mat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018472595v1 HG00438.pat HG00438.pat HG00438.alt.pat.f1_v2 (May 2021 GCA_018472595.1_HG00438.alt.pat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018472585v1 HG00673.pat HG00673.pat HG00673.alt.pat.f1_v2 (May 2021 GCA_018472585.1_HG00673.alt.pat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018472575v1 HG00621.pat HG00621.pat HG00621.alt.pat.f1_v2 (May 2021 GCA_018472575.1_HG00621.alt.pat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018472605v1 HG00621.mat HG00621.mat HG00621.pri.mat.f1_v2 (May 2021 GCA_018472605.1_HG00621.pri.mat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018472565v1 HG00673.mat HG00673.mat HG00673.pri.mat.f1_v2 (May 2021 GCA_018472565.1_HG00673.pri.mat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018471515v1 HG00438.mat HG00438.mat HG00438.pri.mat.f1_v2 (May 2021 GCA_018471515.1_HG00438.pri.mat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018504625v1 NA20129.pat NA20129.pat NA20129.alt.pat.f1_v2 (May 2021 GCA_018504625.1_NA20129.alt.pat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018504635v1 NA20129.mat NA20129.mat NA20129.pri.mat.f1_v2 (May 2021 GCA_018504635.1_NA20129.pri.mat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018852595v1 HG02145.pat HG02145.pat HG02145.alt.pat.f1_v2 (Jun. 2021 GCA_018852595.1_HG02145.alt.pat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018505865v1 HG02109.pat HG02109.pat HG02109.alt.pat.f1_v2 (May 2021 GCA_018505865.1_HG02109.alt.pat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018505855v1 HG02055.pat HG02055.pat HG02055.alt.pat.f1_v2 (May 2021 GCA_018505855.1_HG02055.alt.pat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018467165v1 HG01891.pat HG01891.pat HG01891.alt.pat.f1_v2 (May 2021 GCA_018467165.1_HG01891.alt.pat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018467005v1 HG02486.pat HG02486.pat HG02486.alt.pat.f1_v2 (May 2021 GCA_018467005.1_HG02486.alt.pat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018466855v1 HG02559.pat HG02559.pat HG02559.alt.pat.f1_v2 (May 2021 GCA_018466855.1_HG02559.alt.pat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018466835v1 HG02257.pat HG02257.pat HG02257.alt.pat.f1_v2 (May 2021 GCA_018466835.1_HG02257.alt.pat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018852585v1 HG02145.mat HG02145.mat HG02145.pri.mat.f1_v2 (Jun. 2021 GCA_018852585.1_HG02145.pri.mat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018506125v1 HG02055.mat HG02055.mat HG02055.pri.mat.f1_v2 (May 2021 GCA_018506125.1_HG02055.pri.mat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018505825v1 HG02109.mat HG02109.mat HG02109.pri.mat.f1_v2 (May 2021 GCA_018505825.1_HG02109.pri.mat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018467155v1 HG01891.mat HG01891.mat HG01891.pri.mat.f1_v2 (May 2021 GCA_018467155.1_HG01891.pri.mat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018467015v1 HG02486.mat HG02486.mat HG02486.pri.mat.f1_v2 (May 2021 GCA_018467015.1_HG02486.pri.mat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018466985v1 HG02559.mat HG02559.mat HG02559.pri.mat.f1_v2 (May 2021 GCA_018466985.1_HG02559.pri.mat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
chainHprcGCA_018466845v1 HG02257.mat HG02257.mat HG02257.pri.mat.f1_v2 (May 2021 GCA_018466845.1_HG02257.pri.mat.f1_v2) HPRC project computed Chained Alignments Human Pangenome - HPRC 
pancreasBaronBatch Pancreas Batch Pancreas cells binned by batch from Baron et al 2016 Single Cell RNA-seq Description This track shows data from A Single-Cell Transcriptomic Map of the Human and Mouse Pancreas Reveals Inter- and Intra-cell Population Structure. Pancreas tissue was analyzed using droplet-based single-cell RNA-sequencing (scRNA-seq) and subsequent clustering distinguished 14 pancreas-resident cell types based on their identified marker genes found in Baron et al., 2016. There are four bar chart tracks in this track collection with pancreas cells grouped by either batch (Pancreas Batch), cell type (Pancreas Cells), detailed cell type (Pancreas Details) and donor (Pancreas Donor). The default track displayed is pancreas cells grouped by cell type. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification secretory endothelial epithelial fibroblast Cells that fall into multiple classes will be colored by blending the colors associated with those classes. The colors will be purest in the Pancreas Cells subtrack, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Method Human islets were obtained from two female cadaveric donors ages 51 (human2) and 59 (human4) and two male cadaveric donors ages 17 (human1) and 38 (human3). The samples collected from human 1-3 were non-diabetic and human 4 had type 2 diabetes mellitus. Using single-cell RNA-sequencing ~10,000 human pancreatic cells were isolated and sequenced. For each donor, several separate batches of ~800 cells were prepared and sequenced to obtain an average of about 100,000 reads per cell. Cells were barcoded using the inDrop platform which follows the CEL-Seq protocol for library construction. Paired end sequencing was done on the Illumina Hiseq 2500. After filtering out cells with limited numbers of detected genes, the dataset contained 8,629 cells from the four donors. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Mayaan Baron, Adrian Veres, Samuel L. Wolock, Aubrey L. Faust, and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Jairo Navarro. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Baron M, Veres A, Wolock SL, Faust AL, Gaujoux R, Vetere A, Ryu JH, Wagner BK, Shen-Orr SS, Klein AM et al. A Single-Cell Transcriptomic Map of the Human and Mouse Pancreas Reveals Inter- and Intra-cell Population Structure. Cell Syst. 2016 Oct 26;3(4):346-360.e4. PMID: 27667365; PMC: PMC5228327 
pancreasBaron Pancreas Baron Pancreas single cell sequencing from Baron et al 2016 Single Cell RNA-seq Description This track shows data from A Single-Cell Transcriptomic Map of the Human and Mouse Pancreas Reveals Inter- and Intra-cell Population Structure. Pancreas tissue was analyzed using droplet-based single-cell RNA-sequencing (scRNA-seq) and subsequent clustering distinguished 14 pancreas-resident cell types based on their identified marker genes found in Baron et al., 2016. There are four bar chart tracks in this track collection with pancreas cells grouped by either batch (Pancreas Batch), cell type (Pancreas Cells), detailed cell type (Pancreas Details) and donor (Pancreas Donor). The default track displayed is pancreas cells grouped by cell type. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification secretory endothelial epithelial fibroblast Cells that fall into multiple classes will be colored by blending the colors associated with those classes. The colors will be purest in the Pancreas Cells subtrack, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Method Human islets were obtained from two female cadaveric donors ages 51 (human2) and 59 (human4) and two male cadaveric donors ages 17 (human1) and 38 (human3). The samples collected from human 1-3 were non-diabetic and human 4 had type 2 diabetes mellitus. Using single-cell RNA-sequencing ~10,000 human pancreatic cells were isolated and sequenced. For each donor, several separate batches of ~800 cells were prepared and sequenced to obtain an average of about 100,000 reads per cell. Cells were barcoded using the inDrop platform which follows the CEL-Seq protocol for library construction. Paired end sequencing was done on the Illumina Hiseq 2500. After filtering out cells with limited numbers of detected genes, the dataset contained 8,629 cells from the four donors. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Mayaan Baron, Adrian Veres, Samuel L. Wolock, Aubrey L. Faust, and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Jairo Navarro. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Baron M, Veres A, Wolock SL, Faust AL, Gaujoux R, Vetere A, Ryu JH, Wagner BK, Shen-Orr SS, Klein AM et al. A Single-Cell Transcriptomic Map of the Human and Mouse Pancreas Reveals Inter- and Intra-cell Population Structure. Cell Syst. 2016 Oct 26;3(4):346-360.e4. PMID: 27667365; PMC: PMC5228327 
pancreasBaronCellType Pancreas Cells Pancreas cells binned by cell type from Baron et al 2016 Single Cell RNA-seq Description This track shows data from A Single-Cell Transcriptomic Map of the Human and Mouse Pancreas Reveals Inter- and Intra-cell Population Structure. Pancreas tissue was analyzed using droplet-based single-cell RNA-sequencing (scRNA-seq) and subsequent clustering distinguished 14 pancreas-resident cell types based on their identified marker genes found in Baron et al., 2016. There are four bar chart tracks in this track collection with pancreas cells grouped by either batch (Pancreas Batch), cell type (Pancreas Cells), detailed cell type (Pancreas Details) and donor (Pancreas Donor). The default track displayed is pancreas cells grouped by cell type. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification secretory endothelial epithelial fibroblast Cells that fall into multiple classes will be colored by blending the colors associated with those classes. The colors will be purest in the Pancreas Cells subtrack, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Method Human islets were obtained from two female cadaveric donors ages 51 (human2) and 59 (human4) and two male cadaveric donors ages 17 (human1) and 38 (human3). The samples collected from human 1-3 were non-diabetic and human 4 had type 2 diabetes mellitus. Using single-cell RNA-sequencing ~10,000 human pancreatic cells were isolated and sequenced. For each donor, several separate batches of ~800 cells were prepared and sequenced to obtain an average of about 100,000 reads per cell. Cells were barcoded using the inDrop platform which follows the CEL-Seq protocol for library construction. Paired end sequencing was done on the Illumina Hiseq 2500. After filtering out cells with limited numbers of detected genes, the dataset contained 8,629 cells from the four donors. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Mayaan Baron, Adrian Veres, Samuel L. Wolock, Aubrey L. Faust, and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Jairo Navarro. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Baron M, Veres A, Wolock SL, Faust AL, Gaujoux R, Vetere A, Ryu JH, Wagner BK, Shen-Orr SS, Klein AM et al. A Single-Cell Transcriptomic Map of the Human and Mouse Pancreas Reveals Inter- and Intra-cell Population Structure. Cell Syst. 2016 Oct 26;3(4):346-360.e4. PMID: 27667365; PMC: PMC5228327 
pancreasBaronDetailedCellType Pancreas Details Pancreas cells binned by detailed cell type from Baron et al 2016 Single Cell RNA-seq Description This track shows data from A Single-Cell Transcriptomic Map of the Human and Mouse Pancreas Reveals Inter- and Intra-cell Population Structure. Pancreas tissue was analyzed using droplet-based single-cell RNA-sequencing (scRNA-seq) and subsequent clustering distinguished 14 pancreas-resident cell types based on their identified marker genes found in Baron et al., 2016. There are four bar chart tracks in this track collection with pancreas cells grouped by either batch (Pancreas Batch), cell type (Pancreas Cells), detailed cell type (Pancreas Details) and donor (Pancreas Donor). The default track displayed is pancreas cells grouped by cell type. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification secretory endothelial epithelial fibroblast Cells that fall into multiple classes will be colored by blending the colors associated with those classes. The colors will be purest in the Pancreas Cells subtrack, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Method Human islets were obtained from two female cadaveric donors ages 51 (human2) and 59 (human4) and two male cadaveric donors ages 17 (human1) and 38 (human3). The samples collected from human 1-3 were non-diabetic and human 4 had type 2 diabetes mellitus. Using single-cell RNA-sequencing ~10,000 human pancreatic cells were isolated and sequenced. For each donor, several separate batches of ~800 cells were prepared and sequenced to obtain an average of about 100,000 reads per cell. Cells were barcoded using the inDrop platform which follows the CEL-Seq protocol for library construction. Paired end sequencing was done on the Illumina Hiseq 2500. After filtering out cells with limited numbers of detected genes, the dataset contained 8,629 cells from the four donors. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Mayaan Baron, Adrian Veres, Samuel L. Wolock, Aubrey L. Faust, and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Jairo Navarro. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Baron M, Veres A, Wolock SL, Faust AL, Gaujoux R, Vetere A, Ryu JH, Wagner BK, Shen-Orr SS, Klein AM et al. A Single-Cell Transcriptomic Map of the Human and Mouse Pancreas Reveals Inter- and Intra-cell Population Structure. Cell Syst. 2016 Oct 26;3(4):346-360.e4. PMID: 27667365; PMC: PMC5228327 
pancreasBaronDonor Pancreas Donor Pancreas cells binned by organ donor from Baron et al 2016 Single Cell RNA-seq Description This track shows data from A Single-Cell Transcriptomic Map of the Human and Mouse Pancreas Reveals Inter- and Intra-cell Population Structure. Pancreas tissue was analyzed using droplet-based single-cell RNA-sequencing (scRNA-seq) and subsequent clustering distinguished 14 pancreas-resident cell types based on their identified marker genes found in Baron et al., 2016. There are four bar chart tracks in this track collection with pancreas cells grouped by either batch (Pancreas Batch), cell type (Pancreas Cells), detailed cell type (Pancreas Details) and donor (Pancreas Donor). The default track displayed is pancreas cells grouped by cell type. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification secretory endothelial epithelial fibroblast Cells that fall into multiple classes will be colored by blending the colors associated with those classes. The colors will be purest in the Pancreas Cells subtrack, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Method Human islets were obtained from two female cadaveric donors ages 51 (human2) and 59 (human4) and two male cadaveric donors ages 17 (human1) and 38 (human3). The samples collected from human 1-3 were non-diabetic and human 4 had type 2 diabetes mellitus. Using single-cell RNA-sequencing ~10,000 human pancreatic cells were isolated and sequenced. For each donor, several separate batches of ~800 cells were prepared and sequenced to obtain an average of about 100,000 reads per cell. Cells were barcoded using the inDrop platform which follows the CEL-Seq protocol for library construction. Paired end sequencing was done on the Illumina Hiseq 2500. After filtering out cells with limited numbers of detected genes, the dataset contained 8,629 cells from the four donors. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Mayaan Baron, Adrian Veres, Samuel L. Wolock, Aubrey L. Faust, and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Jairo Navarro. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Baron M, Veres A, Wolock SL, Faust AL, Gaujoux R, Vetere A, Ryu JH, Wagner BK, Shen-Orr SS, Klein AM et al. A Single-Cell Transcriptomic Map of the Human and Mouse Pancreas Reveals Inter- and Intra-cell Population Structure. Cell Syst. 2016 Oct 26;3(4):346-360.e4. PMID: 27667365; PMC: PMC5228327 
panelApp PanelApp Genomics England and Australia PanelApp Diagnostics Phenotypes, Variants, and Literature Description The PanelApp tracks show regions that are related to human disorders. These can be either genes, short tandem repeats, or copy number variants. The regions were curated by groups of specialists collaborating using the PanelApp web tool. The primary website is Genomics England PanelApp. Another deployment of the website, with different data, is PanelApp Australia. Originally, PanelApp was developed to aid interpretation of participant genomes in the 100,000 Genomes Project. Genomics England PanelApp is now being used as the platform for achieving consensus on gene panels in the NHS Genomic Medicine Service (GMS). Later, the same platform was also deployed by Australian Genomics. Genes and genomic entities, so short tandem repeats/STRs and copy number variants/CNVs, have been reviewed by experts to enable a community consensus to be reached on which genes and genomic entities should appear on a diagnostics grade panel for each disorder. A rating system (confidence level 0 - 3) is used to classify the level of evidence supporting association with phenotypes covered by the gene panel in question. There are six subtracks in total: Three different types (genes, STRs, and CNVs), and these three exist for both countries, England and Australia. The three types of tracks are: PanelApp Genes (PanelApp Genes): shows genes with evidence supporting a gene-disease relationship. PanelApp STRs (PanelApp STRs): shows short tandem repeats that can be disease-causing when a particular number of repeats is present. Only on hg38: PanelApp Regions (PanelApp CNV Regions): shows copy-number variants (region-loss and region-gain) with evidence supporting a gene-disease relationship. Display Conventions There are a few differences between the Genomics England and the Australian Genomics tracks: Genomics England By default, only items with a version greater than or equal to 1 are displayed. This can be changed in the track configuration menu. Australian Genomics For the PanelApp Genes track, only items from the Mendeliome and Incidentalome panels are displayed by default. The sum total of these two panels represents all the gene-disease relationships available on the platform and provides an overarching assessment of the association between each gene and disease(s). Pulling information from other panels can be confusing, as the same gene may have different ratings across different panels. By default, all versions are displayed (versions greater than 0). This can be changed in the track configuration menu. The individual tracks are colored by confidence level: Score 3 (lime green) - High level of evidence for this gene-disease association. Demonstrates confidence that this gene should be used for genome interpretation. Score 2 (amber) - Moderate evidence for this gene-disease association. This gene should not be used for genomic interpretation. Score 0 or 1 (red) - Not enough evidence for this gene-disease association. This gene should not be used for genomic interpretation. Mouseover on items shows the gene name, panel associated, mode of inheritance (if known), phenotypes related to the gene, and confidence level. Tracks can be filtered according to the confidence level of disease association evidence. For more information on the use of this data, see the PanelApp FAQs. Data Access The raw data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. For automated download and analysis, the genome annotation is stored in a bigBed file that can be downloaded from our download server. The files for this track are called genes.bb, tandRep.bb, and cnv.bb. Individual regions or the whole genome annotation can be obtained using our tool bigBedToBed, which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tool can also be used to obtain only features within a given range, e.g. bigBedToBed http://hgdownload.soe.ucsc.edu/gbdb/hg38/panelApp/genes.bb -chrom=chr21 -start=0 -end=100000000 stdout Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Data is also freely available on the Genomics England PanelApp API and the Australia PanelApp API. Updates and archiving of old releases This track is updated automatically every week. If you need to access older releases of the data, you can download them from our archive directory on the download server. To load them into the browser, select a week on the archive directory, copy the link to a file, go to My Data &gt; Custom Tracks, click "Add custom track", paste the link into the box, and click "Submit". Methods PanelApp files were reformatted at UCSC to the bigBed format. The script that updates the track is called doPanelApp.py and can be found in our GitHub repository. Credits Thank you to Genomics England PanelApp, especially Catherine Snow for technical coordination and consultation, and Zornitza Stark from Australia PanelApp. Thanks to Beagan Nguy, Lou Nassar, Christopher Lee, Daniel Schmelter, Ana Benet-Pag&egrave;s and Maximilian Haeussler of the Genome Browser team for the creation of the tracks. Reference Martin AR, Williams E, Foulger RE, Leigh S, Daugherty LC, Niblock O, Leong IUS, Smith KR, Gerasimenko O, Haraldsdottir E et al. PanelApp crowdsources expert knowledge to establish consensus diagnostic gene panels. Nat Genet. 2019 Nov;51(11):1560-1565. PMID: 31676867 
panelAppAusTandRep PanelApp Australia STRs PanelApp Australia Short Tandem Repeats Phenotypes, Variants, and Literature 
panelAppAusCNVs PanelApp Australia CNVs PanelApp Australia CNV Regions Phenotypes, Variants, and Literature 
panelAppAusGenes PanelApp Australia Genes PanelApp Australia Genes Panels Phenotypes, Variants, and Literature 
panelAppTandRep PanelApp GE STRs Genomics England PanelApp Short Tandem Repeats Phenotypes, Variants, and Literature 
panelAppCNVs PanelApp GE CNVs Genomics England PanelApp CNV Regions Phenotypes, Variants, and Literature 
panelAppGenes PanelApp GE Genes Genomics England PanelApp Genes Phenotypes, Variants, and Literature 
panmask151b Panmask Easy 151b Panmask Easy 151b Regions: High accuracy for variant calling Mapping and Sequencing Description This container track helps call out sections of the genome that often cause problems or confusion when working with the genome. The hg19 genome has a track with the same name, but with more subtracks, as the GeT-RM and Genome-in-a-Bottle artifact variants do not exist for hg38. Problematic Regions The Problematic Regions track contains the following subtracks: The UCSC Unusual Regions subtrack contains annotations collected at UCSC, put together from other tracks, our experiences and support email list requests over the years. For example, it contains the most well-known gene clusters (IGH, IGL, PAR1/2, TCRA, TCRB, etc) and annotations for the GRC fixed sequences, alternate haplotypes, unplaced contigs, pseudo-autosomal regions, and mitochondria. These loci can yield alignments with low-quality mapping scores and discordant read pairs, especially for short-read sequencing data. The data set was manually curated, based on the Genome Browser's assembly description, the FAQs about assembly, and the NCBI RefSeq &quot;other&quot; annotations track data. The ENCODE Blacklist subtrack contains a comprehensive set of regions which are troublesome for high-throughput Next-Generation Sequencing (NGS) aligners. These regions tend to have a very high ratio of multi-mapping to unique mapping reads and high variance in mappability due to repetitive elements such as satellite, centromeric and telomeric repeats. The GRC Exclusions subtrack contains a set of regions that have been flagged by the GRC to contain false duplications or contamination sequences. The GRC has now removed these sequences from the files that it uses to generate the reference assembly, however, removing the sequences from the GRCh38/hg38 assembly would trigger the next major release of the human assembly. In order to help users recognize these regions and avoid them in their analyses, the GRC have produced a masking file to be used as a companion to GRCh38, and the BED file is available from the GenBank FTP site. Highly Reproducible Regions (HighRepro) The Highly Reproducible Regions track highlights regions and variants from eight samples that can be used to assess variant detection pipelines. The &quot;Highly Reproducible Regions&quot; subtrack comprises the intersection of the reproducible regions across all eight samples, while the &quot;Variants&quot; subtracks contain the reproducible variants from each assayed sample. Both tracks contain data from the following samples: a Chinese Quartet, samples CQ-5, CQ-6, CQ-7, CQ-8 a HapMap Trio, samples NA10385, NA12248, NA12249 a Genome in a Bottle sample, NA12878s Please refer to the Pan et al reference for more information on how these regions were defined. GIAB Problematic Regions The Genome in a Bottle (GIAB) Problematic Regions tracks provide stratifications of the genome to evaluate variant calls in complex regions. It is designed for use with Global Alliance for Genomic Health (GA4GH) benchmarking tools like hap.py and includes regions with low complexity, segmental duplications, functional regions, and difficult-to-sequence areas. Developed in collaboration with GA4GH, the Genome in a Bottle (GIAB) consortium, and the Telomere-to-Telomere Consortium (T2T), the dataset aims to standardize the analysis of genetic variation by offering pre-defined BED files for stratifying true and false positives in genomic studies, facilitating accurate assessments in complex areas of the genome. The creation of the GIAB Problematic Regions tracks involves using a pipeline and configuration to generate stratification BED files that categorize genomic regions based on specific challenges, such as low complexity or difficult mapping, to facilitate accurate benchmarking of variant calls. For more information on the pipeline and configuration used, please visit the following webpage: https://ftp-trace.ncbi.nlm.nih.gov/ReferenceSamples/giab/release/genome-stratifications/v3.5/README.md. If you have questions or comments, please write to Justin Zook (jzook@nist.gov). Panmask Easy 151b Regions The Panmask Easy 151b Regions subtrack contains a set of sample-agnostic easy regions where short-read variant calling reaches high accuracy. Easy regions are derived for variant filtration agnostic to individual samples. They are genomic intervals where general variant callers achieve high accuracy without sophisticated filtering. A set of easy regions for ancient DNA variant filtering was generated by selecting 35-mers that could not be mapped elsewhere within one mismatch or gap. Read alignments from multiple samples were inspected to exclude regions with excessively high or low coverage or those enriched with low mapping quality alignments. The easy regions generated through this k-mer uniqueness procedure are referred to as pm151:lenient, where &quot;pm&quot; stands for panmask. In addition, low complexity regions identified by SDUST were removed. The pm151 regions are used to filter spurious variant calls in centromeres, long repeats, and other genomic regions where short-read mapping is often problematic. They cover 88.2% of hg38, 92.2% of coding regions, and 96.3% of ClinVar pathogenic variants. The track can be used to filter variant calls for clinical or research human samples. Like the HighRepro track in this container (see above), it shows regions that are easy to sequence, not those that are problematic. The data was derived from the HPRC assemblies, and this track presents the 151b-easy panmask set. Display Conventions and Configuration Each track contains a set of regions of varying length with no special configuration options. The UCSC Unusual Regions track has a mouse-over description, all other tracks have at most a name field, which can be shown in pack mode. The tracks are usually kept in dense mode. The Hide empty subtracks control hides subtracks with no data in the browser window. Changing the browser window by zooming or scrolling may result in the display of a different selection of tracks. Data access The raw data can be explored interactively with the Table Browser or the Data Integrator. For automated download and analysis, the genome annotation is stored in bigBed files that can be downloaded from our download server. Individual regions or the whole genome annotation can be obtained using our tool bigBedToBed which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tool can also be used to obtain only features within a given range, e.g. bigBedToBed http://hgdownload.soe.ucsc.edu/gbdb/hg38/problematic/comments.bb -chrom=chr21 -start=0 -end=100000000 stdout Methods Files were downloaded from the respective databases and converted to bigBed format. The procedure is documented in our hg38 makeDoc file. Credits Thanks to Anna Benet-Pag&egrave;s, Max Haeussler, Angie Hinrichs, Daniel Schmelter, and Jairo Navarro at the UCSC Genome Browser for planning, building, and testing these tracks. The underlying data comes from the ENCODE Blacklist and some parts were copied manually from the HGNC and NCBI RefSeq tracks. References Amemiya HM, Kundaje A, Boyle AP. The ENCODE Blacklist: Identification of Problematic Regions of the Genome. Sci Rep. 2019 Jun 27;9(1):9354. PMID: 31249361; PMC: PMC6597582 Dwarshuis N, Kalra D, McDaniel J, Sanio P, Alvarez Jerez P, Jadhav B, Huang WE, Mondal R, Busby B, Olson ND et al. The GIAB genomic stratifications resource for human reference genomes. Nat Commun. 2024 Oct 19;15(1):9029. PMID: 39424793; PMC: PMC11489684 Krusche P, Trigg L, Boutros PC, Mason CE, De La Vega FM, Moore BL, Gonzalez-Porta M, Eberle MA, Tezak Z, Lababidi S et al. Best practices for benchmarking germline small-variant calls in human genomes. Nat Biotechnol. 2019 May;37(5):555-560. PMID: 30858580; PMC: PMC6699627 Li H. Finding easy regions for short-read variant calling from pangenome data. ArXiv. 2025 Aug 8;. PMID: 40799803; PMC: PMC12340882 Pan B, Ren L, Onuchic V, Guan M, Kusko R, Bruinsma S, Trigg L, Scherer A, Ning B, Zhang C et al. Assessing reproducibility of inherited variants detected with short-read whole genome sequencing. Genome Biol. 2022 Jan 3;23(1):2. PMID: 34980216; PMC: PMC8722114 
ucscGenePfam Pfam in GENCODE Pfam Domains in GENCODE Genes Genes and Gene Predictions Description Most proteins are composed of one or more conserved functional regions called domains. This track shows the high-quality, manually-curated Pfam-A domains found in transcripts located in the GENCODE Genes track by the software HMMER3. Display Conventions and Configuration This track follows the display conventions for gene tracks. Methods The sequences from the knownGenePep table (see GENCODE Genes description page) are submitted to the set of Pfam-A HMMs which annotate regions within the predicted peptide that are recognizable as Pfam protein domains. These regions are then mapped to the transcripts themselves using the pslMap utility. A complete shell script log for every version of UCSC genes can be found in our GitHub repository under hg/makeDb/doc/ucscGenes, e.g. mm10.knownGenes17.csh is for the database mm10 and version 17 of UCSC known genes. Of the several options for filtering out false positives, the &quot;Trusted cutoff (TC)&quot; threshold method is used in this track to determine significance. For more information regarding thresholds and scores, see the HMMER documentation and results interpretation pages. Note: There is currently an undocumented but known HMMER problem which results in lessened sensitivity and possible missed searches for some zinc finger domains. Until a fix is released for HMMER /PFAM thresholds, please also consult the &quot;UniProt Domains&quot; subtrack of the UniProt track for more comprehensive zinc finger annotations. Credits pslMap was written by Mark Diekhans at UCSC. References Finn RD, Mistry J, Tate J, Coggill P, Heger A, Pollington JE, Gavin OL, Gunasekaran P, Ceric G, Forslund K et al. The Pfam protein families database. Nucleic Acids Res. 2010 Jan;38(Database issue):D211-22. PMID: 19920124; PMC: PMC2808889 
placentaVentoTormoCellType10x Placenta Cells Placenta and decidua cells binned by cell type 10x from Vento-Tormo et al 2018 Single Cell RNA-seq Description This track displays data from Single-cell reconstruction of the early maternal-fetal interface in humans. Using droplet-based 10x and plate-based Smart-seq2 single cell RNA-sequencing (scRNA-seq) ~70,000 cells were profiled from first-trimester placentas with matched decidual cells and maternal peripheral blood mononuclear cells (PBMC). This track collection contains nine bar chart tracks of RNA expression in the human placenta, decidua, and maternal PBMCs where cells are grouped by cell type (Placenta Cells, Placenta Cells Ss2), detailed cell type (Placenta Detail, Placenta Detail Ss2), cell location (Placenta Loc, Placenta Loc Ss2), stage (Placenta Stage), and placenta and decidua cells (Placenta Mat/Fet, Placenta Mat/Fet Ss2). The default tracks displayed are Placenta Cells, Placenta Loc, Placenta Loc Ss2, and Placenta Mat/Fet Ss2. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification fibroblast immune muscle trophoblast epithelial endothelial Cells that fall into multiple classes will be colored by blending the colors associated with those classes. The colors will be purest in the Placenta Cells and Placenta Cells Ss2 subtracks, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Method Tissue was collected from 5 placentas (6-14 gestational weeks) and 11 deciduas. Additionally, blood was drawn from 6 of the donors (D4-D9) and enriched for PBMCs using a Ficoll-Paque gradient. Decidual and placental tissue were both first macroscopically separated. Decidual tissue was then chopped before enzymatic dissociation. Placental villi was scraped from the chorionic membrane before enzymatic dissociation. Decidual and blood cells were enriched for certain populations using an antibody panel prior to Smart-seq2 library preparation. Cells from blood decidua and placenta were enriched using FACS prior to 10x Genomics v2 library preparation. Smart-seq2 libraries were sequenced on an Illumina HiSeq2000. 10x libraries were sequenced on an Illumina HiSeq4000. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Roser Vento-Tormo, Mirjana Efremova, and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Jairo Navarro. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Vento-Tormo R, Efremova M, Botting RA, Turco MY, Vento-Tormo M, Meyer KB, Park JE, Stephenson E, Pola&#324;ski K, Goncalves A et al. Single-cell reconstruction of the early maternal-fetal interface in humans. Nature. 2018 Nov;563(7731):347-353. PMID: 30429548 
placentaVentoTormo Placenta Vento-Tormo Placenta and decidua cells from from Vento-Tormo et al 2018 Single Cell RNA-seq Description This track displays data from Single-cell reconstruction of the early maternal-fetal interface in humans. Using droplet-based 10x and plate-based Smart-seq2 single cell RNA-sequencing (scRNA-seq) ~70,000 cells were profiled from first-trimester placentas with matched decidual cells and maternal peripheral blood mononuclear cells (PBMC). This track collection contains nine bar chart tracks of RNA expression in the human placenta, decidua, and maternal PBMCs where cells are grouped by cell type (Placenta Cells, Placenta Cells Ss2), detailed cell type (Placenta Detail, Placenta Detail Ss2), cell location (Placenta Loc, Placenta Loc Ss2), stage (Placenta Stage), and placenta and decidua cells (Placenta Mat/Fet, Placenta Mat/Fet Ss2). The default tracks displayed are Placenta Cells, Placenta Loc, Placenta Loc Ss2, and Placenta Mat/Fet Ss2. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification fibroblast immune muscle trophoblast epithelial endothelial Cells that fall into multiple classes will be colored by blending the colors associated with those classes. The colors will be purest in the Placenta Cells and Placenta Cells Ss2 subtracks, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Method Tissue was collected from 5 placentas (6-14 gestational weeks) and 11 deciduas. Additionally, blood was drawn from 6 of the donors (D4-D9) and enriched for PBMCs using a Ficoll-Paque gradient. Decidual and placental tissue were both first macroscopically separated. Decidual tissue was then chopped before enzymatic dissociation. Placental villi was scraped from the chorionic membrane before enzymatic dissociation. Decidual and blood cells were enriched for certain populations using an antibody panel prior to Smart-seq2 library preparation. Cells from blood decidua and placenta were enriched using FACS prior to 10x Genomics v2 library preparation. Smart-seq2 libraries were sequenced on an Illumina HiSeq2000. 10x libraries were sequenced on an Illumina HiSeq4000. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Roser Vento-Tormo, Mirjana Efremova, and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Jairo Navarro. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Vento-Tormo R, Efremova M, Botting RA, Turco MY, Vento-Tormo M, Meyer KB, Park JE, Stephenson E, Pola&#324;ski K, Goncalves A et al. Single-cell reconstruction of the early maternal-fetal interface in humans. Nature. 2018 Nov;563(7731):347-353. PMID: 30429548 
placentaVentoTormoCellTypeSs2 Placenta Cells Ss2 Placenta and decidua cells binned by cell type smart-seq2 from Vento-Tormo et al 2018 Single Cell RNA-seq Description This track displays data from Single-cell reconstruction of the early maternal-fetal interface in humans. Using droplet-based 10x and plate-based Smart-seq2 single cell RNA-sequencing (scRNA-seq) ~70,000 cells were profiled from first-trimester placentas with matched decidual cells and maternal peripheral blood mononuclear cells (PBMC). This track collection contains nine bar chart tracks of RNA expression in the human placenta, decidua, and maternal PBMCs where cells are grouped by cell type (Placenta Cells, Placenta Cells Ss2), detailed cell type (Placenta Detail, Placenta Detail Ss2), cell location (Placenta Loc, Placenta Loc Ss2), stage (Placenta Stage), and placenta and decidua cells (Placenta Mat/Fet, Placenta Mat/Fet Ss2). The default tracks displayed are Placenta Cells, Placenta Loc, Placenta Loc Ss2, and Placenta Mat/Fet Ss2. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification fibroblast immune muscle trophoblast epithelial endothelial Cells that fall into multiple classes will be colored by blending the colors associated with those classes. The colors will be purest in the Placenta Cells and Placenta Cells Ss2 subtracks, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Method Tissue was collected from 5 placentas (6-14 gestational weeks) and 11 deciduas. Additionally, blood was drawn from 6 of the donors (D4-D9) and enriched for PBMCs using a Ficoll-Paque gradient. Decidual and placental tissue were both first macroscopically separated. Decidual tissue was then chopped before enzymatic dissociation. Placental villi was scraped from the chorionic membrane before enzymatic dissociation. Decidual and blood cells were enriched for certain populations using an antibody panel prior to Smart-seq2 library preparation. Cells from blood decidua and placenta were enriched using FACS prior to 10x Genomics v2 library preparation. Smart-seq2 libraries were sequenced on an Illumina HiSeq2000. 10x libraries were sequenced on an Illumina HiSeq4000. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Roser Vento-Tormo, Mirjana Efremova, and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Jairo Navarro. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Vento-Tormo R, Efremova M, Botting RA, Turco MY, Vento-Tormo M, Meyer KB, Park JE, Stephenson E, Pola&#324;ski K, Goncalves A et al. Single-cell reconstruction of the early maternal-fetal interface in humans. Nature. 2018 Nov;563(7731):347-353. PMID: 30429548 
placentaVentoTormoCellDetailed10x Placenta Detail Placenta and decidua cells binned by detailed cell type 10x from Vento-Tormo et al 2018 Single Cell RNA-seq Description This track displays data from Single-cell reconstruction of the early maternal-fetal interface in humans. Using droplet-based 10x and plate-based Smart-seq2 single cell RNA-sequencing (scRNA-seq) ~70,000 cells were profiled from first-trimester placentas with matched decidual cells and maternal peripheral blood mononuclear cells (PBMC). This track collection contains nine bar chart tracks of RNA expression in the human placenta, decidua, and maternal PBMCs where cells are grouped by cell type (Placenta Cells, Placenta Cells Ss2), detailed cell type (Placenta Detail, Placenta Detail Ss2), cell location (Placenta Loc, Placenta Loc Ss2), stage (Placenta Stage), and placenta and decidua cells (Placenta Mat/Fet, Placenta Mat/Fet Ss2). The default tracks displayed are Placenta Cells, Placenta Loc, Placenta Loc Ss2, and Placenta Mat/Fet Ss2. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification fibroblast immune muscle trophoblast epithelial endothelial Cells that fall into multiple classes will be colored by blending the colors associated with those classes. The colors will be purest in the Placenta Cells and Placenta Cells Ss2 subtracks, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Method Tissue was collected from 5 placentas (6-14 gestational weeks) and 11 deciduas. Additionally, blood was drawn from 6 of the donors (D4-D9) and enriched for PBMCs using a Ficoll-Paque gradient. Decidual and placental tissue were both first macroscopically separated. Decidual tissue was then chopped before enzymatic dissociation. Placental villi was scraped from the chorionic membrane before enzymatic dissociation. Decidual and blood cells were enriched for certain populations using an antibody panel prior to Smart-seq2 library preparation. Cells from blood decidua and placenta were enriched using FACS prior to 10x Genomics v2 library preparation. Smart-seq2 libraries were sequenced on an Illumina HiSeq2000. 10x libraries were sequenced on an Illumina HiSeq4000. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Roser Vento-Tormo, Mirjana Efremova, and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Jairo Navarro. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Vento-Tormo R, Efremova M, Botting RA, Turco MY, Vento-Tormo M, Meyer KB, Park JE, Stephenson E, Pola&#324;ski K, Goncalves A et al. Single-cell reconstruction of the early maternal-fetal interface in humans. Nature. 2018 Nov;563(7731):347-353. PMID: 30429548 
placentaVentoTormoCellDetailedSs2 Placenta Detail Ss2 Placenta and decidua cells binned by detailed cell type smart-seq2 from Vento-Tormo et al 2018 Single Cell RNA-seq Description This track displays data from Single-cell reconstruction of the early maternal-fetal interface in humans. Using droplet-based 10x and plate-based Smart-seq2 single cell RNA-sequencing (scRNA-seq) ~70,000 cells were profiled from first-trimester placentas with matched decidual cells and maternal peripheral blood mononuclear cells (PBMC). This track collection contains nine bar chart tracks of RNA expression in the human placenta, decidua, and maternal PBMCs where cells are grouped by cell type (Placenta Cells, Placenta Cells Ss2), detailed cell type (Placenta Detail, Placenta Detail Ss2), cell location (Placenta Loc, Placenta Loc Ss2), stage (Placenta Stage), and placenta and decidua cells (Placenta Mat/Fet, Placenta Mat/Fet Ss2). The default tracks displayed are Placenta Cells, Placenta Loc, Placenta Loc Ss2, and Placenta Mat/Fet Ss2. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification fibroblast immune muscle trophoblast epithelial endothelial Cells that fall into multiple classes will be colored by blending the colors associated with those classes. The colors will be purest in the Placenta Cells and Placenta Cells Ss2 subtracks, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Method Tissue was collected from 5 placentas (6-14 gestational weeks) and 11 deciduas. Additionally, blood was drawn from 6 of the donors (D4-D9) and enriched for PBMCs using a Ficoll-Paque gradient. Decidual and placental tissue were both first macroscopically separated. Decidual tissue was then chopped before enzymatic dissociation. Placental villi was scraped from the chorionic membrane before enzymatic dissociation. Decidual and blood cells were enriched for certain populations using an antibody panel prior to Smart-seq2 library preparation. Cells from blood decidua and placenta were enriched using FACS prior to 10x Genomics v2 library preparation. Smart-seq2 libraries were sequenced on an Illumina HiSeq2000. 10x libraries were sequenced on an Illumina HiSeq4000. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Roser Vento-Tormo, Mirjana Efremova, and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Jairo Navarro. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Vento-Tormo R, Efremova M, Botting RA, Turco MY, Vento-Tormo M, Meyer KB, Park JE, Stephenson E, Pola&#324;ski K, Goncalves A et al. Single-cell reconstruction of the early maternal-fetal interface in humans. Nature. 2018 Nov;563(7731):347-353. PMID: 30429548 
placentaVentoTormoLocation10x Placenta Loc Placenta and decidua cells binned by cell location 10x from Vento-Tormo et al 2018 Single Cell RNA-seq Description This track displays data from Single-cell reconstruction of the early maternal-fetal interface in humans. Using droplet-based 10x and plate-based Smart-seq2 single cell RNA-sequencing (scRNA-seq) ~70,000 cells were profiled from first-trimester placentas with matched decidual cells and maternal peripheral blood mononuclear cells (PBMC). This track collection contains nine bar chart tracks of RNA expression in the human placenta, decidua, and maternal PBMCs where cells are grouped by cell type (Placenta Cells, Placenta Cells Ss2), detailed cell type (Placenta Detail, Placenta Detail Ss2), cell location (Placenta Loc, Placenta Loc Ss2), stage (Placenta Stage), and placenta and decidua cells (Placenta Mat/Fet, Placenta Mat/Fet Ss2). The default tracks displayed are Placenta Cells, Placenta Loc, Placenta Loc Ss2, and Placenta Mat/Fet Ss2. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification fibroblast immune muscle trophoblast epithelial endothelial Cells that fall into multiple classes will be colored by blending the colors associated with those classes. The colors will be purest in the Placenta Cells and Placenta Cells Ss2 subtracks, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Method Tissue was collected from 5 placentas (6-14 gestational weeks) and 11 deciduas. Additionally, blood was drawn from 6 of the donors (D4-D9) and enriched for PBMCs using a Ficoll-Paque gradient. Decidual and placental tissue were both first macroscopically separated. Decidual tissue was then chopped before enzymatic dissociation. Placental villi was scraped from the chorionic membrane before enzymatic dissociation. Decidual and blood cells were enriched for certain populations using an antibody panel prior to Smart-seq2 library preparation. Cells from blood decidua and placenta were enriched using FACS prior to 10x Genomics v2 library preparation. Smart-seq2 libraries were sequenced on an Illumina HiSeq2000. 10x libraries were sequenced on an Illumina HiSeq4000. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Roser Vento-Tormo, Mirjana Efremova, and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Jairo Navarro. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Vento-Tormo R, Efremova M, Botting RA, Turco MY, Vento-Tormo M, Meyer KB, Park JE, Stephenson E, Pola&#324;ski K, Goncalves A et al. Single-cell reconstruction of the early maternal-fetal interface in humans. Nature. 2018 Nov;563(7731):347-353. PMID: 30429548 
placentaVentoTormoLocationSs2 Placenta Loc Ss2 Placenta and decidua cells binned by cell location smart-seq2 from Vento-Tormo et al 2018 Single Cell RNA-seq Description This track displays data from Single-cell reconstruction of the early maternal-fetal interface in humans. Using droplet-based 10x and plate-based Smart-seq2 single cell RNA-sequencing (scRNA-seq) ~70,000 cells were profiled from first-trimester placentas with matched decidual cells and maternal peripheral blood mononuclear cells (PBMC). This track collection contains nine bar chart tracks of RNA expression in the human placenta, decidua, and maternal PBMCs where cells are grouped by cell type (Placenta Cells, Placenta Cells Ss2), detailed cell type (Placenta Detail, Placenta Detail Ss2), cell location (Placenta Loc, Placenta Loc Ss2), stage (Placenta Stage), and placenta and decidua cells (Placenta Mat/Fet, Placenta Mat/Fet Ss2). The default tracks displayed are Placenta Cells, Placenta Loc, Placenta Loc Ss2, and Placenta Mat/Fet Ss2. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification fibroblast immune muscle trophoblast epithelial endothelial Cells that fall into multiple classes will be colored by blending the colors associated with those classes. The colors will be purest in the Placenta Cells and Placenta Cells Ss2 subtracks, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Method Tissue was collected from 5 placentas (6-14 gestational weeks) and 11 deciduas. Additionally, blood was drawn from 6 of the donors (D4-D9) and enriched for PBMCs using a Ficoll-Paque gradient. Decidual and placental tissue were both first macroscopically separated. Decidual tissue was then chopped before enzymatic dissociation. Placental villi was scraped from the chorionic membrane before enzymatic dissociation. Decidual and blood cells were enriched for certain populations using an antibody panel prior to Smart-seq2 library preparation. Cells from blood decidua and placenta were enriched using FACS prior to 10x Genomics v2 library preparation. Smart-seq2 libraries were sequenced on an Illumina HiSeq2000. 10x libraries were sequenced on an Illumina HiSeq4000. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Roser Vento-Tormo, Mirjana Efremova, and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Jairo Navarro. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Vento-Tormo R, Efremova M, Botting RA, Turco MY, Vento-Tormo M, Meyer KB, Park JE, Stephenson E, Pola&#324;ski K, Goncalves A et al. Single-cell reconstruction of the early maternal-fetal interface in humans. Nature. 2018 Nov;563(7731):347-353. PMID: 30429548 
placentaVentoTormoMatFet10x Placenta Mat/Fet Placenta and decidua cells binned by maternal/fetal 10x from Vento-Tormo et al 2018 Single Cell RNA-seq Description This track displays data from Single-cell reconstruction of the early maternal-fetal interface in humans. Using droplet-based 10x and plate-based Smart-seq2 single cell RNA-sequencing (scRNA-seq) ~70,000 cells were profiled from first-trimester placentas with matched decidual cells and maternal peripheral blood mononuclear cells (PBMC). This track collection contains nine bar chart tracks of RNA expression in the human placenta, decidua, and maternal PBMCs where cells are grouped by cell type (Placenta Cells, Placenta Cells Ss2), detailed cell type (Placenta Detail, Placenta Detail Ss2), cell location (Placenta Loc, Placenta Loc Ss2), stage (Placenta Stage), and placenta and decidua cells (Placenta Mat/Fet, Placenta Mat/Fet Ss2). The default tracks displayed are Placenta Cells, Placenta Loc, Placenta Loc Ss2, and Placenta Mat/Fet Ss2. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification fibroblast immune muscle trophoblast epithelial endothelial Cells that fall into multiple classes will be colored by blending the colors associated with those classes. The colors will be purest in the Placenta Cells and Placenta Cells Ss2 subtracks, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Method Tissue was collected from 5 placentas (6-14 gestational weeks) and 11 deciduas. Additionally, blood was drawn from 6 of the donors (D4-D9) and enriched for PBMCs using a Ficoll-Paque gradient. Decidual and placental tissue were both first macroscopically separated. Decidual tissue was then chopped before enzymatic dissociation. Placental villi was scraped from the chorionic membrane before enzymatic dissociation. Decidual and blood cells were enriched for certain populations using an antibody panel prior to Smart-seq2 library preparation. Cells from blood decidua and placenta were enriched using FACS prior to 10x Genomics v2 library preparation. Smart-seq2 libraries were sequenced on an Illumina HiSeq2000. 10x libraries were sequenced on an Illumina HiSeq4000. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Roser Vento-Tormo, Mirjana Efremova, and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Jairo Navarro. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Vento-Tormo R, Efremova M, Botting RA, Turco MY, Vento-Tormo M, Meyer KB, Park JE, Stephenson E, Pola&#324;ski K, Goncalves A et al. Single-cell reconstruction of the early maternal-fetal interface in humans. Nature. 2018 Nov;563(7731):347-353. PMID: 30429548 
placentaVentoTormoMatFetSs2 Placenta Mat/Fet Ss2 Placenta and decidua cells binned by maternal/fetal smart-seq2 from Vento-Tormo et al 2018 Single Cell RNA-seq Description This track displays data from Single-cell reconstruction of the early maternal-fetal interface in humans. Using droplet-based 10x and plate-based Smart-seq2 single cell RNA-sequencing (scRNA-seq) ~70,000 cells were profiled from first-trimester placentas with matched decidual cells and maternal peripheral blood mononuclear cells (PBMC). This track collection contains nine bar chart tracks of RNA expression in the human placenta, decidua, and maternal PBMCs where cells are grouped by cell type (Placenta Cells, Placenta Cells Ss2), detailed cell type (Placenta Detail, Placenta Detail Ss2), cell location (Placenta Loc, Placenta Loc Ss2), stage (Placenta Stage), and placenta and decidua cells (Placenta Mat/Fet, Placenta Mat/Fet Ss2). The default tracks displayed are Placenta Cells, Placenta Loc, Placenta Loc Ss2, and Placenta Mat/Fet Ss2. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification fibroblast immune muscle trophoblast epithelial endothelial Cells that fall into multiple classes will be colored by blending the colors associated with those classes. The colors will be purest in the Placenta Cells and Placenta Cells Ss2 subtracks, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Method Tissue was collected from 5 placentas (6-14 gestational weeks) and 11 deciduas. Additionally, blood was drawn from 6 of the donors (D4-D9) and enriched for PBMCs using a Ficoll-Paque gradient. Decidual and placental tissue were both first macroscopically separated. Decidual tissue was then chopped before enzymatic dissociation. Placental villi was scraped from the chorionic membrane before enzymatic dissociation. Decidual and blood cells were enriched for certain populations using an antibody panel prior to Smart-seq2 library preparation. Cells from blood decidua and placenta were enriched using FACS prior to 10x Genomics v2 library preparation. Smart-seq2 libraries were sequenced on an Illumina HiSeq2000. 10x libraries were sequenced on an Illumina HiSeq4000. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Roser Vento-Tormo, Mirjana Efremova, and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Jairo Navarro. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Vento-Tormo R, Efremova M, Botting RA, Turco MY, Vento-Tormo M, Meyer KB, Park JE, Stephenson E, Pola&#324;ski K, Goncalves A et al. Single-cell reconstruction of the early maternal-fetal interface in humans. Nature. 2018 Nov;563(7731):347-353. PMID: 30429548 
placentaVentoTormoStage10x Placenta Stage Placenta and decidua cells binned by placental stage 10x from Vento-Tormo et al 2018 Single Cell RNA-seq Description This track displays data from Single-cell reconstruction of the early maternal-fetal interface in humans. Using droplet-based 10x and plate-based Smart-seq2 single cell RNA-sequencing (scRNA-seq) ~70,000 cells were profiled from first-trimester placentas with matched decidual cells and maternal peripheral blood mononuclear cells (PBMC). This track collection contains nine bar chart tracks of RNA expression in the human placenta, decidua, and maternal PBMCs where cells are grouped by cell type (Placenta Cells, Placenta Cells Ss2), detailed cell type (Placenta Detail, Placenta Detail Ss2), cell location (Placenta Loc, Placenta Loc Ss2), stage (Placenta Stage), and placenta and decidua cells (Placenta Mat/Fet, Placenta Mat/Fet Ss2). The default tracks displayed are Placenta Cells, Placenta Loc, Placenta Loc Ss2, and Placenta Mat/Fet Ss2. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification fibroblast immune muscle trophoblast epithelial endothelial Cells that fall into multiple classes will be colored by blending the colors associated with those classes. The colors will be purest in the Placenta Cells and Placenta Cells Ss2 subtracks, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Method Tissue was collected from 5 placentas (6-14 gestational weeks) and 11 deciduas. Additionally, blood was drawn from 6 of the donors (D4-D9) and enriched for PBMCs using a Ficoll-Paque gradient. Decidual and placental tissue were both first macroscopically separated. Decidual tissue was then chopped before enzymatic dissociation. Placental villi was scraped from the chorionic membrane before enzymatic dissociation. Decidual and blood cells were enriched for certain populations using an antibody panel prior to Smart-seq2 library preparation. Cells from blood decidua and placenta were enriched using FACS prior to 10x Genomics v2 library preparation. Smart-seq2 libraries were sequenced on an Illumina HiSeq2000. 10x libraries were sequenced on an Illumina HiSeq4000. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Roser Vento-Tormo, Mirjana Efremova, and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Jairo Navarro. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Vento-Tormo R, Efremova M, Botting RA, Turco MY, Vento-Tormo M, Meyer KB, Park JE, Stephenson E, Pola&#324;ski K, Goncalves A et al. Single-cell reconstruction of the early maternal-fetal interface in humans. Nature. 2018 Nov;563(7731):347-353. PMID: 30429548 
platinumGenomes Platinum Genomes Platinum genome variants Variation Description These tracks show high-confidence &quot;Platinum Genome&quot; variant calls for two individuals, NA12877 and NA12878, part of a sequenced 17 member pedigree for family number 1463, from the Centre d'Etude du Polymorphisme Humain (CEPH). The hybrid track displays a merging of the NA12878 results with variant calls produced by Genome in a Bottle, discussed further below. CEPH is an international genetic research center that provides a resource of immortalized cell cultures used to map genetic markers, and pedigree 1463 represents a family lineage from Utah of four grandparents, two parents, and 11 children. The whole pedigree was sequenced to 50x depth on a HiSeq 2000 Illumina system, which is considered a platinum standard, where platinum refers to the quality and completeness of the resulting assembly, such as providing full chromosome scaffolds with phasing and haplotypes resolved across the entire genome. This figure depicts the pedigree of the family sequenced for this study, where the ID for each sample is defined by adding the prefix NA128 to each numbered individual, so that 77 = NA12877 and 78 = NA12878, corresponding to the VCF tracks available in this track set. The dark orange individuals indicate sequences used in the analysis methods, whereas the blue represent the founder generations (grandparents), which were also sequenced and used in validation steps. The genomes of the parent-child trio on the top right side, 91-92-78, were also sequenced during Phase I of the 1000 Genomes Project. These tracks represent a comprehensive genome-wide set of phased small variants that have been validated to high confidence. Sequencing and phasing a larger pedigree, beyond the two parents and one child, increases the ability to detect errors and assess the accuracy of more of the variants compared to a standard trio analysis. The genetic inheritance data enables creating a more comprehensive catalog of &quot;platinum variants&quot; that reflects both high accuracy and completeness. These results are significant as a comprehensive set of valid single-nucleotide variants (SNVs) and insertions and deletions (indels), in both the easy and difficult parts of the genome, provides a vital resource for software developers creating the next generation of variant callers, because these are the areas where the current methods most need training data to improve their methods. Since every one of the variants in this catalog is phased, this data set provides a resource to better assess emerging technologies designed to generate valid phasing information. To generate the calls, six analysis pipelines to call SNVs and indels were used and merged into one catalog, where the sensitivity of the genetic inheritance aided to detect genotyping errors and maximize the chance of only including true variants, that might otherwise be removed by suboptimal filtering. Read more about the detailed methods in the referenced paper, further describing this variant catalog of 4.7 million SNVs plus 0.7 million small (1-50 bp) indels, that are all consistent with the pattern of inheritance in the parents and 11 children of this pedigree. The hybrid track in this set extends the characterization of NA12878 by incorporating high confidence calls produced by Genome in a Bottle analysis. The resulting merged files contain more comprehensive coverage of variation than either set independently, for instance, the hg19 version contains over 80,000 more indels than either input set. Read more about the hybrid methods at the following link: https://github.com/Illumina/PlatinumGenomes/wiki/Hybrid-truthset Data Access The VCF files for this track can be obtained from the download server: https://hgdownload.soe.ucsc.edu/gbdb/hg38/platinumGenomes/. These files were obtained from the Platinum genomes source archive: https://s3.eu-central-1.amazonaws.com/platinum-genomes/2017-1.0/ReleaseNotes.txt. Reference Eberle MA, Fritzilas E, Krusche P, K&#228;llberg M, Moore BL, Bekritsky MA, Iqbal Z, Chuang HY, Humphray SJ, Halpern AL et al. A reference data set of 5.4 million phased human variants validated by genetic inheritance from sequencing a three-generation 17-member pedigree. Genome Res. 2017 Jan;27(1):157-164. PMID: 27903644; PMC: PMC5204340 
platinumNA12878 NA12878 Platinum genome variant NA12878 Variation 
platinumNA12877 NA12877 Platinum genome variant NA12877 Variation 
platinumHybrid hybrid Platinum genome hybrid Variation 
primateAi PrimateAI-3D PrimateAI-3D Pathogenicity Predictions for Missense Variants Phenotypes, Variants, and Literature Description PrimateAI-3D is a semi-supervised 3D convolutional neural network that predicts the pathogenicity of all possible missense variants in the human genome. It was trained on 4.5 million benign missense variants: 4.3 million common variants from 809 non-human primate individuals across 233 species, plus common human variants (&gt;0.1% allele frequency) from gnomAD, TOPMed, and UK Biobank. These represent about 6% of all possible human missense variants. The model operates on voxelized protein structures at 2 &Aring; resolution (from AlphaFold or homology models) combined with multiple sequence alignments from 592 species. It uses three complementary loss functions: benign variant classification, 3D fill-in-the-blank prediction on masked amino acids, and a language model ranking component. This track shows 70.7 million scored variants across all protein-coding genes. Display Conventions Each variant is colored blue (benign) or red (pathogenic) based on the Illumina-provided Prediction field. Because the three possible alternate bases at a given position sometimes produce the same amino acid change (codon degeneracy), each item is labeled by default with its nucleotide change (e.g. C&gt;T) rather than its amino acid change. The label can be switched to the amino acid change via the &quot;Label fields&quot; control in the Track Settings. Hovering over a variant shows: Var &mdash; the nucleotide substitution on the + strand (reference&nbsp;&gt;&nbsp;alternate) AA &mdash; the resulting amino acid change (single-letter reference&nbsp;&gt;&nbsp;alternate) Score &mdash; the raw PrimateAI-3D pathogenicity score (0&ndash;1). The authors suggest a clinical threshold of 0.821 for distinguishing pathogenic from benign missense variants. In Gao et al. 2023 (Fig. 5A) this threshold was derived from the Deciphering Developmental Disorders (DDD) neurodevelopmental cohort: the cutoff was chosen so that the number of variants scored as pathogenic (n&nbsp;=&nbsp;7,238) matched the observed excess of de novo missense mutations above the trinucleotide background expectation in that cohort. Perc &mdash; the percentile rank of the raw score across all scored variants (0&ndash;1). The track score field (0&ndash;1000) is this value scaled by 1000. Pred &mdash; Illumina&apos;s binary call: benign or pathogenic, as provided in the source file. About 75% of variants in the track are benign and 25% pathogenic. Note that this call is not a simple application of the 0.821 raw-score threshold &mdash; some variants with raw scores below 0.821 are labeled pathogenic and vice versa. Items can be filtered by prediction (benign/pathogenic), by raw PrimateAI-3D score, or by percentile. Data Access Due to the data license, the Table Browser, Data Integrator, and the REST API's getData endpoint are disabled for this track. The source data can be downloaded from the PrimateAI-3D website (requires registration). The primate variant database is available at PrimAD. Our Zoonomia 447-way Mammal/Primate alignment track displays the primate variants used in training PrimateAI-3D. Methods The PrimateAI-3D hg38 site list was downloaded from the Illumina BaseSpace website. The tab-separated file contains pre-computed scores for all possible single nucleotide missense variants. Positions were formatted as bigBed. The percentile score was put into the track score field (scaled to 0-1000). No filtering was applied; all 70.7 million scored variants are included. A conversion script is available from our Github. Credits Thanks to Illumina, in particular Gao Hong, for making PrimateAI-3D predictions publicly available. References Gao H, Hamp T, Ede J, Schraiber JG, McRae J, Singer-Berk M, Yang Y, Dietrich ASD, Fiziev PP, Kuderna LFK et al. The landscape of tolerated genetic variation in humans and primates. Science. 2023 Jun 2;380(6648):eabn8153. PMID: 37262156; PMC: PMC10713091 Sundaram L, Gao H, Padigepati SR, McRae JF, Li Y, Kosmicki JA, Fritzilas N, Hakenberg J, Dutta A, Shon J et al. Predicting the clinical impact of human mutation with deep neural networks. Nat Genet. 2018 Aug;50(8):1161-1170. PMID: 30038395; PMC: PMC6237276 
promoterAi PromoterAI PromoterAI Promoter Variant Impact Scores (zoom for exact score) Phenotypes, Variants, and Literature Description PromoterAI is a deep neural network from Illumina that predicts the expression-altering impact of single nucleotide variants in gene promoter regions. It scores all possible substitutions within 500 bp of annotated transcription start sites (TSS), covering approximately 39.5 million genomic positions across all protein-coding genes. Scores range from -1 to 1. A negative score is a predicted decrease in expression of the target gene; a positive score is a predicted increase in expression. Scores near zero indicate the variant is predicted to leave expression unchanged. Variants at either end of the range (large |score|) are dysregulating and are the ones enriched among patients with rare disease in the PromoterAI paper. Illumina's PromoterAI GitHub page recommends three tiered thresholds for interpretation: |score| &ge; 0.1, |score| &ge; 0.2, and |score| &ge; 0.5. Higher absolute thresholds select progressively smaller, higher-confidence sets of predicted expression-altering variants. Display Conventions This track is a composite with four bigWig subtracks, one for each possible alternate allele (A, C, G, T). When zoomed in, the exact PromoterAI score for each possible mutation is shown on mouseover. At wider zooms multiple data points fall into a single pixel and averaging scores is not biologically meaningful, so the mouseover displays &quot;zoom in to see values&quot; until you zoom in far enough that individual values can be shown. A fifth subtrack (&quot;PromoterAI overlaps&quot;) shows positions where overlapping transcripts produce different scores for the same variant. At these positions, the bigWig subtracks show the score with the largest absolute value, while the overlap track lists every per-transcript score. About 3.8% of variant positions have overlapping transcripts with differing scores; for more than 60% of these, the difference is smaller than 0.01. A filter, active by default, hides entries whose per-transcript score range is smaller than 0.01. The filter can be adjusted or turned off on the track configuration page. Across all subtracks, coloring follows the direction of the predicted effect: red (bars above the zero line in the bigWigs, or filled boxes in the overlap subtrack) indicates predicted over-expression (positive score), and blue (bars below zero or filled boxes) indicates predicted under-expression (negative score). Data Access The PromoterAI predictions are distributed by Illumina under a license that does not permit redistribution, so this track is not available for bulk download from UCSC and is excluded from the Table Browser and public API. The original prediction files are available for academic and non-commercial research use directly from Illumina: complete the license agreement linked from the PromoterAI GitHub page, and a download link is emailed after submission. Methods The PromoterAI hg38 TSS-500 file was downloaded from Illumina via the PromoterAI license agreement. The file contains pre-computed scores for all possible single nucleotide substitutions within 500 bp of annotated TSS positions. For positions covered by multiple transcripts, the score with the largest absolute value was used for the bigWig tracks. Positions where transcripts produced different scores (4.45M of 118.6M unique variants, 3.8%) were additionally written to a bigBed overlap track with per-transcript detail (transcript IDs, per-transcript scores, strand, and the maximum pairwise score difference). The conversion script is available from our Github. Credits Thanks to Kishore Jaganathan and colleagues at Illumina for making the PromoterAI predictions publicly available for academic and non-commercial research. References Jaganathan K, Ersaro N, Novakovsky G, Wang Y, James T, Schwartzentruber J, Fiziev P, Kassam I, Cao F, Hawe J et al. Predicting expression-altering promoter mutations with deep learning. Science. 2025 Aug 7;389(6760):eads7373. PMID: 40440429 
promoterAiOverlaps PromoterAI overlaps PromoterAI: Positions with >1 score due to overlapping transcripts Phenotypes, Variants, and Literature 
promoterAiT Mutation: T PromoterAI: Mutation is T Phenotypes, Variants, and Literature 
promoterAiG Mutation: G PromoterAI: Mutation is G Phenotypes, Variants, and Literature 
promoterAiC Mutation: C PromoterAI: Mutation is C Phenotypes, Variants, and Literature 
promoterAiA Mutation: A PromoterAI: Mutation is A Phenotypes, Variants, and Literature 
pseudogenes Pseudogenes Pseudogenes and Parents Genes and Gene Predictions Description These tracks contain pseudogene predictions and their parents as identified by PseudoPipe. PseudoPipe is a homology-based computational pipeline that can search a mammalian genome and identify pseudogene sequences comprehensively and consistently. Pseudogenes are genomic sequences that bear similarity to specific protein-coding genes, but are unable to produce functional proteins due to the existence of frameshifts, premature stop codons, or other deleterious mutations. They arise from gene duplication or retrotransposition events and are important resources in understanding the evolutionary history of genes and genomes. Display Conventions This composite track consists of two subtracks: the Pseudogenes track and the Pseudogene Parents track. The Pseudogene Parents track displays parent genes and pseudogenes labeled with their HUGO IDs, which were derived from Ensembl gene IDs provided by the Gerstein lab after dataset creation. It includes indicators for pseudogenes. These indicators do not show pseudogene locations directly but instead indicate how many pseudogenes are associated with each gene and link to their genomic regions in the Pseudogenes track. The Pseudogenes track shows pseudogenes labeled with their parent HUGO ID and colored according to pseudogene type. The authors assigned PGOHUMG IDs to genes and PGOHUMT IDs to transcripts. Note: Not all PseudoPipe IDs could be mapped back to their original Ensembl IDs. In these cases, the gene ID is listed as NA. Pseudogene types: Unspecified pseudogenes include pseudogenic fragments and protein/chromosome homologies with high sequence similarity but are too decayed to be reliably classified as processed or duplicated. Processed pseudogenes (retrotransposed pseudogenes) result from the reverse transcription of mRNA into DNA, which is then inserted into the genome. These pseudogenes lack introns, often have small flanking direct repeats, and may retain a 3' polyadenine tail. PseudoPipe distinguishes them from duplicated pseudogenes by a combination of these features, with the emphasis on the evidence of ancient introns. Unprocessed pseudogenes (duplicated pseudogenes) arise from genomic DNA duplication or unequal crossing-over. They often retain the original exon-intron structures of the functional genes, although sometimes incompletely. Pseudogene Parents track Each parent gene is shown with associated pseudogenes represented as grey blocks. These blocks do not reflect actual pseudogene locations but rather indicate the count of pseudogenes linked to the gene. purple - parent gene grey - pseudogene indicators If a parent gene has four grey blocks beneath it, this indicates the presence of four pseudogenes elsewhere in the genome. Hovering over an item displays the gene type, ID (Ensembl transcript ID or PseudoPipe transcript ID), and the genome position of the gene or pseudogene, with a link to that genomic region. Pseudogenes track Pseudogenes are colored by type. orange - unspecified pseudogene blue - unprocessed pseudogene olive green - processed pseudogene Hovering over a pseudogene item shows the pseudogene type, parent HUGO gene symbol, and the Ensembl parent transcript ID, which links to the genome position of the parent gene. Methods The PseudoPipe pipeline identifies pseudogenes through a series of steps. It first uses BLAST to rapidly cross-reference potential parent proteins against the intergenic regions of the genome. The resulting raw hits are then processed by removing redundancies, clustering neighboring sequences, and aligning each cluster with a unique parent gene. Finally, pseudogenes are classified based on a combination of criteria, including homology, intron-exon structure, and the presence of stop codons or frameshifts. This method is designed to detect pseudogenes that are unable to be translated into proteins. These tracks were generated using a Bash script that processes a GTF file with pseudogene annotations by removing duplicates, correcting overlapping exons, and converting the data to BED format with pseudoPipeToBed.py. This script extracts gene and transcript IDs, merges overlapping exons, assigns colors based on pseudogene type, and outputs a BED file with gene and parent annotations. PseudoPipeParents.py then links pseudogenes to their functional genes by determining parent gene coordinates, updating pseudogene entries with interactive browser links and generating a parent BED file. The final data are formatted into pseudoPipePgenes.bb and pseudoPipeParents.bb BigBed files. The detailed documentation (makeDoc) and Python scripts are available in our GitHub repository. Data Access The raw data can be explored interactively with the Table Browser or the Data Integrator. The data may also be explored interactively using our REST API. For automated download and analysis, the genome annotation is stored at UCSC in bigBed files that can be downloaded from the download server. Individual regions or the whole genome annotation can be obtained using our tool bigBedToBed which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tool can also be used to obtain only features within a given range, e.g. bigBedToBed http://hgdownload.soe.ucsc.edu/gbdb/hg38/hg38/pseudogenes/pseudoPipePgenes.bb -chrom=chr21 -start=0 -end=10000000 stdout Credits Thanks to the Gerstein lab at Yale University for making this data available, and to Cristina Sisu for providing data in GTF format with parent annotations. References Zhang Z, Carriero N, Zheng D, Karro J, Harrison PM, Gerstein M. PseudoPipe: an automated pseudogene identification pipeline. Bioinformatics. 2006 Jun 15;22(12):1437-9. PMID: 16574694 
yale_pseudogenes Pseudogenes Yale Pseudogenes Genes and Gene Predictions Description These tracks contain pseudogene predictions and their parents as identified by PseudoPipe. PseudoPipe is a homology-based computational pipeline that can search a mammalian genome and identify pseudogene sequences comprehensively and consistently. Pseudogenes are genomic sequences that bear similarity to specific protein-coding genes, but are unable to produce functional proteins due to the existence of frameshifts, premature stop codons, or other deleterious mutations. They arise from gene duplication or retrotransposition events and are important resources in understanding the evolutionary history of genes and genomes. Display Conventions This composite track consists of two subtracks: the Pseudogenes track and the Pseudogene Parents track. The Pseudogene Parents track displays parent genes and pseudogenes labeled with their HUGO IDs, which were derived from Ensembl gene IDs provided by the Gerstein lab after dataset creation. It includes indicators for pseudogenes. These indicators do not show pseudogene locations directly but instead indicate how many pseudogenes are associated with each gene and link to their genomic regions in the Pseudogenes track. The Pseudogenes track shows pseudogenes labeled with their parent HUGO ID and colored according to pseudogene type. The authors assigned PGOHUMG IDs to genes and PGOHUMT IDs to transcripts. Note: Not all PseudoPipe IDs could be mapped back to their original Ensembl IDs. In these cases, the gene ID is listed as NA. Pseudogene types: Unspecified pseudogenes include pseudogenic fragments and protein/chromosome homologies with high sequence similarity but are too decayed to be reliably classified as processed or duplicated. Processed pseudogenes (retrotransposed pseudogenes) result from the reverse transcription of mRNA into DNA, which is then inserted into the genome. These pseudogenes lack introns, often have small flanking direct repeats, and may retain a 3' polyadenine tail. PseudoPipe distinguishes them from duplicated pseudogenes by a combination of these features, with the emphasis on the evidence of ancient introns. Unprocessed pseudogenes (duplicated pseudogenes) arise from genomic DNA duplication or unequal crossing-over. They often retain the original exon-intron structures of the functional genes, although sometimes incompletely. Pseudogene Parents track Each parent gene is shown with associated pseudogenes represented as grey blocks. These blocks do not reflect actual pseudogene locations but rather indicate the count of pseudogenes linked to the gene. purple - parent gene grey - pseudogene indicators If a parent gene has four grey blocks beneath it, this indicates the presence of four pseudogenes elsewhere in the genome. Hovering over an item displays the gene type, ID (Ensembl transcript ID or PseudoPipe transcript ID), and the genome position of the gene or pseudogene, with a link to that genomic region. Pseudogenes track Pseudogenes are colored by type. orange - unspecified pseudogene blue - unprocessed pseudogene olive green - processed pseudogene Hovering over a pseudogene item shows the pseudogene type, parent HUGO gene symbol, and the Ensembl parent transcript ID, which links to the genome position of the parent gene. Methods The PseudoPipe pipeline identifies pseudogenes through a series of steps. It first uses BLAST to rapidly cross-reference potential parent proteins against the intergenic regions of the genome. The resulting raw hits are then processed by removing redundancies, clustering neighboring sequences, and aligning each cluster with a unique parent gene. Finally, pseudogenes are classified based on a combination of criteria, including homology, intron-exon structure, and the presence of stop codons or frameshifts. This method is designed to detect pseudogenes that are unable to be translated into proteins. These tracks were generated using a Bash script that processes a GTF file with pseudogene annotations by removing duplicates, correcting overlapping exons, and converting the data to BED format with pseudoPipeToBed.py. This script extracts gene and transcript IDs, merges overlapping exons, assigns colors based on pseudogene type, and outputs a BED file with gene and parent annotations. PseudoPipeParents.py then links pseudogenes to their functional genes by determining parent gene coordinates, updating pseudogene entries with interactive browser links and generating a parent BED file. The final data are formatted into pseudoPipePgenes.bb and pseudoPipeParents.bb BigBed files. The detailed documentation (makeDoc) and Python scripts are available in our GitHub repository. Data Access The raw data can be explored interactively with the Table Browser or the Data Integrator. The data may also be explored interactively using our REST API. For automated download and analysis, the genome annotation is stored at UCSC in bigBed files that can be downloaded from the download server. Individual regions or the whole genome annotation can be obtained using our tool bigBedToBed which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tool can also be used to obtain only features within a given range, e.g. bigBedToBed http://hgdownload.soe.ucsc.edu/gbdb/hg38/hg38/pseudogenes/pseudoPipePgenes.bb -chrom=chr21 -start=0 -end=10000000 stdout Credits Thanks to the Gerstein lab at Yale University for making this data available, and to Cristina Sisu for providing data in GTF format with parent annotations. References Zhang Z, Carriero N, Zheng D, Karro J, Harrison PM, Gerstein M. PseudoPipe: an automated pseudogene identification pipeline. Bioinformatics. 2006 Jun 15;22(12):1437-9. PMID: 16574694 
yale_parents Pseudogene Parents Yale Pseudogene Parents Genes and Gene Predictions Description These tracks contain pseudogene predictions and their parents as identified by PseudoPipe. PseudoPipe is a homology-based computational pipeline that can search a mammalian genome and identify pseudogene sequences comprehensively and consistently. Pseudogenes are genomic sequences that bear similarity to specific protein-coding genes, but are unable to produce functional proteins due to the existence of frameshifts, premature stop codons, or other deleterious mutations. They arise from gene duplication or retrotransposition events and are important resources in understanding the evolutionary history of genes and genomes. Display Conventions This composite track consists of two subtracks: the Pseudogenes track and the Pseudogene Parents track. The Pseudogene Parents track displays parent genes and pseudogenes labeled with their HUGO IDs, which were derived from Ensembl gene IDs provided by the Gerstein lab after dataset creation. It includes indicators for pseudogenes. These indicators do not show pseudogene locations directly but instead indicate how many pseudogenes are associated with each gene and link to their genomic regions in the Pseudogenes track. The Pseudogenes track shows pseudogenes labeled with their parent HUGO ID and colored according to pseudogene type. The authors assigned PGOHUMG IDs to genes and PGOHUMT IDs to transcripts. Note: Not all PseudoPipe IDs could be mapped back to their original Ensembl IDs. In these cases, the gene ID is listed as NA. Pseudogene types: Unspecified pseudogenes include pseudogenic fragments and protein/chromosome homologies with high sequence similarity but are too decayed to be reliably classified as processed or duplicated. Processed pseudogenes (retrotransposed pseudogenes) result from the reverse transcription of mRNA into DNA, which is then inserted into the genome. These pseudogenes lack introns, often have small flanking direct repeats, and may retain a 3' polyadenine tail. PseudoPipe distinguishes them from duplicated pseudogenes by a combination of these features, with the emphasis on the evidence of ancient introns. Unprocessed pseudogenes (duplicated pseudogenes) arise from genomic DNA duplication or unequal crossing-over. They often retain the original exon-intron structures of the functional genes, although sometimes incompletely. Pseudogene Parents track Each parent gene is shown with associated pseudogenes represented as grey blocks. These blocks do not reflect actual pseudogene locations but rather indicate the count of pseudogenes linked to the gene. purple - parent gene grey - pseudogene indicators If a parent gene has four grey blocks beneath it, this indicates the presence of four pseudogenes elsewhere in the genome. Hovering over an item displays the gene type, ID (Ensembl transcript ID or PseudoPipe transcript ID), and the genome position of the gene or pseudogene, with a link to that genomic region. Pseudogenes track Pseudogenes are colored by type. orange - unspecified pseudogene blue - unprocessed pseudogene olive green - processed pseudogene Hovering over a pseudogene item shows the pseudogene type, parent HUGO gene symbol, and the Ensembl parent transcript ID, which links to the genome position of the parent gene. Methods The PseudoPipe pipeline identifies pseudogenes through a series of steps. It first uses BLAST to rapidly cross-reference potential parent proteins against the intergenic regions of the genome. The resulting raw hits are then processed by removing redundancies, clustering neighboring sequences, and aligning each cluster with a unique parent gene. Finally, pseudogenes are classified based on a combination of criteria, including homology, intron-exon structure, and the presence of stop codons or frameshifts. This method is designed to detect pseudogenes that are unable to be translated into proteins. These tracks were generated using a Bash script that processes a GTF file with pseudogene annotations by removing duplicates, correcting overlapping exons, and converting the data to BED format with pseudoPipeToBed.py. This script extracts gene and transcript IDs, merges overlapping exons, assigns colors based on pseudogene type, and outputs a BED file with gene and parent annotations. PseudoPipeParents.py then links pseudogenes to their functional genes by determining parent gene coordinates, updating pseudogene entries with interactive browser links and generating a parent BED file. The final data are formatted into pseudoPipePgenes.bb and pseudoPipeParents.bb BigBed files. The detailed documentation (makeDoc) and Python scripts are available in our GitHub repository. Data Access The raw data can be explored interactively with the Table Browser or the Data Integrator. The data may also be explored interactively using our REST API. For automated download and analysis, the genome annotation is stored at UCSC in bigBed files that can be downloaded from the download server. Individual regions or the whole genome annotation can be obtained using our tool bigBedToBed which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tool can also be used to obtain only features within a given range, e.g. bigBedToBed http://hgdownload.soe.ucsc.edu/gbdb/hg38/hg38/pseudogenes/pseudoPipePgenes.bb -chrom=chr21 -start=0 -end=10000000 stdout Credits Thanks to the Gerstein lab at Yale University for making this data available, and to Cristina Sisu for providing data in GTF format with parent annotations. References Zhang Z, Carriero N, Zheng D, Karro J, Harrison PM, Gerstein M. PseudoPipe: an automated pseudogene identification pipeline. Bioinformatics. 2006 Jun 15;22(12):1437-9. PMID: 16574694 
pubtator PubTator Variants dbSNP variants and other genetic variants grounded to dbSNP by tmVar; collected by PubTator3 Phenotypes, Variants, and Literature Description The tracks that are listed here contain genetic variants and links to scientific publications that mention them. The Mastermind track was created by Genomenon, a company that analyzes fulltext of publications with their own proprietary software with an unknown false positive rate. The VarChat track was created by enGenome and links to its proprietary software, VarChat, with an unknown false positive rate. The AVADA track was created in the Bejerano lab at Stanford by J. Birgmeier also on fulltext papers, using sophisticated machine learning methods and was evaluated to have a false positive rate of around 50% in their study. The PubTator rsIDs track was created using PubTator 3 data. The Varaico tracks were created using literature mining in a fashion similar to AVADA. Coloring is a gradient between blue and red, and represent the number of publications per variant. See the Varaico website for more details. For additional information please click on the hyperlink of the respective track above. Display conventions By default, each variant is labeled with the nucleotide change. Hover over the feature to see more information, explained on the track details page of the particular track or when clicking onto the feature. Credits For data provenance, access and descriptions, please click the documentation via the link above. 
hprcArrV1 Rearrangements Rearrangements including indels, inversions, and duplications Human Pangenome - HPRC Description This track shows various rearrangements in the HPRC assemblies with respect to hg38. The types include indels, duplications, inversions, and other more complicated rearrangements. There are five tracks in the Rearrangement composite track: Insertions in hg38 with respect to the HPRC genomes Deletions in hg38 with respect to the HPRC genomes Inversion in hg38 with respect to the HPRC genomes Duplications in the HPRC genomes with respect to hg38 Other Rearrangements: Unalignable sequences in both genomes (inversions, partial transpositions) Display Conventions All items are labeled by the number of HPRC assemblies that have the rearrangement. The indel tracks have one or two additional fields that specify how large the indel is in base pairs. For the Insertions and Deletions track there's only one number with "bp" after it. For insertions, it is the size of the insertion in hg38. For deletions, it is the size of the sequence deleted in hg38. For the Other Rearrangements track, there are two numbers given: the number of unaligned bases in hg38 and the number of unaligned bases in the HPRC assemblies. Methods All these tracks are built from the HPRC chains and nets. The actual instructions used to create these tracks are in the files hprcRearrange.txt and hprcInDel.txt. The first step for all the tracks is to find the orthologous sequences in each HPRC assembly for each chromosome in hg38. These sequences are called the query sequences. For each query sequence, we select the longest chain to the hg38 sequence. This is called the orthologous chain. Following are the specific methods for each track. Insertions, Deletions, and Others In each orthologous chain we look for any gaps in either the reference or the query sequence. There are two basic types of gaps. One type is when the gap contains no bases in one of the two sequences, but one or more unaligned bases in the other. These indicate a standard insertion in one sequence or a deletion in the other. There are also gaps where there are unaligned bases in both sequences. These may be alignment errors or sites where more than one rearrangement occurred between the two sequences. This type of gap is in the "Other Rearrangements" track. This gap identification is done for each of the HPRC assemblies resulting in a set of indels that are clustered based on exact boundaries of the gap in both sequences. This kind of clustering often results in indels that "pile up" with a different number of inserted or deleted bases. Inversions and Duplications For each orthologous chain, we look for any other chain between the same query sequence and the sequence in hg38 that overlaps the orthologous chain. Each of those overlaps is determined to be either an inversion or a local duplication in the HPRC genome by the chainArrange utility. This is done for each of the HPRC assemblies resulting in a set of inversion/duplications that are then clustered over all the assemblies. The clustering is by simple overlap such that no cluster overlaps any other and is done by the chainArrangeCollect utility. References Wen-Wei Liao, Mobin Asri, Jana Ebler, ...et al, Heng Lin, Benedict Paten A draft human pangenome reference. Nature. 2023 May;617(7960):312-324. PMID: 37165242; PMC: PMC1017212; DOI: 10.1038/s41586-023-05896-x Glenn Hickey, Jean Monlong, Jana Ebler, Adam M Novak, Jordan M Eizenga, Yan Gao; Human Pangenome Reference Consortium; Tobias Marschall, Heng Li, Benedict Paten Pangenome graph construction from genome alignments with Minigraph-Cactus. Nature Biotechnology. 2023 May 10. doi: 10.1038/s41587-023-01793-w. PMID: 37165083; DOI: 10.1038/s41587-023-01793-w Armstrong J, Hickey G, Diekhans M, Fiddes IT, Novak AM, Deran A, Fang Q, Xie D, Feng S, Stiller J et al. Progressive Cactus is a multiple-genome aligner for the thousand-genome era. Nature. 2020 Nov;587(7833):246-251. PMID: 33177663; PMC: PMC7673649; DOI: 10.1038/s41586-020-2871-y Paten B, Earl D, Nguyen N, Diekhans M, Zerbino D, Haussler D. Cactus: Algorithms for genome multiple sequence alignment. Genome Res. 2011 Sep;21(9):1512-28. PMID: 21665927; PMC: PMC3166836; DOI: 10.1101/gr.123356.111 
hprcDoubleV1 Other Rearrangements Other Rearrangements: Unalignable sequences in both assemblies (inversions, partial transpositions) Human Pangenome - HPRC 
hprcArrDupBedV1 Duplications Duplications with respect to hg38 in HPRC assemblies Human Pangenome - HPRC 
hprcArrInvBedV1 Inversions Inversions with respect to hg38 in HPRC assemblies Human Pangenome - HPRC 
hprcDeletionsV1 Deletions Insertions in hg38 = Deletion in the HPRC assemblies Human Pangenome - HPRC 
hprcInsertsV1 Insertions Deletions in hg38 = Insertion in the HPRC assemblies Human Pangenome - HPRC 
recount3 recount3 recount3 introns RNA and Transcriptome Description Recount3 is a comprehensive resource for re-analyzing RNA-seq data. It provides uniformly processed RNA-seq data and associated metadata from a wide range of studies, enabling researchers to access and analyze gene expression data in a consistent manner. Recount3 aggregates data from multiple sources, including the Sequence Read Archive (SRA) and the Genotype-Tissue Expression (GTEx) project, and reprocesses it using a standardized pipeline. This allows for cross-study comparisons and meta-analyses, facilitating discoveries in genomics and transcriptomics. Processed recount3 data were integrated into the Snaptron system for indexing and querying data summaries. Recount3 is available at: http://rna.recount.bio. These tracks display the recount3 intron data, including split read counts and splice junction motifs. For hg38, tracks are available for GTEx, TCGA, SRA, and CCLE data sources, while mm10 includes the SRA track only. Display Conventions Intron items are colored based on splice junction motifs and read support. Darker colors indicate higher read coverage. Split read counts and splice motifs are shown on mouseover. By default, only introns with a minimum read count of 10,000 are shown. This threshold can be changed on the track configuration page. The intron items are color-coded (darker colors indicate higher coverage): Sky blue: GT donors and AG acceptors (CT and AC on the minus strand) Turquoise: GC donors and AG acceptors (CT and GC on the minus strand) Orange: AT donors and AC acceptors (GT and AT on the minus strand) Grey: Non-canonical junction motifs. These could be sequencing errors, polymorphisms, or very rare U12 introns. Introns can be filtered by: Intron size - Length of the intron. The default range is 30 to 100,000 bases. Split read count - Number of split reads supporting the intron. The default is a minimum of 10,000 reads. Splice junction motif - The motif is specified in the form GT/AG, with canonical motifs in uppercase and unknown motifs in lowercase. The default is no filtering. Strand - Filter by positive strand (&apos;+&apos;), negative strand (&apos;-&apos;), and/or unknown strand (&apos;.&apos;). The default is no strand filtering (&apos;all&apos;). Methods A distributed processing system for RNA-seq data called Monorail was developed. Using Monorail, recount3 processed and summarized 316,443 human and 416,803 mouse RNA-seq run accessions collected from the Sequence Read Archive (SRA), with the human runs including large-scale consortia such as GTEx v8 and The Cancer Genome Atlas (TCGA). Junction files were converted to BED format. For grayscaling total read count was log10 transformed and multiplied by 10 to get a score between 0 and 225, which can be found in the BED score field. Data Access The raw data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions or our Data Access FAQ for more information. The original junction files for human can be found at: https://snaptron.cs.jhu.edu/data/gtexv2/junctions.bgz https://snaptron.cs.jhu.edu/data/tcgav2/junctions.bgz https://snaptron.cs.jhu.edu/data/srav3h/junctions.bgz https://snaptron.cs.jhu.edu/data/ccle/junctions.bgz The mouse junction file is available at: https://snaptron.cs.jhu.edu/data/srav1m/junctions.bgz References Wilks C, Zheng SC, Chen FY, Charles R, Solomon B, Ling JP, Imada EL, Zhang D, Joseph L, Leek JT et al. recount3: summaries and queries for large-scale RNA-seq expression and splicing. Genome Biol. 2021 Nov 29;22(1):323. PMID: 34844637; PMC: PMC8628444 
recount3_ccle CCLE recount3 CCLE introns RNA and Transcriptome 
recount3_srav3h SRA recount3 SRA introns RNA and Transcriptome 
recount3_tcga TCGA recount3 TCGA introns RNA and Transcriptome 
recount3_gtex GTEx recount3 GTEx introns RNA and Transcriptome 
rectumWangCellType Rectum Cells Rectum cells binned by cell type from Wang et al 2020 Single Cell RNA-seq Description This track shows data from Single-cell transcriptome analysis reveals differential nutrient absorption functions in human intestine. Droplet-based single-cell RNA sequencing (scRNA-seq) was used to survey gene expression profiles of the epithelium in the human ileum, colon, and rectum. A total of 7 cell clusters were identified: enterocytes (EC), goblet cells (G), paneth-like cells (PLC), enteroendocrine cells (EEC), progenitor cells (PRO), transient-amplifying cells (TA) and stem cells (SC). This track collection contains two bar chart tracks of RNA expression in rectum cells where cells are grouped by cell type (Rectum Cells) or donor (Rectum Donor). The default track displayed is Rectum Cells. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification epithelial secretory stem cell Cells that fall into multiple classes will be colored by blending the colors associated with those classes. Note that the Rectum Donor track is colored by donor for improved clarity. Method Using scRNA-seq, RNA profiles of intestinal epithelial cells were obtained for 3,898 cells from two human rectum samples. Tissue samples belonged to two female donors diagnosed with Adenocarcinoma age 66 (Rectum-1) and age 50 (Rectum-2). The healthy intestinal mucous membranes used for each sample were cut away from the tumor border in surgically removed rectal tissue. Additionally, the intestinal tissues were washed in Hank's balanced salt solution (HBSS) to remove mucus, blood cells, and muscle tissue. The sample was enriched for epithelial cells through centrifugation before being dissociated with Tryple to obtain single-cell suspensions. RNA-seq libraries were prepared using 10x Genomics 3' v2 kit and sequenced on an Illumina Hiseq X Ten PE150. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Yalong Wang, Wanlu Song, and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Luis Nassar. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Wang Y, Song W, Wang J, Wang T, Xiong X, Qi Z, Fu W, Yang X, Chen YG. Single-cell transcriptome analysis reveals differential nutrient absorption functions in human intestine. J Exp Med. 2020 Feb 3;217(2). PMID: 31753849; PMC: PMC7041720 
rectumWang Rectum Wang Rectum single cell sequencing from Wang et al 2020 Single Cell RNA-seq Description This track shows data from Single-cell transcriptome analysis reveals differential nutrient absorption functions in human intestine. Droplet-based single-cell RNA sequencing (scRNA-seq) was used to survey gene expression profiles of the epithelium in the human ileum, colon, and rectum. A total of 7 cell clusters were identified: enterocytes (EC), goblet cells (G), paneth-like cells (PLC), enteroendocrine cells (EEC), progenitor cells (PRO), transient-amplifying cells (TA) and stem cells (SC). This track collection contains two bar chart tracks of RNA expression in rectum cells where cells are grouped by cell type (Rectum Cells) or donor (Rectum Donor). The default track displayed is Rectum Cells. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification epithelial secretory stem cell Cells that fall into multiple classes will be colored by blending the colors associated with those classes. Note that the Rectum Donor track is colored by donor for improved clarity. Method Using scRNA-seq, RNA profiles of intestinal epithelial cells were obtained for 3,898 cells from two human rectum samples. Tissue samples belonged to two female donors diagnosed with Adenocarcinoma age 66 (Rectum-1) and age 50 (Rectum-2). The healthy intestinal mucous membranes used for each sample were cut away from the tumor border in surgically removed rectal tissue. Additionally, the intestinal tissues were washed in Hank's balanced salt solution (HBSS) to remove mucus, blood cells, and muscle tissue. The sample was enriched for epithelial cells through centrifugation before being dissociated with Tryple to obtain single-cell suspensions. RNA-seq libraries were prepared using 10x Genomics 3' v2 kit and sequenced on an Illumina Hiseq X Ten PE150. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Yalong Wang, Wanlu Song, and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Luis Nassar. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Wang Y, Song W, Wang J, Wang T, Xiong X, Qi Z, Fu W, Yang X, Chen YG. Single-cell transcriptome analysis reveals differential nutrient absorption functions in human intestine. J Exp Med. 2020 Feb 3;217(2). PMID: 31753849; PMC: PMC7041720 
rectumWangDonor Rectum Donor Rectum cells binned by organ donor from Wang et al 2020 Single Cell RNA-seq Description This track shows data from Single-cell transcriptome analysis reveals differential nutrient absorption functions in human intestine. Droplet-based single-cell RNA sequencing (scRNA-seq) was used to survey gene expression profiles of the epithelium in the human ileum, colon, and rectum. A total of 7 cell clusters were identified: enterocytes (EC), goblet cells (G), paneth-like cells (PLC), enteroendocrine cells (EEC), progenitor cells (PRO), transient-amplifying cells (TA) and stem cells (SC). This track collection contains two bar chart tracks of RNA expression in rectum cells where cells are grouped by cell type (Rectum Cells) or donor (Rectum Donor). The default track displayed is Rectum Cells. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification epithelial secretory stem cell Cells that fall into multiple classes will be colored by blending the colors associated with those classes. Note that the Rectum Donor track is colored by donor for improved clarity. Method Using scRNA-seq, RNA profiles of intestinal epithelial cells were obtained for 3,898 cells from two human rectum samples. Tissue samples belonged to two female donors diagnosed with Adenocarcinoma age 66 (Rectum-1) and age 50 (Rectum-2). The healthy intestinal mucous membranes used for each sample were cut away from the tumor border in surgically removed rectal tissue. Additionally, the intestinal tissues were washed in Hank's balanced salt solution (HBSS) to remove mucus, blood cells, and muscle tissue. The sample was enriched for epithelial cells through centrifugation before being dissociated with Tryple to obtain single-cell suspensions. RNA-seq libraries were prepared using 10x Genomics 3' v2 kit and sequenced on an Illumina Hiseq X Ten PE150. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Yalong Wang, Wanlu Song, and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Luis Nassar. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Wang Y, Song W, Wang J, Wang T, Xiong X, Qi Z, Fu W, Yang X, Chen YG. Single-cell transcriptome analysis reveals differential nutrient absorption functions in human intestine. J Exp Med. 2020 Feb 3;217(2). PMID: 31753849; PMC: PMC7041720 
ucscToRefSeq RefSeq Acc RefSeq Accession Mapping and Sequencing Description This track associates UCSC Genome Browser chromosome names to accession identifiers from the NCBI Reference Sequence Database (RefSeq). The data were downloaded from the NCBI assembly database. Credits The data for this track was prepared by Hiram Clawson. 
refSeqFuncElems RefSeq Func Elems NCBI RefSeq Functional Elements Regulation Description NCBI recently announced a new release of functional regulatory elements. NCBI is now providing RefSeq and Gene records for non-genic functional elements that have been described in the literature and are experimentally validated. Elements in scope include experimentally-verified gene regulatory regions (e.g., enhancers, silencers, locus control regions), known structural elements (e.g., insulators, DNase I hypersensitive sites, matrix/scaffold-associated regions), well-characterized DNA replication origins, and clinically-significant sites of DNA recombination and genomic instability. Priority is given to genomic regions that are implicated in human disease or are otherwise of significant interest to the research community. Currently, the scope of this project is restricted to human and mouse. The current scope does not include functional elements predicted from large-scale epigenomic mapping studies, nor elements based on disease-associated variation. Display Conventions and Configuration Functional elements are colored by Sequence Ontology (SO) term using the same scheme as NCBI's Genome Data Viewer: Regulatory elements (items labeled by INSDC regulatory class) Protein binding sites (items labeled by bound moiety) Mobile elements Recombination features Sequence features Other Methods NCBI manually curated features in accordance with International Nucleotide Sequence Database Collaboration (INSDC) standards. Features that are supported by direct experimental evidence include at least one experiment qualifier with an evidence code (ECO ID) from the Evidence and Conclusion Ontology, and at least one citation from PubMed. Currently 971 distinct PubMed citations are included in this track. Contact This track was made with assistance from Terence Murphy at NCBI. Data access The raw data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API, and the genome annotations are stored in files that can be downloaded from our download server, with more information available on our blog. New Version Available Several new enhancements to the RefSeq Functional Elements dataset are available as a Public Hub. The hub can be found on the Public Hub page. The track hub was prepared by Dr. Catherine M. Farrell, NCBI/NLM/NIH with further insights discussed in a related NCBI blog post. References Pruitt KD, Brown GR, Hiatt SM, Thibaud-Nissen F, Astashyn A, Ermolaeva O, Farrell CM, Hart J, Landrum MJ, McGarvey KM et al. RefSeq: an update on mammalian reference sequences. Nucleic Acids Res. 2014 Jan;42(Database issue):D756-63. PMID: 24259432; PMC: PMC3965018 Pruitt KD, Tatusova T, Maglott DR. NCBI Reference Sequence (RefSeq): a curated non-redundant sequence database of genomes, transcripts and proteins. Nucleic Acids Res. 2005 Jan 1;33(Database issue):D501-4. PMID: 15608248; PMC: PMC539979 
ReMap ReMap ChIP-seq ReMap Atlas of Regulatory Regions Regulation Description This track represents the ReMap Atlas of regulatory regions, which consists of a large-scale integrative analysis of all Public ChIP-seq data for transcriptional regulators from GEO, ArrayExpress, and ENCODE. Below is a schematic diagram of the types of regulatory regions: ReMap 2022 Atlas (all peaks for each analyzed data set) ReMap 2022 Non-redundant peaks (merged similar target) ReMap 2022 Cis Regulatory Modules Display Conventions and Configuration Each transcription factor follows a specific RGB color. ChIP-seq peak summits are represented by vertical bars. Hsap: A data set is defined as a ChIP/Exo-seq experiment in a given GEO/ArrayExpress/ENCODE series (e.g. GSE41561), for a given TF (e.g. ESR1), in a particular biological condition (e.g. MCF-7). Data sets are labeled with the concatenation of these three pieces of information (e.g. GSE41561.ESR1.MCF-7). Atha: The data set is defined as a ChIP-seq experiment in a given series (e.g. GSE94486), for a given target (e.g. ARR1), in a particular biological condition (i.e. ecotype, tissue type, experimental conditions; e.g. Col-0_seedling_3d-6BA-4h). Data sets are labeled with the concatenation of these three pieces of information (e.g. GSE94486.ARR1.Col-0_seedling_3d-6BA-4h). Methods This 4th release of ReMap (2022) presents the analysis of a total of 8,103 quality controlled ChIP-seq (n=7,895) and ChIP-exo (n=208) data sets from public sources (GEO, ArrayExpress, ENCODE). The ChIP-seq/exo data sets have been mapped to the GRCh38/hg38 human assembly. The data set is defined as a ChIP-seq experiment in a given series (e.g. GSE46237), for a given TF (e.g. NR2C2), in a particular biological condition (i.e. cell line, tissue type, disease state, or experimental conditions; e.g. HELA). Data sets were labeled by concatenating these three pieces of information, such as GSE46237.NR2C2.HELA. Those merged analyses cover a total of 1,211 DNA-binding proteins (transcriptional regulators) such as a variety of transcription factors (TFs), transcription co-activators (TCFs), and chromatin-remodeling factors (CRFs) for 182 million peaks. GEO & ArrayExpress Public ChIP-seq data sets were extracted from Gene Expression Omnibus (GEO) and ArrayExpress (AE) databases. For GEO, the query &apos;(&apos;chip seq&apos; OR &apos;chipseq&apos; OR &apos;chip sequencing&apos;) AND &apos;Genome binding/occupancy profiling by high throughput sequencing&apos; AND &apos;homo sapiens&apos;[organism] AND NOT &apos;ENCODE&apos;[project]&apos; was used to return a list of all potential data sets to analyze, which were then manually assessed for further analyses. Data sets involving polymerases (i.e. Pol2 and Pol3), and some mutated or fused TFs (e.g. KAP1 N/C terminal mutation, GSE27929) were excluded. ENCODE Available ENCODE ChIP-seq data sets for transcriptional regulators from the ENCODE portal were processed with the standardized ReMap pipeline. The list of ENCODE data was retrieved as FASTQ files from the ENCODE portal using the following filters: Assay: &quot;ChIP-seq&quot; Organism: &quot;Homo sapiens&quot; Target of assay: &quot;transcription factor&quot; Available data: &quot;fastq&quot; on 2016 June 21st Metadata information in JSON format and FASTQ files were retrieved using the Python requests module. ChIP-seq processing Both Public and ENCODE data were processed similarly. Bowtie 2 (PMC3322381) (version 2.2.9) with options -end-to-end -sensitive was used to align all reads on the genome. Biological and technical replicates for each unique combination of GSE/TF/Cell type or Biological condition were used for peak calling. TFBS were identified using MACS2 peak-calling tool (PMC3120977) (version 2.1.1.2) in order to follow ENCODE ChIP-seq guidelines, with stringent thresholds (MACS2 default thresholds, p-value: 1e-5). An input data set was used when available. Quality assessment To assess the quality of public data sets, a score was computed based on the cross-correlation and the FRiP (fraction of reads in peaks) metrics developed by the ENCODE Consortium (https://genome.ucsc.edu/ENCODE/qualityMetrics.html). Two thresholds were defined for each of the two cross-correlation ratios (NSC, normalized strand coefficient: 1.05 and 1.10; RSC, relative strand coefficient: 0.8 and 1.0). Detailed descriptions of the ENCODE quality coefficients can be found at https://genome.ucsc.edu/ENCODE/qualityMetrics.html. The phantompeak tools suite was used (https://code.google.com/p/phantompeakqualtools/) to compute RSC and NSC. Please refer to the ReMap 2022, 2020, and 2018 publications for more details (citation below). This is a detailled view of the data increase in ReMap v2 with FOXA1 peaks at a specific location. --> Data Access ReMap Atlas of regulatory regions data can be explored interactively with the Table Browser and cross-referenced with the Data Integrator. For programmatic access, the track can be accessed using the Genome Browser&apos;s REST API. ReMap annotations can be downloaded from the Genome Browser's download server as a bigBed file. This compressed binary format can be remotely queried through command line utilities. Please note that some of the download files can be quite large. Individual BED files for specific TFs, cells/biotypes, or data sets can be found and downloaded on the ReMap website. References Ch&#232;neby J, Gheorghe M, Artufel M, Mathelier A, Ballester B. ReMap 2018: an updated atlas of regulatory regions from an integrative analysis of DNA-binding ChIP- seq experiments. Nucleic Acids Res. 2018 Jan 4;46(D1):D267-D275. PMID: 29126285; PMC: PMC5753247 Ch&#232;neby J, M&#233;n&#233;trier Z, Mestdagh M, Rosnet T, Douida A, Rhalloussi W, Bergon A, Lopez F, Ballester B. ReMap 2020: a database of regulatory regions from an integrative analysis of Human and Arabidopsis DNA-binding sequencing experiments. Nucleic Acids Res. 2020 Jan 8;48(D1):D180-D188. PMID: 31665499; PMC: PMC7145625 Griffon A, Barbier Q, Dalino J, van Helden J, Spicuglia S, Ballester B. Integrative analysis of public ChIP-seq experiments reveals a complex multi-cell regulatory landscape. Nucleic Acids Res. 2015 Feb 27;43(4):e27. PMID: 25477382; PMC: PMC4344487 Hammal F, de Langen P, Bergon A, Lopez F, Ballester B. ReMap 2022: a database of Human, Mouse, Drosophila and Arabidopsis regulatory regions from an integrative analysis of DNA-binding sequencing experiments. Nucleic Acids Res. 2022 Jan 7;50(D1):D316-D325. PMID: 34751401; PMC: PMC8728178 
ReMapTFs ReMap ChIP-seq ReMap Atlas of Regulatory Regions Regulation Description This track represents the ReMap Atlas of regulatory regions, which consists of a large-scale integrative analysis of all Public ChIP-seq data for transcriptional regulators from GEO, ArrayExpress, and ENCODE. Below is a schematic diagram of the types of regulatory regions: ReMap 2022 Atlas (all peaks for each analyzed data set) ReMap 2022 Non-redundant peaks (merged similar target) ReMap 2022 Cis Regulatory Modules Display Conventions and Configuration Each transcription factor follows a specific RGB color. ChIP-seq peak summits are represented by vertical bars. Hsap: A data set is defined as a ChIP/Exo-seq experiment in a given GEO/ArrayExpress/ENCODE series (e.g. GSE41561), for a given TF (e.g. ESR1), in a particular biological condition (e.g. MCF-7). Data sets are labeled with the concatenation of these three pieces of information (e.g. GSE41561.ESR1.MCF-7). Atha: The data set is defined as a ChIP-seq experiment in a given series (e.g. GSE94486), for a given target (e.g. ARR1), in a particular biological condition (i.e. ecotype, tissue type, experimental conditions; e.g. Col-0_seedling_3d-6BA-4h). Data sets are labeled with the concatenation of these three pieces of information (e.g. GSE94486.ARR1.Col-0_seedling_3d-6BA-4h). Methods This 4th release of ReMap (2022) presents the analysis of a total of 8,103 quality controlled ChIP-seq (n=7,895) and ChIP-exo (n=208) data sets from public sources (GEO, ArrayExpress, ENCODE). The ChIP-seq/exo data sets have been mapped to the GRCh38/hg38 human assembly. The data set is defined as a ChIP-seq experiment in a given series (e.g. GSE46237), for a given TF (e.g. NR2C2), in a particular biological condition (i.e. cell line, tissue type, disease state, or experimental conditions; e.g. HELA). Data sets were labeled by concatenating these three pieces of information, such as GSE46237.NR2C2.HELA. Those merged analyses cover a total of 1,211 DNA-binding proteins (transcriptional regulators) such as a variety of transcription factors (TFs), transcription co-activators (TCFs), and chromatin-remodeling factors (CRFs) for 182 million peaks. GEO & ArrayExpress Public ChIP-seq data sets were extracted from Gene Expression Omnibus (GEO) and ArrayExpress (AE) databases. For GEO, the query &apos;(&apos;chip seq&apos; OR &apos;chipseq&apos; OR &apos;chip sequencing&apos;) AND &apos;Genome binding/occupancy profiling by high throughput sequencing&apos; AND &apos;homo sapiens&apos;[organism] AND NOT &apos;ENCODE&apos;[project]&apos; was used to return a list of all potential data sets to analyze, which were then manually assessed for further analyses. Data sets involving polymerases (i.e. Pol2 and Pol3), and some mutated or fused TFs (e.g. KAP1 N/C terminal mutation, GSE27929) were excluded. ENCODE Available ENCODE ChIP-seq data sets for transcriptional regulators from the ENCODE portal were processed with the standardized ReMap pipeline. The list of ENCODE data was retrieved as FASTQ files from the ENCODE portal using the following filters: Assay: &quot;ChIP-seq&quot; Organism: &quot;Homo sapiens&quot; Target of assay: &quot;transcription factor&quot; Available data: &quot;fastq&quot; on 2016 June 21st Metadata information in JSON format and FASTQ files were retrieved using the Python requests module. ChIP-seq processing Both Public and ENCODE data were processed similarly. Bowtie 2 (PMC3322381) (version 2.2.9) with options -end-to-end -sensitive was used to align all reads on the genome. Biological and technical replicates for each unique combination of GSE/TF/Cell type or Biological condition were used for peak calling. TFBS were identified using MACS2 peak-calling tool (PMC3120977) (version 2.1.1.2) in order to follow ENCODE ChIP-seq guidelines, with stringent thresholds (MACS2 default thresholds, p-value: 1e-5). An input data set was used when available. Quality assessment To assess the quality of public data sets, a score was computed based on the cross-correlation and the FRiP (fraction of reads in peaks) metrics developed by the ENCODE Consortium (https://genome.ucsc.edu/ENCODE/qualityMetrics.html). Two thresholds were defined for each of the two cross-correlation ratios (NSC, normalized strand coefficient: 1.05 and 1.10; RSC, relative strand coefficient: 0.8 and 1.0). Detailed descriptions of the ENCODE quality coefficients can be found at https://genome.ucsc.edu/ENCODE/qualityMetrics.html. The phantompeak tools suite was used (https://code.google.com/p/phantompeakqualtools/) to compute RSC and NSC. Please refer to the ReMap 2022, 2020, and 2018 publications for more details (citation below). This is a detailled view of the data increase in ReMap v2 with FOXA1 peaks at a specific location. --> Data Access ReMap Atlas of regulatory regions data can be explored interactively with the Table Browser and cross-referenced with the Data Integrator. For programmatic access, the track can be accessed using the Genome Browser&apos;s REST API. ReMap annotations can be downloaded from the Genome Browser's download server as a bigBed file. This compressed binary format can be remotely queried through command line utilities. Please note that some of the download files can be quite large. Individual BED files for specific TFs, cells/biotypes, or data sets can be found and downloaded on the ReMap website. References Ch&#232;neby J, Gheorghe M, Artufel M, Mathelier A, Ballester B. ReMap 2018: an updated atlas of regulatory regions from an integrative analysis of DNA-binding ChIP- seq experiments. Nucleic Acids Res. 2018 Jan 4;46(D1):D267-D275. PMID: 29126285; PMC: PMC5753247 Ch&#232;neby J, M&#233;n&#233;trier Z, Mestdagh M, Rosnet T, Douida A, Rhalloussi W, Bergon A, Lopez F, Ballester B. ReMap 2020: a database of regulatory regions from an integrative analysis of Human and Arabidopsis DNA-binding sequencing experiments. Nucleic Acids Res. 2020 Jan 8;48(D1):D180-D188. PMID: 31665499; PMC: PMC7145625 Griffon A, Barbier Q, Dalino J, van Helden J, Spicuglia S, Ballester B. Integrative analysis of public ChIP-seq experiments reveals a complex multi-cell regulatory landscape. Nucleic Acids Res. 2015 Feb 27;43(4):e27. PMID: 25477382; PMC: PMC4344487 Hammal F, de Langen P, Bergon A, Lopez F, Ballester B. ReMap 2022: a database of Human, Mouse, Drosophila and Arabidopsis regulatory regions from an integrative analysis of DNA-binding sequencing experiments. Nucleic Acids Res. 2022 Jan 7;50(D1):D316-D325. PMID: 34751401; PMC: PMC8728178 
ReMapDensity ReMap density ReMap density Regulation Description This track represents the ReMap Atlas of regulatory regions, which consists of a large-scale integrative analysis of all Public ChIP-seq data for transcriptional regulators from GEO, ArrayExpress, and ENCODE. Below is a schematic diagram of the types of regulatory regions: ReMap 2022 Atlas (all peaks for each analyzed data set) ReMap 2022 Non-redundant peaks (merged similar target) ReMap 2022 Cis Regulatory Modules Display Conventions and Configuration Each transcription factor follows a specific RGB color. ChIP-seq peak summits are represented by vertical bars. Hsap: A data set is defined as a ChIP/Exo-seq experiment in a given GEO/ArrayExpress/ENCODE series (e.g. GSE41561), for a given TF (e.g. ESR1), in a particular biological condition (e.g. MCF-7). Data sets are labeled with the concatenation of these three pieces of information (e.g. GSE41561.ESR1.MCF-7). Atha: The data set is defined as a ChIP-seq experiment in a given series (e.g. GSE94486), for a given target (e.g. ARR1), in a particular biological condition (i.e. ecotype, tissue type, experimental conditions; e.g. Col-0_seedling_3d-6BA-4h). Data sets are labeled with the concatenation of these three pieces of information (e.g. GSE94486.ARR1.Col-0_seedling_3d-6BA-4h). Methods This 4th release of ReMap (2022) presents the analysis of a total of 8,103 quality controlled ChIP-seq (n=7,895) and ChIP-exo (n=208) data sets from public sources (GEO, ArrayExpress, ENCODE). The ChIP-seq/exo data sets have been mapped to the GRCh38/hg38 human assembly. The data set is defined as a ChIP-seq experiment in a given series (e.g. GSE46237), for a given TF (e.g. NR2C2), in a particular biological condition (i.e. cell line, tissue type, disease state, or experimental conditions; e.g. HELA). Data sets were labeled by concatenating these three pieces of information, such as GSE46237.NR2C2.HELA. Those merged analyses cover a total of 1,211 DNA-binding proteins (transcriptional regulators) such as a variety of transcription factors (TFs), transcription co-activators (TCFs), and chromatin-remodeling factors (CRFs) for 182 million peaks. GEO & ArrayExpress Public ChIP-seq data sets were extracted from Gene Expression Omnibus (GEO) and ArrayExpress (AE) databases. For GEO, the query &apos;(&apos;chip seq&apos; OR &apos;chipseq&apos; OR &apos;chip sequencing&apos;) AND &apos;Genome binding/occupancy profiling by high throughput sequencing&apos; AND &apos;homo sapiens&apos;[organism] AND NOT &apos;ENCODE&apos;[project]&apos; was used to return a list of all potential data sets to analyze, which were then manually assessed for further analyses. Data sets involving polymerases (i.e. Pol2 and Pol3), and some mutated or fused TFs (e.g. KAP1 N/C terminal mutation, GSE27929) were excluded. ENCODE Available ENCODE ChIP-seq data sets for transcriptional regulators from the ENCODE portal were processed with the standardized ReMap pipeline. The list of ENCODE data was retrieved as FASTQ files from the ENCODE portal using the following filters: Assay: &quot;ChIP-seq&quot; Organism: &quot;Homo sapiens&quot; Target of assay: &quot;transcription factor&quot; Available data: &quot;fastq&quot; on 2016 June 21st Metadata information in JSON format and FASTQ files were retrieved using the Python requests module. ChIP-seq processing Both Public and ENCODE data were processed similarly. Bowtie 2 (PMC3322381) (version 2.2.9) with options -end-to-end -sensitive was used to align all reads on the genome. Biological and technical replicates for each unique combination of GSE/TF/Cell type or Biological condition were used for peak calling. TFBS were identified using MACS2 peak-calling tool (PMC3120977) (version 2.1.1.2) in order to follow ENCODE ChIP-seq guidelines, with stringent thresholds (MACS2 default thresholds, p-value: 1e-5). An input data set was used when available. Quality assessment To assess the quality of public data sets, a score was computed based on the cross-correlation and the FRiP (fraction of reads in peaks) metrics developed by the ENCODE Consortium (https://genome.ucsc.edu/ENCODE/qualityMetrics.html). Two thresholds were defined for each of the two cross-correlation ratios (NSC, normalized strand coefficient: 1.05 and 1.10; RSC, relative strand coefficient: 0.8 and 1.0). Detailed descriptions of the ENCODE quality coefficients can be found at https://genome.ucsc.edu/ENCODE/qualityMetrics.html. The phantompeak tools suite was used (https://code.google.com/p/phantompeakqualtools/) to compute RSC and NSC. Please refer to the ReMap 2022, 2020, and 2018 publications for more details (citation below). This is a detailled view of the data increase in ReMap v2 with FOXA1 peaks at a specific location. --> Data Access ReMap Atlas of regulatory regions data can be explored interactively with the Table Browser and cross-referenced with the Data Integrator. For programmatic access, the track can be accessed using the Genome Browser&apos;s REST API. ReMap annotations can be downloaded from the Genome Browser's download server as a bigBed file. This compressed binary format can be remotely queried through command line utilities. Please note that some of the download files can be quite large. Individual BED files for specific TFs, cells/biotypes, or data sets can be found and downloaded on the ReMap website. References Ch&#232;neby J, Gheorghe M, Artufel M, Mathelier A, Ballester B. ReMap 2018: an updated atlas of regulatory regions from an integrative analysis of DNA-binding ChIP- seq experiments. Nucleic Acids Res. 2018 Jan 4;46(D1):D267-D275. PMID: 29126285; PMC: PMC5753247 Ch&#232;neby J, M&#233;n&#233;trier Z, Mestdagh M, Rosnet T, Douida A, Rhalloussi W, Bergon A, Lopez F, Ballester B. ReMap 2020: a database of regulatory regions from an integrative analysis of Human and Arabidopsis DNA-binding sequencing experiments. Nucleic Acids Res. 2020 Jan 8;48(D1):D180-D188. PMID: 31665499; PMC: PMC7145625 Griffon A, Barbier Q, Dalino J, van Helden J, Spicuglia S, Ballester B. Integrative analysis of public ChIP-seq experiments reveals a complex multi-cell regulatory landscape. Nucleic Acids Res. 2015 Feb 27;43(4):e27. PMID: 25477382; PMC: PMC4344487 Hammal F, de Langen P, Bergon A, Lopez F, Ballester B. ReMap 2022: a database of Human, Mouse, Drosophila and Arabidopsis regulatory regions from an integrative analysis of DNA-binding sequencing experiments. Nucleic Acids Res. 2022 Jan 7;50(D1):D316-D325. PMID: 34751401; PMC: PMC8728178 
ucscRetroAli9 RetroGenes V9 Retroposed Genes V9, Including Pseudogenes Genes and Gene Predictions Description Retrotransposition is a process involving the copying of DNA by a group of enzymes that have the ability to reverse transcribe spliced mRNAs, and the insertion of these processed mRNAs back into the genome resulting in single-exon copies of genes and sometime chimeric genes. Retrogenes are mostly non-functional pseudogenes but some are functional genes that have acquired a promoter from a neighboring gene, or transcribed pseudogenes, and some are anti-sense transcripts that may impede mRNA translation. Methods All mRNAs of a species from GenBank were aligned to the genome using lastz (Miller lab, Pennsylvania State University). mRNAs that aligned twice in the genome (once with introns and once without introns) were initially screened. Next, a series of features were scored to determine candidates for retrotransposition events. These features included position and length of the polyA tail, percent coverage of the retrogene alignment to the parent, degree of synteny with mouse, coverage of repetitive elements, number of exons that can still be aligned to the retrogene, number of putative introns removed at the retrogene locus and degree of divergence from the parent gene. Retrogenes were classified using a threshold score function that is a linear combination of this set of features. Retrogenes in the final set were selected using a score threshold based on a ROC plot against the Vega annotated pseudogenes. Retrogene Statistics table: Expression of Retrogene: The following values are possible where those that are not expressed are classed as pseudogene or mrna: pseudogene indicates that the parent gene has been annotated by one of NCBI's RefSeq, UCSC Genes or Mammalian Gene Collection (MGC). mrna indicates that the parent gene is a spliced mrna that has no annotation in NCBI's RefSeq, UCSC Genes or Mammalian Gene Collection (MGC). Therefore, the retrogene is a product of a potentially non-annotated parent gene and is a putative pseudogene of that putative parent gene. expressed weak indicates that there is a mRNA overlapping the retrogene, indicating possible transcription. noOrf indicates that an ORF was not identified by BESTORF. expressed indicates that there is a medium level of mRNAs/ESTs mapping to the retrogene locus, indicating possible transcription. expressed strong indicates that there is a mRNA overlapping the retrogene, and at least five spliced ESTs indicating probable transcription. noOrf indicates that an ORF was not identified by BESTORF. expressed shuffle indicates that the retrogene was inserted into a pre-existing annotated gene. Score: Weighted sum of features (mentioned above) of the potential retrogene. Percent Gene Alignment Coverage (Bases Matching Parent): Shows the percentage of the parent gene aligning to this region. Intron Count: Number of introns is the number of gaps in the alignment between the parent mRNA and the genome where gaps are &gt;80 bp and the ratio of the mRNA alignment gap to the genome alignment gap is less than 30% after removing repeats. Gap Count: Numer of gaps in the alignment of between the parent mRNA and the genome after removing repeats. Gaps are not counted if the gap on the mRNA side of the alignment is a similar size to the gap in the genome alignment. BESTORF Score: BESTORF (written by Victor Solovyev) predicts potential open reading frames (ORFs) in mRNAs/ESTs with very high accuracy using a Markov chain model of coding regions and a probabilistic model of translation start codon potential. The score threshold for finding an ORF is 50 (Jim Kent, personal communication). Break in Orthology table: Retrogenes inserted into the genome since the mouse/human divergence show a break in the human genome syntenic net alignments to the mouse genome. A break in orthology score is calculated and weighted before contributing to the final retrogene score. The break in orthology score ranges from 0-130 and it represents the portion of the genome that is missing in each species relative to the reference genome (human hg38) at the retrogene locus as defined by syntenic alignment nets. If the score is 0, there is orthologous DNA and no break in ortholog with the other species; this could be an ancient retrogene; duplicated pseudogenes may also score low because they are often generated via large segmental duplication events so the size of the pseudogene is small relative to the size of the inserted duplicated sequence. Scores greater than 100 represent cases where the retrogene alignment has no flanking alignment resulting from an ancient insertion or other complex rearrangement. Breaks in orthology with human and dog tend to be due to genomic insertions in the rodent lineage so sequence gaps are not treated as orthology breaks. Relative orthology of human/mouse and dog/mouse nets are used to avoid false positives due to deletions in the human genome. Since older retrogenes will not show a break in orthology, this feature is weighted lower than other features when scoring putative retrogenes. Credits The RetroFinder program and browser track were developed by Robert Baertsch at UCSC. References Baertsch R, Diekhans M, Kent WJ, Haussler D, Brosius J. Retrocopy contributions to the evolution of the human genome. BMC Genomics. 2008 Oct 8;9:466. PMID: 18842134; PMC: PMC2584115 Kent WJ, Baertsch R, Hinrichs A, Miller W, Haussler D. Evolution's cauldron: duplication, deletion, and rearrangement in the mouse and human genomes. Proc Natl Acad Sci U S A. 2003 Sep 30;100(20):11484-9. PMID: 14500911; PMC: PMC208784 Pei B, Sisu C, Frankish A, Howald C, Habegger L, Mu XJ, Harte R, Balasubramanian S, Tanzer A, Diekhans M et al. The GENCODE pseudogene resource. Genome Biol. 2012 Sep 26;13(9):R51. PMID: 22951037; PMC: PMC3491395 Schwartz S, Kent WJ, Smit A, Zhang Z, Baertsch R, Hardison RC, Haussler D, Miller W. Human-mouse alignments with BLASTZ. Genome Res. 2003 Jan;13(1):103-7. PMID: 12529312; PMC: PMC430961 Zheng D, Frankish A, Baertsch R, Kapranov P, Reymond A, Choo SW, Lu Y, Denoeud F, Antonarakis SE, Snyder M et al. Pseudogenes in the ENCODE regions: consensus annotation, analysis of transcription, and evolution. Genome Res. 2007 Jun;17(6):839-51. PMID: 17568002; PMC: PMC1891343 
revel REVEL Scores REVEL Pathogenicity Score for single-base coding mutations (zoom for exact score) Phenotypes, Variants, and Literature Description This track collection shows Rare Exome Variant Ensemble Learner (REVEL) scores that can be used as evidence for pathogenicity classifications. REVEL is an ensemble method for predicting a score for missense variants based on a combination of scores from 13 individual tools: MutPred, FATHMM v2.3, VEST 3.0, PolyPhen-2, SIFT, PROVEAN, MutationAssessor, MutationTaster, LRT, GERP++, SiPhy, phyloP, and phastCons. REVEL was trained using recently discovered pathogenic and rare neutral missense variants, excluding those previously used to train its constituent tools. The REVEL score for an individual missense variant can range from 0 to 1, with higher scores reflecting greater likelihood that the variant is damaging. Most authors of deleteriousness scores argue against using fixed cutoffs in diagnostics. But to give an idea of the meaning of the score value, the REVEL authors note: "For example, 75.4% of disease mutations but only 10.9% of neutral variants (and 12.4% of all ESVs) have a REVEL score above 0.5, corresponding to a sensitivity of 0.754 and specificity of 0.891. Selecting a more stringent REVEL score threshold of 0.75 would result in higher specificity but lower sensitivity, with 52.1% of disease mutations, 3.3% of neutral variants, and 4.1% of all ESVs being classified as pathogenic". (Figure S1 of the reference below) Display Conventions and Configuration There are five subtracks for this track: Four lettered subtracks, one for every nucleotide, showing scores for the variant from the reference to that nucleotide. All subtracks show the REVEL ensemble score on mouseover. Across the exome, there are three values per position, one for every possible nucleotide variant. The fourth value, &quot;no variant&quot;, representing the reference allele, e.g. A to A, is always set to zero, "0.0". REVEL only takes into account amino acid changes, so a nucleotide variant that predicts no amino acid change (synonymous) also receives the score "0.0". In rare cases, two scores are output for the same variant at a genome position. This happens when there are two transcripts with distinct splicing patterns and since some input scores for REVEL take into account the sequence context, the same variant can get two different scores. In these cases, only the maximum score is shown in the four per-nucleotide subtracks. The complete set of scores are shown in the Overlaps track. One subtrack, Overlaps, shows alternate REVEL scores when applicable. In rare cases (0.05% of genome positions), multiple scores exist with a single variant, due to multiple, overlapping transcripts. For example, if there are two transcripts and one covers only half of an exon, then the amino acids that overlap both transcripts will get two distinct REVEL scores, since some of the underlying scores (polyPhen for example) take into account the amino acid sequence context and this context is different depending on the transcript. For these cases, this subtrack contains at least two graphical features, for each affected genome position. Each feature is labeled with the reference or variant (A, C, T, or G). The transcript IDs and resulting score is shown when hovering over the feature or clicking it. For the large majority of the genome, this subtrack has no features. This is because REVEL usually outputs only a single score per nucleotide and most transcript-derived amino acid sequence contexts are identical. Note that in most diagnostic testing scenarios, variants are called using WGS pipelines, not RNA-seq. As a result, variants are originally located on the genome, not on transcripts, and the choice of transcript is made by a variant calling software using a heuristic. In addition, clinically, in the field, some transcripts have been agreed-on as more relevant for a disease, e.g. because only certain transcripts may be expressed in the relevant tissue. So the choice of the most relevant transcript, and as such the REVEL score, may be a question of manual curation standards rather than a result of the variant itself. Note further that these thresholds represent the recommended score cutoffs for genes with no Variant Curation Expert Panel (VCEP) rules. For genes with published VCEP rules, the VCEP might select different thresholds, which are adjusted for the frequency of the relevant disorders. These are available in the ClinGen Criteria Specification. When using this track, zoom in until you can see every basepair at the top of the display. Otherwise, there are several nucleotides per pixel under your mouse cursor and no score will be shown on the mouseover tooltip. Track colors This track is colored according to Table 2 in Pejaver et al. The colors represent the recommended ClinGen score cutoffs. Range Classification &ge; 0.644 Pathogenic supporting 0.643 - 0.291 Neutral &le; 0.290 Benign supporting More details on these scoring ranges can be found in Bergquist et al. Genet Med 2025, Table 2: For hg38, note that the data were converted from the hg19 data using the UCSC liftOver program, by the REVEL authors. This can lead to missing values or duplicated values. When a hg38 position is annotated with two scores due to the lifting, the authors removed all the scores for this position. They did the same when the reference nucleotide has changed from hg19 to hg38. Also, on hg38, the track has the &quot;lifted&quot; icon to indicate this. You can double-check if a nucleotide position is possibly affected by the lifting procedure by activating the track &quot;Hg19 Mapping&quot; under &quot;Mapping and Sequencing&quot;. Data access REVEL scores are available at the REVEL website. The site provides precomputed REVEL scores for all possible human missense variants to facilitate the identification of pathogenic variants among the large number of rare variants discovered in sequencing studies. The REVEL data on the UCSC Genome Browser can be explored interactively with the Table Browser or the Data Integrator. The previous overlap bigBed version file is available in the archives of our downloads server. For automated download and analysis, the genome annotation is stored at UCSC in bigWig files that can be downloaded from our download server. The files for this track are called a.bw, c.bw, g.bw, t.bw. Individual regions or the genome annotation can be obtained using our tool bigWigToWig, which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tools can also be used to obtain features confined to given range, e.g. &nbsp; bigWigToBedGraph -chrom=chr1 -start=100000 -end=100500 http://hgdownload.soe.ucsc.edu/gbdb/hg38/revel/a.bw stdout Methods Data were converted from the files provided on the REVEL Downloads website. As with all other tracks, a full log of all commands used for the conversion is available in our source repository, for hg19 and hg38. The release used for each assembly is shown on the track description page. Credits Thanks to the REVEL development team for providing precomputed data and fixing duplicated values in the hg38 files. References Ioannidis NM, Rothstein JH, Pejaver V, Middha S, McDonnell SK, Baheti S, Musolf A, Li Q, Holzinger E, Karyadi D, et al. REVEL: An Ensemble Method for Predicting the Pathogenicity of Rare Missense Variants Am J Hum Genet. 2016 Oct 6;99(4):877-885. PMID: 27666373; PMC: PMC5065685 Bergquist T, Stenton SL, Nadeau EAW, Byrne AB, Greenblatt MS, Harrison SM, Tavtigian SV, O&#x27;Donnell-Luria A, Biesecker LG, Radivojac P et al. Calibration of additional computational tools expands ClinGen recommendation options for variant classification with PP3/BP4 criteria. Genet Med. 2025 Mar 10;27(6):101402. PMID: 40084623 
revelOverlaps REVEL overlaps REVEL: Positions with >1 score due to overlapping transcripts (mouseover for details) Phenotypes, Variants, and Literature 
revelT Mutation: T REVEL: Mutation is T Phenotypes, Variants, and Literature 
revelG Mutation: G REVEL: Mutation is G Phenotypes, Variants, and Literature 
revelC Mutation: C REVEL: Mutation is C Phenotypes, Variants, and Literature 
revelA Mutation: A REVEL: Mutation is A Phenotypes, Variants, and Literature 
scaffolds Scaffolds GRCh38 Defined Scaffold Identifiers Mapping and Sequencing Description This track shows the Genome Reference Consortium (GRC) names for the scaffolds in the GRCh38 (hg38) assembly, downloaded from the GRCh38 acc2name file in GenBank. 
sgpGene SGP Genes SGP Gene Predictions Using Mouse/Human Homology Genes and Gene Predictions Description This track shows gene predictions from the SGP2 homology-based gene prediction program developed by Roderic Guig&oacute;'s &quot;Computational Biology of RNA Processing&quot; group, which is part of the Centre de Regulaci&oacute; Gen&ograve;mica (CRG) in Barcelona, Catalunya, Spain. To predict genes in a genomic query, SGP2 combines geneid predictions with tblastx comparisons of the genome of the target species against genomic sequences of other species (reference genomes) deemed to be at an appropriate evolutionary distance from the target. Credits Thanks to the &quot;Computational Biology of RNA Processing&quot; group for providing these data. 
sibTxGraph SIB Alt-Splicing Alternative Splicing Graph from Swiss Institute of Bioinformatics RNA and Transcriptome Description This track shows the graphs constructed by analyzing experimental RNA transcripts and serves as basis for the predicted alternative splicing transcripts shown in the SIB Genes track. The blocks represent exons; lines indicate introns. The graphical display is drawn such that no exons overlap, making alternative events easier to view when the track is in full display mode and the resolution is set to approximately gene-level. Further information on the graphs can be found on the Transcriptome Web interface. Methods The splicing graphs were generated using a multi-step pipeline: RefSeq and GenBank RNAs and ESTs are aligned to the genome with SIBsim4, keeping only the best alignments for each RNA. Alignments are broken up at non-intronic gaps, with small isolated fragments thrown out. A splicing graph is created for each set of overlapping alignments. This graph has an edge for each exon or intron, and a vertex for each splice site, start, and end. Each RNA that contributes to an edge is kept as evidence for that edge. Graphs consisting solely of unspliced ESTs are discarded. Credits The SIB Alternative Splicing Graphs track was produced on the Vital-IT high-performance computing platform using a computational pipeline developed by Christian Iseli with help from colleagues at the Ludwig Institute for Cancer Research and the Swiss Institute of Bioinformatics. It is based on data from NCBI RefSeq and GenBank/EMBL. Our thanks to the people running these databases and to the scientists worldwide who have made contributions to them. 
sibGene SIB Genes Swiss Institute of Bioinformatics Gene Predictions from mRNA and ESTs Genes and Gene Predictions Description The SIB Genes track is a transcript-based set of gene predictions based on data from RefSeq and EMBL/GenBank. Genes all have the support of at least one GenBank full length RNA sequence, one RefSeq RNA, or one spliced EST. The track includes both protein-coding and non-coding transcripts. The coding regions are predicted using ESTScan. Display Conventions and Configuration This track in general follows the display conventions for gene prediction tracks. The exons for putative non-coding genes and untranslated regions are represented by relatively thin blocks while those for coding open reading frames are thicker. This track contains an optional codon coloring feature that allows users to quickly validate and compare gene predictions. To display codon colors, select the genomic codons option from the Color track by codons pull-down menu. Go to the Coloring Gene Predictions and Annotations by Codon page for more information about this feature. Further information on the predicted transcripts can be found on the Transcriptome Web interface. Methods The SIB Genes are built using a multi-step pipeline: RefSeq and GenBank RNAs and ESTs are aligned to the genome with SIBsim4, keeping only the best alignments for each RNA. Alignments are broken up at non-intronic gaps, with small isolated fragments thrown out. A splicing graph is created for each set of overlapping alignments. This graph has an edge for each exon or intron, and a vertex for each splice site, start, and end. Each RNA that contributes to an edge is kept as evidence for that edge. The graph is traversed to generate all unique transcripts. The traversal is guided by the initial RNAs to avoid a combinatorial explosion in alternative splicing. Protein predictions are generated. Credits The SIB Genes track was produced on the Vital-IT high-performance computing platform using a computational pipeline developed by Christian Iseli with help from colleagues at the Ludwig Institute for Cancer Research and the Swiss Institute of Bioinformatics. It is based on data from NCBI RefSeq and GenBank/EMBL. Our thanks to the people running these databases and to the scientists worldwide who have made contributions to them. References Benson DA, Karsch-Mizrachi I, Lipman DJ, Ostell J, Wheeler DL. GenBank: update. Nucleic Acids Res. 2004 Jan 1;32(Database issue):D23-6. PMID: 14681350; PMC: PMC308779 
singleCellMerged Single Cell Expression Single cell RNA expression levels cell types from many organs Expression Description This track displays single-cell data from 12 papers covering 14 organs. Cells are grouped together by organ and cell type. The cell types are based on annotations published alongside the papers. These were curated at UCSC as much as possible to use the same cell type terminologies across papers and organs. In some cases, we merged together small populations of cells annotated as distinct and related types into a single type so as to have enough cells to call gene expression levels accurate. The gene expression levels are normalized so that the total level of expression for all genes in a single cell or cell type adds up to one million. The read count is calculated by taking, for this cell type and gene location, the total number of transcript reads divided by the number of cells, and is therefore an average or mean value. Display Conventions and Configuration The cell types are colored by which class they belong to according to the following table. Please note, the coloring algorithm allows cells that show some mixed characteristics to = show blended colors so there will be some color variation within a class. In addition, cells with less than 100 transcripts will be a lighter shade and less concentrated in color to represent a low number of transcripts. Color Cell classification neural adipose fibroblast immune muscle hepatocyte trophoblast secretory ciliated epithelial endothelial glia stem cell or progenitor cell Methods Each organ or tissue was integrated and curated into the Genome Browser indiviually. Blood (PBMC) Hao - This track displays peripheral blood mononuclear cell expression data from Hao et al., 2020 for 3 levels of cell type annotations, donor, phase, and time. Colon Wang - This track shows colon expression data from Wang et al., 2020 grouped by cell type and donor. Cortex Velmeshev - This track shows cortex expression data from Velmeshev et al., 2019 grouped by cell type, sex, sample, donor, and diagnosis. Fetal Gene Atlas - This track shows expression data from Cao et al., 2020 binned by cell type and other categories including sex, organ, experiment, donor, etc. Heart Cell Atlas - This track shows heart expression data from Litvi&#328;ukov&#225 et al., 2020 binned by cell type and various categories including cell state, sample, region, donor, age, etc. Ileum Wang - This track shows ileum expression data from Wang et al., 2020 grouped by cell type and donor. Kidney Stewart - This track shows kidney expression data from Stewart et al., 2019 grouped by cell type, detailed cell type, project, experiment, etc. Liver MacParland - This track shows liver expression data from MacParland et al., 2018 grouped by cell type, broad cell type, and donor. Lung Travaglini - This track shows lung expression data from Travaglini et al., 2020 binned by categories such as cell type, sample, donor, compartment, etc. using both 10x and Smart-seq2 library preparation methods. Muscle De Micheli - This track shows muscle expression data from De Micheli et al., 2020 grouped by cell type and sample. Pancreas Baron - This track shows pancreas expression data from Baron et al., 2016 grouped by cell type, detailed cell type, donor, and batch. Placenta Vento-Tormo - This track shows placenta and matched decidua and maternal PBMCs expression data from Vento-Tormo et al., 2018 grouped by cell type, detailed cell type, stage, etc. using both 10x and Smart-seq2 library preparation methods. Rectum Wang - This track shows rectum expression data from Wang et al., 2020 grouped by cell type and donor. Skin Sole-Boldo - This track shows skin expression data from Sol&#233-Boldo et al., 2020 grouped by cell type, cell type with donor's age, donor, and age. All components were normalized to be in parts per million using the matrixNormalize command available from UCSC. Metadata was cleaned up using the tabToTabDir tool. The major clean-ups were unpacking abbreviations, replacing jargon with standard English, choosing shorted terms to shorten long labels, labeling outliers, etc. Before integration we invited the original data producers as well as local biologists and informaticions to view the data. Data Access The raw barChart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. The expScores field for this track contains a comma-separated list of values for each cell type, and the expCount field is the size of the expScores array, which is the total number of cell types. The value in the expScores field corresponds to the read count for that cell type, and the order of the cell types is defined by the barChartBars line in the trackDb file for this track. Credits Many thanks to the data contributing labs for sharing their high quality research. Thanks to the Cell Browser team including Matt Speir and Max Haeussler, for their work in integratinging these datasets into the Cell Browser. In most cases, their efforts were ahead of our own and we could leverage their work making the job much easier. Within the Genome Browser group, Jim Kent did the initial wrangling, and Brittney Wick did substantial data cleanup and coordination with the labs. References Baron M, Veres A, Wolock SL, Faust AL, Gaujoux R, Vetere A, Ryu JH, Wagner BK, Shen-Orr SS, Klein AM et al. A Single-Cell Transcriptomic Map of the Human and Mouse Pancreas Reveals Inter- and Intra-cell Population Structure. Cell Syst. 2016 Oct 26;3(4):346-360.e4. PMID: 27667365; PMC: PMC5228327 Cao J, O'Day DR, Pliner HA, Kingsley PD, Deng M, Daza RM, Zager MA, Aldinger KA, Blecher-Gonen R, Zhang F et al. A human cell atlas of fetal gene expression. Science. 2020 Nov 13;370(6518). PMID: 33184181; PMC: PMC7780123 Cao J, Spielmann M, Qiu X, Huang X, Ibrahim DM, Hill AJ, Zhang F, Mundlos S, Christiansen L, Steemers FJ et al. The single-cell transcriptional landscape of mammalian organogenesis. Nature. 2019 Feb;566(7745):496-502. PMID: 30787437; PMC: PMC6434952 De Micheli AJ, Spector JA, Elemento O, Cosgrove BD. A reference single-cell transcriptomic atlas of human skeletal muscle tissue reveals bifurcated muscle stem cell populations. Skelet Muscle. 2020 Jul 6;10(1):19. PMID: 32624006; PMC: PMC7336639 Hao Y, Hao S, Andersen-Nissen E, Mauck WM 3rd, Zheng S, Butler A, Lee MJ, Wilk AJ, Darby C, Zager M et al. Integrated analysis of multimodal single-cell data. Cell. 2021 Jun 24;184(13):3573-3587.e29. PMID: 34062119; PMC: PMC8238499 Litvi&#328;ukov&#225; M, Talavera-L&#243;pez C, Maatz H, Reichart D, Worth CL, Lindberg EL, Kanda M, Polanski K, Heinig M, Lee M et al. Cells of the adult human heart. Nature. 2020 Dec;588(7838):466-472. PMID: 32971526; PMC: PMC7681775 MacParland SA, Liu JC, Ma XZ, Innes BT, Bartczak AM, Gage BK, Manuel J, Khuu N, Echeverri J, Linares I et al. Single cell RNA sequencing of human liver reveals distinct intrahepatic macrophage populations. Nat Commun. 2018 Oct 22;9(1):4383. PMID: 30348985; PMC: PMC6197289 Sol&#233;-Boldo L, Raddatz G, Sch&#252;tz S, Mallm JP, Rippe K, Lonsdorf AS, Rodr&#237;guez-Paredes M, Lyko F. Single-cell transcriptomes of the human skin reveal age-related loss of fibroblast priming. Commun Biol. 2020 Apr 23;3(1):188. PMID: 32327715; PMC: PMC7181753 Stewart BJ, Ferdinand JR, Young MD, Mitchell TJ, Loudon KW, Riding AM, Richoz N, Frazer GL, Staniforth JUL, Vieira Braga FA et al. Spatiotemporal immune zonation of the human kidney. Science. 2019 Sep 27;365(6460):1461-1466. PMID: 31604275; PMC: PMC7343525 Travaglini KJ, Nabhan AN, Penland L, Sinha R, Gillich A, Sit RV, Chang S, Conley SD, Mori Y, Seita J et al. A molecular cell atlas of the human lung from single-cell RNA sequencing. Nature. 2020 Nov;587(7835):619-625. PMID: 33208946; PMC: PMC7704697 Velmeshev D, Schirmer L, Jung D, Haeussler M, Perez Y, Mayer S, Bhaduri A, Goyal N, Rowitch DH, Kriegstein AR. Single-cell genomics identifies cell type-specific molecular changes in autism. Science. 2019 May 17;364(6441):685-689. PMID: 31097668; PMC: PMC7678724 Vento-Tormo R, Efremova M, Botting RA, Turco MY, Vento-Tormo M, Meyer KB, Park JE, Stephenson E, Pola&#324;ski K, Goncalves A et al. Single-cell reconstruction of the early maternal-fetal interface in humans. Nature. 2018 Nov;563(7731):347-353. PMID: 30429548 Wang Y, Song W, Wang J, Wang T, Xiong X, Qi Z, Fu W, Yang X, Chen YG. Single-cell transcriptome analysis reveals differential nutrient absorption functions in human intestine. J Exp Med. 2020 Feb 3;217(2). PMID: 31753849; PMC: PMC7041720 
skinSoleBoldoAge Skin Age Skin single cell RNA binned by skin donor's age from Sole-Boldo et al 2020 Single Cell RNA-seq Description This track displays data from Single-cell transcriptomes of the human skin reveal age-related loss of fibroblast priming. Single cell RNA sequencing (scRNA-seq) was performed on sun-protected skin samples prepared using droplet-sequencing (drop-seq). RNA profiles were generated for 15,457 cells after quality control and subsequent clustering identified 17 clusters with distinct expression profiles as found in Sol&#233;-Boldo et al., 2020. This track collection contains four bar chart tracks of RNA expression in the human skin where cells are grouped by cell type (Skin Cell), age (Skin Age), donor (Skin Donor), and cell type and donor's age (Skin Cell+Age). The default track displayed is Skin Cell. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification fibroblast immune epithelial endothelial Cells that fall into multiple classes will be colored by blending the colors associated with those classes. The colors will be purest in the Skin Cell subtrack, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Method Healthy skin samples were obtained from whole-skin specimens belonging to 5 male donors (ages 25-70) with fair skin. Donors underwent full body skin examinations by a dermatologist and medical records were checked for skin diseases and/or comorbidities that affect the skin. 4-mm punch biopsies were taken from surgically removed skin belonging to the inguinal region of the body also known as the groin. Skin samples were kept in MACS Tissue Storage Solution for less than 1 hour to avoid necrosis and apoptosis. Enzymatical and mechanical dissociation was done using the Miltenyi Biotec Whole Skin Dissociation kit for human material and the Miltenyi Biotec Gentle MACS dissociator. Drop-seq libraries were prepared using a 10x Genomics 3' v2 kit and sequenced on an Illumina HiSeq4000. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Lloren&#231 Sol&#233-Boldo and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Gerardo Perez. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Sol&#233;-Boldo L, Raddatz G, Sch&#252;tz S, Mallm JP, Rippe K, Lonsdorf AS, Rodr&#237;guez-Paredes M, Lyko F. Single-cell transcriptomes of the human skin reveal age-related loss of fibroblast priming. Commun Biol. 2020 Apr 23;3(1):188. PMID: 32327715; PMC: PMC7181753 
skinSoleBoldo Skin Sole-Boldo Skin single cell data from  Sole-Boldo et al 2020 Single Cell RNA-seq Description This track displays data from Single-cell transcriptomes of the human skin reveal age-related loss of fibroblast priming. Single cell RNA sequencing (scRNA-seq) was performed on sun-protected skin samples prepared using droplet-sequencing (drop-seq). RNA profiles were generated for 15,457 cells after quality control and subsequent clustering identified 17 clusters with distinct expression profiles as found in Sol&#233;-Boldo et al., 2020. This track collection contains four bar chart tracks of RNA expression in the human skin where cells are grouped by cell type (Skin Cell), age (Skin Age), donor (Skin Donor), and cell type and donor's age (Skin Cell+Age). The default track displayed is Skin Cell. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification fibroblast immune epithelial endothelial Cells that fall into multiple classes will be colored by blending the colors associated with those classes. The colors will be purest in the Skin Cell subtrack, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Method Healthy skin samples were obtained from whole-skin specimens belonging to 5 male donors (ages 25-70) with fair skin. Donors underwent full body skin examinations by a dermatologist and medical records were checked for skin diseases and/or comorbidities that affect the skin. 4-mm punch biopsies were taken from surgically removed skin belonging to the inguinal region of the body also known as the groin. Skin samples were kept in MACS Tissue Storage Solution for less than 1 hour to avoid necrosis and apoptosis. Enzymatical and mechanical dissociation was done using the Miltenyi Biotec Whole Skin Dissociation kit for human material and the Miltenyi Biotec Gentle MACS dissociator. Drop-seq libraries were prepared using a 10x Genomics 3' v2 kit and sequenced on an Illumina HiSeq4000. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Lloren&#231 Sol&#233-Boldo and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Gerardo Perez. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Sol&#233;-Boldo L, Raddatz G, Sch&#252;tz S, Mallm JP, Rippe K, Lonsdorf AS, Rodr&#237;guez-Paredes M, Lyko F. Single-cell transcriptomes of the human skin reveal age-related loss of fibroblast priming. Commun Biol. 2020 Apr 23;3(1):188. PMID: 32327715; PMC: PMC7181753 
skinSoleBoldoCellType Skin Cell Skin single cell RNA binned by cell type from Sole-Boldo et al 2020 Single Cell RNA-seq Description This track displays data from Single-cell transcriptomes of the human skin reveal age-related loss of fibroblast priming. Single cell RNA sequencing (scRNA-seq) was performed on sun-protected skin samples prepared using droplet-sequencing (drop-seq). RNA profiles were generated for 15,457 cells after quality control and subsequent clustering identified 17 clusters with distinct expression profiles as found in Sol&#233;-Boldo et al., 2020. This track collection contains four bar chart tracks of RNA expression in the human skin where cells are grouped by cell type (Skin Cell), age (Skin Age), donor (Skin Donor), and cell type and donor's age (Skin Cell+Age). The default track displayed is Skin Cell. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification fibroblast immune epithelial endothelial Cells that fall into multiple classes will be colored by blending the colors associated with those classes. The colors will be purest in the Skin Cell subtrack, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Method Healthy skin samples were obtained from whole-skin specimens belonging to 5 male donors (ages 25-70) with fair skin. Donors underwent full body skin examinations by a dermatologist and medical records were checked for skin diseases and/or comorbidities that affect the skin. 4-mm punch biopsies were taken from surgically removed skin belonging to the inguinal region of the body also known as the groin. Skin samples were kept in MACS Tissue Storage Solution for less than 1 hour to avoid necrosis and apoptosis. Enzymatical and mechanical dissociation was done using the Miltenyi Biotec Whole Skin Dissociation kit for human material and the Miltenyi Biotec Gentle MACS dissociator. Drop-seq libraries were prepared using a 10x Genomics 3' v2 kit and sequenced on an Illumina HiSeq4000. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Lloren&#231 Sol&#233-Boldo and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Gerardo Perez. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Sol&#233;-Boldo L, Raddatz G, Sch&#252;tz S, Mallm JP, Rippe K, Lonsdorf AS, Rodr&#237;guez-Paredes M, Lyko F. Single-cell transcriptomes of the human skin reveal age-related loss of fibroblast priming. Commun Biol. 2020 Apr 23;3(1):188. PMID: 32327715; PMC: PMC7181753 
skinSoleBoldoAgeCellType Skin Cell+Age Skin single cell RNA binned by cell type and donor's age from Sole-Boldo et all 2020 Single Cell RNA-seq Description This track displays data from Single-cell transcriptomes of the human skin reveal age-related loss of fibroblast priming. Single cell RNA sequencing (scRNA-seq) was performed on sun-protected skin samples prepared using droplet-sequencing (drop-seq). RNA profiles were generated for 15,457 cells after quality control and subsequent clustering identified 17 clusters with distinct expression profiles as found in Sol&#233;-Boldo et al., 2020. This track collection contains four bar chart tracks of RNA expression in the human skin where cells are grouped by cell type (Skin Cell), age (Skin Age), donor (Skin Donor), and cell type and donor's age (Skin Cell+Age). The default track displayed is Skin Cell. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification fibroblast immune epithelial endothelial Cells that fall into multiple classes will be colored by blending the colors associated with those classes. The colors will be purest in the Skin Cell subtrack, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Method Healthy skin samples were obtained from whole-skin specimens belonging to 5 male donors (ages 25-70) with fair skin. Donors underwent full body skin examinations by a dermatologist and medical records were checked for skin diseases and/or comorbidities that affect the skin. 4-mm punch biopsies were taken from surgically removed skin belonging to the inguinal region of the body also known as the groin. Skin samples were kept in MACS Tissue Storage Solution for less than 1 hour to avoid necrosis and apoptosis. Enzymatical and mechanical dissociation was done using the Miltenyi Biotec Whole Skin Dissociation kit for human material and the Miltenyi Biotec Gentle MACS dissociator. Drop-seq libraries were prepared using a 10x Genomics 3' v2 kit and sequenced on an Illumina HiSeq4000. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Lloren&#231 Sol&#233-Boldo and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Gerardo Perez. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Sol&#233;-Boldo L, Raddatz G, Sch&#252;tz S, Mallm JP, Rippe K, Lonsdorf AS, Rodr&#237;guez-Paredes M, Lyko F. Single-cell transcriptomes of the human skin reveal age-related loss of fibroblast priming. Commun Biol. 2020 Apr 23;3(1):188. PMID: 32327715; PMC: PMC7181753 
skinSoleBoldoDonor Skin Donor Skin single cell RNA binned by skin donor from Sole-Boldo et al 2020 Single Cell RNA-seq Description This track displays data from Single-cell transcriptomes of the human skin reveal age-related loss of fibroblast priming. Single cell RNA sequencing (scRNA-seq) was performed on sun-protected skin samples prepared using droplet-sequencing (drop-seq). RNA profiles were generated for 15,457 cells after quality control and subsequent clustering identified 17 clusters with distinct expression profiles as found in Sol&#233;-Boldo et al., 2020. This track collection contains four bar chart tracks of RNA expression in the human skin where cells are grouped by cell type (Skin Cell), age (Skin Age), donor (Skin Donor), and cell type and donor's age (Skin Cell+Age). The default track displayed is Skin Cell. Display Conventions The cell types are colored by which class they belong to according to the following table. Color Cell classification fibroblast immune epithelial endothelial Cells that fall into multiple classes will be colored by blending the colors associated with those classes. The colors will be purest in the Skin Cell subtrack, where the bars represent relatively pure cell types. They can give an overview of the cell composition within other categories in other subtracks as well. Method Healthy skin samples were obtained from whole-skin specimens belonging to 5 male donors (ages 25-70) with fair skin. Donors underwent full body skin examinations by a dermatologist and medical records were checked for skin diseases and/or comorbidities that affect the skin. 4-mm punch biopsies were taken from surgically removed skin belonging to the inguinal region of the body also known as the groin. Skin samples were kept in MACS Tissue Storage Solution for less than 1 hour to avoid necrosis and apoptosis. Enzymatical and mechanical dissociation was done using the Miltenyi Biotec Whole Skin Dissociation kit for human material and the Miltenyi Biotec Gentle MACS dissociator. Drop-seq libraries were prepared using a 10x Genomics 3' v2 kit and sequenced on an Illumina HiSeq4000. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The coloring was done by defining colors for the broad level cell classes and then using another UCSC utility, hcaColorCells, to interpolate the colors across all cell types. The UCSC utilities can be found on our download server. Data Access The raw bar chart data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credit Thanks to Lloren&#231 Sol&#233-Boldo and to the many authors who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent and Brittney Wick then reviewed by Gerardo Perez. The UCSC work was paid for by the Chan Zuckerberg Initiative. References Sol&#233;-Boldo L, Raddatz G, Sch&#252;tz S, Mallm JP, Rippe K, Lonsdorf AS, Rodr&#237;guez-Paredes M, Lyko F. Single-cell transcriptomes of the human skin reveal age-related loss of fibroblast priming. Commun Biol. 2020 Apr 23;3(1):188. PMID: 32327715; PMC: PMC7181753 
wgRna sno/miRNA C/D and H/ACA Box snoRNAs, scaRNAs, and microRNAs from snoRNABase and miRBase Genes and Gene Predictions Description This track displays positions of four different types of RNA in the human genome: microRNAs from the miRBase at the Wellcome Trust Sanger Institute(WTSI). small nucleolar RNAs (C/D box and H/ACA box snoRNAs) and Cajal body-specific RNAs (scaRNAs) from the snoRNABase maintained at the Laboratoire de Biologie Mol&eacute;culaire Eucaryote C/D box and H/ACA box snoRNAs are guides for the 2'O-ribose methylation and the pseudouridilation, respectively, of rRNAs and snRNAs, although many of them have no documented target RNA. The scaRNAs guide modifications of the spliceosomal snRNAs transcribed by RNA polymerase II, and often contain both C/D and H/ACA domains. Display Conventions and Configuration This track follows the general display conventions for gene prediction tracks. The miRNA precursor forms (pre-miRNA) are represented by red blocks. C/D box snoRNAs, H/ACA box snoRNAs and scaRNAs are represented by blue, green and magenta blocks, respectively. At a zoomed-in resolution, arrows superimposed on the blocks indicate the sense orientation of the snoRNAs. Methods Precursor miRNA genomic locations from miRBase were calculated using wublastn for sequence alignment with the requirement of 100% identity. The extents of the precursor sequences were not generally known and were predicted based on base-paired hairpin structure. miRBase is described in Griffiths-Jones, S. (2004) and Weber, M.J. (2005) in the References section below. The snoRNAs and scaRNAs from the snoRNABase were aligned against the human genome using blat. Credits Genome coordinates for this track were obtained from the miRBase sequences FTP site and from snoRNABase coordinates download page. References When making use of these data, please cite the folowing articles in addition to the primary sources of the miRNA sequences: Griffiths-Jones S, Saini HK, van Dongen S, Enright AJ. miRBase: tools for microRNA genomics. Nucleic Acids Res. 2008 Jan 1;36(Database issue):D154-8. Griffiths-Jones S, Grocock RJ, van Dongen S, Bateman A, Enright AJ. miRBase: microRNA sequences, targets and gene nomenclature. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D140-4. Griffiths-Jones S. The microRNA Registry. Nucleic Acids Res. 2004 Jan 1;32(Database issue):D109-11. Weber MJ. New human and mouse microRNA genes found by homology search. You may also want to cite The Wellcome Trust Sanger Institute miRBase and The Laboratoire de Biologie Moleculaire Eucaryote snoRNABase. The following publication provides guidelines on miRNA annotation: Ambros V. et al., A uniform system for microRNA annotation. RNA. 2003;9(3):277-9. 
snpedia SNPedia SNPedia Phenotypes, Variants, and Literature Description SNPedia is a wiki investigating human genetics with information about the effects of variations in DNA, citing peer-reviewed scientific publications. SNPedia all: SNPedia all SNPs (including empty pages) The track &#34;SNPedia all&#34; shows all SNPs that exist as a page in SNPedia.com. As SNPedia's user collaboration grows, more detail will be added to SNPedia.com pages. For now, most of the pages are auto-generated by bots and have empty pages. According to Mike Carioso (SNPedia.com founder), SNPedia entries are mostly ClinVar entries marked as pathogenic with at least 4 stars as defined by the ClinVar review status. SNPedia with text: SNPedia pages with manually typed text The track &#34;SNPedia with text&#34; is a subset of the &#34;SNPedia all&#34; track. This track displays only SNPedia entries with a text page that was created manually by a user who typed in some text (approximately 5,000 entries). In the browser, click on the &#34;configure&#34; button and select &#34;next/previous item navigation&#34; to show clickable arrows in the browser which will jump to the next or previous item. Clicks on the features show the text from the SNPedia.com page and a link to the original page. Display Conventions and Configuration Genomic locations of SNPedia entries are labeled with the dbSNP ID. In the track &#34;SNPedia all SNPs&#34;, the features are colored based on the SNPedia microarray annotation: grey for SNPs that are on no microarray, dark blue for Affymetrix, dark purple for Illumina and black for features on both arrays. Methods The mappings displayed in this track were used as provided in the SNPedia GFF file. For the &#34;SNPedia with text&#34; track, all SNPedia pages were downloaded and their content checked with a script that tries to remove pages that were auto-generated and not created manually by a user. Credits Thanks to Mike Cariaso for help with the GFF download and Max Haeussler at UCSC for building this track. References Cariaso Michael; Lennon Greg. SNPedia: a wiki supporting personal genome annotation, interpretation and analysis. Nucleic acids research. 2012 40Database issue:D1308-12. PMID: 22140107; PMC: PMC3245045 
snpediaText SNPedia with text SNPedia pages with manually typed text Phenotypes, Variants, and Literature 
snpediaAll SNPedia all SNPedia all SNPs (including empty pages) Phenotypes, Variants, and Literature 
intronEst Spliced ESTs Human ESTs That Have Been Spliced RNA and Transcriptome Description This track shows alignments between human expressed sequence tags (ESTs) in GenBank and the genome that show signs of splicing when aligned against the genome. ESTs are single-read sequences, typically about 500 bases in length, that usually represent fragments of transcribed genes. To be considered spliced, an EST must show evidence of at least one canonical intron (i.e., the genomic sequence between EST alignment blocks must be at least 32 bases in length and have GT/AG ends). By requiring splicing, the level of contamination in the EST databases is drastically reduced at the expense of eliminating many genuine 3' ESTs. For a display of all ESTs (including unspliced), see the human EST track. Display Conventions and Configuration This track follows the display conventions for PSL alignment tracks. In dense display mode, darker shading indicates a larger number of aligned ESTs. The strand information (+/-) indicates the direction of the match between the EST and the matching genomic sequence. It bears no relationship to the direction of transcription of the RNA with which it might be associated. The description page for this track has a filter that can be used to change the display mode, alter the color, and include/exclude a subset of items within the track. This may be helpful when many items are shown in the track display, especially when only some are relevant to the current task. To use the filter: Type a term in one or more of the text boxes to filter the EST display. For example, to apply the filter to all ESTs expressed in a specific organ, type the name of the organ in the tissue box. To view the list of valid terms for each text box, consult the table in the Table Browser that corresponds to the factor on which you wish to filter. For example, the &quot;tissue&quot; table contains all the types of tissues that can be entered into the tissue text box. Multiple terms may be entered at once, separated by a space. Wildcards may also be used in the filter. If filtering on more than one value, choose the desired combination logic. If &quot;and&quot; is selected, only ESTs that match all filter criteria will be highlighted. If &quot;or&quot; is selected, ESTs that match any one of the filter criteria will be highlighted. Choose the color or display characteristic that should be used to highlight or include/exclude the filtered items. If &quot;exclude&quot; is chosen, the browser will not display ESTs that match the filter criteria. If &quot;include&quot; is selected, the browser will display only those ESTs that match the filter criteria. This track may also be configured to display base labeling, a feature that allows the user to display all bases in the aligning sequence or only those that differ from the genomic sequence. For more information about this option, go to the Base Coloring for Alignment Tracks page. Several types of alignment gap may also be colored; for more information, go to the Alignment Insertion/Deletion Display Options page. Methods To make an EST, RNA is isolated from cells and reverse transcribed into cDNA. Typically, the cDNA is cloned into a plasmid vector and a read is taken from the 5' and/or 3' primer. For most &mdash; but not all &mdash; ESTs, the reverse transcription is primed by an oligo-dT, which hybridizes with the poly-A tail of mature mRNA. The reverse transcriptase may or may not make it to the 5' end of the mRNA, which may or may not be degraded. In general, the 3' ESTs mark the end of transcription reasonably well, but the 5' ESTs may end at any point within the transcript. Some of the newer cap-selected libraries cover transcription start reasonably well. Before the cap-selection techniques emerged, some projects used random rather than poly-A priming in an attempt to retrieve sequence distant from the 3' end. These projects were successful at this, but as a side effect also deposited sequences from unprocessed mRNA and perhaps even genomic sequences into the EST databases. Even outside of the random-primed projects, there is a degree of non-mRNA contamination. Because of this, a single unspliced EST should be viewed with considerable skepticism. To generate this track, human ESTs from GenBank were aligned against the genome using blat. Note that the maximum intron length allowed by blat is 750,000 bases, which may eliminate some ESTs with very long introns that might otherwise align. When a single EST aligned in multiple places, the alignment having the highest base identity was identified. Only alignments having a base identity level within 0.5% of the best and at least 96% base identity with the genomic sequence are displayed in this track. Credits This track was produced at UCSC from EST sequence data submitted to the international public sequence databases by scientists worldwide. References Benson DA, Cavanaugh M, Clark K, Karsch-Mizrachi I, Lipman DJ, Ostell J, Sayers EW. GenBank. Nucleic Acids Res. 2013 Jan;41(Database issue):D36-42. PMID: 23193287; PMC: PMC3531190 Benson DA, Karsch-Mizrachi I, Lipman DJ, Ostell J, Wheeler DL. GenBank: update. Nucleic Acids Res. 2004 Jan 1;32(Database issue):D23-6. PMID: 14681350; PMC: PMC308779 Kent WJ. BLAT - the BLAST-like alignment tool. Genome Res. 2002 Apr;12(4):656-64. PMID: 11932250; PMC: PMC187518 
spliceVarDb SpliceVarDB SpliceVarDB: Experimentally validated splicing variants Phenotypes, Variants, and Literature Description The "Splicing Impact" container track contains tracks showing the predicted or validated effect of variants close to splice sites. AbSplice AbSplice is a method that predicts aberrant splicing across human tissues, as described in Wagner, &Ccedil;elik et al., 2023. This track displays precomputed AbSplice scores for all possible single-nucleotide variants genome-wide. The scores represent the probability that a given variant causes aberrant splicing in a given tissue. AbSplice scores can be computed from VCF files and are based on quantitative tissue-specific splice site annotations (SpliceMaps). While SpliceMaps can be generated for any tissue of interest from a cohort of RNA-seq samples, this track includes 49 tissues available from the Genotype-Tissue Expression (GTEx) dataset. SpliceAI Variants SpliceAI is an open-source deep learning splicing prediction algorithm that can predict splicing alterations caused by DNA variations. To score variants, the spliceAI algorithm is run on the genome sequence itself and scores each nucleotide for the probability that it is a donor or acceptor site, on both the forward and the reverse strand. Then variants are added to the sequence and the new sequence is scored. Variants may activate nearby cryptic splice sites, leading to abnormal transcript isoforms. SpliceAI was developed at Illumina; a lookup tool is provided by the Broad institute. SpliceAI Wildtype This SpliceAI &quot;Wildtype&quot; container track shows the scores for the genome sequence itself, without variants, from predicted splice donor (5&apos; intron boundaries) and splice acceptor (3&apos; intron boundaries) sites. Predictions are strand-specific, with separate subtracks for the plus and minus strands. These tracks are useful in combination with the variants track for evaluating new transcript models. They can be used to assess potential exon boundaries or possible splice acceptor sites. Why are some variants not scored by SpliceAI? SpliceAI only annotates variants within genes defined by the gene annotation file. Additionally, SpliceAI does not annotate variants if they are close to chromosome ends (5kb on either side), deletions of length greater than twice the input parameter -D, or inconsistent with the reference fasta file. What are the differences between masked and unmasked tracks? The unmasked tracks include splicing changes corresponding to strengthening annotated splice sites and weakening unannotated splice sites, which are typically much less pathogenic than weakening annotated splice sites and strengthening unannotated splice sites. The delta scores of such splicing changes are set to 0 in the masked files. We recommend using the unmasked tracks for alternative splicing analysis and masked tracks for variant interpretation. SpliceVarDB SpliceVarDB is an online database consolidating over 50,000 variants assayed for their effects on splicing in over 8,000 human genes. The authors evaluated over 500 published data sources and established a spliceogenicity scale to standardize, harmonize, and consolidate variant validation data generated by a range of experimental protocols. Genes and variant locations were obtained using GENCODE v44. Splice regions were calculated as specific distances from the closest canonical exon, including 5&apos; and 3&apos; untranslated regions (UTRs). The database is available at splicevardb.org. Display Conventions and Configuration AbSplice The AbSplice score is a probability estimate of how likely aberrant splicing of some sort takes place in a given tissue. The authors suggest three cutoffs which are represented by color in the track. High (red) - An AbSplice score over 0.2 indicates a high likelihood of aberrant splicing in at least one tissue. Medium (orange) - A score between 0.05 and 0.2 indicates a medium likelihood. Low (blue) - A score between 0.01 and 0.05 indicates a low likelihood. Scores below 0.01 are not displayed. Mouseover on items shows the gene name, maximum score, and tissues that had this score. Clicking on any item brings up a table with scores for all 49 GTEX tissues. SpliceAI Variants are colored according to Walker et al. 2023 splicing impact: Predicted impact on splicing: Score &gt;&#61; 0.2 Not informative: Score &lt; 0.2 and &gt; 0.1 No impact on splicing: Score &lt;&#61; 0.1 Mouseover on items shows the variant, gene name, type of change (donor gain/loss, acceptor gain/loss), location of affected cryptic splice, and spliceAI score. Clicking on any item brings up a table with this information. The scores range from 0 to 1 and can be interpreted as the probability of the variant being splice-altering. In the paper, a detailed characterization is provided for 0.2 (high recall), 0.5 (recommended), and 0.8 (high precision) cutoffs. SpliceAI Wildtype These tracks are in bigWig format. The signal height represents the SpliceAI probability score. This track may be configured in a variety of ways to highlight different aspects of the displayed information. Click the &quot;Graph configuration help&quot; link for an explanation of configuration options. SpliceVarDB According to the strength of their supporting evidence, variants were classified as &quot;splice-altering&quot; (~25%), &quot;not splice-altering&quot; (~25%), and &quot;low-frequency splice-altering&quot; (~50%), which correspond to weak or indeterminate evidence of spliceogenicity. 55% of the splice-altering variants in SpliceVarDB are outside the canonical splice sites (5.6% are deep intronic). The data is shown as lollipop plots that can be clicked, the details page then shows a link to SpliceVarDB with full details. The classification thresholds primarily follow those established by the original study. However, most studies only defined criteria for splice-altering variants and did not define criteria for variants that resulted in normal splicing. The authors implemented stringent thresholds to define the normal category and ensure a high-quality set of control variants. Variants that did not meet these criteria were classified as low-frequency splice-altering variants with a wide range of sub-optimal scores. Variants that fell between the normal and splice-altering classifications were placed into a low-frequency splice-altering category. In situations where a variant was validated multiple times, if at least one validation returned splice-altering and another returned normal, the &quot;conflicting&quot; category was applied. The lollipop plots are color-coded based on the score value, which corresponds to the following classifications: 3 - Splice-altering 2 - Low-frequency 1 - Normal 0 - Conflicting Methods AbSplice Data was converted from the files (AbSplice_DNA_ hg38 _snvs_high_scores.zip) provided by the authors at zenodo.org. Files in the score_cutoff=0.01 directory were concatenated. To convert the data to bigBed format, scores and their tissues were selected from the AbSplice_DNA fields and maximum scores, and then calculated using a custom Python script, which can be found in the makeDoc from our GitHub repository. SpliceAI The data were downloaded from Illumina. The spliceAI scores are represented in the VCF INFO field as SpliceAI=G|OR4F5|0.01|0.00|0.00|0.00|-32|49|-40|-31 Here, the pipe-separated fields contain ALT allele Gene name Acceptor gain score Acceptor loss score Donor gain score Donor loss score Relative location of affected cryptic acceptor Relative location of affected acceptor Relative location of affected cryptic donor Relative location of affected donor Since most of the values are 0 or almost 0, we selected only those variants with a score equal to or greater than 0.02. The complete processing of this track can be found in the makedoc. SpliceAI Wildtype Data was provided by the Michael Hiller lab. SpliceAI was run on the entire genome reference chromosomes. Since the algorithm does not know where transcripts start or end, the scores can differ from those on other websites, especially for splice sites before the last exon or around the first exon. SpliceVarDB The data was converted by Patricia Sullivan from SpliceVarDB to bigLolly format, and the UCSC Browser staff downloaded it for display. Data Access Precomputed AbSplice-DNA scores in all 49 GTEx tissues are available at Zenodo. License The SpliceAI data is not available for download from the Genome Browser. The raw data can be found directly on Illumina. FOR ACADEMIC AND NOT-FOR-PROFIT RESEARCH USE ONLY. The SpliceAI scores are made available by Illumina only for academic or not-for-profit research only. By accessing the SpliceAI data, you acknowledge and agree that you may only use this data for your own personal academic or not-for-profit research only, and not for any other purposes. You may not use this data for any for-profit, clinical, or other commercial purpose without obtaining a commercial license from Illumina, Inc. The raw data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. For automated download and analysis, the genome annotation is stored in a bigBed or a bigWig file that can be downloaded from our download server. Individual regions or the whole genome annotation can be obtained using our tools, e.g. bigBedToBed http://hgdownload.soe.ucsc.edu/gbdb/hg19/splicevardb/SVADB.bb -chrom=chr21 -start=0 -end=100000000 stdout bigWigToBedGraph -chrom=chr1 -start=100000 -end=100500 http://hgdownload.soe.ucsc.edu/gbdb/hg38/bbi/spliceAi/wildtype/spliceAiAcceptorMinus.bw stdout These tools can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. Credits Thanks to Illumina for making SpliceAI available, both the model and the precomputed data files. Thanks to Francois Lecoquierre from the University of Oxford, Jean-Madeleine de Sainte Agathe from Institut Pasteur Paris, and Michael Hiller from the Senckenberg Museum Frankfurt for suggesting and then creating the SpliceAI Wildtype annotations. Thanks to Nils Wagner for helpful comments and suggestions for the AbSplice track. Thanks to the SpliceVarDB team for converting the data into our data formats. References Jaganathan K, Kyriazopoulou Panagiotopoulou S, McRae JF, Darbandi SF, Knowles D, Li YI, Kosmicki JA, Arbelaez J, Cui W, Schwartz GB et al. Predicting Splicing from Primary Sequence with Deep Learning. Cell. 2019 Jan 24;176(3):535-548.e24. PMID: 30661751 Sullivan PJ, Quinn JMW, Wu W, Pinese M, Cowley MJ. SpliceVarDB: A comprehensive database of experimentally validated human splicing variants. Am J Hum Genet. 2024 Oct 3;111(10):2164-2175. PMID: 39226898; PMC: PMC11480807 Wagner N, &#199;elik MH, H&#246;lzlwimmer FR, Mertes C, Prokisch H, Y&#233;pez VA, Gagneur J. Aberrant splicing prediction across human tissues. Nat Genet. 2023 May;55(5):861-870. PMID: 37142848 Walker LC, Hoya M, Wiggins GAR, Lindy A, Vincent LM, Parsons MT, Canson DM, Bis-Brewer D, Cass A, Tchourbanov A et al. Using the ACMG/AMP framework to capture evidence related to predicted and observed impact on splicing: Recommendations from the ClinGen SVI Splicing Subgroup. Am J Hum Genet. 2023 Jul 6;110(7):1046-1067. PMID: 37352859; PMC: PMC10357475 
strchive STRchive STRchive Disease-Associated Short Tandem Repeat Loci Variation Description The STRchive track displays 75 disease-associated short tandem repeat (STR) loci curated by the STRchive project. STRchive is a dynamic, community-driven resource that compiles population-level and locus-specific data for tandem repeat loci implicated in human genetic diseases. Tandem repeat expansion disorders are caused by the expansion of short repetitive DNA sequences beyond a pathogenic threshold. These expansions can cause a wide range of neurological, neuromuscular, and developmental disorders, including Huntington disease, fragile X syndrome, Friedreich ataxia, and many forms of spinocerebellar ataxia. This track shows the genomic positions of disease-associated STR loci from the STRchive catalog, along with the reference and pathogenic repeat motifs, minimum pathogenic repeat count thresholds, mode of inheritance, and associated diseases. The data are based on the GRCh38/hg38 reference assembly. Display Conventions Items are colored by mode of inheritance: Blue &ndash; autosomal dominant (AD) Red &ndash; autosomal recessive (AR) Orange &ndash; both AD and AR Purple &ndash; X-linked recessive (XR) Magenta &ndash; X-linked dominant (XD) Gray &ndash; unknown Each item is labeled by its STRchive locus ID, which combines the disease abbreviation and gene symbol (e.g., &quot;HD_HTT&quot; for Huntington disease at the HTT gene). Hovering over an item shows the repeat motif, gene, pathogenic threshold, and inheritance mode. Clicking an item links to the corresponding STRchive locus page with detailed clinical and population-level information. Methods The STRchive disease locus catalog was downloaded from the STRchive GitHub repository (file STRchive-disease-loci.hg38.general.bed). The catalog is manually curated by the STRchive team from published literature and contains loci where tandem repeat expansions have been reported to cause or be associated with human disease. For each locus, the catalog provides: Reference motif &ndash; the repeat unit found in the reference genome Pathogenic motif &ndash; the repeat unit associated with disease (may differ from the reference motif, as in some familial adult myoclonic epilepsies where TTTCA insertions into TTTTA repeats are pathogenic) Pathogenic minimum &ndash; the minimum number of repeat copies reported to cause disease Inheritance &ndash; the mode of inheritance (AD, AR, XR, XD) Disease &ndash; the associated disease name(s) The BED file was converted to bigBed format for display in the Genome Browser. Coordinates were used as provided (0-based half-open BED format). Data Access The raw data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. The underlying bigBed file can be downloaded from our download server. The complete STRchive dataset, including additional annotations not shown in this track, is available from strchive.org and the STRchive GitHub repository. The data are released under a CC BY 4.0 license. Credits Thanks to Harriet Dashnow (University of Colorado), Laurel Hiatt (University of Utah), Ben Weisburd (Broad Institute), and the STRchive team for creating and maintaining this resource. References Hiatt L, Weisburd B, Dolzhenko E, Rubinetti V, Avvaru AK, VanNoy GE, Kurtas NE, Rehm HL, Quinlan AR, Dashnow H. STRchive: a dynamic resource detailing population-level and locus-specific insights at tandem repeat disease loci. Genome Med. 2025 Mar 26;17(1):29. PMID: 40140942; PMC: PMC11938676 
stsMap STS Markers STS Markers on Genetic (blue) and Radiation Hybrid (black) Maps Mapping and Sequencing Description This track shows locations of Sequence Tagged Site (STS) markers along the draft assembly. These markers have been mapped using either genetic mapping (Genethon, Marshfield, and deCODE maps), radiation hybridization mapping (Stanford, Whitehead RH, and GeneMap99 maps) or YAC mapping (the Whitehead YAC map) techniques. Since August 2001, this track no longer displays fluorescent in situ hybridization (FISH) clones, which are now displayed in a separate track. Genetic map markers are shown in blue; radiation hybrid map markers are shown in black. When a marker maps to multiple positions in the genome, it is shown in a lighter color. Methods Positions of STS markers are determined using both full sequences and primer information. Full sequences are aligned using blat, while isPCR (Jim Kent) and ePCR are used to find locations using primer information. Both sets of placements are combined to give final positions. In nearly all cases, full sequence and primer-based locations are in agreement, but in cases of disagreement, full sequence positions are used. Sequence and primer information for the markers were obtained from the primary sites for each of the maps, and from NCBI UniSTS (now part of NCBI Probe). Using the Filter The track filter can be used to change the color or include/exclude a set of map data within the track. This is helpful when many items are shown in the track display, especially when only some are relevant to the current task. To use the filter: In the pulldown menu, select the map whose data you would like to highlight or exclude in the display. By default, the &quot;All Genetic&quot; option is selected. Choose the color or display characteristic that will be used to highlight or include/exclude the filtered items. If &quot;exclude&quot; is chosen, the browser will not display data from the map selected in the pulldown list. If &quot;include&quot; is selected, the browser will display only data from the selected map. When you have finished configuring the filter, click the Submit button. Credits This track was designed and implemented by Terry Furey. Many thanks to the researchers who worked on these maps, and to Greg Schuler, Arek Kasprzyk, Wonhee Jang, and Sanja Rogic for helping process the data. Additional data on the individual maps can be found at the following links: Genethon map Marshfield map deCODE map GeneMap99 GB4 and G3 maps Stanford TNG (Center has closed) Whitehead YAC and RH maps 
tabulaSapiensFullDetails Tabula Details Tabula sapiens full details view Single Cell RNA-seq Description This track shows data from The Tabula Sapiens: a multiple organ single cell transcriptomic atlas of humans. The dataset covers ~500,000 cells from a total of 24 human tissues and organs from all regions of the body using both droplet-based and plate-based single-cell RNA-sequencing (scRNA-seq). Samples were taken from the human bladder, blood, bone marrow, eye, fat, heart, kidney, large intestine, liver, lung, lymph node, mammary, muscle, pancreas, prostate, salivary gland, skin, small intestine, spleen, thymus, tongue, trachea, uterus, and vasculature. The dataset includes 264,009 immune cells, 102,580 epithelial cells, 32,701 endothelial cells, and 81,529 stromal cells. A total of 475 distinct cell types were identified. The read count is calculated by taking, for this cell type and gene location, the total number of transcript reads divided by the number of cells, and is therefore an average or mean value. This track collection contains two bar chart tracks of RNA expression. The first track, Tabula Tissue Cell allows cells to be grouped together and faceted on up to 3 categories: tissue, cell class, and cell type. The second track, Tabula Details allows cells to be grouped together and faceted on up to 7 categories: tissue, cell class, cell type, subtissue, sex, donor, and assay. Please see tabula-sapiens-portal.ds.czbiohub.org for further interactive displays and additional data. Display Conventions and Configuration The cell types are colored by which compartment they belong to according to the following table. In addition, cells found in the Tabula Details track with less than 100 transcripts will be a lighter shade and less concentrated in color to represent a low number of transcripts. Color Cell Compartment epithelial endothelial germline immune stromal Methods All tissues 36 tissue specimens comprising 24 unique tissues and organs were collected from 15 human donors (TSP1-15) with a mean age of 51 years. Tissue specimens were collected at various hospital locations in the Northern California region and transported on ice in less than one hour to preserve cell viability. Single cell suspensions from each organ were prepared in tissue expert laboratories at Stanford and UCSF. For each tissue, the dissociated cells were sorted using MACS and FACS to balance immune, stromal, epithelial, and endothelial cell types. Sequencing libraries for all tissues were prepared using 10x 3' v3.1, 10x 5' v2, and Smart-seq2 (SS2) protocols for Illumina sequencing. Two 10x reactions per organ were loaded with 7,000 cells each with the goal to yield 10,000 QC-passed cells. Four 384-well Smartseq2 plates were run per organ. In most organs, one plate was used for each compartment (epithelial, endothelial, immune, and stromal), however, to capture rare cells, some organ experts allocated cells across the four plates differently. Sequencing runs for droplet libraries were loaded onto the NovaSeq S4 flow cell in sets of 16 to 20 libraries of approximately 5,000 cells per library with the goal of generating 50,000 to 75,000 reads per cell. Plate libraries were run in sets of 20 plates on Novaseq S4 flow cells to allow generating 1M reads per cell, depending on library quality. 152 10x reactions were performed, yielding 454,069 cells passing QC, and 161 smartseq2 plates were processed, yielding 27,051 cells passing QC. Tissues collected from the same donor were used to study the clonal distribution of T cells between tissues, to understand the tissue specific mutation rate in B cells, and to analyze the cell cycle state and proliferative potential of shared cell types across tissues. RNA splicing analysis was also used to characterize cell type specific splicing and its variation across individuals. For detailed methods and information on donors for each organ or tissue please refer to Quake et al, 2021 or the Tabula Sapiens website. Errata Some cell types, particularly in the intestines, are duplicated due to the use of multiple ontologies for the same cell type. In a future version, we plan to pool the data from these duplicates. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. The expScores field for this track contains a comma-separated list of values for each cell type, and the expCount field is the size of the expScores array, which is the total number of cell types. The value in the expScores field corresponds to the read count for that cell type, and the order of the cell types is defined by the barChartBars line in the trackDb file for this track. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The UCSC utilities can be found on our download server. Credits Thanks to the Tabula Sapiens Consortium who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent, Brittney Wick, and Rachel Schwartz. References The Tabula Sapiens Consortium, Quake SR., The Tabula Sapiens: A Multiple Organ Single Cell Transcriptomic Atlas of Humans. bioRxiv. 2021 March 4.; doi: https://doi.org/10.1101/2021.07.19.452956. 
tabulaSapiens Tabula Sapiens Tabula Sapiens single cell RNA data from many tissues Single Cell RNA-seq Description This track shows data from The Tabula Sapiens: a multiple organ single cell transcriptomic atlas of humans. The dataset covers ~500,000 cells from a total of 24 human tissues and organs from all regions of the body using both droplet-based and plate-based single-cell RNA-sequencing (scRNA-seq). Samples were taken from the human bladder, blood, bone marrow, eye, fat, heart, kidney, large intestine, liver, lung, lymph node, mammary, muscle, pancreas, prostate, salivary gland, skin, small intestine, spleen, thymus, tongue, trachea, uterus, and vasculature. The dataset includes 264,009 immune cells, 102,580 epithelial cells, 32,701 endothelial cells, and 81,529 stromal cells. A total of 475 distinct cell types were identified. The read count is calculated by taking, for this cell type and gene location, the total number of transcript reads divided by the number of cells, and is therefore an average or mean value. This track collection contains two bar chart tracks of RNA expression. The first track, Tabula Tissue Cell allows cells to be grouped together and faceted on up to 3 categories: tissue, cell class, and cell type. The second track, Tabula Details allows cells to be grouped together and faceted on up to 7 categories: tissue, cell class, cell type, subtissue, sex, donor, and assay. Please see tabula-sapiens-portal.ds.czbiohub.org for further interactive displays and additional data. Display Conventions and Configuration The cell types are colored by which compartment they belong to according to the following table. In addition, cells found in the Tabula Details track with less than 100 transcripts will be a lighter shade and less concentrated in color to represent a low number of transcripts. Color Cell Compartment epithelial endothelial germline immune stromal Methods All tissues 36 tissue specimens comprising 24 unique tissues and organs were collected from 15 human donors (TSP1-15) with a mean age of 51 years. Tissue specimens were collected at various hospital locations in the Northern California region and transported on ice in less than one hour to preserve cell viability. Single cell suspensions from each organ were prepared in tissue expert laboratories at Stanford and UCSF. For each tissue, the dissociated cells were sorted using MACS and FACS to balance immune, stromal, epithelial, and endothelial cell types. Sequencing libraries for all tissues were prepared using 10x 3' v3.1, 10x 5' v2, and Smart-seq2 (SS2) protocols for Illumina sequencing. Two 10x reactions per organ were loaded with 7,000 cells each with the goal to yield 10,000 QC-passed cells. Four 384-well Smartseq2 plates were run per organ. In most organs, one plate was used for each compartment (epithelial, endothelial, immune, and stromal), however, to capture rare cells, some organ experts allocated cells across the four plates differently. Sequencing runs for droplet libraries were loaded onto the NovaSeq S4 flow cell in sets of 16 to 20 libraries of approximately 5,000 cells per library with the goal of generating 50,000 to 75,000 reads per cell. Plate libraries were run in sets of 20 plates on Novaseq S4 flow cells to allow generating 1M reads per cell, depending on library quality. 152 10x reactions were performed, yielding 454,069 cells passing QC, and 161 smartseq2 plates were processed, yielding 27,051 cells passing QC. Tissues collected from the same donor were used to study the clonal distribution of T cells between tissues, to understand the tissue specific mutation rate in B cells, and to analyze the cell cycle state and proliferative potential of shared cell types across tissues. RNA splicing analysis was also used to characterize cell type specific splicing and its variation across individuals. For detailed methods and information on donors for each organ or tissue please refer to Quake et al, 2021 or the Tabula Sapiens website. Errata Some cell types, particularly in the intestines, are duplicated due to the use of multiple ontologies for the same cell type. In a future version, we plan to pool the data from these duplicates. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. The expScores field for this track contains a comma-separated list of values for each cell type, and the expCount field is the size of the expScores array, which is the total number of cell types. The value in the expScores field corresponds to the read count for that cell type, and the order of the cell types is defined by the barChartBars line in the trackDb file for this track. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The UCSC utilities can be found on our download server. Credits Thanks to the Tabula Sapiens Consortium who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent, Brittney Wick, and Rachel Schwartz. References The Tabula Sapiens Consortium, Quake SR., The Tabula Sapiens: A Multiple Organ Single Cell Transcriptomic Atlas of Humans. bioRxiv. 2021 March 4.; doi: https://doi.org/10.1101/2021.07.19.452956. 
tabulaSapiensTissueCellType Tabula Tissue Cell Tabula sapiens RNA by tissue and cell type Single Cell RNA-seq Description This track shows data from The Tabula Sapiens: a multiple organ single cell transcriptomic atlas of humans. The dataset covers ~500,000 cells from a total of 24 human tissues and organs from all regions of the body using both droplet-based and plate-based single-cell RNA-sequencing (scRNA-seq). Samples were taken from the human bladder, blood, bone marrow, eye, fat, heart, kidney, large intestine, liver, lung, lymph node, mammary, muscle, pancreas, prostate, salivary gland, skin, small intestine, spleen, thymus, tongue, trachea, uterus, and vasculature. The dataset includes 264,009 immune cells, 102,580 epithelial cells, 32,701 endothelial cells, and 81,529 stromal cells. A total of 475 distinct cell types were identified. The read count is calculated by taking, for this cell type and gene location, the total number of transcript reads divided by the number of cells, and is therefore an average or mean value. This track collection contains two bar chart tracks of RNA expression. The first track, Tabula Tissue Cell allows cells to be grouped together and faceted on up to 3 categories: tissue, cell class, and cell type. The second track, Tabula Details allows cells to be grouped together and faceted on up to 7 categories: tissue, cell class, cell type, subtissue, sex, donor, and assay. Please see tabula-sapiens-portal.ds.czbiohub.org for further interactive displays and additional data. Display Conventions and Configuration The cell types are colored by which compartment they belong to according to the following table. In addition, cells found in the Tabula Details track with less than 100 transcripts will be a lighter shade and less concentrated in color to represent a low number of transcripts. Color Cell Compartment epithelial endothelial germline immune stromal Methods All tissues 36 tissue specimens comprising 24 unique tissues and organs were collected from 15 human donors (TSP1-15) with a mean age of 51 years. Tissue specimens were collected at various hospital locations in the Northern California region and transported on ice in less than one hour to preserve cell viability. Single cell suspensions from each organ were prepared in tissue expert laboratories at Stanford and UCSF. For each tissue, the dissociated cells were sorted using MACS and FACS to balance immune, stromal, epithelial, and endothelial cell types. Sequencing libraries for all tissues were prepared using 10x 3' v3.1, 10x 5' v2, and Smart-seq2 (SS2) protocols for Illumina sequencing. Two 10x reactions per organ were loaded with 7,000 cells each with the goal to yield 10,000 QC-passed cells. Four 384-well Smartseq2 plates were run per organ. In most organs, one plate was used for each compartment (epithelial, endothelial, immune, and stromal), however, to capture rare cells, some organ experts allocated cells across the four plates differently. Sequencing runs for droplet libraries were loaded onto the NovaSeq S4 flow cell in sets of 16 to 20 libraries of approximately 5,000 cells per library with the goal of generating 50,000 to 75,000 reads per cell. Plate libraries were run in sets of 20 plates on Novaseq S4 flow cells to allow generating 1M reads per cell, depending on library quality. 152 10x reactions were performed, yielding 454,069 cells passing QC, and 161 smartseq2 plates were processed, yielding 27,051 cells passing QC. Tissues collected from the same donor were used to study the clonal distribution of T cells between tissues, to understand the tissue specific mutation rate in B cells, and to analyze the cell cycle state and proliferative potential of shared cell types across tissues. RNA splicing analysis was also used to characterize cell type specific splicing and its variation across individuals. For detailed methods and information on donors for each organ or tissue please refer to Quake et al, 2021 or the Tabula Sapiens website. Errata Some cell types, particularly in the intestines, are duplicated due to the use of multiple ontologies for the same cell type. In a future version, we plan to pool the data from these duplicates. Data Access The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. The expScores field for this track contains a comma-separated list of values for each cell type, and the expCount field is the size of the expScores array, which is the total number of cell types. The value in the expScores field corresponds to the read count for that cell type, and the order of the cell types is defined by the barChartBars line in the trackDb file for this track. The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The UCSC utilities can be found on our download server. Credits Thanks to the Tabula Sapiens Consortium who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent, Brittney Wick, and Rachel Schwartz. References The Tabula Sapiens Consortium, Quake SR., The Tabula Sapiens: A Multiple Organ Single Cell Transcriptomic Atlas of Humans. bioRxiv. 2021 March 4.; doi: https://doi.org/10.1101/2021.07.19.452956. 
gdcCancer TCGA Pan-Cancer TCGA Pan-Cancer mutations: 33 TCGA Cancer Projects Summary (Pan-Can 33) Phenotypes, Variants, and Literature Description This track shows the genomic positions of somatic variants found through whole genome sequencing of tumors as part of The Cancer Genome Atlas (TCGA) by the National Cancer Institute, made available through the Genomic Data Commons Portal. The data shown here is sometimes called the &quot;Pan-Cancer dataset&quot;, a collection of thirty-three TCGA projects processed in a uniform way. Display Conventions and Configuration Variants can be filtered by project ID and gender from the track details page. Pressing the &quot;All&quot; button allows the user to specify whether the checked values all have to be true of a particular variant, or if only one of them need be present to satisfy the filter. The vertical viewing range in full mode can also be used to filter what variants are shown. Variants that have a sampleCount more or less than the min and max values specificed in the viewing range are not displayed. Data access The raw data can be explored interactively with the Table Browser or the Data Integrator. For automated download and analysis, the genome annotation for all the thirty-three projects is stored in a bigBed file that can be downloaded from our download server. There are also bigBed files for each of the thirty-three projects in that directory. Individual regions or the whole genome annotation can be obtained using our tool bigBedToBed which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tool can also be used to obtain only features within a given range, e.g., bigBedToBed http://hgdownload.soe.ucsc.edu/gbdb/hg38/gdcCancer/gdcCancer.bb -chrom=chr21 -start=0 -end=100000000 stdout Methods All MuTect Variant calls were downloaded from the GDC portal in January 2019 and reformatted at UCSC to the bigBed format with a short script, cancerMafToBigBed. Credits Thanks to GDC for making the TCGA data available on their web site. 
KICH KICH Kidney Chromophobe Phenotypes, Variants, and Literature 
UVM UVM Uveal Melanoma Phenotypes, Variants, and Literature 
UCS UCS Uterine Carcinosarcoma Phenotypes, Variants, and Literature 
UCEC UCEC Uterine Corpus Endometrial Carcinoma Phenotypes, Variants, and Literature 
THYM THYM Thymoma Phenotypes, Variants, and Literature 
THCA THCA Thyroid carcinoma Phenotypes, Variants, and Literature 
TGCT TGCT Testicular Germ Cell Tumors Phenotypes, Variants, and Literature 
STAD STAD Stomach adenocarcinoma Phenotypes, Variants, and Literature 
SKCM SKCM Skin Cutaneous Melanoma Phenotypes, Variants, and Literature 
SARC SARC Sarcoma Phenotypes, Variants, and Literature 
READ READ Rectum adenocarcinoma Phenotypes, Variants, and Literature 
PRAD PRAD Prostate adenocarcinoma Phenotypes, Variants, and Literature 
PCPG PCPG Pheochromocytoma and Paraganglioma Phenotypes, Variants, and Literature 
PAAD PAAD Pancreatic adenocarcinoma Phenotypes, Variants, and Literature 
OV OV Ovarian serous cystadenocarcinoma Phenotypes, Variants, and Literature 
MESO MESO Mesothelioma Phenotypes, Variants, and Literature 
LUSC LUSC Lung squamous cell carcinoma Phenotypes, Variants, and Literature 
LUAD LUAD Lung adenocarcinoma Phenotypes, Variants, and Literature 
LIHC LIHC Liver hepatocellular carcinoma Phenotypes, Variants, and Literature 
LGG LGG Brain Lower Grade Glioma Phenotypes, Variants, and Literature 
LAML LAML Acute Myeloid Leukemia Phenotypes, Variants, and Literature 
KIRP KIRP Kidney renal papillary cell carcinoma Phenotypes, Variants, and Literature 
KIRC KIRC Kidney renal clear cell carcinoma Phenotypes, Variants, and Literature 
HNSC HNSC Head and Neck squamous cell carcinoma Phenotypes, Variants, and Literature 
GBM GBM Glioblastoma multiforme Phenotypes, Variants, and Literature 
ESCA ESCA Esophageal carcinoma Phenotypes, Variants, and Literature 
DLBC DLBC Lymphoid Neoplasm Diffuse Large B-cell Lymphoma Phenotypes, Variants, and Literature 
COAD COAD Colon adenocarcinoma Phenotypes, Variants, and Literature 
CHOL CHOL Cholangiocarcinoma Phenotypes, Variants, and Literature 
CESC CESC Cervical squamous cell carcinoma and endocervical adenocarcinoma Phenotypes, Variants, and Literature 
BRCA BRCA Breast invasive carcinoma Phenotypes, Variants, and Literature 
BLCA BLCA Bladder Urothelial Carcinoma Phenotypes, Variants, and Literature 
ACC ACC Adrenocortical carcinoma Phenotypes, Variants, and Literature 
allCancer All Cancers All TCGA Pan-Cancer mutations: 33 TCGA Cancer Projects Summary (Pan-Can 33) Phenotypes, Variants, and Literature 
tommoStr ToMMo 61k STR ToMMo 61KJPN Short Tandem Repeat Allele Counts (Expansion Hunter) Variation Description This track shows allele count distributions for 174,300 short tandem repeat (STR) loci genotyped across 61,000 Japanese individuals by the Tohoku Medical Megabank Organization (ToMMo). STR genotyping was performed with Expansion Hunter, which estimates repeat copy numbers from short-read whole-genome sequencing data. For each locus, the track provides the repeat motif, the reference copy number, the mean and median copy number across the cohort, and a histogram of allele counts by repeat size. Click on any locus to see the allele count distribution as a bar chart. Display Conventions Items are colored by expected heterozygosity, computed as het = 1 &minus; &sum;pi2 from allele counts across the 61,000 Japanese individuals: Light gray &ndash; monomorphic (het = 0, single allele observed) Dark blue &ndash; nearly monomorphic (0 &lt; het &lt; 0.1) Medium blue &ndash; low diversity (het 0.1&ndash;0.3) Light purple &ndash; moderate diversity (het 0.3&ndash;0.5) Salmon &ndash; high diversity (het 0.5&ndash;0.7) Dark red &ndash; very high diversity (het &ge; 0.7) Medium gray &ndash; no allele frequency data available The allele count histogram on the detail page shows the number of alleles observed at each repeat copy number. The reference allele count is computed as AN minus the sum of all alternate allele counts. Methods Genomic DNA was obtained from peripheral blood, saliva, or cord blood samples from participants in the Tohoku Medical Megabank Project. Whole-genome sequencing was performed on multiple Illumina and MGI platforms (HiSeq 2500, NovaSeq 6000, DNBSeq-T7). STR genotyping was performed with Expansion Hunter, which uses paired-end reads and read pairs spanning, flanking, and fully contained within repeat regions to estimate repeat copy numbers. At UCSC, the Expansion Hunter VCF was converted to bigBed format using a custom Python script. For each STR locus, the &lt;STRn&gt; symbolic alleles in the VCF ALT field encode the repeat copy number, and the INFO/AC field provides the allele count for each. The reference allele count was computed as AN minus the sum of all alternate AC values. These were assembled into a histogram of copies=count pairs for display. Data Access The raw data can be explored interactively with the Table Browser or the Data Integrator. The data can be accessed from scripts through our API, the track name is tommoStr. For automated download and analysis, the genome annotation is stored in a bigBed file that can be downloaded from our download server. The file for this track is called tommoStr.bb. Individual regions or the whole genome annotation can be obtained using our tool bigBedToBed, which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tool can also be used to obtain features within a given range, e.g. bigBedToBed http://hgdownload.soe.ucsc.edu/gbdb/hg38/strVar/tommoStr.bb -chrom=chr21 -start=0 -end=100000000 stdout The original data can be downloaded from the jMorp 61KJPN-STR Downloads page. Use of the data requires agreement to the ToMMo conditions of use. Credits Thanks to the Tohoku Medical Megabank Organization and the participants of the ToMMo cohort study for making this data publicly available. References Tadaka S, Hishinuma E, Komaki S, Motoike IN, Kawashima J, Saigusa D, Inoue J, Takayama J, Okamura Y, Aoki Y et al. jMorp updates in 2020: large enhancement of multi-omics data resources on the general Japanese population. Nucleic Acids Res. 2021 Jan 8;49(D1):D536-D544. PMID: 33179747; PMC: PMC7779038 Tadaka S, Kawashima J, Hishinuma E, Saito S, Okamura Y, Otsuki A, Kojima K, Komaki S, Aoki Y, Kanno T et al. jMorp: Japanese Multi-Omics Reference Panel update report 2023. Nucleic Acids Res. 2024 Jan 5;52(D1):D622-D632. PMID: 37930845; PMC: PMC10767895 
trexplorer TRExplorer TRExplorer V2 Tandem Repeat Catalog Variation Description The TRExplorer track displays 5,599,658 tandem repeat (TR) loci from the TRExplorer catalog. Tandem repeats are adjacent copies of a short DNA sequence motif; they include short tandem repeats (STRs, motifs of 1&ndash;6 bp) and variable number tandem repeats (VNTRs, longer motifs). TRs are among the most polymorphic and mutationally active loci in the human genome, contributing to gene expression variation, complex disease risk, and over 60 known Mendelian disorders. The catalog integrates loci from multiple sources, including perfect repeats in the reference genome, polymorphic TRs discovered in T2T assemblies and the Illumina 174k cohort, HipSTR catalog loci, and curated disease-associated repeat expansions. Each locus is annotated with repeat purity, gene context, disease associations, and population allele frequency data from up to three cohorts. Display Conventions Items are colored by expected heterozygosity, computed as het = 1 &minus; &sum;pi2 from allele counts pooled across the TenK10K and HPRC256 cohorts: Light gray &ndash; monomorphic (het = 0, single allele observed) Dark blue &ndash; nearly monomorphic (0 &lt; het &lt; 0.1) Medium blue &ndash; low diversity (het 0.1&ndash;0.3) Light purple &ndash; moderate diversity (het 0.3&ndash;0.5) Salmon &ndash; high diversity (het 0.5&ndash;0.7) Dark red &ndash; very high diversity (het &ge; 0.7) Medium gray &ndash; no allele frequency data available Items are labeled by the repeat motif sequence (truncated with &ldquo;..&rdquo; for motifs longer than 25 characters). The BED score reflects repeat purity (0&ndash;1000). Hovering over an item shows the full motif, motif size, number of reference copies, repeat purity, gene annotation, and data source. Clicking an item opens the details page, which includes a link to the corresponding TRExplorer locus page with interactive allele frequency visualizations. Population Frequency Data Allele frequency histograms are available for two cohorts where genotyping was performed: TenK10K &ndash; 1,925 short-read genomes of European ancestry genotyped using ExpansionHunter HPRC256 &ndash; 256 diverse HiFi PacBio genomes from the Human Pangenome Reference Consortium genotyped using TRGT-LPS For each cohort, two parallel fields store allele sizes (in repeat copy numbers) and their corresponding counts, preserving the original order for histogram visualization. Summary allele counts are also available for the AoU1027 cohort (1,027 HiFi PacBio samples from the All of Us Research Program genotyped using TRGT-LPS). Data Sources Loci in this catalog were compiled from multiple sources: PerfectRepeatsInReference &ndash; 4.4M loci with perfect tandem repeats in the GRCh38 reference PolymorphicTRsInT2TAssemblies &ndash; TRs polymorphic across T2T assemblies Illumina174kPolymorphicTRs &ndash; TRs polymorphic in the Illumina 174k cohort HipSTRCatalog &ndash; loci from the HipSTR reference panel AdottoTRsFromDanzi2025 &ndash; TRs from Danzi et al. 2025 KnownDiseaseAssociatedLoci &ndash; curated disease-associated repeat expansion loci Additional sources: VamosV3, Hause2016, Manigbas2024, Garg2021, Tanudisastro2025, Sulovari2021, Annear2021, Mukamel2021, ClinvarIndelsThatAreTRs2025, KnownFunctionalVNTRs Methods The TRExplorer catalog was built by merging tandem repeat annotations from multiple reference-based and population-based discovery approaches. For each locus, the repeat motif, copy number, and purity were determined from the GRCh38 reference sequence. Gene annotations were derived from MANE Select transcripts (with fallback to Gencode). Population allele frequencies were obtained by genotyping large cohorts using ExpansionHunter and other TR genotyping tools. For the UCSC Genome Browser track, the source catalog (TSV format) was converted to bigBed format. Coordinates in the source data are already 0-based half-open (BED convention). Allele frequency histograms were split into parallel size and count fields to facilitate visualization. Items are colored by expected heterozygosity. Data Access The raw data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. The underlying bigBed file can be downloaded from our download server. The complete TRExplorer dataset and interactive tools are available from the TRExplorer web portal at the Broad Institute. Credits Thanks to Ben Weisburd, Egor Dolzhenko, and the TRExplorer team for making these data available. References Weisburd B, Dolzhenko E, Bennett MF, Danzi MC, Xu IRL, Tanudisastro H, Gu B, English A, Hiatt L, Mokveld T et al. TRExplorer: A comprehensive catalog of tandem repeat variation in the human genome. bioRxiv. 2024. doi: 10.1101/2024.10.04.615514 
tRNAs tRNA Genes Transfer RNA Genes Identified with tRNAscan-SE Genes and Gene Predictions Description This track displays tRNA genes predicted by using tRNAscan-SE v.1.23. tRNAscan-SE is an integrated program that uses tRNAscan (Fichant) and an A/B box motif detection algorithm (Pavesi) as pre-filters to obtain an initial list of tRNA candidates. The program then filters these candidates with a covariance model-based search program COVE (Eddy) to obtain a highly specific set of primary sequence and secondary structure predictions that represent 99-100% of true tRNAs with a false positive rate of fewer than 1 per 15 gigabases. Detailed tRNA annotations for eukaryotes, bacteria, and archaea are available at Genomic tRNA Database (GtRNAdb). What does the tRNAscan-SE score mean? Anything with a score above 20 bits is likely to be derived from a tRNA, although this does not indicate whether the tRNA gene still encodes a functional tRNA molecule (i.e. tRNA-derived SINES probably do not function in the ribosome in translation). Vertebrate tRNAs with scores of &gt;60.0 (bits) are likely to encode functional tRNA genes, and those with scores below ~45 have sequence or structural features that indicate they probably are no longer involved in translation. tRNAs with scores between 45-60 bits are in the &quot;grey&quot; zone, and may or may not have all the required features to be functional. In these cases, tRNAs should be inspected carefully for loss of specific primary or secondary structure features (usually in alignments with other genes of the same isotype), in order to make a better educated guess. These rough score range guides are not exact, nor are they based on specific biochemical studies of atypical tRNA features, so please treat them accordingly. Please note that tRNA genes marked as &quot;Pseudo&quot; are low scoring predictions that are mostly pseudogenes or tRNA-derived elements. These genes do not usually fold into a typical cloverleaf tRNA secondary structure and the provided images of the predicted secondary structures may appear rotated. Credits Both tRNAscan-SE and GtRNAdb are maintained by the Lowe Lab at UCSC. Cove-predicted tRNA secondary structures were rendered by NAVIEW (c) 1988 Robert E. Bruccoleri. References When making use of these data, please cite the following articles: Chan PP, Lowe TM. GtRNAdb: a database of transfer RNA genes detected in genomic sequence. Nucleic Acids Res. 2009 Jan;37(Database issue):D93-7. PMID: 18984615; PMC: PMC2686519 Eddy SR, Durbin R. RNA sequence analysis using covariance models. Nucleic Acids Res. 1994 Jun 11;22(11):2079-88. PMID: 8029015; PMC: PMC308124 Fichant GA, Burks C. Identifying potential tRNA genes in genomic DNA sequences. J Mol Biol. 1991 Aug 5;220(3):659-71. PMID: 1870126 Lowe TM, Eddy SR. tRNAscan-SE: a program for improved detection of transfer RNA genes in genomic sequence. Nucleic Acids Res. 1997 Mar 1;25(5):955-64. PMID: 9023104; PMC: PMC146525 Pavesi A, Conterio F, Bolchi A, Dieci G, Ottonello S. Identification of new eukaryotic tRNA genes in genomic DNA databases by a multistep weight matrix analysis of transcriptional control regions. Nucleic Acids Res. 1994 Apr 11;22(7):1247-56. PMID: 8165140; PMC: PMC523650 
knownAlt UCSC Alt Events Alternative Splicing, Alternative Promoter and Similar Events in UCSC Genes Genes and Gene Predictions Description This track shows various types of alternative splicing and other events that result in more than a single transcript from the same gene. The label by an item describes the type of event. The events are: Alternate Promoter (altPromoter) - Transcription starts at multiple places. The altPromoter extends from 100 bases before to 50 bases after transcription start. Alternate Finish Site (altFinish) - Transcription ends at multiple places. Cassette Exon (cassetteExon) - Exon is present in some transcripts but not others. These are found by looking for exons that overlap an intron in the same transcript. Retained Intron (retainedIntron) - Introns are spliced out in some transcripts but not others. In some cases, particularly when the intron is near the 3' end, this can reflect an incompletely processed transcript rather than a true alt-splicing event. Overlapping Exon (bleedingExon) - Initial or terminal exons overlap in an intron in another transcript. These often are associated with incompletely processed transcripts. Alternate 3' End (altThreePrime) - Variations on the 3' end of an intron. Alternate 5' End (altFivePrime) - Variations on the 5' end of an intron. Intron Ends have AT/AC (atacIntron) - An intron with AT/AC ends rather than the usual GT/AG. These are associated with the minor spliceosome. Strange Intron Ends (strangeSplice) - An intron with ends that are not GT/AG, GC/AG, or AT/AC. These are usually artifacts of some sort due to sequencing error or polymorphism. Credits This track is based on an analysis by the txgAnalyse program of splicing graphs produced by the txGraph program. Both of these programs were written by Jim Kent at UCSC. 
umap Umap Single-read and multi-read mappability by Umap Mapping and Sequencing Description These tracks indicate regions with uniquely mappable reads of particular lengths before and after bisulfite conversion. Both Umap and Bismap tracks contain single-read mappability and multi-read mappability tracks for four different read lengths: 24 bp, 36 bp, 50 bp, and 100 bp. You can use these tracks for many purposes, including filtering unreliable signal from sequencing assays. The Bismap track can help filter unreliable signal from sequencing assays involving bisulfite conversion, such as whole-genome bisulfite sequencing or reduced representation bisulfite sequencing. Bismap single-read and multi-read mappability Bismap single-read mappability These tracks mark any region of the bisulfite-converted genome that is uniquely mappable by at least one k-mer on the specified strand. Mappability of the forward strand was generated by converting all instances of cytosine to thymine. Similarly, mappability of the reverse strand was generated by converting all instances of guanine to adenine. To calculate the single-read mappability, you must find the overlap of a given region with the region that is uniquely mappable on both strands. Regions not uniquely mappable on both strands or have a low multi-read mappability might bias the downstream analysis. Bismap multi-read mappability These tracks represent the probability that a randomly selected k-mer which overlaps with a given position is uniquely mappable. Multi-read mappability track is calculated for k-mers that are uniquely mappable on both strands, and thus there is no strand specification. Umap single-read and multi-read mappability Umap single-read mappability These tracks mark any region of the genome that is uniquely mappable by at least one k-mer. To calculate the single-read mappability, you must find the overlap of a given region with this track. Umap multi-read mappability These tracks represent the probability that a randomly selected k-mer which overlaps with a given position is uniquely mappable. For greater detail and explanatory diagrams, see the preprint, the Umap and Bismap project website, or the Umap and Bismap software documentation. Data Access The raw data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, genome annotation is stored in a bigBed or bigWig file that can be downloaded from the download server. Individual regions or the whole genome annotation can be obtained using our tool bigBedToBed or bigWigToWig, which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tool can also be used to obtain only features within a given range, for example: bigBedToBed -chrom=chr6 -start=0 -end=1000000 http://hgdownload.soe.ucsc.edu/gbdb/hg38/hoffmanMappability/k24.Unique.Mappability.bb stdout bigWigToWig -chrom=chr6 -start=0 -end=1000000 http://hgdownload.soe.ucsc.edu/gbdb/hg38/hoffmanMappability/k24.Umap.MultiTrackMappability.bw stdout Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credits Anshul Kundaje (Stanford University) created the original Umap software in MATLAB. The original Umap repository is available here. Mehran Karimzadeh (Michael Hoffman lab, Princess Margaret Cancer Centre) implemented the Python version of Umap and added features, including Bismap. References Karimzadeh M, Ernst C, Kundaje A, Hoffman MM., Umap and Bismap: quantifying genome and methylome mappability bioRxiv bioRxiv, p. 095463, 2016.; doi: https://doi.org/10.1101/095463. 
umapBigBed Umap Single-read and multi-read mappability by Umap Mapping and Sequencing 
umap100 Umap S100 Single-read mappability with 100-mers Mapping and Sequencing 
umap50 Umap S50 Single-read mappability with 50-mers Mapping and Sequencing 
umap36 Umap S36 Single-read mappability with 36-mers Mapping and Sequencing 
umap24 Umap S24 Single-read mappability with 24-mers Mapping and Sequencing 
umapBigWig Umap Single-read and multi-read mappability by Umap Mapping and Sequencing 
umap100Quantitative Umap M100 Multi-read mappability with 100-mers Mapping and Sequencing 
umap50Quantitative Umap M50 Multi-read mappability with 50-mers Mapping and Sequencing 
umap36Quantitative Umap M36 Multi-read mappability with 36-mers Mapping and Sequencing 
umap24Quantitative Umap M24 Multi-read mappability with 24-mers Mapping and Sequencing 
uniprot UniProt UniProt SwissProt/TrEMBL Protein Annotations Genes and Gene Predictions Description This track shows protein sequences and annotations on them from the UniProt/SwissProt database, mapped to genomic coordinates. UniProt/SwissProt data has been curated from scientific publications by the UniProt staff, UniProt/TrEMBL data has been predicted by various computational algorithms. The annotations are divided into multiple subtracks, based on their &quot;feature type&quot; in UniProt. The first two subtracks below - one for SwissProt, one for TrEMBL - show the alignments of protein sequences to the genome, all other tracks below are the protein annotations mapped through these alignments to the genome. Track Name Description UCSC Alignment, SwissProt = curated protein sequences Protein sequences from SwissProt mapped to the genome. All other tracks are (start,end) SwissProt annotations on these sequences mapped through this alignment. Even protein sequences without a single curated annotation (splice isoforms) are visible in this track. Each UniProt protein has one main isoform, which is colored in dark. Alternative isoforms are sequences that do not have annotations on them and are colored in light-blue. They can be hidden with the TrEMBL/Isoform filter (see below). UCSC Alignment, TrEMBL = predicted protein sequences Protein sequences from TrEMBL mapped to the genome. All other tracks below are (start,end) TrEMBL annotations mapped to the genome using this track. This track is hidden by default. To show it, click its checkbox on the track configuration page. UniProt Signal Peptides Regions found in proteins destined to be secreted, generally cleaved from mature protein. UniProt Extracellular Domains Protein domains with the comment &quot;Extracellular&quot;. UniProt Transmembrane Domains Protein domains of the type &quot;Transmembrane&quot;. UniProt Cytoplasmic Domains Protein domains with the comment &quot;Cytoplasmic&quot;. UniProt Polypeptide Chains Polypeptide chain in mature protein after post-processing. UniProt Regions of Interest Regions that have been experimentally defined, such as the role of a region in mediating protein-protein interactions or some other biological process. UniProt Domains Protein domains, zinc finger regions and topological domains. UniProt Disulfide Bonds Disulfide bonds. UniProt Amino Acid Modifications Glycosylation sites, modified residues and lipid moiety-binding regions. UniProt Amino Acid Mutations Mutagenesis sites and sequence variants. UniProt Protein Primary/Secondary Structure Annotations Beta strands, helices, coiled-coil regions and turns. UniProt Sequence Conflicts Differences between Genbank sequences and the UniProt sequence. UniProt Repeats Regions of repeated sequence motifs or repeated domains. UniProt Other Annotations All other annotations, e.g. compositional bias For consistency and convenience for users of mutation-related tracks, the subtrack &quot;UniProt/SwissProt Variants&quot; is a copy of the track &quot;UniProt Variants&quot; in the track group &quot;Phenotype and Literature&quot;, or &quot;Variation and Repeats&quot;, depending on the assembly. Display Conventions and Configuration Genomic locations of UniProt/SwissProt annotations are labeled with a short name for the type of annotation (e.g. &quot;glyco&quot;, &quot;disulf bond&quot;, &quot;Signal peptide&quot; etc.). A click on them shows the full annotation and provides a link to the UniProt/SwissProt record for more details. TrEMBL annotations are always shown in light blue, except in the Signal Peptides, Extracellular Domains, Transmembrane Domains, and Cytoplamsic domains subtracks. Mouse over a feature to see the full UniProt annotation comment. For variants, the mouse over will show the full name of the UniProt disease acronym. The subtracks for domains related to subcellular location are sorted from outside to inside of the cell: Signal peptide, extracellular, transmembrane, and cytoplasmic. Features in the &quot;UniProt Modifications&quot; (modified residues) track are drawn in light green. Disulfide bonds are shown in dark grey. Topological domains in maroon and zinc finger regions in olive green. Duplicate annotations are removed as far as possible: if a TrEMBL annotation has the same genome position and same feature type, comment, disease and mutated amino acids as a SwissProt annotation, it is not shown again. Two annotations mapped through different protein sequence alignments but with the same genome coordinates are only shown once. On the configuration page of this track, you can choose to hide any TrEMBL annotations. This filter will also hide the UniProt alternative isoform protein sequences because both types of information are less relevant to most users. Please contact us if you want more detailed filtering features. Note that for the human hg38 assembly and SwissProt annotations, there also is a public track hub prepared by UniProt itself, with genome annotations maintained by UniProt using their own mapping method based on those Gencode/Ensembl gene models that are annotated in UniProt for a given protein. For proteins that differ from the genome, UniProt's mapping method will, in most cases, map a protein and its annotations to an unexpected location (see below for details on UCSC's mapping method). Methods Briefly, UniProt protein sequences were aligned to the transcripts associated with the protein, the top-scoring alignments were retained, and the result was projected to the genome through a transcript-to-genome alignment. Depending on the genome, the transcript-genome alignments was either provided by the source database (NBCI RefSeq), created at UCSC (UCSC RefSeq) or derived from the transcripts (Ensembl/Augustus). The transcript set is NCBI RefSeq for hg38, UCSC RefSeq for hg19 (due to alt/fix haplotype misplacements in the NCBI RefSeq set on hg19). For other genomes, RefSeq, Ensembl and Augustus are tried, in this order. The resulting protein-genome alignments of this process are available in the file formats for liftOver or pslMap from our data archive (see "Data Access" section below). An important step of the mapping process protein -&gt; transcript -&gt; genome is filtering the alignment from protein to transcript. Due to differences between the UniProt proteins and the transcripts (proteins were made many years before the transcripts were made, and human genomes have variants), the transcript with the highest BLAST score when aligning the protein to all transcripts is not always the correct transcript for a protein sequence. Therefore, the protein sequence is aligned to only a very short list of one or sometimes more transcripts, selected by a three-step procedure: Use transcripts directly annotated by UniProt: for organisms that have a RefSeq transcript track, proteins are aligned to the RefSeq transcripts that are annotated by UniProt for this particular protein. Use transcripts for NCBI Gene ID annotated by UniProt: If no transcripts are annotated on the protein, or the annotated ones have been deprecated by NCBI, but a NCBI Gene ID is annotated, the RefSeq transcripts for this Gene ID are used. This can result in multiple matching transcripts for a protein. Use best matching transcript: If no NCBI Gene is annotated, then BLAST scores are used to pick the transcripts. There can be multiple transcripts for one protein, as their coding sequences can be identical. All transcripts within 1% of the highest observed BLAST score are used. For strategy 2 and 3, many of the transcripts found do not differ in coding sequence, so the resulting alignments on the genome will be identical. Therefore, any identical alignments are removed in a final filtering step. The details page of these alignments will contain a list of all transcripts that result in the same protein-genome alignment. On hg38, only a handful of edge cases (pseudogenes, very recently added proteins) remain in 2023 where strategy 3 has to be used. In other words, when an NCBI or UCSC RefSeq track is used for the mapping and to align a protein sequence to the correct transcript, we use a three stage process: If UniProt has annotated a given RefSeq transcript for a given protein sequence, the protein is aligned to this transcript. Any difference in the version suffix is tolerated in this comparison. If no transcript is annotated or the transcript cannot be found in the NCBI/UCSC RefSeq track, the UniProt-annotated NCBI Gene ID is resolved to a set of NCBI RefSeq transcript IDs via the most current version of NCBI genes tables. Only the top match of the resulting alignments and all others within 1% of its score are used for the mapping. If no transcript can be found after step (2), the protein is aligned to all transcripts, the top match, and all others within 1% of its score are used. This system was designed to resolve the problem of incorrect mappings of proteins, mostly on hg38, due to differences between the SwissProt sequences and the genome reference sequence, which has changed since the proteins were defined. The problem is most pronounced for gene families composed of either very repetitive or very similar proteins. To make sure that the alignments always go to the best chromosome location, all _alt and _fix reference patch sequences are ignored for the alignment, so the patches are entirely free of UniProt annotations. Please contact us if you have feedback on this process or example edge cases. We are not aware of a way to evaluate the results completely and in an automated manner. Proteins were aligned to transcripts with TBLASTN, converted to PSL, filtered with pslReps (93% query coverage, keep alignments within top 1% score), lifted to genome positions with pslMap and filtered again with pslReps. UniProt annotations were obtained from the UniProt XML file. The UniProt annotations were then mapped to the genome through the alignment described above using the pslMap program. This approach draws heavily on the LS-SNP pipeline by Mark Diekhans. Like all Genome Browser source code, the main script used to build this track can be found on Github. Older releases This track is automatically updated on an ongoing basis, every 2-3 months. The current version name is always shown on the track details page, it includes the release of UniProt, the version of the transcript set and a unique MD5 that is based on the protein sequences, the transcript sequences, the mapping file between both and the transcript-genome alignment. The exact transcript that was used for the alignment is shown when clicking a protein alignment in one of the two alignment tracks. For reproducibility of older analysis results and for manual inspection, previous versions of this track are available for browsing in the form of the UCSC UniProt Archive Track Hub (click this link to connect the hub now). The underlying data of all releases of this track (past and current) can be obtained from our downloads server, including the UniProt protein-to-genome alignment. Data Access The raw data of the current track can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the genome annotation is stored in a bigBed file that can be downloaded from the download server. The exact filenames can be found in the track configuration file. Annotations can be converted to ASCII text by our tool bigBedToBed which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tool can also be used to obtain only features within a given range, for example: bigBedToBed http://hgdownload.soe.ucsc.edu/gbdb/hg38/uniprot/unipStruct.bb -chrom=chr6 -start=0 -end=1000000 stdout Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Lifting from UniProt to genome coordinates in pipelines To facilitate mapping protein coordinates to the genome, we provide the alignment files in formats that are suitable for our command line tools. Our command line programs liftOver or pslMap can be used to map coordinates on protein sequences to genome coordinates. The filenames are unipToGenome.over.chain.gz (liftOver) and unipToGenomeLift.psl.gz (pslMap). Example commands: wget -q https://hgdownload.soe.ucsc.edu/goldenPath/archive/hg38/uniprot/2022_03/unipToGenome.over.chain.gz wget -q https://hgdownload.soe.ucsc.edu/admin/exe/linux.x86_64/liftOver chmod a+x liftOver echo 'Q99697 1 10 annotationOnProtein' &gt; prot.bed liftOver prot.bed unipToGenome.over.chain.gz genome.bed cat genome.bed Credits This track was created by Maximilian Haeussler at UCSC, with a lot of input from Chris Lee, Mark Diekhans and Brian Raney, feedback from the UniProt staff, Alejo Mujica, Regeneron Pharmaceuticals and Pia Riestra, GeneDx. Thanks to UniProt for making all data available for download. References UniProt Consortium. Reorganizing the protein space at the Universal Protein Resource (UniProt). Nucleic Acids Res. 2012 Jan;40(Database issue):D71-5. PMID: 22102590; PMC: PMC3245120 Yip YL, Scheib H, Diemand AV, Gattiker A, Famiglietti LM, Gasteiger E, Bairoch A. The Swiss-Prot variant page and the ModSNP database: a resource for sequence and structure information on human protein variants. Hum Mutat. 2004 May;23(5):464-70. PMID: 15108278 
unipConflict Seq. Conflicts UniProt Sequence Conflicts Genes and Gene Predictions 
unipRepeat Repeats UniProt Repeats Genes and Gene Predictions 
unipStruct Structure UniProt Protein Primary/Secondary Structure Annotations Genes and Gene Predictions 
unipOther Other Annot. UniProt Other Annotations Genes and Gene Predictions 
unipMut Mutations UniProt Amino Acid Mutations Genes and Gene Predictions 
unipModif AA Modifications UniProt Amino Acid Modifications Genes and Gene Predictions 
unipDomain Domains UniProt Domains Genes and Gene Predictions 
unipDisulfBond Disulf. Bonds UniProt Disulfide Bonds Genes and Gene Predictions 
unipChain Chains UniProt Mature Protein Products (Polypeptide Chains) Genes and Gene Predictions 
unipLocCytopl Cytoplasmic UniProt Cytoplasmic Domains Genes and Gene Predictions 
unipLocTransMemb Transmembrane UniProt Transmembrane Domains Genes and Gene Predictions 
unipInterest Interest UniProt Regions of Interest Genes and Gene Predictions 
unipLocExtra Extracellular UniProt Extracellular Domain Genes and Gene Predictions 
unipLocSignal Signal Peptide UniProt Signal Peptides Genes and Gene Predictions 
unipAliTrembl TrEMBL Aln. UCSC alignment of TrEMBL proteins to genome Genes and Gene Predictions 
unipAliSwissprot SwissProt Aln. UCSC alignment of SwissProt proteins to genome (dark blue: main isoform, light blue: alternative isoforms) Genes and Gene Predictions 
spMut UniProt Variants UniProt/SwissProt Amino Acid Substitutions Phenotypes, Variants, and Literature Description NOTE: This track is intended for use primarily by physicians and other professionals concerned with genetic disorders, by genetics researchers, and by advanced students in science and medicine. While the genome browser database is open to the public, users seeking information about a personal medical or genetic condition are urged to consult with a qualified physician for diagnosis and for answers to personal questions. This track shows the genomic positions of natural and artifical amino acid variants in the UniProt/SwissProt database. The data has been curated from scientific publications by the UniProt staff. Display Conventions and Configuration Genomic locations of UniProt/SwissProt variants are labeled with the amino acid change at a given position and, if known, the abbreviated disease name. A &quot;?&quot; is used if there is no disease annotated at this location, but the protein is described as being linked to only a single disease in UniProt. Mouse over a mutation to see the UniProt comments. Artificially-introduced mutations are colored green and naturally-occurring variants are colored red. For full information about a particular variant, click the &quot;UniProt variant&quot; linkout. The &quot;UniProt record&quot; linkout lists all variants of a particular protein sequence. The &quot;Source articles&quot; linkout lists the articles in PubMed that originally described the variant(s) and were used as evidence by the UniProt curators. Methods UniProt sequences were aligned to RefSeq sequences first with BLAT, then lifted to genome positions with pslMap. UniProt variants were parsed from the UniProt XML file. The variants were then mapped to the genome through the alignment using the pslMap program. This mapping approach draws heavily on the LS-SNP pipeline by Mark Diekhans. The complete script is part of the kent source tree and is located in src/hg/utils/uniprotMutations. Data Access The raw data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the genome annotation is stored in a bigBed file that can be downloaded from the download server. The underlying data file for this track is called spMut.bb. Individual regions or the whole genome annotation can be obtained using our tool bigBedToBed which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tool can also be used to obtain only features within a given range, for example: bigBedToBed http://hgdownload.soe.ucsc.edu/gbdb/hg38/bbi/uniprot/spMut.bb -chrom=chr6 -start=0 -end=1000000 stdout Please refer to our mailing list archives for questions, or our Data Access FAQ for more information. Credits This track was created by Maximilian Haeussler, with advice from Mark Diekhans and Brian Raney. References UniProt Consortium. Reorganizing the protein space at the Universal Protein Resource (UniProt). Nucleic Acids Res. 2012 Jan;40(Database issue):D71-5. PMID: 22102590; PMC: PMC3245120 Yip YL, Scheib H, Diemand AV, Gattiker A, Famiglietti LM, Gasteiger E, Bairoch A. The Swiss-Prot variant page and the ModSNP database: a resource for sequence and structure information on human protein variants. Hum Mutat. 2004 May;23(5):464-70. PMID: 15108278 
unusualcons Unusually Conserved Unusually Conserved Regions - Ultracons, HARs, etc. Comparative Genomics Description These tracks show regions of unusual conservation in human relative to other organisms: Ultraconserved elements (UCE aka ultras): Elements with 100% identity in human/mouse/rat alignments. Many of these were tested in mice, see the VISTA enhancers track in the Regulation track group. (Bejerano et al., Science 2004) Human Accelerated Regions (HARs): 2,649 regions conserved throughout vertebrate evolution but strikingly different in humans (Pollard et al., Nature 2006). This extended list was collected by the Katie Pollard lab from various publications (Capra et al., PTRSB 2013). High-confidence Zoonomia Human Accelerated Regions (HARs): 312 HARs from the Zoonomia Alignments (Keough et al. Science, 2023) Human Ancestor Quickly Evolved Regions (HAQERs): 1,580 HAQERs from (Mangan et al., Cell 2023) Human-specific long deletions (hCondels) between human, macaque and chimpanzee: 583 regions (one not lifted) present in macaque and chimp, but not in humans. Since these are sequences absent from the human genome, we show the 2bp around the deletion. (McLean et al., Nature 2011) Short hCondels &lt; 40bp in primates and up to 11 vertebrates: 43,588 regions deleted in human but present in 11 vertebrates or primates. These regions were tested in an MPRA screen, the MPRA results are in the track and shown when clicking an element. Since the track is showing MPRA results and the position of deletions, what is shown in the track are regions &plusmn;100bp around the deletion site on the human genome, not just the two basepairs flanking the site of the deletion. (Xue et al., Science 2023) Zoonomia Ultraconserved elements (zooUCEs): 4,552 Ultraconserved elements identified from the 241-mammals genome alignment. All regions &gt;=20bp where at least 235 species aligned and all aligning species are fixed for the same base at every position. 20-190 bp. Zoonomia: Runs of contiguous constraint (RoCCs): All genomic regions where contiguous bases have a phyloP score &gt; 2.270 (5% FDR) and are therefore under high constraint. Regions separated by a single base with phyloP &lt; 2.270 were merged. N = 595,535; 20-1,359 bp. Zoonomia: Unannotated Intergenic Constrained Regions (UNICORNs): Non-coding regions of the genome that lack annotation in ENCODE3 but show high evolutionary constraint, suggesting function. Positions with phyloP &gt; 2.270 (5% FDR) within 5bp of each other are grouped into UNICORNs. N = 424,180; 11 - 1,325 bp. UCNEBase: Elements conserved with chicken: Non-coding elements &gt; 200 bp long and 95% conserved between human and chicken. (Dimitrieva and Bucher, NAR 2013) UCNEBase: Elements paralogous to others: Alignable with E&lt;10-4 to other chicken-conserved elements. UCNEBase UGRBs: Ultra-conserved genomic regulatory blocks: Chicken-conserved elements within 0.5 Mb in both human and chicken. Track Count Coverage in bp Ultraconserved 481 126,007 UCNEBase Chicken 4351 1,415,142 UCNEBase Paralogs 987 215,800 UCNEBase UGRBs 239 199,269,634 Zoo Ultracons. 4552 131,661 HARs 2647 681,420 ZooHARs 312 49,173 HAQERs 1580 1,410,669 Long hCondels 583 293,809 Short hCondels 10,032 1,968,123 Zoo ROCCs 595,536 26,995,284 Zoo UNICORNs 423,586 16,155,520 Display Conventions and Configuration All tracks show the locations and name for the features. Only one, Short hCondels, has MPRA test results in the track itself. Methods Ultraconserved sequences: downloaded from our hg19 public track hub and lifted to hg38. HARs: Downloaded from https://docpollard.org/research/. Converted from Excel. Lifted 2649 HAR file to hg38. HAQERs: Converted from supplemental table 1 of Mangan et al, Cell 2023. Long hCondels from McLean: Excel file converted manually as supplement 2 from https://pmc.ncbi.nlm.nih.gov/articles/PMC3071156/ and lifted to hg38 from hg18. Short hCondels from Xue et al: Excel file converted manually from supplemental file 1. From the paper: &quot;We constructed a chimpanzee-anchored multiple sequence alignment across 11 vertebrate species to detect statistically significant conserved sequences (1,371,766). These elements ranged from being deeply conserved throughout vertebrates to being conserved only through primates. We then intersected our conserved elements with called deletions (2,042,706) between the human (hg38) and chimpanzee (panTro4) genomes to yield 43,588 putative hCONDELs.&quot; Zoonomia UNICORNs, ZooUCEs and RoCCs: Downloaded from https://cgl.gi.ucsc.edu/data/cactus/zoonomia-2021-track-hub/hg38/ Credits Thanks to Katie Pollard, Hiram Clawson, James Xue, Matt Christmas (&#109;&#97;&#116;&#116;&#104;&#101;&#119;.c&#104;&#114;i&#115;&#116;&#109;&#97;s&#64;&#105;m&#98;&#105;&#109;.&#117;&#117;.&#115;&#101;), and Mark Diekhans for providing the data. References Bejerano G, Pheasant M, Makunin I, Stephen S, Kent WJ, Mattick JS, Haussler D. Ultraconserved elements in the human genome. Science. 2004 May 28;304(5675):1321-5. PMID: 15131266 Pollard KS, Salama SR, Lambert N, Lambot MA, Coppens S, Pedersen JS, Katzman S, King B, Onodera C, Siepel A et al. An RNA gene expressed during cortical development evolved rapidly in humans. Nature. 2006 Sep 14;443(7108):167-72. PMID: 16915236 Capra JA, Erwin GD, McKinsey G, Rubenstein JL, Pollard KS. Many human accelerated regions are developmental enhancers. Philos Trans R Soc Lond B Biol Sci. 2013 Dec 19;368(1632):20130025. PMID: 24218637; PMC: PMC3826498 Keough KC, Whalen S, Inoue F, Przytycki PF, Fair T, Deng C, Steyert M, Ryu H, Lindblad-Toh K, Karlsson E et al. Three-dimensional genome rewiring in loci with human accelerated regions. Science. 2023 Apr 28;380(6643):eabm1696. PMID: 37104607; PMC: PMC10999243 Mangan RJ, Alsina FC, Mosti F, Sotelo-Fonseca JE, Snellings DA, Au EH, Carvalho J, Sathyan L, Johnson GD, Reddy TE et al. Adaptive sequence divergence forged new neurodevelopmental enhancers in humans. Cell. 2022 Nov 23;185(24):4587-4603.e23. PMID: 36423581; PMC: PMC10013929 McLean CY, Reno PL, Pollen AA, Bassan AI, Capellini TD, Guenther C, Indjeian VB, Lim X, Menke DB, Schaar BT et al. Human-specific loss of regulatory DNA and the evolution of human-specific traits. Nature. 2011 Mar 10;471(7337):216-9. PMID: 21390129; PMC: PMC3071156 Xue JR, Mackay-Smith A, Mouri K, Garcia MF, Dong MX, Akers JF, Noble M, Li X, Zoonomia Consortium, Lindblad-Toh K et al. The functional and evolutionary impacts of human-specific deletions in conserved elements. Science. 2023 Apr 28;380(6643):eabn2253. PMID: 37104592; PMC: PMC10202372 Dimitrieva S, Bucher P. UCNEbase--a database of ultraconserved non-coding elements and genomic regulatory blocks. Nucleic Acids Res. 2013 Jan;41(Database issue):D101-9. PMID: 23193254; PMC: PMC3531063 
zooUnicorns ZooUNICORNs Zoonomia UNICORNs: Unannotated Intergenic Constrained Regions Comparative Genomics 
zooRoccs ZooRoCCs Zoonomia RoCCs: Runs of contiguous phyloP constraint Comparative Genomics 
hars312 ZooHARs ZooHARs: 312 Human Accelerated Regions (HARs) from Zoonomia alignments Comparative Genomics 
ultraZoo UltraZoos UltraZoos: 4552 Ultraconserved regions in Zoonomia alignment - 100% identical in 235 species, >20bp Comparative Genomics 
ultras Ultracons Ultracons: 481 Ultraconserved regions - 100% identical in human, mouse and rat, > 200bp Comparative Genomics 
ucneParalogs UCNE Paralogs UCNEBase: 987 Paralogous elements Comparative Genomics 
ucneClusters UCNE Clusters UCNEBase: 239 Cluster of UCNE elements Comparative Genomics 
ucneChicken UCNE Chicken UCNEBase: 4351 Chicken-conserved elements Comparative Genomics 
shorthcondels Short hConDels short hConDels: 10032 Short Human hCondels - Human Conserved Deletions < 40bp Comparative Genomics 
hcondels Long hConDels long hConDels: 583 Long Human Conserved Deletions - present in chimp and macaque but deleted in humans Comparative Genomics 
har2649 HARs HARs: 2649 Human Accelerated Regions (HARs) merged from various publications by the Pollard Lab Comparative Genomics 
haqers HAQERS HAQERS: 1580 Human Ancestor Quickly Evolved Regions Comparative Genomics 
utrAnnotUorfs UTRannotator uORFs ncORFs: Upstream Open Reading Frames (uORFs) from UTRannotator Genes and Gene Predictions Description This track shows 44k upstream open reading frames (uORFs) in 5' UTRs of human genes, curated from ribosome profiling data by the UTRannotator project, annotated by UCSC with the Kozak strength and translational efficiency. uORFs are small open reading frames located in the 5' UTR of mRNAs, upstream of the main protein-coding sequence. They play an important role in translational regulation: ribosomes scanning from the 5' cap may translate a uORF first, which can reduce translation of the downstream main ORF. Genetic variants that create or disrupt uORFs can therefore alter protein expression and contribute to disease. UTRannotator is a plugin for the Ensembl Variant Effect Predictor (VEP) that annotates 5' UTR variants with respect to uORFs. It detects five types of uORF-perturbing events (AUG gained/lost, stop lost/gained, frameshift). This plugin needs a database of uORFs to annotate, so the authors compiled a curated reference set of translated small ORFs in human 5' UTRs, derived from ribosome profiling data in the sorfs.org database. This reference set is what is displayed in this track. Almost all of these ORFs are annotated as 5' uORFs, only a tiny fraction, 270 of them, are annotated as 5'UTR+3'UTR uORF, when transcripts overlap. Display Conventions and Configuration Items are displayed in bigGenePred format. Each item is labeled with the gene symbol of the host transcript. Color reflects the categorical Kozak consensus strength: Strong &ndash; A/G at position &minus;3 and G at position +4 Moderate &ndash; only one of those positions matches Weak &ndash; neither position matches non-ATG &ndash; near-cognate start codon; the Kozak rule does not apply no context &ndash; chromosome edge or context unavailable The UTRannotator source data has no exon/intron structure, so each uORF is projected onto a same-strand host transcript whose coordinates overlap the uORF range. The host's exons are clipped to the uORF range, so any host intron inside the overlap becomes an intron of the displayed feature; a uORF that extends past either end of the host gets a single bridging block for the orphan portion. The primary donor pool is the MANE Select / MANE Plus Clinical set; if every MANE candidate is rejected (e.g. the original UTRannotator transcript had a different UTR exon boundary), the full GENCODE comprehensive set is consulted as a fallback. The chosen donor transcript ID is stored in intronsSource (none if no host was found in either pool). Mouseover shows the gene symbol, uORF type, start codon, Kozak strength and translational efficiency, and the host transcript whose exons supplied the intron structure. The track offers the following filters: start codon, Kozak strength, Kozak TE (range), uORF type (5'UTR-only vs spans into 3'UTR). Data Access The raw data can be explored interactively with the Table Browser or the Data Integrator. The data can be accessed from scripts through our API; the track name is &quot;utrAnnotUorfs&quot;. For automated download and analysis, the genome annotation is stored in a bigBed file that can be downloaded from our download server. Individual regions or the whole genome annotation can be obtained using our tool bigBedToBed, which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tool can also be used to obtain only features within a given range, e.g. bigBedToBed http://hgdownload.soe.ucsc.edu/gbdb/hg38/ncOrfs/utrAnnotUorfs.kozak.bb -chrom=chr21 -start=0 -end=100000000 stdout Methods The uORF reference data was downloaded from the UTRannotator GitHub repository (file uORF_5UTR_GRCh38_PUBLIC.txt) and converted to bigBed format at UCSC. Coordinates for reverse-strand uORFs were swapped to genomic orientation. Four entries with invalid coordinates were excluded. Host transcripts were annotated as described above. Credits Thanks to Xiaolei Zhang, Nicola Whiffin, and the UTRannotator team at the Imperial College London Cardiovascular Genetics group for making this data publicly available. References Whiffin N, Karczewski KJ, Zhang X, Chothani S, Smith MJ, Evans DG, Roberts AM, Quaife NM, Schafer S, Rackham O et al. Characterising the loss-of-function impact of 5' untranslated region variants in 15,708 individuals. Nat Commun. 2020 May 27;11(1):2523. PMID: 32461616; PMC: PMC7253449 Zhang X, Wakeling M, Ware J, Whiffin N. Annotating high-impact 5'untranslated region variants with the UTRannotator. Bioinformatics. 2021 May 23;37(8):1171-1173. PMID: 32926138; PMC: PMC8150139 
varaico Varaico Variants Varaico Variants extracted from full text publications, titles, and abstracts Phenotypes, Variants, and Literature Description NOTE: Some rights reserved. This work permits non-commercial use, distribution and reproduction in any medium, provided the original author and source are credited. License and legal information can be found on the Varaico website. Varaico (Variation Research Advancing Insight in Complex Organisms) was created using literature mining, similar to AVADA. Varaico variants are generated by an automated process that extracts purely factual information about genes from scientific papers (by matching strings against gene names) and HGVS variant descriptions (using regular expressions). Varaico aims to reduce false-positive gene and variant mentions and link them together appropriately, but nonetheless, many variants displayed are not mapped to the genomic position intended by the authors. Varaico Variants (suppl) contains variants extracted from supplementary data files using similar methods as in the Varaico track. For data questions, Varaico can be contacted at &#106;&#98;&#105;&#114;&#103;m&#101;i&#64;&#103;&#109;&#97;i&#108;.&#99;&#111;&#109; Display Conventions and Configuration Genomic locations of variants are labeled with the HGNC gene symbol and the variant change. Mouse over the variants to show the gene, variant, latest author/year/title, number of publications mentioning the variant, and variant effect. Clicking on an item will provide a link directly to Varaico to view all publications mentioning this variant. The items are colored based on the amount of literature support and are a gradient from the colors described on the table below: Color Level of literature support &ge;20 papers mention the variant &nbsp;&nbsp;15 papers mention the variant &nbsp;&nbsp;10 papers mention the variant &nbsp;&nbsp;&nbsp;&nbsp;5 papers mention the variant &nbsp;&nbsp;&nbsp;&nbsp;1 paper mentions the variant Data access The raw data can be explored interactively with the Table Browser or the Data Integrator. The data can be accessed from scripts through our API, the track name is &quot;varaico&quot;. For automated download and analysis, the genome annotation is stored in a bigBed file that can be downloaded from our download server. The file for this track is called varaico.bb. Individual regions or the whole genome annotation can be obtained using our tool bigBedToBed, which can be compiled from the source code or downloaded as a precompiled binary for your system. The previous Varaico Variants version is also available in our download archive. Instructions for downloading source code and binaries can be found here. The tool can also be used to obtain only features within a given range, e.g. bigBedToBed http://hgdownload.soe.ucsc.edu/gbdb/hg38/bbi/varaico.bb -chrom=chr21 -start=0 -end=10000000 stdout 
varaicoSuppl Varaico Variants (suppl) Varaico Variants extracted from Supplementary Data Phenotypes, Variants, and Literature Description NOTE: Some rights reserved. This work permits non-commercial use, distribution and reproduction in any medium, provided the original author and source are credited. License and legal information can be found on the Varaico website. Varaico (Variation Research Advancing Insight in Complex Organisms) was created using literature mining, similar to AVADA. Varaico variants are generated by an automated process that extracts purely factual information about genes from scientific papers (by matching strings against gene names) and HGVS variant descriptions (using regular expressions). Varaico aims to reduce false-positive gene and variant mentions and link them together appropriately, but nonetheless, many variants displayed are not mapped to the genomic position intended by the authors. Varaico Variants (suppl) contains variants extracted from supplementary data files using similar methods as in the Varaico track. For data questions, Varaico can be contacted at &#106;&#98;&#105;&#114;&#103;m&#101;i&#64;&#103;&#109;&#97;i&#108;.&#99;&#111;&#109; Display Conventions and Configuration Genomic locations of variants are labeled with the HGNC gene symbol and the variant change. Mouse over the variants to show the gene, variant, latest author/year/title, number of publications mentioning the variant, and variant effect. Clicking on an item will provide a link directly to Varaico to view all publications mentioning this variant. The items are colored based on the amount of literature support and are a gradient from the colors described on the table below: Color Level of literature support &ge;20 papers mention the variant &nbsp;&nbsp;15 papers mention the variant &nbsp;&nbsp;10 papers mention the variant &nbsp;&nbsp;&nbsp;&nbsp;5 papers mention the variant &nbsp;&nbsp;&nbsp;&nbsp;1 paper mentions the variant Data access The raw data can be explored interactively with the Table Browser or the Data Integrator. The data can be accessed from scripts through our API, the track name is &quot;varaico&quot;. For automated download and analysis, the genome annotation is stored in a bigBed file that can be downloaded from our download server. The file for this track is called varaico.bb. Individual regions or the whole genome annotation can be obtained using our tool bigBedToBed, which can be compiled from the source code or downloaded as a precompiled binary for your system. The previous Varaico Variants version is also available in our download archive. Instructions for downloading source code and binaries can be found here. The tool can also be used to obtain only features within a given range, e.g. bigBedToBed http://hgdownload.soe.ucsc.edu/gbdb/hg38/bbi/varaico.bb -chrom=chr21 -start=0 -end=10000000 stdout 
vistaEnhancersBb VISTA Enhancers VISTA Enhancers Regulation Description This track shows potential enhancers whose activity was experimentally validated in transgenic mice. Most of these noncoding elements were selected for testing based on their extreme conservation in other vertebrates or epigenomic evidence (ChIP-Seq) of putative enhancer marks. More information can be found on the VISTA Enhancer Browser page. Display Conventions and Configuration Items appearing in blue (positive) indicate that a reproducible pattern was observed in the in vivo enhancer assay under at least one of the tested conditions. Items appearing in gray (negative) indicate that NO reproducible pattern was observed in the in vivo enhancer assay under any of the tested conditions. This does not exclude the possibility that this region is a reproducible enhancer active under different conditions, for example at an earlier or later timepoint in development. Methods Excerpted from the Vista Enhancer Mouse Enhancer Screen Handbook and Methods page at the Lawrence Berkeley National Laboratory (LBNL) website: Enhancer Candidate Identification Most enhancer candidate sequences are identified by extreme evolutionary sequence conservation or by ChIP-seq. Detailed information related to enhancer identification by extreme evolutionary conservation can be found in the following publications: Pennacchio et al., Genomic strategies to identify mammalian regulatory sequences. Nature Rev Genet 2001 Nobrega et al., Nobrega et al., Scanning human gene deserts for long-range enhancers. Science 2003 Pennacchio et al., In vivo enhancer analysis of human conserved non-coding sequences. Nature 2006 Visel et al., Enhancer identification through comparative genomics. Semin Cell Dev Biol. 2007 Visel et al., Ultraconservation identifies a small subset of extremely constrained developmental enhancers. Nature Genet 2008 Detailed information related to enhancer identification by ChIP-seq can be found in the following publications: Visel et al., ChIP-seq accurately predicts tissue-specific activity of enhancers. Nature 2009 Visel et al., Genomic views of distant-acting enhancers. Nature 2009 See the Transgenic Mouse Assay section for experimental procedures that were used to perform the transgenic assays: Mouse Enhancer Screen Handbook and Methods UCSC converted the vista-data bed files for hg38 and mm10 into bigBed format using the bedToBigBed utility. The data for mm39 was lifted over from mm10. The data for hg19 was lifted over from hg38. Data Access VISTA Enhancers data can be explored interactively with the Table Browser and cross-referenced with the Data Integrator. For programmatic access, the track can be accessed using the Genome Browser's REST API. ReMap annotations can be downloaded from the Genome Browser's download server as a bigBed file. This compressed binary format can be remotely queried through command line utilities. Please note that some of the download files can be quite large. Credits Thanks to the Lawrence Berkeley National Laboratory for providing this data. References Kosicki M, Baltoumas FA, Kelman G, Boverhof J, Ong Y, Cook LE, Dickel DE, Pavlopoulos GA, Pennacchio LA, Visel A. VISTA Enhancer browser: an updated database of tissue-specific developmental enhancers. Nucleic Acids Res. 2025 Jan 6;53(D1):D324-D330. PMID: 39470740; PMC: PMC11701537 Visel A, Minovitsky S, Dubchak I, Pennacchio LA. VISTA Enhancer Browser--a database of tissue-specific human enhancers. Nucleic Acids Res. 2007 Jan;35(Database issue):D88-92. PMID: 17130149; PMC: PMC1716724 
webstr WebSTR WebSTR Short Tandem Repeat Loci (EnsembleTR Panel, 1000 Genomes) Variation Description The WebSTR track displays 1,710,833 short tandem repeat (STR) loci across the human genome from the WebSTR database. This track is based on the EnsembleTR panel for the GRCh38/hg38 assembly, which represents a combined set of tandem repeats genotyped by four separate methods (HipSTR, GangSTR, ExpansionHunter, and AdVNTR) on data from the 1000 Genomes Project. EnsembleTR was applied to jointly genotype all 3,550 samples, producing consensus calls at over 1.7 million autosomal tandem repeat loci. The track includes allele frequency distributions for five 1000 Genomes continental populations: AFR &ndash; African (893 samples) AMR &ndash; Admixed American (490 samples) EAS &ndash; East Asian (585 samples) EUR &ndash; European (633 samples) SAS &ndash; South Asian (601 samples) For each population, allele frequencies are defined as the number of copies of each allele divided by the total number of alleles in that population. Alleles are represented as the number of repeat unit copies. Display Conventions Items are colored by expected heterozygosity, computed as het = 1 &minus; &sum;pi2 from allele frequencies pooled across all five 1000 Genomes populations weighted by sample count: Light gray &ndash; monomorphic (het = 0, single allele observed) Dark blue &ndash; nearly monomorphic (0 &lt; het &lt; 0.1) Medium blue &ndash; low diversity (het 0.1&ndash;0.3) Light purple &ndash; moderate diversity (het 0.3&ndash;0.5) Salmon &ndash; high diversity (het 0.5&ndash;0.7) Dark red &ndash; very high diversity (het &ge; 0.7) Medium gray &ndash; no allele frequency data available Each item is labeled by its repeat motif and copy count. Hovering over an item shows the repeat motif, number of reference copies, and heterozygosity. Clicking an item links to the corresponding WebSTR locus page, which provides interactive allele frequency histograms and additional annotations. Methods The EnsembleTR reference panel was constructed as follows: Tandem repeat reference sets from four genotyping tools (HipSTR, GangSTR, ExpansionHunter, and AdVNTR) were merged. Each tool was run independently on 1000 Genomes sequencing data. EnsembleTR was used to produce joint consensus genotype calls across all four methods. Loci called in fewer than 75% of samples were removed, yielding 1,710,833 loci. Allele frequencies were computed per population. For the UCSC Genome Browser track, the source data were converted from CSV to bigBed format. Per-population allele frequency distributions are stored as extra bigBed fields. Data Access The raw data can be explored interactively with the Table Browser or the Data Integrator. For automated analysis, the data may be queried from our REST API. The underlying bigBed file can be downloaded from our download server. The complete WebSTR dataset, including additional cohorts and data types not included in this track, is available from the WebSTR web portal. Programmatic access to the full WebSTR database is available through the WebSTR REST API. Credits Thanks to Melissa Gymrek (UC San Diego) and the WebSTR team for providing the data for this track. References Lundstr&ouml;m OS, Adriaan Verbiest M, Xia F, Jam HZ, Zlobec I, Anisimova M, Gymrek M. WebSTR: A Population-wide Database of Short Tandem Repeat Variation in Humans. J Mol Biol. 2023 Oct 15;435(20):168260. PMID: 37678708 Ziaei Jam H, Li Y, DeVito R, Mousavi N, Ma N, Lujumba I, Adam Y, Maksimov M, Huang B, Dolzhenko E et al. A deep population reference panel of tandem repeat variation. Nat Commun. 2023 Oct 23;14(1):6711. PMID: 37872149; PMC: PMC10593948 
cons447way Zoonomia+Primates 447 Zoonomia+Primates 447 - 447 mammals, including 233 primates, aligned with Cactus, for Kuderna et al. 2023 Comparative Genomics Description This track shows a multiple alignment of 447 mammalian genomes made with Cactus and constraint scores derived from it. To build this track, the Zoonomia 241 alignment was used as a starting point, all primates and a few outdated assemblies were removed and an alignment between 233 newly sequenced primates was added. See the Methods section below for details, and also the publications by Kuderna et al. 2023 in the Reference section. All alignments and operations on them were performed using the Cactus toolkit. This track shows four phyloP conservation score subtracks computed from the 447-way Cactus alignment (and a primates subset of it): 447 phyloP REV: all 447 species, REV substitution model. 447 phyloP SSREV: all 447 species, strand-symmetric reversible (SSREV) substitution model. 447 phyloP primates: 233 primates subset, SSREV substitution model. 447 phyloP primates LRT: 233 primates subset, likelihood-ratio test scoring. The SSREV substitution model is strand-symmetric, which avoids strand-dependent bias in single-base conservation scores (Pollard et al. 2010, supplementary section 2.4) -- relevant when analyzing transcript-related nucleotides such as splice sites, miRNA seed regions, or other strand-specific sequence features. The REV model is the standard phyloP model and is appropriate for general genome-wide conservation analysis. The primates subset tracks restrict scoring to the 233 primate genomes included in the alignment, useful when conservation across non-primate mammals would dilute primate-specific signal. Data Access Downloads for data in this track are available from the directory: Cactus 447-way alignments (MAF format), and phylogenetic trees PhyloP conservation (WIG format) Display Conventions and Configuration In full and pack display modes, conservation scores are displayed as a wiggle track (histogram) in which the height reflects the size of the score. The conservation wiggles can be configured in a variety of ways to highlight different aspects of the displayed information. Click the Graph configuration help link for an explanation of the configuration options. Pairwise alignments of each species to the human genome are displayed below the conservation histogram as a grayscale density plot (in pack mode) or as a wiggle (in full mode) that indicates alignment quality. In dense display mode, conservation is shown in grayscale using darker values to indicate higher levels of overall conservation as scored by phastCons. Checkboxes on the track configuration page allow selection of the species to include in the pairwise display. Note that excluding species from the pairwise display does not alter the conservation score display. To view detailed information about the alignments at a specific position, zoom the display in to 30,000 or fewer bases, then click on the alignment. Gap Annotation The Display chains between alignments configuration option enables display of gaps between alignment blocks in the pairwise alignments in a manner similar to the Chain track display. Missing sequence in any assembly is highlighted in the track display by regions of yellow when zoomed out and by Ns when displayed at base level. The following conventions are used: Single line: No bases in the aligned species. Possibly due to a lineage-specific insertion between the aligned blocks in the human genome or a lineage-specific deletion between the aligned blocks in the aligning species. Double line: Aligning species has one or more unalignable bases in the gap region. Possibly due to excessive evolutionary distance between species or independent indels in the region between the aligned blocks in both species. Pale yellow coloring: Aligning species has Ns in the gap region. Reflects uncertainty in the relationship between the DNA of both species, due to lack of sequence in relevant portions of the aligning species. Genomic Breaks Discontinuities in the genomic context (chromosome, scaffold or region) of the aligned DNA in the aligning species are shown as follows: Vertical blue bar: Represents a discontinuity that persists indefinitely on either side, e.g. a large region of DNA on either side of the bar comes from a different chromosome in the aligned species due to a large scale rearrangement. Green square brackets: Enclose shorter alignments consisting of DNA from one genomic context in the aligned species nested inside a larger chain of alignments from a different genomic context. The alignment within the brackets may represent a short misalignment, a lineage-specific insertion of a transposon in the human genome that aligns to a paralogous copy somewhere else in the aligned species, or other similar occurrence. Base Level When zoomed-in to the base-level display, the track shows the base composition of each alignment. The numbers and symbols on the Gaps line indicate the lengths of gaps in the human sequence at those alignment positions relative to the longest non-human sequence. If there is sufficient space in the display, the size of the gap is shown. If the space is insufficient and the gap size is a multiple of 3, a &quot;*&quot; is displayed; other gap sizes are indicated by &quot;+&quot;. Codon translation is available in base-level display mode if the displayed region is identified as a coding segment. To display this annotation, select the species for translation from the pull-down menu in the Codon Translation configuration section at the top of the page. Then, select one of the following modes: No codon translation: The gene annotation is not used; the bases are displayed without translation. Use default species reading frames for translation: The annotations from the genome displayed in the Default species to establish reading frame pull-down menu are used to translate all the aligned species present in the alignment. Use reading frames for species if available, otherwise no translation: Codon translation is performed only for those species where the region is annotated as protein coding. Use reading frames for species if available, otherwise use default species: Codon translation is done on those species that are annotated as being protein coding over the aligned region using species-specific annotation; the remaining species are translated using the default species annotation. Codon translation uses the following gene tracks as the basis for translation: Gene TrackSpecies RefSeq GenesBos mutus, Canis lupus familiaris, Carlito syrichta, Cercocebus atys, Chinchilla lanigera, Colobus angolensis, Condylura cristata, Dipodomys ordii, Elephantulus edwardii, Eptesicus fuscus, Felis catus, Felis catus fca126, Fukomys damarensis, Homo sapiens, Ictidomys tridecemlineatus, Macaca mulatta, Macaca nemestrina, Marmota marmota, Microtus ochrogaster, Miniopterus natalensis, Mus musculus, Mus pahari, Myotis brandtii, Myotis davidii, Myotis lucifugus, Odobenus rosmarus, Orcinus orca, Otolemur garnettii, Peromyscus maniculatus, Piliocolobus tephrosceles, Propithecus coquerelli, Pteropus alecto, Pteropus vampyrus, Rattus norvegicus, Rhinopithecus roxellana, Saimiri boliviensis, Sorex araneus, Sus scrofa, Theropithecus gelada, Tupaia chinensis Ensembl GenesCavia aperea Augustus GenesEidolon helvum, Pteronotus parnellii no annotationAcinonyx jubatus, Acomys cahirinus, Ailuropoda melanoleuca, Ailurus fulgens, Allactaga bullata, Allenopithecus nigroviridis, Allochrocebus lhoesti, Allochrocebus preussi, Allochrocebus solatus, Alouatta belzebul, Alouatta caraya, Alouatta discolor, Alouatta juara, Alouatta macconnelli, Alouatta nigerrima, Alouatta palliata, Alouatta puruensis, Alouatta seniculus, Ammotragus lervia, Anoura caudifer, Antilocapra americana, Aotus azarae, Aotus griseimembra, Aotus nancymaae, Aotus trivirgatus, Aotus vociferans, Aplodontia rufa, Arctocebus calabarensis, Artibeus jamaicensis, Ateles geoffroyi_a, Ateles geoffroyi_b, Ateles belzebuth, Ateles chamek, Ateles marginatus, Ateles paniscus, Avahi laniger, Avahi peyrierasi, Balaenoptera acutorostrata, Balaenoptera bonaerensis, Beatragus hunteri, Bison bison, Bos indicus, Bos taurus, Bubalus bubalis, Cacajao ayresi, Cacajao calvus, Cacajao hosomi, Cacajao melanocephalus, Callibella humilis, Callimico goeldii, Callithrix geoffroyi, Callithrix jacchus, Callithrix kuhlii, Camelus bactrianus, Camelus dromedarius, Camelus ferus, Canis lupus VD, Canis lupus dingo, Canis lupus orion, Capra aegagrus, Capra hircus, Capromys pilorides, Carollia perspicillata, Castor canadensis, Catagonus wagneri, Cavia porcellus, Cavia tschudii, Cebuella niveiventris, Cebuella pygmaea, Cebus albifrons, Cebus olivaceus, Cebus unicolor, Cephalopachus bancanus, Ceratotherium simum, Ceratotherium simum cottoni, Cercocebus chrysogaster, Cercocebus lunulatus, Cercocebus torquatus, Cercopithecus ascanius, Cercopithecus cephus, Cercopithecus diana, Cercopithecus hamlyni, Cercopithecus lowei, Cercopithecus albogularis, Cercopithecus mona, Cercopithecus neglectus, Cercopithecus nictitans, Cercopithecus petaurista, Cercopithecus pogonias, Cercopithecus roloway, Chaetophractus vellerosus, Cheirogaleus major, Cheirogaleus medius, Cheracebus lucifer, Cheracebus lugens, Cheracebus regulus, Cheracebus torquatus, Chiropotes albinasus, Chiropotes israelita, Chiropotes sagulatus, Chlorocebus aethiops, Chlorocebus pygerythrus, Chlorocebus sabaeus, Choloepus didactylus, Choloepus hoffmanni, Chrysochloris asiatica, Colobus guereza, Colobus polykomos, Craseonycteris thonglongyai, Cricetomys gambianus, Cricetulus griseus, Crocidura indochinensis, Cryptoprocta ferox, Ctenodactylus gundi, Ctenomys sociabilis, Cuniculus paca, Dasyprocta punctata, Dasypus novemcinctus, Daubentonia madagascariensis, Delphinapterus leucas, Desmodus rotundus, Dicerorhinus sumatrensis, Diceros bicornis, Dinomys branickii, Dipodomys stephensi, Dolichotis patagonum, Echinops telfairi, Elaphurus davidianus, Ellobius lutescens, Ellobius talpinus, Enhydra lutris, Equus asinus, Equus caballus, Equus przewalskii, Erinaceus europaeus, Erythrocebus patas, Eschrichtius robustus, Eubalaena japonica, Eulemur albifrons, Eulemur collaris, Eulemur coronatus, Eulemur flavifrons, Eulemur fulvus, Eulemur macaco, Eulemur mongoz, Eulemur rubriventer, Eulemur rufus, Eulemur sanfordi, Felis nigripes, Galago moholi, Galago senegalensis, Galagoides demidoff, Galeopterus variegatus, Giraffa tippelskirchi, Glis glis, Gorilla beringei, Gorilla gorilla, Graphiurus murinus, Hapalemur alaotrensis, Hapalemur gilberti, Hapalemur griseus, Hapalemur meridionalis, Hapalemur occidentalis, Helogale parvula, Hemitragus hylocrius, Heterocephalus glaber, Heterohyrax brucei, Hippopotamus amphibius, Hipposideros armiger, Hipposideros galeritus, Hoolock leuconedys, Hyaena hyaena, Hydrochoerus hydrochaeris, Hylobates abbotti, Hylobates agilis, Hylobates klossii, Hylobates pileatus, Hylobates muelleri, Hylobates pileatus, Hystrix cristata, Indri indri, Inia geoffrensis, Jaculus jaculus, Kogia breviceps, Lagothrix lagothricha, Lasiurus borealis, Lemur catta, Leontocebus fuscicollis, Leontocebus illigeri, Leontocebus nigricollis, Leontopithecus chrysomelas, Leontopithecus rosalia, Lepilemur ankaranensis, Lepilemur dorsalis, Lepilemur ruficaudatus, Lepilemur septentrionalis, Leptonychotes weddellii, Lepus americanus, Lipotes vexillifer, Lophocebus aterrimus, Loris lydekkerianus, Loris tardigradus, Loxodonta africana, Lycaon pictus, Macaca arctoides, Macaca assamensis, Macaca cyclopis, Macaca fascicularis, Macaca fuscata, Macaca leonina, Macaca maura, Macaca nigra, Macaca radiata, Macaca siberu, Macaca silenus, Macaca thibetana, Macaca tonkeana, Macroglossus sobrinus, Mandrillus leucophaeus, Mandrillus sphinx, Manis javanica, Manis pentadactyla, Megaderma lyra, Mellivora capensis, Meriones unguiculatus, Mesocricetus auratus, Mesoplodon bidens, Mico argentatus, Mico humeralifer, Mico schneideri, Microcebus murinus, Microgale talazaci, Micronycteris hirsuta, Miniopterus schreibersii, Miopithecus ogouensis, Mirounga angustirostris, Mirza zaza, Monodon monoceros, Mormoops blainvillei, Moschus moschiferus, Mungos mungo, Murina feae, Mus caroli, Mus spretus, Muscardinus avellanarius, Mustela putorius, Myocastor coypus, Myotis myotis, Myrmecophaga tridactyla, Nannospalax galili, Nasalis larvatus, Neomonachus schauinslandi, Neophocaena asiaeorientalis, Noctilio leporinus, Nomascus annamensis, Nomascus concolor, Nomascus gabriellae, Nomascus siki_a, Nomascus siki_b, Nyctereutes procyonoides, Nycticebus bengalensis, Nycticebus coucang, Nycticebus pygmaeus, Ochotona princeps, Octodon degus, Odocoileus virginianus, Okapia johnstoni, Ondatra zibethicus, Onychomys torridus, Orycteropus afer, Oryctolagus cuniculus, Otocyon megalotis, Otolemur crassicaudatus, Ovis aries, Ovis canadensis, Pan paniscus, Pan troglodytes, Panthera onca, Panthera pardus, Panthera tigris, Pantholops hodgsonii, Papio anubis, Papio cynocephalus, Papio hamadryas, Papio kindae, Papio papio, Papio ursinus, Paradoxurus hermaphroditus, Perodicticus ibeanus, Perodicticus potto, Perognathus longimembris, Petromus typicus, Phocoena phocoena, Piliocolobus badius, Piliocolobus gordonorum, Piliocolobus kirkii, Pipistrellus pipistrellus, Pithecia albicans, Pithecia chrysocephala, Pithecia hirsuta, Pithecia mittermeieri, Pithecia pissinattii, Pithecia pithecia, Pithecia vanzolinii, Platanista gangetica, Plecturocebus bernhardi, Plecturocebus brunneus, Plecturocebus caligatus, Plecturocebus cinerascens, Plecturocebus cupreus, Plecturocebus dubius, Plecturocebus grovesi, Plecturocebus hoffmannsi, Plecturocebus miltoni, Plecturocebus moloch, Pongo abelii, Pongo pygmaeus, Presbytis comata, Presbytis mitrata, Procavia capensis, Prolemur simus, Propithecus coronatus, Propithecus diadema, Propithecus edwardsi, Propithecus perrieri, Propithecus tattersalli, Propithecus verreauxi, Psammomys obesus, Pteronura brasiliensis, Puma concolor, Pygathrix cinerea, Pygathrix nigripes, Pygathrix nigripes, Rangifer tarandus, Rhinolophus sinicus, Rhinopithecus bieti, Rhinopithecus strykeri, Rousettus aegyptiacus, Saguinus bicolor, Saguinus geoffroyi, Saguinus imperator, Saguinus inustus, Saguinus labiatus, Saguinus midas, Saguinus mystax, Saguinus oedipus, Saiga tatarica, Saimiri cassiquiarensis, Saimiri macrodon, Saimiri oerstedii, Saimiri sciureus, Saimiri ustus, Sapajus apella, Sapajus macrocephalus, Scalopus aquaticus, Semnopithecus entellus, Semnopithecus hypoleucos, Semnopithecus johnii, Semnopithecus priam, Semnopithecus schistaceus, Semnopithecus vetulus, Sigmodon hispidus, Solenodon paradoxus, Spermophilus dauricus, Spilogale gracilis, Suricata suricatta, Symphalangus syndactylus, Tadarida brasiliensis, Tamandua tetradactyla, Tapirus indicus, Tapirus terrestris, Tarsius lariang, Tarsius wallacei, Thryonomys swinderianus, Tolypeutes matacus, Tonatia saurophila, Trachypithecus auratus, Trachypithecus crepusculus, Trachypithecus cristatus, Trachypithecus francoisi, Trachypithecus geei, Trachypithecus germaini, Trachypithecus hatinhensis, Trachypithecus laotum, Trachypithecus leucocephalus, Trachypithecus melamera, Trachypithecus obscurus, Trachypithecus phayrei, Trachypithecus pileatus, Tragulus javanicus, Trichechus manatus, Tupaia tana, Tursiops truncatus, Uropsilus gracilis, Ursus maritimus, Varecia rubra, Varecia variegata, Vicugna pacos, Vulpes lagopus, Xerus inauris, Zalophus californianus, Zapus hudsonius, Ziphius cavirostris Table 2. Gene tracks used for codon translation. Methods This alignment was created by making three edits (using Cactus) to the 241-way mammalian Zoonomia Cactus alignment ( https://cglgenomics.ucsc.edu/data/cactus/). One additional cat genome, &quot;Felis_catus_fca126&quot; (GCA_018350175.1) was added as a sister taxa to the existing &quot;Felis_catus&quot; species Five additional canine genomes were also added: canFam4, &quot;Canis_lupus_dingo&quot; (GCA_003254725.1), &quot;Canis_lupus_orion&quot; (GCA_905319855.2), &quot;Nyctereutes_procyonoides&quot; (GCA_905146905.1) and &quot;Otocyon_megalotis&quot; (GCA_017311455.1). &quot;Canis_lupus&quot; from the Zoonomia alignment was also renamed &quot;Canis_lupus_VD&quot; to reflect the fact that it corresponds to a &quot;village dog&quot; and not &quot;wolf&quot; sample. The 43-species primates clade from the Zoonomia alignment was removed and replaced with the 243-way primates alignment from Identification of constrained sequence elements across 239 primate genomes, increasing the alignment by 200 additional primate species. phyloP Conservation Scores phyloP scores were computed from the Cactus 447-way alignment using the phyloP program from the PHAST package. Per-base scores were produced with options --method LRT --mode CONACC --wig-scores; positive scores indicate conservation under purifying selection, negative scores indicate acceleration relative to neutral evolution. For the all-species tracks, base-composition and substitution-rate parameters were estimated from 4-fold degenerate sites using phyloFit (PHAST, EM algorithm, medium precision) under either the REV or strand-symmetric reversible (SSREV) substitution model. Background base frequencies were adjusted with modFreqs so that complementary bases (A/T and C/G) appear at equal expected frequencies, which is required for strand-symmetric scoring. For the primates-subset tracks, the alignment was restricted to the 233 primate species and an independent phyloFit / phyloP run was performed on that sub-alignment using the SSREV model. All scores were encoded into wiggle format and loaded as either bigWig files (REV all-species, primates LRT) or wig SQL tables backed by .wib data files (SSREV all-species, SSREV primates). Phylogenic tree The phylogenic tree was established by the research described in A global catalog of whole-genome diversity from 233 primate species. Sequences count commonname clade scientific&nbsp;name(link&nbsp;to&nbsp;browser&nbsp;when&nbsp;existing) taxon&nbsp;idlink to NCBI 001humanprimates catarrhiniHomo sapiens/hg38reference species9606 002western gorillaprimates catarrhiniGorilla gorillaGCA_900006655.3_Susie39593 003Sumatran orangutanprimates catarrhiniPongo abeliiGCA_002880775.3_Susie_PABv29601 004Eastern Gorillaprimates catarrhiniGorilla beringei499232 005chimpanzeeprimates catarrhiniPan troglodytesGCA_002880755.3_Clint_PTRv29598 006Bornean orangutanprimates catarrhiniPongo pygmaeus9600 007Rhesus monkeyprimates catarrhiniMacaca mulattarheMac109544 008geladaprimates catarrhiniTheropithecus geladaGCF_003255815.1_Tgel_1.09565 009stump-tailed macaqueprimates catarrhiniMacaca arctoides9540 010Northern Talapoin Monkeyprimates catarrhiniMiopithecus ogouensis100488 011crab-eating macaqueprimates catarrhiniMacaca fascicularis9541 012Allen's swamp monkeyprimates catarrhiniAllenopithecus nigroviridis54135 013siamangprimates catarrhiniSymphalangus syndactylus9590 014black crested mangabeyprimates catarrhiniLophocebus aterrimus75566 015drillprimates catarrhiniMandrillus leucophaeus9568 016Bonnet Macaqueprimates catarrhiniMacaca radiata9548 017Red-capped Mangabeyprimates catarrhiniCercocebus torquatus9530 018Golden-bellied Mangabeyprimates catarrhiniCercocebus chrysogaster75569 019Owl-faced Monkeyprimates catarrhiniCercopithecus hamlyni9536 020Siberut Macaqueprimates catarrhiniMacaca siberu244255 021pig-tailed macaqueprimates catarrhiniMacaca nemestrinaGCF_000956065.1_Mnem_1.09545 022White-naped Mangabeyprimates catarrhiniCercocebus lunulatus (Cercocebus atys lunulatus)75570 023Tonkean Macaqueprimates catarrhiniMacaca tonkeana40843 024Diana Monkeyprimates catarrhiniCercopithecus diana36224 025red guenonprimates catarrhiniErythrocebus patas9538 026Northern Pig-tailed Macaqueprimates catarrhiniMacaca leonina90387 027Moor Macaqueprimates catarrhiniMacaca maura90383 028Guinea Baboonprimates catarrhiniPapio papio100937 029hamadryas baboonprimates catarrhiniPapio hamadryas9557 030liontail macaqueprimates catarrhiniMacaca silenus54601 031olive baboonprimates catarrhiniPapio anubisGCA_000264685.2_Panu_3.09555 032Roloway Monkeyprimates catarrhiniCercopithecus roloway1137049 033Kinda Baboonprimates catarrhiniPapio kindae208091 034Chacma Baboonprimates catarrhiniPapio ursinus36229 035Sun-tailed Monkeyprimates catarrhiniAllochrocebus solatus147650 036golden snub-nosed monkeyprimates catarrhiniRhinopithecus roxellanaGCF_007565055.1_ASM756505v161622 037Vervet Monkeyprimates catarrhiniChlorocebus pygerythrus60710 038sooty mangabeyprimates catarrhiniCercocebus atysGCF_000955945.1_Caty_1.09531 039green monkeyprimates catarrhiniChlorocebus sabaeusGCA_000409795.2_Chlorocebus_sabeus_1.160711 040De Brazza's monkeyprimates catarrhiniCercopithecus neglectus36227 041Yellow Baboonprimates catarrhiniPapio cynocephalus9556 042Celebes crested macaqueprimates catarrhiniMacaca nigra54600 043proboscis monkeyprimates catarrhiniNasalis larvatus43780 044Preuss's Monkeyprimates catarrhiniAllochrocebus preussi147649 045Putty-nosed Monkeyprimates catarrhiniCercopithecus nictitans36228 046Javan Suriliprimates catarrhiniPresbytis comata78452 047Sykes' Monkeyprimates catarrhiniCercopithecus albogularis36225 048LHoests Monkeyprimates catarrhiniAllochrocebus lhoesti100224 049Crowned Monkeyprimates catarrhiniCercopithecus pogonias102108 050Southern Mitered Langurprimates catarrhiniPresbytis mitrata (Presbytis melalophos mitrata)272115 051Grey-shanked Douc Langurprimates catarrhiniPygathrix cinerea693712 052Mona monkeyprimates catarrhiniCercopithecus mona36226 053Spot-nosed Monkeyprimates catarrhiniCercopithecus petaurista100487 054grivetprimates catarrhiniChlorocebus aethiops9534 055Lowes Monkeyprimates catarrhiniCercopithecus lowei304410 056Northern Yellow-cheeked Crested Gibbonprimates catarrhiniNomascus annamensis1616038 057Red-cheeked Gibbonprimates catarrhiniNomascus gabriellae61852 058Japanese macaqueprimates catarrhiniMacaca fuscata9542 059Western Red Colobusprimates catarrhiniPiliocolobus badius164648 060southern white-cheeked gibbonprimates catarrhiniNomascus siki_a9586 061Taiwan macaqueprimates catarrhiniMacaca cyclopis78449 062black-shanked douc langurprimates catarrhiniPygathrix nigripes310352 063King Colobusprimates catarrhiniColobus polykomos9572 064Black Crested Gibbonprimates catarrhiniNomascus concolor29089 065Udzungwa Red Colobusprimates catarrhiniPiliocolobus gordonorum591933 066Gee's Golden Langurprimates catarrhiniTrachypithecus geei164650 067Kloss's Gibbonprimates catarrhiniHylobates klossii9587 068Spectacled Leaf Monkeyprimates catarrhiniTrachypithecus obscurus54181 069Zanzibar Red Colobusprimates catarrhiniPiliocolobus kirkii591937 070Indochinese Silvered Langurprimates catarrhiniTrachypithecus germaini271260 071Hatinh Langurprimates catarrhiniTrachypithecus hatinhensis867383 072Moustached Monkeyprimates catarrhiniCercopithecus cephus9535 073Laotian Langurprimates catarrhiniTrachypithecus laotum465718 074Francois's langurprimates catarrhiniTrachypithecus francoisi54180 075Purple-faced Langurprimates catarrhiniSemnopithecus vetulus (Trachypithecus vetulus)54137 076Capped Langurprimates catarrhiniTrachypithecus pileatus164651 077Ugandan red Colobusprimates catarrhiniPiliocolobus tephroscelesGCF_002776525.2_ASM277652v2591936 078Spangled Ebony Langurprimates catarrhiniTrachypithecus auratus222416 079Red-tailed Monkeyprimates catarrhiniCercopithecus ascanius36223 080Silvery Lutungprimates catarrhiniTrachypithecus cristatus122765 081Nilgiri Langurprimates catarrhiniSemnopithecus johnii (Trachypithecus johnii)66063 082Indochinese grey langurprimates catarrhiniTrachypithecus crepusculus (Trachypithecus phayrei crepuscula)272121 083White-headed langurprimates catarrhiniTrachypithecus leucocephalus (Trachypithecus poliocephalus)465719 084pygmy chimpanzeeprimates catarrhiniPan paniscusGCA_000258655.2_panpan1.19597 085northern white-cheeked gibbonprimates catarrhiniNomascus siki_b9586 086Agile Gibbonprimates catarrhiniHylobates agilis9579 087Phayre's Leaf-monkeyprimates catarrhiniTrachypithecus melameran/a 088Nepal Gray Langurprimates catarrhiniSemnopithecus schistaceus2804203 089Abbott's Gray Gibbonprimates catarrhiniHylobates abbotti (Hylobates muelleri abbotti)716694 090Bornean Gibbonprimates catarrhiniHylobates muelleri9588 091Tufted Gray Langurprimates catarrhiniSemnopithecus priam1208733 092Black-footed Gray Langurprimates catarrhiniSemnopithecus hypoleucos1208734 093mantled guerezaprimates catarrhiniColobus guereza33548 094Hanuman langurprimates catarrhiniSemnopithecus entellus88029 095pileated gibbonprimates catarrhiniHylobates pileatus9589 096black snub-nosed monkeyprimates catarrhiniRhinopithecus bieti61621 097Burmese snub-nosed monkeyprimates catarrhiniRhinopithecus strykeri1194336 098Angolan colobusprimates catarrhiniColobus angolensiscolAng154131 099Pileated Gibbonprimates catarrhiniHylobates pileatus9589 100black-shanked douc langurprimates catarrhiniPygathrix nigripes310352 101Milne-edwards' Macaqueprimates catarrhiniMacaca thibetana54602 102Phayre's Leaf-monkeyprimates catarrhiniTrachypithecus phayrei61618 103Assam macaqueprimates catarrhiniMacaca assamensis9551 104Eastern hoolock gibbonprimates catarrhiniHoolock leuconedys61851 105mandrillprimates catarrhiniMandrillus sphinx9561 106White-faced Sakiprimates platyrrhiniPithecia chrysocephala2946515 107Monk Sakiprimates platyrrhiniPithecia hirsuta2946516 108white-faced sakiprimates platyrrhiniPithecia pithecia43777 109Mittermeier's Tapaj&oacute;s sakiprimates platyrrhiniPithecia mittermeieri2946517 110Buffy Sakiprimates platyrrhiniPithecia albicans2946514 111Pissinatti's sakiprimates platyrrhiniPithecia pissinattii (Pithecia pissinatti)2946518 112Vanzolini's Bald-faced Sakiprimates platyrrhiniPithecia vanzolinii2946519 113Bald-headed Uacariprimates platyrrhiniCacajao calvus30596 114Ayres Black Uakariprimates platyrrhiniCacajao ayresi535896 115Black-headed Uacariprimates platyrrhiniCacajao melanocephalus70825 116Black-headed Uacariprimates platyrrhiniCacajao hosomi535897 117Reddish-brown bearded sakiprimates platyrrhiniChiropotes sagulatus (Chiropotes chiropotes)658221 118brown-backed bearded sakiprimates platyrrhiniChiropotes israelita280163 119Collared Titi Monkeyprimates platyrrhiniCheracebus lugens210166 120Brown Titi Monkeyprimates platyrrhiniPlecturocebus brunneus1812042 121Hoffmanns's titi monkeyprimates platyrrhiniPlecturocebus hoffmannsi78255 122Milton's Titi Monkeyprimates platyrrhiniPlecturocebus miltoni1812038 123Widow Monkeyprimates platyrrhiniCheracebus torquatus30592 124Ashy Black Titi Monkeyprimates platyrrhiniPlecturocebus cinerascens1812037 125Prince Bernhard's Titi Monkeyprimates platyrrhiniPlecturocebus bernhardi1812036 126Yellow-handed Titi Monkeyprimates platyrrhiniCheracebus lucifer2487712 127Coppery Titi Monkeyprimates platyrrhiniPlecturocebus cupreus202457 128Chestnut-bellied Titiprimates platyrrhiniPlecturocebus caligatus867332 129Hershkovitzs Titiprimates platyrrhiniPlecturocebus dubius2946520 130Red-bellied Titi Monkeyprimates platyrrhiniPlecturocebus moloch9523 131Groves' Titiprimates platyrrhiniPlecturocebus grovesi2488670 132black-handed spider monkeyprimates platyrrhiniAteles geoffroyi_a9509 133Widow Monkeyprimates platyrrhiniCheracebus regulus1812110 134Guiana Spider Monkeyprimates platyrrhiniAteles paniscus9510 135Black-faced Black Spider Monkeyprimates platyrrhiniAteles chamek118643 136White-cheeked Spider Monkeyprimates platyrrhiniAteles marginatus1529884 137White-bellied Spider Monkeyprimates platyrrhiniAteles belzebuth9507 138Common Woolly Monkeyprimates platyrrhiniLagothrix lagothricha (Lagothrix lagotricha)9519 139large-headed capuchinprimates platyrrhiniSapajus macrocephalus (Sapajus apella macrocephalus)1547595 140Spixs White-fronted Capuchinprimates platyrrhiniCebus unicolor1985288 141Central American spider monkeyprimates platyrrhiniAteles geoffroyi_b9509 142Guinan Weeper Capuchinprimates platyrrhiniCebus olivaceus37295 143mantled howler monkeyprimates platyrrhiniAlouatta palliata30589 144white-fronted capuchinprimates platyrrhiniCebus albifrons9514 145Northern Night Monkeyprimates platyrrhiniAotus trivirgatus9505 146Grey-handed Night Monkeyprimates platyrrhiniAotus griseimembra292213 147Black-and-gold Howler Monkeyprimates platyrrhiniAlouatta caraya9502 148Spixs Night Monkeyprimates platyrrhiniAotus vociferans57176 149Red-handed Howler Monkeyprimates platyrrhiniAlouatta belzebul30590 150Red-handed Howler Monkeyprimates platyrrhiniAlouatta discolor2905217 151Azara's Night Monkeyprimates platyrrhiniAotus azarae (Aotus azarai)30591 152Pur&uacute;s Red Howler Monkeyprimates platyrrhiniAlouatta puruensis (Alouatta seniculus puruensis)1347729 153Black Howler Monkeyprimates platyrrhiniAlouatta nigerrima (Alouatta belzebul)30590 154Guianan Red Howler Monkeyprimates platyrrhiniAlouatta macconnelli198115 155Colombian Red Howler Monkeyprimates platyrrhiniAlouatta juara2946512 156Colombian Red Howler Monkeyprimates platyrrhiniAlouatta seniculus9503 157tufted capuchinprimates platyrrhiniSapajus apella9515 158Ma's night monkeyprimates platyrrhiniAotus nancymaaeGCA_000952055.2_Anan_2.037293 159Bolivian squirrel monkeyprimates platyrrhiniSaimiri boliviensisGCF_016699345.1_BCM_Sbol_2.027679 160White-nosed Sakiprimates platyrrhiniChiropotes albinasus198627 161Black Mantle Tamarinprimates platyrrhiniLeontocebus nigricollis9489 162brown-mantled tamarinprimates platyrrhiniLeontocebus fuscicollis9487 163Illiger's saddle-back tamarinprimates platyrrhiniLeontocebus illigeri (Leontocebus fuscicollis illigeri)881947 164Cotton-headed Tamarinprimates platyrrhiniSaguinus oedipus9490 165Pied Tamarinprimates platyrrhiniSaguinus bicolor37588 166Geoffroy's Tamarinprimates platyrrhiniSaguinus geoffroyi43778 167White-fronted Titi Monkeyprimates platyrrhiniSaguinus inustus1079039 168Moustached Tamarinprimates platyrrhiniSaguinus mystax9488 169tamarinprimates platyrrhiniSaguinus imperator9491 170Guianan Squirrel Monkeyprimates platyrrhiniSaimiri sciureus9521 171Red-chested Mustached Tamarinprimates platyrrhiniSaguinus labiatus78454 172Goeldi's Monkeyprimates platyrrhiniCallimico goeldii9495 173Black-crowned Central American Squirrel Monkeyprimates platyrrhiniSaimiri oerstedii70928 174Golden-headed Lion Tamarinprimates platyrrhiniLeontopithecus chrysomelas57374 175golden lion tamarinprimates platyrrhiniLeontopithecus rosalia30588 176Humboldt's Squirrel Monkeyprimates platyrrhiniSaimiri cassiquiarensis2946521 177bare-eared squirrel monkeyprimates platyrrhiniSaimiri ustus66265 178Ecuadorian squirrel monkeyprimates platyrrhiniSaimiri macrodon2946522 179white-tufted-ear marmosetprimates platyrrhiniCallithrix jacchus9483 180Eastern Pygmy Marmosetprimates platyrrhiniCebuella niveiventris2826950 181Western Pygmy Marmosetprimates platyrrhiniCebuella pygmaea9493 182Black And White Tassel-ear Marmosetprimates platyrrhiniMico humeralifer52232 183Black-crowned Dwarf Marmosetprimates platyrrhiniCallibella humilis (Mico humilis)666519 184Mico schneideriprimates platyrrhiniMico schneiderin/a 185Silvery Marmosetprimates platyrrhiniMico argentatus9482 186Midas tamarinprimates platyrrhiniSaguinus midas30586 187Wieds Marmosetprimates platyrrhiniCallithrix kuhlii867363 188Geoffroy's Tufted-ear Marmosetprimates platyrrhiniCallithrix geoffroyi52231 189Horsfield's tarsierprimates tarsiidaeCephalopachus bancanus9477 190Philippine tarsierprimates tarsiidaeCarlito syrichtatarSyr21868482 191Lariang Tarsierprimates tarsiidaeTarsius lariang630277 192Wallace's Tarsierprimates tarsiidaeTarsius wallacei981131 193aye-ayeprimates strepsirrhiniDaubentonia madagascariensis31869 194Crowned Sifakaprimates strepsirrhiniPropithecus coronatus (Propithecus deckenii coronatus)475619 195Perrier's Sifakaprimates strepsirrhiniPropithecus perrieri989338 196ruffed lemurprimates strepsirrhiniVarecia variegata9455 197Diademed Sifakaprimates strepsirrhiniPropithecus diadema83281 198Milne-Edwards Sifakaprimates strepsirrhiniPropithecus edwardsi543559 199babakotoprimates strepsirrhiniIndri indri34827 200Golden-crowned Sifakaprimates strepsirrhiniPropithecus tattersalli30601 201Eastern Woolly Lemurprimates strepsirrhiniAvahi laniger122246 202Verreauxs Sifakaprimates strepsirrhiniPropithecus verreauxi34825 203Peyrieras Woolly Lemurprimates strepsirrhiniAvahi peyrierasi1313323 204Red Ruffed Lemurprimates strepsirrhiniVarecia rubra554167 205greater bamboo lemurprimates strepsirrhiniProlemur simus1328070 206Red-bellied Lemurprimates strepsirrhiniEulemur rubriventer34829 207mongoose lemurprimates strepsirrhiniEulemur mongoz34828 208Geoffroys Dwarf Lemurprimates strepsirrhiniCheirogaleus major47177 209Crowned Lemurprimates strepsirrhiniEulemur coronatus13514 210black lemurprimates strepsirrhiniEulemur macaco30602 211lesser dwarf lemurprimates strepsirrhiniCheirogaleus medius9460 212Sclater's lemurprimates strepsirrhiniEulemur flavifrons87288 213Coquerel's sifakaprimates strepsirrhiniPropithecus coquerelli (Propithecus coquereli)proCoq1379532 214Collared Brown Lemurprimates strepsirrhiniEulemur collaris (Eulemur fulvus collaris)47178 215Red-tailed Sportive Lemurprimates strepsirrhiniLepilemur ruficaudatus78866 216Red Brown Lemurprimates strepsirrhiniEulemur rufus859983 217Sanfords Brown Lemurprimates strepsirrhiniEulemur sanfordi122225 218White-fronted Lemurprimates strepsirrhiniEulemur albifrons1215604 219Gray's Sportive Lemurprimates strepsirrhiniLepilemur dorsalis78583 220brown lemurprimates strepsirrhiniEulemur fulvus13515 221Sahafary Sportive Lemurprimates strepsirrhiniLepilemur septentrionalis78584 222Sambirano Lesser Bamboo Lemurprimates strepsirrhiniHapalemur occidentalis867377 223Alaotra Reed Lemurprimates strepsirrhiniHapalemur alaotrensis (Hapalemur griseus alaotrensis)122220 224Eastern Lesser Bamboo Lemurprimates strepsirrhiniHapalemur griseus13557 225Ankarana Sportive Lemurprimates strepsirrhiniLepilemur ankaranensis342401 226ring-tailed lemurprimates strepsirrhiniLemur catta9447 227gray bamboo lemurprimates strepsirrhiniHapalemur gilberti3043110 228Rusty-gray Lesser Bamboo Lemurprimates strepsirrhiniHapalemur meridionalis3043112 229Demidoffs Dwarf Galagoprimates strepsirrhiniGalagoides demidoff89672 230northern giant mouse lemurprimates strepsirrhiniMirza zaza339999 231gray mouse lemurprimates strepsirrhiniMicrocebus murinusGCA_000165445.3_Mmur_3.030608 232small-eared galagoprimates strepsirrhiniOtolemur garnettiiotoGar330611 233Northern Lesser Galagoprimates strepsirrhiniGalago senegalensis9465 234Thick-tailed Greater Galagoprimates strepsirrhiniOtolemur crassicaudatus9463 235Grey Slender Lorisprimates strepsirrhiniLoris lydekkerianus300163 236slender lorisprimates strepsirrhiniLoris tardigradus9468 237West African Pottoprimates strepsirrhiniPerodicticus potto9472 238East African Pottoprimates strepsirrhiniPerodicticus ibeanus (Perodicticus potto ibeanus)261737 239Moholi bushbabyprimates strepsirrhiniGalago moholi30609 240Pygmy Slow Lorisprimates strepsirrhiniNycticebus pygmaeus (Xanthonycticebus pygmaeus)101278 241Bengal slow lorisprimates strepsirrhiniNycticebus bengalensis261741 242Calabar Angwantiboprimates strepsirrhiniArctocebus calabarensis261739 243slow lorisprimates strepsirrhiniNycticebus coucang9470 244jaguarcarnivoraPanthera oncaGCA_004023805.1_PanOnc_v1_BIUU9690 245leopardcarnivoraPanthera pardusGCA_001857705.1_PanPar1.09691 246giant pandacarnivoraAiluropoda melanoleucaGCA_002007445.1_ASM200744v19646 247Hawaiian monk sealcarnivoraNeomonachus schauinslandiGCA_002201575.1_ASM220157v129088 248California sea lioncarnivoraZalophus californianusGCA_004024565.1_ZalCal_v1_BIUU9704 249Greenland wolfcarnivoraCanis lupus orionGCA_905319855.2_mCanLor1.22605939 250Pacific walruscarnivoraOdobenus rosmarusodoRosDiv19707 251domestic cat (Fca126)carnivoraFelis catus fca126 (Felis catus)GCF_018350175.1_F.catus_Fca126_mat1.09685 252northern elephant sealcarnivoraMirounga angustirostrisGCA_004023865.1_MirAng_v1_BIUU9716 253domestic catcarnivoraFelis catusfelCat89685 254domestic dog (BS72/Village Dog)carnivoraCanis lupus familiarisGCA_004027395.1_CanFam_VD_v1_BIUU 255German Shepherd dog (Mischka)carnivoraCanis lupus familiaris (CanFam4) (Canis lupus familiaris)canFam4 256dingocarnivoraCanis lupus dingo286419 257raccoon dogcarnivoraNyctereutes procyonoides34880 258fossacarnivoraCryptoprocta ferox94188 259polar bearcarnivoraUrsus maritimusGCA_000687225.1_UrsMar_1.029073 260Asian palm civetcarnivoraParadoxurus hermaphroditusGCA_004024585.1_ParHer_v1_BIUU71117 261African hunting dogcarnivoraLycaon pictusGCA_001887905.1_LycPicSAfr1.09622 262Arctic foxcarnivoraVulpes lagopusGCA_004023825.1_VulLag_v1_BIUU494514 263dogcarnivoraCanis lupus familiarisGCF_000002285.3_CanFam3.19615 264striped hyenacarnivoraHyaena hyaenaGCA_004023945.1_HyaHya_v1_BIUU95912 265n/acarnivoraAcinonyx jubatusGCA_001443585.1_aciJub132536 266tigercarnivoraPanthera tigrisGCA_000464555.1_PanTig1.09694 267Sea ottercarnivoraEnhydra lutrisGCA_002288905.2_ASM228890v234882 268giant ottercarnivoraPteronura brasiliensis9672 269bat-eared foxcarnivoraOtocyon megalotis9624 270Weddell sealcarnivoraLeptonychotes weddelliiGCA_000349705.1_LepWed1.09713 271Lesser pandacarnivoraAilurus fulgensGCA_002007465.1_ASM200746v19649 272ratelcarnivoraMellivora capensisGCA_004024625.1_MelCap_v1_BIUU9664 273banded mongoosecarnivoraMungos mungoGCA_004023785.1_MunMun_v1_BIUU210652 274dwarf mongoosecarnivoraHelogale parvulaGCA_004023845.1_HelPar_v1_BIUU210647 275meerkatcarnivoraSuricata suricattaGCA_004023905.1_SurSur_v1_BIUU37032 276pumacarnivoraPuma concolorGCA_003327715.1_PumCon1.09696 277black-footed catcarnivoraFelis nigripesGCA_004023925.1_FelNig_v1_BIUU61379 278European polecatcarnivoraMustela putoriusGCA_000239315.1_MusPutFurMale1.09668 279western spotted skunkcarnivoraSpilogale gracilisGCA_004023965.1_SpiGra_v1_BIUU30551 280Sumatran rhinoceroslaurasiatheriaDicerorhinus sumatrensisGCA_002844835.1_ASM284483v189632 281black rhinoceroslaurasiatheriaDiceros bicornisGCA_004027315.1_DicBicMic_v1_BIUU9805 282Asiatic tapirlaurasiatheriaTapirus indicusGCA_004024905.1_TapInd_v1_BIUU9802 283Brazilian tapirlaurasiatheriaTapirus terrestrisGCA_004025025.1_TapTer_v1_BIUU9801 284northern white rhinoceroslaurasiatheriaCeratotherium simum cottoni310713 285asslaurasiatheriaEquus asinusGCA_001305755.1_ASM130575v19793 286Southern white rhinoceroslaurasiatheriaCeratotherium simumGCA_000283155.1_CerSimSim1.09807 287Przewalski's horselaurasiatheriaEquus przewalskiiGCA_000696695.1_Burgud9798 288horselaurasiatheriaEquus caballusGCA_000002305.1_EquCab2.09796 289Malayan pangolinlaurasiatheriaManis javanicaGCA_001685135.1_ManJav1.09974 290Chinese pangolinlaurasiatheriaManis pentadactylaGCA_000738955.1_M_pentadactyla-1.1.1143292 291Hispaniolan solenodonlaurasiatheriaSolenodon paradoxus79805 292eastern molelaurasiatheriaScalopus aquaticusGCA_004024925.1_ScaAqu_v1_BIUU71119 293gracile shrew molelaurasiatheriaUropsilus gracilisGCA_004024945.1_UroGra_v1_BIUU182669 294star-nosed molelaurasiatheriaCondylura cristataGCF_000260355.1_ConCri1.0143302 295western European hedgehoglaurasiatheriaErinaceus europaeusGCA_000296755.1_EriEur2.09365 296European shrewlaurasiatheriaSorex araneussorAra242254 297Indochinese shrewlaurasiatheriaCrocidura indochinensisGCA_004027635.1_CroInd_v1_BIUU876679 298Hoffmann's two-fingered slothxenarthraCholoepus hoffmanniGCA_000164785.2_C_hoffmanni-2.0.19358 299nine-banded armadilloxenarthraDasypus novemcinctusGCA_000208655.2_Dasnov3.09361 300giant anteaterxenarthraMyrmecophaga tridactylaGCA_004026745.1_MyrTri_v1_BIUU71006 301southern tamanduaxenarthraTamandua tetradactylaGCA_004025105.1_TamTet_v1_BIUU48850 302placentalsxenarthraTolypeutes matacus183749 303southern two-toed slothxenarthraCholoepus didactylusGCA_004027855.1_ChoDid_v1_BIUU27675 304screaming hairy armadilloxenarthraChaetophractus vellerosusGCA_004027955.1_ChaVel_v1_BIUU340076 305North Pacific right whaleartiodactylaEubalaena japonica302098 306grey whaleartiodactylaEschrichtius robustus9764 307hippopotamusartiodactylaHippopotamus amphibiusGCA_004027065.1_HipAmp_v1_BIUU9833 308Minke whaleartiodactylaBalaenoptera acutorostrataGCA_000493695.1_BalAcu1.09767 309beluga whaleartiodactylaDelphinapterus leucasGCA_002288925.2_ASM228892v29749 310Antarctic minke whaleartiodactylaBalaenoptera bonaerensisGCA_000978805.1_ASM97880v133556 311boutuartiodactylaInia geoffrensis9725 312harbor porpoiseartiodactylaPhocoena phocoena9742 313narwhalartiodactylaMonodon monocerosGCA_004026685.1_MonMon_M_v1_BIUU40151 314Yangtze River dolphinartiodactylaLipotes vexilliferGCA_000442215.1_Lipotes_vexillifer_v1118797 315killer whaleartiodactylaOrcinus orcaorcOrc19733 316Ganges River dolphinartiodactylaPlatanista gangetica118798 317Yangtze finless porpoiseartiodactylaNeophocaena asiaeorientalisGCA_003031525.1_Neophocaena_asiaeorientalis_V1189058 318Sowerby's beaked whaleartiodactylaMesoplodon bidens48745 319alpacaartiodactylaVicugna pacosGCA_000767525.1_Vi_pacos_V1.030538 320Cuvier's beaked whale"artiodactylaZiphius cavirostris9760 321Bactrian camelartiodactylaCamelus bactrianusGCA_000767855.1_Ca_bactrianus_MBC_1.09837 322Arabian camelartiodactylaCamelus dromedariusGCA_000767585.1_PRJNA234474_Ca_dromedarius_V1.09838 323wild Bactrian camelartiodactylaCamelus ferusGCA_000311805.2_CB1419612 324pygmy sperm whaleartiodactylaKogia breviceps27615 325Chacoan peccaryartiodactylaCatagonus wagneriGCA_004024745.1_CatWag_v1_BIUU51154 326reindeerartiodactylaRangifer tarandusGCA_004026565.1_RanTarSib_v1_BIUU9870 327Pere David's deerartiodactylaElaphurus davidianusGCA_002443075.1_Milu1.043332 328okapiartiodactylaOkapia johnstoniGCA_001660835.1_ASM166083v186973 329Masai giraffeartiodactylaGiraffa tippelskirchiGCA_001651235.1_ASM165123v1439328 330Siberian musk deerartiodactylaMoschus moschiferusGCA_004024705.1_MosMos_v1_BIUU68415 331water buffaloartiodactylaBubalus bubalisGCA_000471725.1_UMD_CASPUR_WB_2.089462 332cowartiodactylaBos taurusGCA_000003205.6_Btau_5.0.19913 333pronghornartiodactylaAntilocapra americanaGCA_004027515.1_AntAmePen_v1_BIUU9891 334white-tailed deerartiodactylaOdocoileus virginianusGCA_002102435.1_Ovir.te_1.09874 335aoudadartiodactylaAmmotragus lerviaGCA_002201775.1_ALER1.09899 336bighorn sheepartiodactylaOvis canadensisGCA_004026945.1_OviCan_v1_BIUU37174 337goatartiodactylaCapra hircusGCA_001704415.1_ARS19925 338Nilgiri tahrartiodactylaHemitragus hylocriusGCA_004026825.1_HemHyl_v1_BIUU330464 339hirolaartiodactylaBeatragus hunteriGCA_004027495.1_BeaHun_v1_BIUU59527 340wild yakartiodactylaBos mutusbosMut172004 341American bisonartiodactylaBison bisonGCA_000754665.1_Bison_UMD1.09901 342sheepartiodactylaOvis ariesGCA_000298735.2_Oar_v4.09940 343chiruartiodactylaPantholops hodgsoniiGCA_000400835.1_PHO1.059538 344wild goatartiodactylaCapra aegagrusGCA_000978405.1_CapAeg_1.09923 345Java mouse-deerartiodactylaTragulus javanicusGCA_004024965.1_TraJav_v1_BIUU9849 346pigartiodactylaSus scrofasusScr39823 347zebu cattleartiodactylaBos indicusGCA_000247795.2_Bos_indicus_1.09915 348common bottlenose dolphinartiodactylaTursiops truncatusGCA_001922835.1_NIST_Tur_tru_v19739 349Saiga antelopeartiodactylaSaiga tataricaGCA_004024985.1_SaiTat_v1_BIUU34875 350Chinese rufous horseshoe batchiropteraRhinolophus sinicusGCA_001888835.1_ASM188883v189399 351black flying foxchiropteraPteropus alectopteAle19402 352Cantor's roundleaf batchiropteraHipposideros galeritus58069 353Egyptian rousettechiropteraRousettus aegyptiacusGCA_004024865.1_RouAeg_v1_BIUU9407 354long-tongued fruit batchiropteraMacroglossus sobrinus326083 355large flying foxchiropteraPteropus vampyrusGCF_000151845.1_Pvam_2.0132908 356Brazilian free-tailed batchiropteraTadarida brasiliensisGCA_004025005.1_TadBra_v1_BIUU9438 357great roundleaf batchiropteraHipposideros armigerGCA_001890085.1_ASM189008v1186990 358straw-colored fruit batchiropteraEidolon helvumeidHel177214 359Antillean ghost-faced batchiropteraMormoops blainvilleiGCA_004026545.1_MorMeg_v1_BIUU118852 360tailed tailless batchiropteraAnoura caudiferGCA_004027475.1_AnoCau_v1_BIUU27642 361common vampire batchiropteraDesmodus rotundusGCA_002940915.2_ASM294091v29430 362hairy big-eared batchiropteraMicronycteris hirsutaGCA_004026765.1_MicHir_v1_BIUU148065 363stripe-headed round-eared batchiropteraTonatia saurophilaGCA_004024845.1_TonSau_v1_BIUU171122 364Seba's short-tailed batchiropteraCarollia perspicillataGCA_004027735.1_CarPer_v1_BIUU40233 365Jamaican fruit-eating batchiropteraArtibeus jamaicensisGCA_004027435.1_ArtJam_v1_BIUU9417 366Indian false vampirechiropteraMegaderma lyraGCA_004026885.1_MegLyr_v1_BIUU9413 367Schreibers' long-fingered batchiropteraMiniopterus schreibersiiGCA_004026525.1_MinSch_v1_BIUU9433 368greater bulldog batchiropteraNoctilio leporinusGCA_004026585.1_NocLep_v1_BIUU94963 369Natal long-fingered batchiropteraMiniopterus natalensisGCF_001595765.1_Mnat.v1291302 370hog-nosed batchiropteraCraseonycteris thonglongyaiGCA_004027555.1_CraTho_v1_BIUU208972 371Parnell's mustached batchiropteraPteronotus parnelliiptePar159476 372greater mouse-eared batchiropteraMyotis myotisGCA_004026985.1_MyoMyo_v1_BIUU51298 373Ashy-gray tube-nosed batchiropteraMurina feae (Murina aurata feae)GCA_004026665.1_MurFea_v1_BIUU1453894 374David's myotischiropteraMyotis davidiimyoDav1225400 375Brandt's batchiropteraMyotis brandtiimyoBra1109478 376big brown batchiropteraEptesicus fuscusGCF_000308155.1_EptFus1.029078 377red batchiropteraLasiurus borealisGCA_004026805.1_LasBor_v1_BIUU258930 378little brown batchiropteraMyotis lucifugusmyoLuc259463 379common pipistrellechiropteraPipistrellus pipistrellusGCA_004026625.1_PipPip_v1_BIUU59474 380African savanna elephantafrotheriaLoxodonta africanaGCA_000001905.1_Loxafr3.09785 381Florida manateeafrotheriaTrichechus manatusGCA_000243295.1_TriManLat1.09778 382yellow-spotted hyraxafrotheriaHeterohyrax bruceiGCA_004026845.1_HetBruBak_v1_BIUU77598 383Cape rock hyraxafrotheriaProcavia capensisGCA_004026925.1_ProCapCap_v1_BIUU9813 384aardvarkafrotheriaOrycteropus afer9818 385Cape golden moleafrotheriaChrysochloris asiaticaGCA_004027935.1_ChrAsi_v1_BIUU185453 386Cape elephant shrewafrotheriaElephantulus edwardiieleEdw128737 387Talazac's shrew tenrecafrotheriaMicrogale talazaci (Nesogale talazaci)GCA_004026705.1_MicTal_v1_BIUU2583312 388small Madagascar hedgehogafrotheriaEchinops telfairiGCA_000313985.1_EchTel2.09371 389Sunda flying lemureuarchontogliresGaleopterus variegatusGCA_004027255.1_GalVar_v1_BIUU482537 390Chinese tree shreweuarchontogliresTupaia chinensistupChi1246437 391South African ground squirreleuarchontogliresXerus inaurisGCA_004024805.1_XerIna_v1_BIUU234690 392large tree shreweuarchontogliresTupaia tana70687 393mountain beavereuarchontogliresAplodontia rufaGCA_004027875.1_AplRuf_v1_BIUU51342 394Alpine marmoteuarchontogliresMarmota marmotaGCF_001458135.1_marMar2.19993 395Daurian ground squirreleuarchontogliresSpermophilus dauricusGCA_002406435.1_ASM240643v199837 396crested porcupineeuarchontogliresHystrix cristataGCA_004026905.1_HysCri_v1_BIUU10137 397thirteen-lined ground squirreleuarchontogliresIctidomys tridecemlineatusspeTri243179 398American beavereuarchontogliresCastor canadensisGCA_004027675.1_CasCan_v1_BIUU51338 399long-tailed chinchillaeuarchontogliresChinchilla lanigerachiLan134839 400punctate agoutieuarchontogliresDasyprocta punctata34846 401pacaranaeuarchontogliresDinomys branickiiGCA_004027595.1_DinBra_v1_BIUU108858 402fat dormouseeuarchontogliresGlis glisGCA_004027185.1_GliGli_v1_BIUU41261 403northern gundieuarchontogliresCtenodactylus gundiGCA_004027205.1_CteGun_v1_BIUU10166 404naked mole-rateuarchontogliresHeterocephalus glaberGCA_000247695.1_HetGla_female_1.010181 405Patagonian cavyeuarchontogliresDolichotis patagonumGCA_004027295.1_DolPat_v1_BIUU29091 406capybaraeuarchontogliresHydrochoerus hydrochaerisGCA_004027455.1_HydHyd_v1_BIUU10149 407Montane guinea pigeuarchontogliresCavia tschudiiGCA_004027695.1_CavTsc_v1_BIUU143287 408domestic guinea pigeuarchontogliresCavia porcellusGCA_000151735.1_Cavpor3.010141 409degueuarchontogliresOctodon degusGCA_000260255.1_OctDeg1.010160 410lowland pacaeuarchontogliresCuniculus paca108852 411social tuco-tucoeuarchontogliresCtenomys sociabilisGCA_004027165.1_CteSoc_v1_BIUU43321 412Damara mole-rateuarchontogliresFukomys damarensisfukDam1885580 413woodland dormouseeuarchontogliresGraphiurus murinus51346 414Desmarest's hutiaeuarchontogliresCapromys piloridesGCA_004027915.1_CapPil_v1_BIUU34842 415Upper Galilee mountains blind mole rateuarchontogliresNannospalax galiliGCA_000622305.1_S.galili_v1.01026970 416nutriaeuarchontogliresMyocastor coypusGCA_004027025.1_MyoCoy_v1_BIUU10157 417hazel dormouseeuarchontogliresMuscardinus avellanariusGCA_004027005.1_MusAve_v1_BIUU39082 418dassie-rateuarchontogliresPetromus typicusGCA_004026965.1_PetTyp_v1_BIUU10183 419greater cane rateuarchontogliresThryonomys swinderianusGCA_004025085.1_ThrSwi_v1_BIUU10169 420snowshoe hareeuarchontogliresLepus americanusGCA_004026855.1_LepAme_v1_BIUU48086 421Gambian giant pouched rateuarchontogliresCricetomys gambianusGCA_004027575.1_CriGam_v1_BIUU10085 422Prairie deer mouseeuarchontogliresPeromyscus maniculatusGCF_000500345.1_Pman_1.010042 423southern grasshopper mouseeuarchontogliresOnychomys torridusGCA_004026725.1_OnyTor_v1_BIUU38674 424rabbiteuarchontogliresOryctolagus cuniculusGCA_000003625.1_OryCun2.09986 425muskrateuarchontogliresOndatra zibethicusGCA_004026605.1_OndZib_v1_BIUU10060 426northern mole voleeuarchontogliresEllobius talpinusGCA_001685095.1_ETalpinus_0.1329620 427Mongolian gerbileuarchontogliresMeriones unguiculatusGCA_004026785.1_MerUng_v1_BIUU10047 428fat sand rateuarchontogliresPsammomys obesusGCA_002215935.1_ASM221593v148139 429house mouseeuarchontogliresMus musculusmm1010090 430Chinese hamstereuarchontogliresCricetulus griseusGCA_900186095.1_CHOK1S_HZDv110029 431Norway rateuarchontogliresRattus norvegicusGCF_000001895.5_Rnor_6.010116 432western wild mouseeuarchontogliresMus spretusGCA_001624865.1_SPRET_EiJ_v110096 433meadow jumping mouseeuarchontogliresZapus hudsoniusGCA_004024765.1_ZapHud_v1_BIUU160400 434prairie voleeuarchontogliresMicrotus ochrogastermicOch179684 435Ryukyu mouseeuarchontogliresMus caroliGCA_900094665.2_CAROLI_EIJ_v1.110089 436Egyptian spiny mouseeuarchontogliresAcomys cahirinusGCA_004027535.1_AcoCah_v1_BIUU10068 437Gobi jerboaeuarchontogliresAllactaga bullata (Orientallactaga bullata)GCA_004027895.1_AllBul_v1_BIUU1041416 438shrew mouseeuarchontogliresMus pahariGCF_900095145.1_PAHARI_EIJ_v1.110093 439Transcaucasian mole voleeuarchontogliresEllobius lutescensGCA_001685075.1_ASM168507v139086 440hispid cotton rateuarchontogliresSigmodon hispidusGCA_004025045.1_SigHis_v1_BIUU42415 441lesser Egyptian jerboaeuarchontogliresJaculus jaculusGCA_000280705.1_JacJac1.051337 442Brazilian guinea pigeuarchontogliresCavia apereacavApe137548 443golden hamstereuarchontogliresMesocricetus auratusGCA_000349665.1_MesAur1.010036 444Stephens's kangaroo rateuarchontogliresDipodomys stephensiGCA_004024685.1_DipSte_v1_BIUU323379 445American pikaeuarchontogliresOchotona princepsGCA_000292845.1_OchPri3.09978 446Ord's kangaroo rateuarchontogliresDipodomys ordiidipOrd210020 447little pocket mouseeuarchontogliresPerognathus longimembris38669 Table 1. Genome assemblies included in the 447-way Conservation track. References Pollard KS, Hubisz MJ, Rosenbloom KR, Siepel A. Detection of nonneutral substitution rates on mammalian phylogenies. Genome Res. 2010 Jan;20(1):110-21. PMID: 19858363; PMC: PMC2798823 Kuderna LFK, Ulirsch JC, Rashid S, Ameen M, Sundaram L, Hickey G, Cox AJ, Gao H, Kumar A, Aguet F et al. Identification of constrained sequence elements across 239 primate genomes. Nature. 2023 Nov 29;. DOI: 10.1038/s41586-023-06798-8; PMID: 38030727 Kuderna LFK, Gao H, Janiak MC, Kuhlwilm M, Orkin JD, Bataillon T, Manu S, Valenzuela A, Bergman J, Rousselle M et al. A global catalog of whole-genome diversity from 233 primate species. Science. 2023 Jun 2;380(6648):906-913. DOI: 10.1126/science.abn7829; PMID: 37262161 Zoonomia Consortium. A comparative genomics multitool for scientific discovery and conservation. Nature. 2020 Nov;587(7833):240-245. DOI: 10.1038/s41586-020-2876-6; PMID: 33177664; PMC: PMC7759459 Feng S, Stiller J, Deng Y, Armstrong J, Fang Q, Reeve AH, Xie D, Chen G, Guo C, Faircloth BC et al. Dense sampling of bird diversity increases power of comparative genomics. Nature. 2020 Nov;587(7833):252-257. DOI: 10.1038/s41586-020-2873-9; PMID: 33177665; PMC: PMC7759463 Armstrong J, Hickey G, Diekhans M, Fiddes IT, Novak AM, Deran A, Fang Q, Xie D, Feng S, Stiller J et al. Progressive Cactus is a multiple-genome aligner for the thousand-genome era. Nature. 2020 Nov;587(7833):246-251. DOI: 10.1038/s41586-020-2871-y; PMID: 33177663; PMC: PMC7673649 
cons447wayViewalign Multiz 447-way Zoonomia+Primates 447 - 447 mammals, including 233 primates, aligned with Cactus, for Kuderna et al. 2023 Comparative Genomics 
cactus447way Cactus 447-way Cactus alignment on 447 mammal species, including Zoonomia genomes and 233 primates Comparative Genomics Description This track shows a multiple alignment of 447 mammalian genomes made with Cactus and constraint scores derived from it. To build this track, the Zoonomia 241 alignment was used as a starting point, all primates and a few outdated assemblies were removed and an alignment between 233 newly sequenced primates was added. See the Methods section below for details, and also the publications by Kuderna et al. 2023 in the Reference section. All alignments and operations on them were performed using the Cactus toolkit. This track shows four phyloP conservation score subtracks computed from the 447-way Cactus alignment (and a primates subset of it): 447 phyloP REV: all 447 species, REV substitution model. 447 phyloP SSREV: all 447 species, strand-symmetric reversible (SSREV) substitution model. 447 phyloP primates: 233 primates subset, SSREV substitution model. 447 phyloP primates LRT: 233 primates subset, likelihood-ratio test scoring. The SSREV substitution model is strand-symmetric, which avoids strand-dependent bias in single-base conservation scores (Pollard et al. 2010, supplementary section 2.4) -- relevant when analyzing transcript-related nucleotides such as splice sites, miRNA seed regions, or other strand-specific sequence features. The REV model is the standard phyloP model and is appropriate for general genome-wide conservation analysis. The primates subset tracks restrict scoring to the 233 primate genomes included in the alignment, useful when conservation across non-primate mammals would dilute primate-specific signal. Data Access Downloads for data in this track are available from the directory: Cactus 447-way alignments (MAF format), and phylogenetic trees PhyloP conservation (WIG format) Display Conventions and Configuration In full and pack display modes, conservation scores are displayed as a wiggle track (histogram) in which the height reflects the size of the score. The conservation wiggles can be configured in a variety of ways to highlight different aspects of the displayed information. Click the Graph configuration help link for an explanation of the configuration options. Pairwise alignments of each species to the human genome are displayed below the conservation histogram as a grayscale density plot (in pack mode) or as a wiggle (in full mode) that indicates alignment quality. In dense display mode, conservation is shown in grayscale using darker values to indicate higher levels of overall conservation as scored by phastCons. Checkboxes on the track configuration page allow selection of the species to include in the pairwise display. Note that excluding species from the pairwise display does not alter the conservation score display. To view detailed information about the alignments at a specific position, zoom the display in to 30,000 or fewer bases, then click on the alignment. Gap Annotation The Display chains between alignments configuration option enables display of gaps between alignment blocks in the pairwise alignments in a manner similar to the Chain track display. Missing sequence in any assembly is highlighted in the track display by regions of yellow when zoomed out and by Ns when displayed at base level. The following conventions are used: Single line: No bases in the aligned species. Possibly due to a lineage-specific insertion between the aligned blocks in the human genome or a lineage-specific deletion between the aligned blocks in the aligning species. Double line: Aligning species has one or more unalignable bases in the gap region. Possibly due to excessive evolutionary distance between species or independent indels in the region between the aligned blocks in both species. Pale yellow coloring: Aligning species has Ns in the gap region. Reflects uncertainty in the relationship between the DNA of both species, due to lack of sequence in relevant portions of the aligning species. Genomic Breaks Discontinuities in the genomic context (chromosome, scaffold or region) of the aligned DNA in the aligning species are shown as follows: Vertical blue bar: Represents a discontinuity that persists indefinitely on either side, e.g. a large region of DNA on either side of the bar comes from a different chromosome in the aligned species due to a large scale rearrangement. Green square brackets: Enclose shorter alignments consisting of DNA from one genomic context in the aligned species nested inside a larger chain of alignments from a different genomic context. The alignment within the brackets may represent a short misalignment, a lineage-specific insertion of a transposon in the human genome that aligns to a paralogous copy somewhere else in the aligned species, or other similar occurrence. Base Level When zoomed-in to the base-level display, the track shows the base composition of each alignment. The numbers and symbols on the Gaps line indicate the lengths of gaps in the human sequence at those alignment positions relative to the longest non-human sequence. If there is sufficient space in the display, the size of the gap is shown. If the space is insufficient and the gap size is a multiple of 3, a &quot;*&quot; is displayed; other gap sizes are indicated by &quot;+&quot;. Codon translation is available in base-level display mode if the displayed region is identified as a coding segment. To display this annotation, select the species for translation from the pull-down menu in the Codon Translation configuration section at the top of the page. Then, select one of the following modes: No codon translation: The gene annotation is not used; the bases are displayed without translation. Use default species reading frames for translation: The annotations from the genome displayed in the Default species to establish reading frame pull-down menu are used to translate all the aligned species present in the alignment. Use reading frames for species if available, otherwise no translation: Codon translation is performed only for those species where the region is annotated as protein coding. Use reading frames for species if available, otherwise use default species: Codon translation is done on those species that are annotated as being protein coding over the aligned region using species-specific annotation; the remaining species are translated using the default species annotation. Codon translation uses the following gene tracks as the basis for translation: Gene TrackSpecies RefSeq GenesBos mutus, Canis lupus familiaris, Carlito syrichta, Cercocebus atys, Chinchilla lanigera, Colobus angolensis, Condylura cristata, Dipodomys ordii, Elephantulus edwardii, Eptesicus fuscus, Felis catus, Felis catus fca126, Fukomys damarensis, Homo sapiens, Ictidomys tridecemlineatus, Macaca mulatta, Macaca nemestrina, Marmota marmota, Microtus ochrogaster, Miniopterus natalensis, Mus musculus, Mus pahari, Myotis brandtii, Myotis davidii, Myotis lucifugus, Odobenus rosmarus, Orcinus orca, Otolemur garnettii, Peromyscus maniculatus, Piliocolobus tephrosceles, Propithecus coquerelli, Pteropus alecto, Pteropus vampyrus, Rattus norvegicus, Rhinopithecus roxellana, Saimiri boliviensis, Sorex araneus, Sus scrofa, Theropithecus gelada, Tupaia chinensis Ensembl GenesCavia aperea Augustus GenesEidolon helvum, Pteronotus parnellii no annotationAcinonyx jubatus, Acomys cahirinus, Ailuropoda melanoleuca, Ailurus fulgens, Allactaga bullata, Allenopithecus nigroviridis, Allochrocebus lhoesti, Allochrocebus preussi, Allochrocebus solatus, Alouatta belzebul, Alouatta caraya, Alouatta discolor, Alouatta juara, Alouatta macconnelli, Alouatta nigerrima, Alouatta palliata, Alouatta puruensis, Alouatta seniculus, Ammotragus lervia, Anoura caudifer, Antilocapra americana, Aotus azarae, Aotus griseimembra, Aotus nancymaae, Aotus trivirgatus, Aotus vociferans, Aplodontia rufa, Arctocebus calabarensis, Artibeus jamaicensis, Ateles geoffroyi_a, Ateles geoffroyi_b, Ateles belzebuth, Ateles chamek, Ateles marginatus, Ateles paniscus, Avahi laniger, Avahi peyrierasi, Balaenoptera acutorostrata, Balaenoptera bonaerensis, Beatragus hunteri, Bison bison, Bos indicus, Bos taurus, Bubalus bubalis, Cacajao ayresi, Cacajao calvus, Cacajao hosomi, Cacajao melanocephalus, Callibella humilis, Callimico goeldii, Callithrix geoffroyi, Callithrix jacchus, Callithrix kuhlii, Camelus bactrianus, Camelus dromedarius, Camelus ferus, Canis lupus VD, Canis lupus dingo, Canis lupus orion, Capra aegagrus, Capra hircus, Capromys pilorides, Carollia perspicillata, Castor canadensis, Catagonus wagneri, Cavia porcellus, Cavia tschudii, Cebuella niveiventris, Cebuella pygmaea, Cebus albifrons, Cebus olivaceus, Cebus unicolor, Cephalopachus bancanus, Ceratotherium simum, Ceratotherium simum cottoni, Cercocebus chrysogaster, Cercocebus lunulatus, Cercocebus torquatus, Cercopithecus ascanius, Cercopithecus cephus, Cercopithecus diana, Cercopithecus hamlyni, Cercopithecus lowei, Cercopithecus albogularis, Cercopithecus mona, Cercopithecus neglectus, Cercopithecus nictitans, Cercopithecus petaurista, Cercopithecus pogonias, Cercopithecus roloway, Chaetophractus vellerosus, Cheirogaleus major, Cheirogaleus medius, Cheracebus lucifer, Cheracebus lugens, Cheracebus regulus, Cheracebus torquatus, Chiropotes albinasus, Chiropotes israelita, Chiropotes sagulatus, Chlorocebus aethiops, Chlorocebus pygerythrus, Chlorocebus sabaeus, Choloepus didactylus, Choloepus hoffmanni, Chrysochloris asiatica, Colobus guereza, Colobus polykomos, Craseonycteris thonglongyai, Cricetomys gambianus, Cricetulus griseus, Crocidura indochinensis, Cryptoprocta ferox, Ctenodactylus gundi, Ctenomys sociabilis, Cuniculus paca, Dasyprocta punctata, Dasypus novemcinctus, Daubentonia madagascariensis, Delphinapterus leucas, Desmodus rotundus, Dicerorhinus sumatrensis, Diceros bicornis, Dinomys branickii, Dipodomys stephensi, Dolichotis patagonum, Echinops telfairi, Elaphurus davidianus, Ellobius lutescens, Ellobius talpinus, Enhydra lutris, Equus asinus, Equus caballus, Equus przewalskii, Erinaceus europaeus, Erythrocebus patas, Eschrichtius robustus, Eubalaena japonica, Eulemur albifrons, Eulemur collaris, Eulemur coronatus, Eulemur flavifrons, Eulemur fulvus, Eulemur macaco, Eulemur mongoz, Eulemur rubriventer, Eulemur rufus, Eulemur sanfordi, Felis nigripes, Galago moholi, Galago senegalensis, Galagoides demidoff, Galeopterus variegatus, Giraffa tippelskirchi, Glis glis, Gorilla beringei, Gorilla gorilla, Graphiurus murinus, Hapalemur alaotrensis, Hapalemur gilberti, Hapalemur griseus, Hapalemur meridionalis, Hapalemur occidentalis, Helogale parvula, Hemitragus hylocrius, Heterocephalus glaber, Heterohyrax brucei, Hippopotamus amphibius, Hipposideros armiger, Hipposideros galeritus, Hoolock leuconedys, Hyaena hyaena, Hydrochoerus hydrochaeris, Hylobates abbotti, Hylobates agilis, Hylobates klossii, Hylobates pileatus, Hylobates muelleri, Hylobates pileatus, Hystrix cristata, Indri indri, Inia geoffrensis, Jaculus jaculus, Kogia breviceps, Lagothrix lagothricha, Lasiurus borealis, Lemur catta, Leontocebus fuscicollis, Leontocebus illigeri, Leontocebus nigricollis, Leontopithecus chrysomelas, Leontopithecus rosalia, Lepilemur ankaranensis, Lepilemur dorsalis, Lepilemur ruficaudatus, Lepilemur septentrionalis, Leptonychotes weddellii, Lepus americanus, Lipotes vexillifer, Lophocebus aterrimus, Loris lydekkerianus, Loris tardigradus, Loxodonta africana, Lycaon pictus, Macaca arctoides, Macaca assamensis, Macaca cyclopis, Macaca fascicularis, Macaca fuscata, Macaca leonina, Macaca maura, Macaca nigra, Macaca radiata, Macaca siberu, Macaca silenus, Macaca thibetana, Macaca tonkeana, Macroglossus sobrinus, Mandrillus leucophaeus, Mandrillus sphinx, Manis javanica, Manis pentadactyla, Megaderma lyra, Mellivora capensis, Meriones unguiculatus, Mesocricetus auratus, Mesoplodon bidens, Mico argentatus, Mico humeralifer, Mico schneideri, Microcebus murinus, Microgale talazaci, Micronycteris hirsuta, Miniopterus schreibersii, Miopithecus ogouensis, Mirounga angustirostris, Mirza zaza, Monodon monoceros, Mormoops blainvillei, Moschus moschiferus, Mungos mungo, Murina feae, Mus caroli, Mus spretus, Muscardinus avellanarius, Mustela putorius, Myocastor coypus, Myotis myotis, Myrmecophaga tridactyla, Nannospalax galili, Nasalis larvatus, Neomonachus schauinslandi, Neophocaena asiaeorientalis, Noctilio leporinus, Nomascus annamensis, Nomascus concolor, Nomascus gabriellae, Nomascus siki_a, Nomascus siki_b, Nyctereutes procyonoides, Nycticebus bengalensis, Nycticebus coucang, Nycticebus pygmaeus, Ochotona princeps, Octodon degus, Odocoileus virginianus, Okapia johnstoni, Ondatra zibethicus, Onychomys torridus, Orycteropus afer, Oryctolagus cuniculus, Otocyon megalotis, Otolemur crassicaudatus, Ovis aries, Ovis canadensis, Pan paniscus, Pan troglodytes, Panthera onca, Panthera pardus, Panthera tigris, Pantholops hodgsonii, Papio anubis, Papio cynocephalus, Papio hamadryas, Papio kindae, Papio papio, Papio ursinus, Paradoxurus hermaphroditus, Perodicticus ibeanus, Perodicticus potto, Perognathus longimembris, Petromus typicus, Phocoena phocoena, Piliocolobus badius, Piliocolobus gordonorum, Piliocolobus kirkii, Pipistrellus pipistrellus, Pithecia albicans, Pithecia chrysocephala, Pithecia hirsuta, Pithecia mittermeieri, Pithecia pissinattii, Pithecia pithecia, Pithecia vanzolinii, Platanista gangetica, Plecturocebus bernhardi, Plecturocebus brunneus, Plecturocebus caligatus, Plecturocebus cinerascens, Plecturocebus cupreus, Plecturocebus dubius, Plecturocebus grovesi, Plecturocebus hoffmannsi, Plecturocebus miltoni, Plecturocebus moloch, Pongo abelii, Pongo pygmaeus, Presbytis comata, Presbytis mitrata, Procavia capensis, Prolemur simus, Propithecus coronatus, Propithecus diadema, Propithecus edwardsi, Propithecus perrieri, Propithecus tattersalli, Propithecus verreauxi, Psammomys obesus, Pteronura brasiliensis, Puma concolor, Pygathrix cinerea, Pygathrix nigripes, Pygathrix nigripes, Rangifer tarandus, Rhinolophus sinicus, Rhinopithecus bieti, Rhinopithecus strykeri, Rousettus aegyptiacus, Saguinus bicolor, Saguinus geoffroyi, Saguinus imperator, Saguinus inustus, Saguinus labiatus, Saguinus midas, Saguinus mystax, Saguinus oedipus, Saiga tatarica, Saimiri cassiquiarensis, Saimiri macrodon, Saimiri oerstedii, Saimiri sciureus, Saimiri ustus, Sapajus apella, Sapajus macrocephalus, Scalopus aquaticus, Semnopithecus entellus, Semnopithecus hypoleucos, Semnopithecus johnii, Semnopithecus priam, Semnopithecus schistaceus, Semnopithecus vetulus, Sigmodon hispidus, Solenodon paradoxus, Spermophilus dauricus, Spilogale gracilis, Suricata suricatta, Symphalangus syndactylus, Tadarida brasiliensis, Tamandua tetradactyla, Tapirus indicus, Tapirus terrestris, Tarsius lariang, Tarsius wallacei, Thryonomys swinderianus, Tolypeutes matacus, Tonatia saurophila, Trachypithecus auratus, Trachypithecus crepusculus, Trachypithecus cristatus, Trachypithecus francoisi, Trachypithecus geei, Trachypithecus germaini, Trachypithecus hatinhensis, Trachypithecus laotum, Trachypithecus leucocephalus, Trachypithecus melamera, Trachypithecus obscurus, Trachypithecus phayrei, Trachypithecus pileatus, Tragulus javanicus, Trichechus manatus, Tupaia tana, Tursiops truncatus, Uropsilus gracilis, Ursus maritimus, Varecia rubra, Varecia variegata, Vicugna pacos, Vulpes lagopus, Xerus inauris, Zalophus californianus, Zapus hudsonius, Ziphius cavirostris Table 2. Gene tracks used for codon translation. Methods This alignment was created by making three edits (using Cactus) to the 241-way mammalian Zoonomia Cactus alignment ( https://cglgenomics.ucsc.edu/data/cactus/). One additional cat genome, &quot;Felis_catus_fca126&quot; (GCA_018350175.1) was added as a sister taxa to the existing &quot;Felis_catus&quot; species Five additional canine genomes were also added: canFam4, &quot;Canis_lupus_dingo&quot; (GCA_003254725.1), &quot;Canis_lupus_orion&quot; (GCA_905319855.2), &quot;Nyctereutes_procyonoides&quot; (GCA_905146905.1) and &quot;Otocyon_megalotis&quot; (GCA_017311455.1). &quot;Canis_lupus&quot; from the Zoonomia alignment was also renamed &quot;Canis_lupus_VD&quot; to reflect the fact that it corresponds to a &quot;village dog&quot; and not &quot;wolf&quot; sample. The 43-species primates clade from the Zoonomia alignment was removed and replaced with the 243-way primates alignment from Identification of constrained sequence elements across 239 primate genomes, increasing the alignment by 200 additional primate species. phyloP Conservation Scores phyloP scores were computed from the Cactus 447-way alignment using the phyloP program from the PHAST package. Per-base scores were produced with options --method LRT --mode CONACC --wig-scores; positive scores indicate conservation under purifying selection, negative scores indicate acceleration relative to neutral evolution. For the all-species tracks, base-composition and substitution-rate parameters were estimated from 4-fold degenerate sites using phyloFit (PHAST, EM algorithm, medium precision) under either the REV or strand-symmetric reversible (SSREV) substitution model. Background base frequencies were adjusted with modFreqs so that complementary bases (A/T and C/G) appear at equal expected frequencies, which is required for strand-symmetric scoring. For the primates-subset tracks, the alignment was restricted to the 233 primate species and an independent phyloFit / phyloP run was performed on that sub-alignment using the SSREV model. All scores were encoded into wiggle format and loaded as either bigWig files (REV all-species, primates LRT) or wig SQL tables backed by .wib data files (SSREV all-species, SSREV primates). Phylogenic tree The phylogenic tree was established by the research described in A global catalog of whole-genome diversity from 233 primate species. Sequences count commonname clade scientific&nbsp;name(link&nbsp;to&nbsp;browser&nbsp;when&nbsp;existing) taxon&nbsp;idlink to NCBI 001humanprimates catarrhiniHomo sapiens/hg38reference species9606 002western gorillaprimates catarrhiniGorilla gorillaGCA_900006655.3_Susie39593 003Sumatran orangutanprimates catarrhiniPongo abeliiGCA_002880775.3_Susie_PABv29601 004Eastern Gorillaprimates catarrhiniGorilla beringei499232 005chimpanzeeprimates catarrhiniPan troglodytesGCA_002880755.3_Clint_PTRv29598 006Bornean orangutanprimates catarrhiniPongo pygmaeus9600 007Rhesus monkeyprimates catarrhiniMacaca mulattarheMac109544 008geladaprimates catarrhiniTheropithecus geladaGCF_003255815.1_Tgel_1.09565 009stump-tailed macaqueprimates catarrhiniMacaca arctoides9540 010Northern Talapoin Monkeyprimates catarrhiniMiopithecus ogouensis100488 011crab-eating macaqueprimates catarrhiniMacaca fascicularis9541 012Allen's swamp monkeyprimates catarrhiniAllenopithecus nigroviridis54135 013siamangprimates catarrhiniSymphalangus syndactylus9590 014black crested mangabeyprimates catarrhiniLophocebus aterrimus75566 015drillprimates catarrhiniMandrillus leucophaeus9568 016Bonnet Macaqueprimates catarrhiniMacaca radiata9548 017Red-capped Mangabeyprimates catarrhiniCercocebus torquatus9530 018Golden-bellied Mangabeyprimates catarrhiniCercocebus chrysogaster75569 019Owl-faced Monkeyprimates catarrhiniCercopithecus hamlyni9536 020Siberut Macaqueprimates catarrhiniMacaca siberu244255 021pig-tailed macaqueprimates catarrhiniMacaca nemestrinaGCF_000956065.1_Mnem_1.09545 022White-naped Mangabeyprimates catarrhiniCercocebus lunulatus (Cercocebus atys lunulatus)75570 023Tonkean Macaqueprimates catarrhiniMacaca tonkeana40843 024Diana Monkeyprimates catarrhiniCercopithecus diana36224 025red guenonprimates catarrhiniErythrocebus patas9538 026Northern Pig-tailed Macaqueprimates catarrhiniMacaca leonina90387 027Moor Macaqueprimates catarrhiniMacaca maura90383 028Guinea Baboonprimates catarrhiniPapio papio100937 029hamadryas baboonprimates catarrhiniPapio hamadryas9557 030liontail macaqueprimates catarrhiniMacaca silenus54601 031olive baboonprimates catarrhiniPapio anubisGCA_000264685.2_Panu_3.09555 032Roloway Monkeyprimates catarrhiniCercopithecus roloway1137049 033Kinda Baboonprimates catarrhiniPapio kindae208091 034Chacma Baboonprimates catarrhiniPapio ursinus36229 035Sun-tailed Monkeyprimates catarrhiniAllochrocebus solatus147650 036golden snub-nosed monkeyprimates catarrhiniRhinopithecus roxellanaGCF_007565055.1_ASM756505v161622 037Vervet Monkeyprimates catarrhiniChlorocebus pygerythrus60710 038sooty mangabeyprimates catarrhiniCercocebus atysGCF_000955945.1_Caty_1.09531 039green monkeyprimates catarrhiniChlorocebus sabaeusGCA_000409795.2_Chlorocebus_sabeus_1.160711 040De Brazza's monkeyprimates catarrhiniCercopithecus neglectus36227 041Yellow Baboonprimates catarrhiniPapio cynocephalus9556 042Celebes crested macaqueprimates catarrhiniMacaca nigra54600 043proboscis monkeyprimates catarrhiniNasalis larvatus43780 044Preuss's Monkeyprimates catarrhiniAllochrocebus preussi147649 045Putty-nosed Monkeyprimates catarrhiniCercopithecus nictitans36228 046Javan Suriliprimates catarrhiniPresbytis comata78452 047Sykes' Monkeyprimates catarrhiniCercopithecus albogularis36225 048LHoests Monkeyprimates catarrhiniAllochrocebus lhoesti100224 049Crowned Monkeyprimates catarrhiniCercopithecus pogonias102108 050Southern Mitered Langurprimates catarrhiniPresbytis mitrata (Presbytis melalophos mitrata)272115 051Grey-shanked Douc Langurprimates catarrhiniPygathrix cinerea693712 052Mona monkeyprimates catarrhiniCercopithecus mona36226 053Spot-nosed Monkeyprimates catarrhiniCercopithecus petaurista100487 054grivetprimates catarrhiniChlorocebus aethiops9534 055Lowes Monkeyprimates catarrhiniCercopithecus lowei304410 056Northern Yellow-cheeked Crested Gibbonprimates catarrhiniNomascus annamensis1616038 057Red-cheeked Gibbonprimates catarrhiniNomascus gabriellae61852 058Japanese macaqueprimates catarrhiniMacaca fuscata9542 059Western Red Colobusprimates catarrhiniPiliocolobus badius164648 060southern white-cheeked gibbonprimates catarrhiniNomascus siki_a9586 061Taiwan macaqueprimates catarrhiniMacaca cyclopis78449 062black-shanked douc langurprimates catarrhiniPygathrix nigripes310352 063King Colobusprimates catarrhiniColobus polykomos9572 064Black Crested Gibbonprimates catarrhiniNomascus concolor29089 065Udzungwa Red Colobusprimates catarrhiniPiliocolobus gordonorum591933 066Gee's Golden Langurprimates catarrhiniTrachypithecus geei164650 067Kloss's Gibbonprimates catarrhiniHylobates klossii9587 068Spectacled Leaf Monkeyprimates catarrhiniTrachypithecus obscurus54181 069Zanzibar Red Colobusprimates catarrhiniPiliocolobus kirkii591937 070Indochinese Silvered Langurprimates catarrhiniTrachypithecus germaini271260 071Hatinh Langurprimates catarrhiniTrachypithecus hatinhensis867383 072Moustached Monkeyprimates catarrhiniCercopithecus cephus9535 073Laotian Langurprimates catarrhiniTrachypithecus laotum465718 074Francois's langurprimates catarrhiniTrachypithecus francoisi54180 075Purple-faced Langurprimates catarrhiniSemnopithecus vetulus (Trachypithecus vetulus)54137 076Capped Langurprimates catarrhiniTrachypithecus pileatus164651 077Ugandan red Colobusprimates catarrhiniPiliocolobus tephroscelesGCF_002776525.2_ASM277652v2591936 078Spangled Ebony Langurprimates catarrhiniTrachypithecus auratus222416 079Red-tailed Monkeyprimates catarrhiniCercopithecus ascanius36223 080Silvery Lutungprimates catarrhiniTrachypithecus cristatus122765 081Nilgiri Langurprimates catarrhiniSemnopithecus johnii (Trachypithecus johnii)66063 082Indochinese grey langurprimates catarrhiniTrachypithecus crepusculus (Trachypithecus phayrei crepuscula)272121 083White-headed langurprimates catarrhiniTrachypithecus leucocephalus (Trachypithecus poliocephalus)465719 084pygmy chimpanzeeprimates catarrhiniPan paniscusGCA_000258655.2_panpan1.19597 085northern white-cheeked gibbonprimates catarrhiniNomascus siki_b9586 086Agile Gibbonprimates catarrhiniHylobates agilis9579 087Phayre's Leaf-monkeyprimates catarrhiniTrachypithecus melameran/a 088Nepal Gray Langurprimates catarrhiniSemnopithecus schistaceus2804203 089Abbott's Gray Gibbonprimates catarrhiniHylobates abbotti (Hylobates muelleri abbotti)716694 090Bornean Gibbonprimates catarrhiniHylobates muelleri9588 091Tufted Gray Langurprimates catarrhiniSemnopithecus priam1208733 092Black-footed Gray Langurprimates catarrhiniSemnopithecus hypoleucos1208734 093mantled guerezaprimates catarrhiniColobus guereza33548 094Hanuman langurprimates catarrhiniSemnopithecus entellus88029 095pileated gibbonprimates catarrhiniHylobates pileatus9589 096black snub-nosed monkeyprimates catarrhiniRhinopithecus bieti61621 097Burmese snub-nosed monkeyprimates catarrhiniRhinopithecus strykeri1194336 098Angolan colobusprimates catarrhiniColobus angolensiscolAng154131 099Pileated Gibbonprimates catarrhiniHylobates pileatus9589 100black-shanked douc langurprimates catarrhiniPygathrix nigripes310352 101Milne-edwards' Macaqueprimates catarrhiniMacaca thibetana54602 102Phayre's Leaf-monkeyprimates catarrhiniTrachypithecus phayrei61618 103Assam macaqueprimates catarrhiniMacaca assamensis9551 104Eastern hoolock gibbonprimates catarrhiniHoolock leuconedys61851 105mandrillprimates catarrhiniMandrillus sphinx9561 106White-faced Sakiprimates platyrrhiniPithecia chrysocephala2946515 107Monk Sakiprimates platyrrhiniPithecia hirsuta2946516 108white-faced sakiprimates platyrrhiniPithecia pithecia43777 109Mittermeier's Tapaj&oacute;s sakiprimates platyrrhiniPithecia mittermeieri2946517 110Buffy Sakiprimates platyrrhiniPithecia albicans2946514 111Pissinatti's sakiprimates platyrrhiniPithecia pissinattii (Pithecia pissinatti)2946518 112Vanzolini's Bald-faced Sakiprimates platyrrhiniPithecia vanzolinii2946519 113Bald-headed Uacariprimates platyrrhiniCacajao calvus30596 114Ayres Black Uakariprimates platyrrhiniCacajao ayresi535896 115Black-headed Uacariprimates platyrrhiniCacajao melanocephalus70825 116Black-headed Uacariprimates platyrrhiniCacajao hosomi535897 117Reddish-brown bearded sakiprimates platyrrhiniChiropotes sagulatus (Chiropotes chiropotes)658221 118brown-backed bearded sakiprimates platyrrhiniChiropotes israelita280163 119Collared Titi Monkeyprimates platyrrhiniCheracebus lugens210166 120Brown Titi Monkeyprimates platyrrhiniPlecturocebus brunneus1812042 121Hoffmanns's titi monkeyprimates platyrrhiniPlecturocebus hoffmannsi78255 122Milton's Titi Monkeyprimates platyrrhiniPlecturocebus miltoni1812038 123Widow Monkeyprimates platyrrhiniCheracebus torquatus30592 124Ashy Black Titi Monkeyprimates platyrrhiniPlecturocebus cinerascens1812037 125Prince Bernhard's Titi Monkeyprimates platyrrhiniPlecturocebus bernhardi1812036 126Yellow-handed Titi Monkeyprimates platyrrhiniCheracebus lucifer2487712 127Coppery Titi Monkeyprimates platyrrhiniPlecturocebus cupreus202457 128Chestnut-bellied Titiprimates platyrrhiniPlecturocebus caligatus867332 129Hershkovitzs Titiprimates platyrrhiniPlecturocebus dubius2946520 130Red-bellied Titi Monkeyprimates platyrrhiniPlecturocebus moloch9523 131Groves' Titiprimates platyrrhiniPlecturocebus grovesi2488670 132black-handed spider monkeyprimates platyrrhiniAteles geoffroyi_a9509 133Widow Monkeyprimates platyrrhiniCheracebus regulus1812110 134Guiana Spider Monkeyprimates platyrrhiniAteles paniscus9510 135Black-faced Black Spider Monkeyprimates platyrrhiniAteles chamek118643 136White-cheeked Spider Monkeyprimates platyrrhiniAteles marginatus1529884 137White-bellied Spider Monkeyprimates platyrrhiniAteles belzebuth9507 138Common Woolly Monkeyprimates platyrrhiniLagothrix lagothricha (Lagothrix lagotricha)9519 139large-headed capuchinprimates platyrrhiniSapajus macrocephalus (Sapajus apella macrocephalus)1547595 140Spixs White-fronted Capuchinprimates platyrrhiniCebus unicolor1985288 141Central American spider monkeyprimates platyrrhiniAteles geoffroyi_b9509 142Guinan Weeper Capuchinprimates platyrrhiniCebus olivaceus37295 143mantled howler monkeyprimates platyrrhiniAlouatta palliata30589 144white-fronted capuchinprimates platyrrhiniCebus albifrons9514 145Northern Night Monkeyprimates platyrrhiniAotus trivirgatus9505 146Grey-handed Night Monkeyprimates platyrrhiniAotus griseimembra292213 147Black-and-gold Howler Monkeyprimates platyrrhiniAlouatta caraya9502 148Spixs Night Monkeyprimates platyrrhiniAotus vociferans57176 149Red-handed Howler Monkeyprimates platyrrhiniAlouatta belzebul30590 150Red-handed Howler Monkeyprimates platyrrhiniAlouatta discolor2905217 151Azara's Night Monkeyprimates platyrrhiniAotus azarae (Aotus azarai)30591 152Pur&uacute;s Red Howler Monkeyprimates platyrrhiniAlouatta puruensis (Alouatta seniculus puruensis)1347729 153Black Howler Monkeyprimates platyrrhiniAlouatta nigerrima (Alouatta belzebul)30590 154Guianan Red Howler Monkeyprimates platyrrhiniAlouatta macconnelli198115 155Colombian Red Howler Monkeyprimates platyrrhiniAlouatta juara2946512 156Colombian Red Howler Monkeyprimates platyrrhiniAlouatta seniculus9503 157tufted capuchinprimates platyrrhiniSapajus apella9515 158Ma's night monkeyprimates platyrrhiniAotus nancymaaeGCA_000952055.2_Anan_2.037293 159Bolivian squirrel monkeyprimates platyrrhiniSaimiri boliviensisGCF_016699345.1_BCM_Sbol_2.027679 160White-nosed Sakiprimates platyrrhiniChiropotes albinasus198627 161Black Mantle Tamarinprimates platyrrhiniLeontocebus nigricollis9489 162brown-mantled tamarinprimates platyrrhiniLeontocebus fuscicollis9487 163Illiger's saddle-back tamarinprimates platyrrhiniLeontocebus illigeri (Leontocebus fuscicollis illigeri)881947 164Cotton-headed Tamarinprimates platyrrhiniSaguinus oedipus9490 165Pied Tamarinprimates platyrrhiniSaguinus bicolor37588 166Geoffroy's Tamarinprimates platyrrhiniSaguinus geoffroyi43778 167White-fronted Titi Monkeyprimates platyrrhiniSaguinus inustus1079039 168Moustached Tamarinprimates platyrrhiniSaguinus mystax9488 169tamarinprimates platyrrhiniSaguinus imperator9491 170Guianan Squirrel Monkeyprimates platyrrhiniSaimiri sciureus9521 171Red-chested Mustached Tamarinprimates platyrrhiniSaguinus labiatus78454 172Goeldi's Monkeyprimates platyrrhiniCallimico goeldii9495 173Black-crowned Central American Squirrel Monkeyprimates platyrrhiniSaimiri oerstedii70928 174Golden-headed Lion Tamarinprimates platyrrhiniLeontopithecus chrysomelas57374 175golden lion tamarinprimates platyrrhiniLeontopithecus rosalia30588 176Humboldt's Squirrel Monkeyprimates platyrrhiniSaimiri cassiquiarensis2946521 177bare-eared squirrel monkeyprimates platyrrhiniSaimiri ustus66265 178Ecuadorian squirrel monkeyprimates platyrrhiniSaimiri macrodon2946522 179white-tufted-ear marmosetprimates platyrrhiniCallithrix jacchus9483 180Eastern Pygmy Marmosetprimates platyrrhiniCebuella niveiventris2826950 181Western Pygmy Marmosetprimates platyrrhiniCebuella pygmaea9493 182Black And White Tassel-ear Marmosetprimates platyrrhiniMico humeralifer52232 183Black-crowned Dwarf Marmosetprimates platyrrhiniCallibella humilis (Mico humilis)666519 184Mico schneideriprimates platyrrhiniMico schneiderin/a 185Silvery Marmosetprimates platyrrhiniMico argentatus9482 186Midas tamarinprimates platyrrhiniSaguinus midas30586 187Wieds Marmosetprimates platyrrhiniCallithrix kuhlii867363 188Geoffroy's Tufted-ear Marmosetprimates platyrrhiniCallithrix geoffroyi52231 189Horsfield's tarsierprimates tarsiidaeCephalopachus bancanus9477 190Philippine tarsierprimates tarsiidaeCarlito syrichtatarSyr21868482 191Lariang Tarsierprimates tarsiidaeTarsius lariang630277 192Wallace's Tarsierprimates tarsiidaeTarsius wallacei981131 193aye-ayeprimates strepsirrhiniDaubentonia madagascariensis31869 194Crowned Sifakaprimates strepsirrhiniPropithecus coronatus (Propithecus deckenii coronatus)475619 195Perrier's Sifakaprimates strepsirrhiniPropithecus perrieri989338 196ruffed lemurprimates strepsirrhiniVarecia variegata9455 197Diademed Sifakaprimates strepsirrhiniPropithecus diadema83281 198Milne-Edwards Sifakaprimates strepsirrhiniPropithecus edwardsi543559 199babakotoprimates strepsirrhiniIndri indri34827 200Golden-crowned Sifakaprimates strepsirrhiniPropithecus tattersalli30601 201Eastern Woolly Lemurprimates strepsirrhiniAvahi laniger122246 202Verreauxs Sifakaprimates strepsirrhiniPropithecus verreauxi34825 203Peyrieras Woolly Lemurprimates strepsirrhiniAvahi peyrierasi1313323 204Red Ruffed Lemurprimates strepsirrhiniVarecia rubra554167 205greater bamboo lemurprimates strepsirrhiniProlemur simus1328070 206Red-bellied Lemurprimates strepsirrhiniEulemur rubriventer34829 207mongoose lemurprimates strepsirrhiniEulemur mongoz34828 208Geoffroys Dwarf Lemurprimates strepsirrhiniCheirogaleus major47177 209Crowned Lemurprimates strepsirrhiniEulemur coronatus13514 210black lemurprimates strepsirrhiniEulemur macaco30602 211lesser dwarf lemurprimates strepsirrhiniCheirogaleus medius9460 212Sclater's lemurprimates strepsirrhiniEulemur flavifrons87288 213Coquerel's sifakaprimates strepsirrhiniPropithecus coquerelli (Propithecus coquereli)proCoq1379532 214Collared Brown Lemurprimates strepsirrhiniEulemur collaris (Eulemur fulvus collaris)47178 215Red-tailed Sportive Lemurprimates strepsirrhiniLepilemur ruficaudatus78866 216Red Brown Lemurprimates strepsirrhiniEulemur rufus859983 217Sanfords Brown Lemurprimates strepsirrhiniEulemur sanfordi122225 218White-fronted Lemurprimates strepsirrhiniEulemur albifrons1215604 219Gray's Sportive Lemurprimates strepsirrhiniLepilemur dorsalis78583 220brown lemurprimates strepsirrhiniEulemur fulvus13515 221Sahafary Sportive Lemurprimates strepsirrhiniLepilemur septentrionalis78584 222Sambirano Lesser Bamboo Lemurprimates strepsirrhiniHapalemur occidentalis867377 223Alaotra Reed Lemurprimates strepsirrhiniHapalemur alaotrensis (Hapalemur griseus alaotrensis)122220 224Eastern Lesser Bamboo Lemurprimates strepsirrhiniHapalemur griseus13557 225Ankarana Sportive Lemurprimates strepsirrhiniLepilemur ankaranensis342401 226ring-tailed lemurprimates strepsirrhiniLemur catta9447 227gray bamboo lemurprimates strepsirrhiniHapalemur gilberti3043110 228Rusty-gray Lesser Bamboo Lemurprimates strepsirrhiniHapalemur meridionalis3043112 229Demidoffs Dwarf Galagoprimates strepsirrhiniGalagoides demidoff89672 230northern giant mouse lemurprimates strepsirrhiniMirza zaza339999 231gray mouse lemurprimates strepsirrhiniMicrocebus murinusGCA_000165445.3_Mmur_3.030608 232small-eared galagoprimates strepsirrhiniOtolemur garnettiiotoGar330611 233Northern Lesser Galagoprimates strepsirrhiniGalago senegalensis9465 234Thick-tailed Greater Galagoprimates strepsirrhiniOtolemur crassicaudatus9463 235Grey Slender Lorisprimates strepsirrhiniLoris lydekkerianus300163 236slender lorisprimates strepsirrhiniLoris tardigradus9468 237West African Pottoprimates strepsirrhiniPerodicticus potto9472 238East African Pottoprimates strepsirrhiniPerodicticus ibeanus (Perodicticus potto ibeanus)261737 239Moholi bushbabyprimates strepsirrhiniGalago moholi30609 240Pygmy Slow Lorisprimates strepsirrhiniNycticebus pygmaeus (Xanthonycticebus pygmaeus)101278 241Bengal slow lorisprimates strepsirrhiniNycticebus bengalensis261741 242Calabar Angwantiboprimates strepsirrhiniArctocebus calabarensis261739 243slow lorisprimates strepsirrhiniNycticebus coucang9470 244jaguarcarnivoraPanthera oncaGCA_004023805.1_PanOnc_v1_BIUU9690 245leopardcarnivoraPanthera pardusGCA_001857705.1_PanPar1.09691 246giant pandacarnivoraAiluropoda melanoleucaGCA_002007445.1_ASM200744v19646 247Hawaiian monk sealcarnivoraNeomonachus schauinslandiGCA_002201575.1_ASM220157v129088 248California sea lioncarnivoraZalophus californianusGCA_004024565.1_ZalCal_v1_BIUU9704 249Greenland wolfcarnivoraCanis lupus orionGCA_905319855.2_mCanLor1.22605939 250Pacific walruscarnivoraOdobenus rosmarusodoRosDiv19707 251domestic cat (Fca126)carnivoraFelis catus fca126 (Felis catus)GCF_018350175.1_F.catus_Fca126_mat1.09685 252northern elephant sealcarnivoraMirounga angustirostrisGCA_004023865.1_MirAng_v1_BIUU9716 253domestic catcarnivoraFelis catusfelCat89685 254domestic dog (BS72/Village Dog)carnivoraCanis lupus familiarisGCA_004027395.1_CanFam_VD_v1_BIUU 255German Shepherd dog (Mischka)carnivoraCanis lupus familiaris (CanFam4) (Canis lupus familiaris)canFam4 256dingocarnivoraCanis lupus dingo286419 257raccoon dogcarnivoraNyctereutes procyonoides34880 258fossacarnivoraCryptoprocta ferox94188 259polar bearcarnivoraUrsus maritimusGCA_000687225.1_UrsMar_1.029073 260Asian palm civetcarnivoraParadoxurus hermaphroditusGCA_004024585.1_ParHer_v1_BIUU71117 261African hunting dogcarnivoraLycaon pictusGCA_001887905.1_LycPicSAfr1.09622 262Arctic foxcarnivoraVulpes lagopusGCA_004023825.1_VulLag_v1_BIUU494514 263dogcarnivoraCanis lupus familiarisGCF_000002285.3_CanFam3.19615 264striped hyenacarnivoraHyaena hyaenaGCA_004023945.1_HyaHya_v1_BIUU95912 265n/acarnivoraAcinonyx jubatusGCA_001443585.1_aciJub132536 266tigercarnivoraPanthera tigrisGCA_000464555.1_PanTig1.09694 267Sea ottercarnivoraEnhydra lutrisGCA_002288905.2_ASM228890v234882 268giant ottercarnivoraPteronura brasiliensis9672 269bat-eared foxcarnivoraOtocyon megalotis9624 270Weddell sealcarnivoraLeptonychotes weddelliiGCA_000349705.1_LepWed1.09713 271Lesser pandacarnivoraAilurus fulgensGCA_002007465.1_ASM200746v19649 272ratelcarnivoraMellivora capensisGCA_004024625.1_MelCap_v1_BIUU9664 273banded mongoosecarnivoraMungos mungoGCA_004023785.1_MunMun_v1_BIUU210652 274dwarf mongoosecarnivoraHelogale parvulaGCA_004023845.1_HelPar_v1_BIUU210647 275meerkatcarnivoraSuricata suricattaGCA_004023905.1_SurSur_v1_BIUU37032 276pumacarnivoraPuma concolorGCA_003327715.1_PumCon1.09696 277black-footed catcarnivoraFelis nigripesGCA_004023925.1_FelNig_v1_BIUU61379 278European polecatcarnivoraMustela putoriusGCA_000239315.1_MusPutFurMale1.09668 279western spotted skunkcarnivoraSpilogale gracilisGCA_004023965.1_SpiGra_v1_BIUU30551 280Sumatran rhinoceroslaurasiatheriaDicerorhinus sumatrensisGCA_002844835.1_ASM284483v189632 281black rhinoceroslaurasiatheriaDiceros bicornisGCA_004027315.1_DicBicMic_v1_BIUU9805 282Asiatic tapirlaurasiatheriaTapirus indicusGCA_004024905.1_TapInd_v1_BIUU9802 283Brazilian tapirlaurasiatheriaTapirus terrestrisGCA_004025025.1_TapTer_v1_BIUU9801 284northern white rhinoceroslaurasiatheriaCeratotherium simum cottoni310713 285asslaurasiatheriaEquus asinusGCA_001305755.1_ASM130575v19793 286Southern white rhinoceroslaurasiatheriaCeratotherium simumGCA_000283155.1_CerSimSim1.09807 287Przewalski's horselaurasiatheriaEquus przewalskiiGCA_000696695.1_Burgud9798 288horselaurasiatheriaEquus caballusGCA_000002305.1_EquCab2.09796 289Malayan pangolinlaurasiatheriaManis javanicaGCA_001685135.1_ManJav1.09974 290Chinese pangolinlaurasiatheriaManis pentadactylaGCA_000738955.1_M_pentadactyla-1.1.1143292 291Hispaniolan solenodonlaurasiatheriaSolenodon paradoxus79805 292eastern molelaurasiatheriaScalopus aquaticusGCA_004024925.1_ScaAqu_v1_BIUU71119 293gracile shrew molelaurasiatheriaUropsilus gracilisGCA_004024945.1_UroGra_v1_BIUU182669 294star-nosed molelaurasiatheriaCondylura cristataGCF_000260355.1_ConCri1.0143302 295western European hedgehoglaurasiatheriaErinaceus europaeusGCA_000296755.1_EriEur2.09365 296European shrewlaurasiatheriaSorex araneussorAra242254 297Indochinese shrewlaurasiatheriaCrocidura indochinensisGCA_004027635.1_CroInd_v1_BIUU876679 298Hoffmann's two-fingered slothxenarthraCholoepus hoffmanniGCA_000164785.2_C_hoffmanni-2.0.19358 299nine-banded armadilloxenarthraDasypus novemcinctusGCA_000208655.2_Dasnov3.09361 300giant anteaterxenarthraMyrmecophaga tridactylaGCA_004026745.1_MyrTri_v1_BIUU71006 301southern tamanduaxenarthraTamandua tetradactylaGCA_004025105.1_TamTet_v1_BIUU48850 302placentalsxenarthraTolypeutes matacus183749 303southern two-toed slothxenarthraCholoepus didactylusGCA_004027855.1_ChoDid_v1_BIUU27675 304screaming hairy armadilloxenarthraChaetophractus vellerosusGCA_004027955.1_ChaVel_v1_BIUU340076 305North Pacific right whaleartiodactylaEubalaena japonica302098 306grey whaleartiodactylaEschrichtius robustus9764 307hippopotamusartiodactylaHippopotamus amphibiusGCA_004027065.1_HipAmp_v1_BIUU9833 308Minke whaleartiodactylaBalaenoptera acutorostrataGCA_000493695.1_BalAcu1.09767 309beluga whaleartiodactylaDelphinapterus leucasGCA_002288925.2_ASM228892v29749 310Antarctic minke whaleartiodactylaBalaenoptera bonaerensisGCA_000978805.1_ASM97880v133556 311boutuartiodactylaInia geoffrensis9725 312harbor porpoiseartiodactylaPhocoena phocoena9742 313narwhalartiodactylaMonodon monocerosGCA_004026685.1_MonMon_M_v1_BIUU40151 314Yangtze River dolphinartiodactylaLipotes vexilliferGCA_000442215.1_Lipotes_vexillifer_v1118797 315killer whaleartiodactylaOrcinus orcaorcOrc19733 316Ganges River dolphinartiodactylaPlatanista gangetica118798 317Yangtze finless porpoiseartiodactylaNeophocaena asiaeorientalisGCA_003031525.1_Neophocaena_asiaeorientalis_V1189058 318Sowerby's beaked whaleartiodactylaMesoplodon bidens48745 319alpacaartiodactylaVicugna pacosGCA_000767525.1_Vi_pacos_V1.030538 320Cuvier's beaked whale"artiodactylaZiphius cavirostris9760 321Bactrian camelartiodactylaCamelus bactrianusGCA_000767855.1_Ca_bactrianus_MBC_1.09837 322Arabian camelartiodactylaCamelus dromedariusGCA_000767585.1_PRJNA234474_Ca_dromedarius_V1.09838 323wild Bactrian camelartiodactylaCamelus ferusGCA_000311805.2_CB1419612 324pygmy sperm whaleartiodactylaKogia breviceps27615 325Chacoan peccaryartiodactylaCatagonus wagneriGCA_004024745.1_CatWag_v1_BIUU51154 326reindeerartiodactylaRangifer tarandusGCA_004026565.1_RanTarSib_v1_BIUU9870 327Pere David's deerartiodactylaElaphurus davidianusGCA_002443075.1_Milu1.043332 328okapiartiodactylaOkapia johnstoniGCA_001660835.1_ASM166083v186973 329Masai giraffeartiodactylaGiraffa tippelskirchiGCA_001651235.1_ASM165123v1439328 330Siberian musk deerartiodactylaMoschus moschiferusGCA_004024705.1_MosMos_v1_BIUU68415 331water buffaloartiodactylaBubalus bubalisGCA_000471725.1_UMD_CASPUR_WB_2.089462 332cowartiodactylaBos taurusGCA_000003205.6_Btau_5.0.19913 333pronghornartiodactylaAntilocapra americanaGCA_004027515.1_AntAmePen_v1_BIUU9891 334white-tailed deerartiodactylaOdocoileus virginianusGCA_002102435.1_Ovir.te_1.09874 335aoudadartiodactylaAmmotragus lerviaGCA_002201775.1_ALER1.09899 336bighorn sheepartiodactylaOvis canadensisGCA_004026945.1_OviCan_v1_BIUU37174 337goatartiodactylaCapra hircusGCA_001704415.1_ARS19925 338Nilgiri tahrartiodactylaHemitragus hylocriusGCA_004026825.1_HemHyl_v1_BIUU330464 339hirolaartiodactylaBeatragus hunteriGCA_004027495.1_BeaHun_v1_BIUU59527 340wild yakartiodactylaBos mutusbosMut172004 341American bisonartiodactylaBison bisonGCA_000754665.1_Bison_UMD1.09901 342sheepartiodactylaOvis ariesGCA_000298735.2_Oar_v4.09940 343chiruartiodactylaPantholops hodgsoniiGCA_000400835.1_PHO1.059538 344wild goatartiodactylaCapra aegagrusGCA_000978405.1_CapAeg_1.09923 345Java mouse-deerartiodactylaTragulus javanicusGCA_004024965.1_TraJav_v1_BIUU9849 346pigartiodactylaSus scrofasusScr39823 347zebu cattleartiodactylaBos indicusGCA_000247795.2_Bos_indicus_1.09915 348common bottlenose dolphinartiodactylaTursiops truncatusGCA_001922835.1_NIST_Tur_tru_v19739 349Saiga antelopeartiodactylaSaiga tataricaGCA_004024985.1_SaiTat_v1_BIUU34875 350Chinese rufous horseshoe batchiropteraRhinolophus sinicusGCA_001888835.1_ASM188883v189399 351black flying foxchiropteraPteropus alectopteAle19402 352Cantor's roundleaf batchiropteraHipposideros galeritus58069 353Egyptian rousettechiropteraRousettus aegyptiacusGCA_004024865.1_RouAeg_v1_BIUU9407 354long-tongued fruit batchiropteraMacroglossus sobrinus326083 355large flying foxchiropteraPteropus vampyrusGCF_000151845.1_Pvam_2.0132908 356Brazilian free-tailed batchiropteraTadarida brasiliensisGCA_004025005.1_TadBra_v1_BIUU9438 357great roundleaf batchiropteraHipposideros armigerGCA_001890085.1_ASM189008v1186990 358straw-colored fruit batchiropteraEidolon helvumeidHel177214 359Antillean ghost-faced batchiropteraMormoops blainvilleiGCA_004026545.1_MorMeg_v1_BIUU118852 360tailed tailless batchiropteraAnoura caudiferGCA_004027475.1_AnoCau_v1_BIUU27642 361common vampire batchiropteraDesmodus rotundusGCA_002940915.2_ASM294091v29430 362hairy big-eared batchiropteraMicronycteris hirsutaGCA_004026765.1_MicHir_v1_BIUU148065 363stripe-headed round-eared batchiropteraTonatia saurophilaGCA_004024845.1_TonSau_v1_BIUU171122 364Seba's short-tailed batchiropteraCarollia perspicillataGCA_004027735.1_CarPer_v1_BIUU40233 365Jamaican fruit-eating batchiropteraArtibeus jamaicensisGCA_004027435.1_ArtJam_v1_BIUU9417 366Indian false vampirechiropteraMegaderma lyraGCA_004026885.1_MegLyr_v1_BIUU9413 367Schreibers' long-fingered batchiropteraMiniopterus schreibersiiGCA_004026525.1_MinSch_v1_BIUU9433 368greater bulldog batchiropteraNoctilio leporinusGCA_004026585.1_NocLep_v1_BIUU94963 369Natal long-fingered batchiropteraMiniopterus natalensisGCF_001595765.1_Mnat.v1291302 370hog-nosed batchiropteraCraseonycteris thonglongyaiGCA_004027555.1_CraTho_v1_BIUU208972 371Parnell's mustached batchiropteraPteronotus parnelliiptePar159476 372greater mouse-eared batchiropteraMyotis myotisGCA_004026985.1_MyoMyo_v1_BIUU51298 373Ashy-gray tube-nosed batchiropteraMurina feae (Murina aurata feae)GCA_004026665.1_MurFea_v1_BIUU1453894 374David's myotischiropteraMyotis davidiimyoDav1225400 375Brandt's batchiropteraMyotis brandtiimyoBra1109478 376big brown batchiropteraEptesicus fuscusGCF_000308155.1_EptFus1.029078 377red batchiropteraLasiurus borealisGCA_004026805.1_LasBor_v1_BIUU258930 378little brown batchiropteraMyotis lucifugusmyoLuc259463 379common pipistrellechiropteraPipistrellus pipistrellusGCA_004026625.1_PipPip_v1_BIUU59474 380African savanna elephantafrotheriaLoxodonta africanaGCA_000001905.1_Loxafr3.09785 381Florida manateeafrotheriaTrichechus manatusGCA_000243295.1_TriManLat1.09778 382yellow-spotted hyraxafrotheriaHeterohyrax bruceiGCA_004026845.1_HetBruBak_v1_BIUU77598 383Cape rock hyraxafrotheriaProcavia capensisGCA_004026925.1_ProCapCap_v1_BIUU9813 384aardvarkafrotheriaOrycteropus afer9818 385Cape golden moleafrotheriaChrysochloris asiaticaGCA_004027935.1_ChrAsi_v1_BIUU185453 386Cape elephant shrewafrotheriaElephantulus edwardiieleEdw128737 387Talazac's shrew tenrecafrotheriaMicrogale talazaci (Nesogale talazaci)GCA_004026705.1_MicTal_v1_BIUU2583312 388small Madagascar hedgehogafrotheriaEchinops telfairiGCA_000313985.1_EchTel2.09371 389Sunda flying lemureuarchontogliresGaleopterus variegatusGCA_004027255.1_GalVar_v1_BIUU482537 390Chinese tree shreweuarchontogliresTupaia chinensistupChi1246437 391South African ground squirreleuarchontogliresXerus inaurisGCA_004024805.1_XerIna_v1_BIUU234690 392large tree shreweuarchontogliresTupaia tana70687 393mountain beavereuarchontogliresAplodontia rufaGCA_004027875.1_AplRuf_v1_BIUU51342 394Alpine marmoteuarchontogliresMarmota marmotaGCF_001458135.1_marMar2.19993 395Daurian ground squirreleuarchontogliresSpermophilus dauricusGCA_002406435.1_ASM240643v199837 396crested porcupineeuarchontogliresHystrix cristataGCA_004026905.1_HysCri_v1_BIUU10137 397thirteen-lined ground squirreleuarchontogliresIctidomys tridecemlineatusspeTri243179 398American beavereuarchontogliresCastor canadensisGCA_004027675.1_CasCan_v1_BIUU51338 399long-tailed chinchillaeuarchontogliresChinchilla lanigerachiLan134839 400punctate agoutieuarchontogliresDasyprocta punctata34846 401pacaranaeuarchontogliresDinomys branickiiGCA_004027595.1_DinBra_v1_BIUU108858 402fat dormouseeuarchontogliresGlis glisGCA_004027185.1_GliGli_v1_BIUU41261 403northern gundieuarchontogliresCtenodactylus gundiGCA_004027205.1_CteGun_v1_BIUU10166 404naked mole-rateuarchontogliresHeterocephalus glaberGCA_000247695.1_HetGla_female_1.010181 405Patagonian cavyeuarchontogliresDolichotis patagonumGCA_004027295.1_DolPat_v1_BIUU29091 406capybaraeuarchontogliresHydrochoerus hydrochaerisGCA_004027455.1_HydHyd_v1_BIUU10149 407Montane guinea pigeuarchontogliresCavia tschudiiGCA_004027695.1_CavTsc_v1_BIUU143287 408domestic guinea pigeuarchontogliresCavia porcellusGCA_000151735.1_Cavpor3.010141 409degueuarchontogliresOctodon degusGCA_000260255.1_OctDeg1.010160 410lowland pacaeuarchontogliresCuniculus paca108852 411social tuco-tucoeuarchontogliresCtenomys sociabilisGCA_004027165.1_CteSoc_v1_BIUU43321 412Damara mole-rateuarchontogliresFukomys damarensisfukDam1885580 413woodland dormouseeuarchontogliresGraphiurus murinus51346 414Desmarest's hutiaeuarchontogliresCapromys piloridesGCA_004027915.1_CapPil_v1_BIUU34842 415Upper Galilee mountains blind mole rateuarchontogliresNannospalax galiliGCA_000622305.1_S.galili_v1.01026970 416nutriaeuarchontogliresMyocastor coypusGCA_004027025.1_MyoCoy_v1_BIUU10157 417hazel dormouseeuarchontogliresMuscardinus avellanariusGCA_004027005.1_MusAve_v1_BIUU39082 418dassie-rateuarchontogliresPetromus typicusGCA_004026965.1_PetTyp_v1_BIUU10183 419greater cane rateuarchontogliresThryonomys swinderianusGCA_004025085.1_ThrSwi_v1_BIUU10169 420snowshoe hareeuarchontogliresLepus americanusGCA_004026855.1_LepAme_v1_BIUU48086 421Gambian giant pouched rateuarchontogliresCricetomys gambianusGCA_004027575.1_CriGam_v1_BIUU10085 422Prairie deer mouseeuarchontogliresPeromyscus maniculatusGCF_000500345.1_Pman_1.010042 423southern grasshopper mouseeuarchontogliresOnychomys torridusGCA_004026725.1_OnyTor_v1_BIUU38674 424rabbiteuarchontogliresOryctolagus cuniculusGCA_000003625.1_OryCun2.09986 425muskrateuarchontogliresOndatra zibethicusGCA_004026605.1_OndZib_v1_BIUU10060 426northern mole voleeuarchontogliresEllobius talpinusGCA_001685095.1_ETalpinus_0.1329620 427Mongolian gerbileuarchontogliresMeriones unguiculatusGCA_004026785.1_MerUng_v1_BIUU10047 428fat sand rateuarchontogliresPsammomys obesusGCA_002215935.1_ASM221593v148139 429house mouseeuarchontogliresMus musculusmm1010090 430Chinese hamstereuarchontogliresCricetulus griseusGCA_900186095.1_CHOK1S_HZDv110029 431Norway rateuarchontogliresRattus norvegicusGCF_000001895.5_Rnor_6.010116 432western wild mouseeuarchontogliresMus spretusGCA_001624865.1_SPRET_EiJ_v110096 433meadow jumping mouseeuarchontogliresZapus hudsoniusGCA_004024765.1_ZapHud_v1_BIUU160400 434prairie voleeuarchontogliresMicrotus ochrogastermicOch179684 435Ryukyu mouseeuarchontogliresMus caroliGCA_900094665.2_CAROLI_EIJ_v1.110089 436Egyptian spiny mouseeuarchontogliresAcomys cahirinusGCA_004027535.1_AcoCah_v1_BIUU10068 437Gobi jerboaeuarchontogliresAllactaga bullata (Orientallactaga bullata)GCA_004027895.1_AllBul_v1_BIUU1041416 438shrew mouseeuarchontogliresMus pahariGCF_900095145.1_PAHARI_EIJ_v1.110093 439Transcaucasian mole voleeuarchontogliresEllobius lutescensGCA_001685075.1_ASM168507v139086 440hispid cotton rateuarchontogliresSigmodon hispidusGCA_004025045.1_SigHis_v1_BIUU42415 441lesser Egyptian jerboaeuarchontogliresJaculus jaculusGCA_000280705.1_JacJac1.051337 442Brazilian guinea pigeuarchontogliresCavia apereacavApe137548 443golden hamstereuarchontogliresMesocricetus auratusGCA_000349665.1_MesAur1.010036 444Stephens's kangaroo rateuarchontogliresDipodomys stephensiGCA_004024685.1_DipSte_v1_BIUU323379 445American pikaeuarchontogliresOchotona princepsGCA_000292845.1_OchPri3.09978 446Ord's kangaroo rateuarchontogliresDipodomys ordiidipOrd210020 447little pocket mouseeuarchontogliresPerognathus longimembris38669 Table 1. Genome assemblies included in the 447-way Conservation track. References Pollard KS, Hubisz MJ, Rosenbloom KR, Siepel A. Detection of nonneutral substitution rates on mammalian phylogenies. Genome Res. 2010 Jan;20(1):110-21. PMID: 19858363; PMC: PMC2798823 Kuderna LFK, Ulirsch JC, Rashid S, Ameen M, Sundaram L, Hickey G, Cox AJ, Gao H, Kumar A, Aguet F et al. Identification of constrained sequence elements across 239 primate genomes. Nature. 2023 Nov 29;. DOI: 10.1038/s41586-023-06798-8; PMID: 38030727 Kuderna LFK, Gao H, Janiak MC, Kuhlwilm M, Orkin JD, Bataillon T, Manu S, Valenzuela A, Bergman J, Rousselle M et al. A global catalog of whole-genome diversity from 233 primate species. Science. 2023 Jun 2;380(6648):906-913. DOI: 10.1126/science.abn7829; PMID: 37262161 Zoonomia Consortium. A comparative genomics multitool for scientific discovery and conservation. Nature. 2020 Nov;587(7833):240-245. DOI: 10.1038/s41586-020-2876-6; PMID: 33177664; PMC: PMC7759459 Feng S, Stiller J, Deng Y, Armstrong J, Fang Q, Reeve AH, Xie D, Chen G, Guo C, Faircloth BC et al. Dense sampling of bird diversity increases power of comparative genomics. Nature. 2020 Nov;587(7833):252-257. DOI: 10.1038/s41586-020-2873-9; PMID: 33177665; PMC: PMC7759463 Armstrong J, Hickey G, Diekhans M, Fiddes IT, Novak AM, Deran A, Fang Q, Xie D, Feng S, Stiller J et al. Progressive Cactus is a multiple-genome aligner for the thousand-genome era. Nature. 2020 Nov;587(7833):246-251. DOI: 10.1038/s41586-020-2871-y; PMID: 33177663; PMC: PMC7673649 
cons447wayViewphyloP Basewise Conservation (phyloP) Zoonomia+Primates 447 - 447 mammals, including 233 primates, aligned with Cactus, for Kuderna et al. 2023 Comparative Genomics 
phyloP447wayLRT 447 phyloP primates LRT 447 mammals / 233 primates Basewise Conservation by PhyloP, primates subset LRT Comparative Genomics 
phyloP447wayPrimates 447 phyloP primates 447 mammals / 233 primates Basewise Conservation by PhyloP SSREV, primates subset Comparative Genomics 
phyloP447way 447 phyloP SSREV 447 mammals / 233 primates Basewise Conservation by PhyloP SSREV model Comparative Genomics 
phyloP447wayBW 447 phyloP REV 447 mammals / 233 primates Basewise Conservation by PhyloP phyloFit REV model Comparative Genomics